Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold282
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1446459
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 8 of 10
Found at i:1040172 original size:79 final size:79
Alignment explanation
Indices: 1039996--1040208 Score: 257
Period size: 79 Copynumber: 2.7 Consensus size: 79
1039986 GAAAGTAAAA
* * * * **
1039996 AATGGGGTTGGAATAT-CTTAAAGATTAAAAAATTCGATGTTTTAGAAGTAAAAACGGGGTTGGA
1 AATGGGATTGGAATATCCCTAAAGA-T-GAAAATTCGGTGTTTTAGAAGTAAAAACAAGGTTGGA
*
1040060 GTATCCTCTCAAAGAT
64 GTATCCCCTCAAAGAT
** * * *
1040076 GGTGGGCTTAGAGTATCCCTAAAGATGAAAATTCGGTGTTTTAGAAGTAAAAACAAGGTTGGAGT
1 AATGGGATTGGAATATCCCTAAAGATGAAAATTCGGTGTTTTAGAAGTAAAAACAAGGTTGGAGT
*
1040141 ATCCCCTCATAGAT
66 ATCCCCTCAAAGAT
**
1040155 AATGGGATTGGAATATCCCTAGTGATGAAACATTCGGTGTTTTAGAAGTAAAAA
1 AATGGGATTGGAATATCCCTAAAGATGAAA-ATTCGGTGTTTTAGAAGTAAAAA
1040209 TGGGGGTTAG
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 70 0.62
80 35 0.31
81 7 0.06
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (79 bp):
AATGGGATTGGAATATCCCTAAAGATGAAAATTCGGTGTTTTAGAAGTAAAAACAAGGTTGGAGT
ATCCCCTCAAAGAT
Found at i:1042189 original size:31 final size:31
Alignment explanation
Indices: 1042154--1042276 Score: 183
Period size: 31 Copynumber: 4.0 Consensus size: 31
1042144 CTAGCACATT
*
1042154 GGCAATGAATATAATTAATTTCATTAACTAA
1 GGCAATGAATATAATTAATCTCATTAACTAA
* * *
1042185 GGCAAGGAATATAATTAATTTCATTAATTAA
1 GGCAATGAATATAATTAATCTCATTAACTAA
* *
1042216 AGTAATGAATATAATTAATCTCATTAACTAA
1 GGCAATGAATATAATTAATCTCATTAACTAA
*
1042247 GGTAATGAATATAATTAATCTCATTAACTA
1 GGCAATGAATATAATTAATCTCATTAACTA
1042277 TATTCATAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 84 1.00
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.36
Consensus pattern (31 bp):
GGCAATGAATATAATTAATCTCATTAACTAA
Found at i:1047151 original size:1 final size:1
Alignment explanation
Indices: 1047147--1047172 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1047137 AAGAGGAAAA
1047147 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
1047173 CGCTGTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:1047533 original size:5 final size:5
Alignment explanation
Indices: 1047516--1047560 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
1047506 AGTACCTAAT
* * *
1047516 TTTTC TTTCC TTTTC TTTTC TTTTA TTTT- TTCTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
1047561 AGTTTAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
4 3 0.09
5 31 0.91
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:1047973 original size:22 final size:21
Alignment explanation
Indices: 1047947--1047988 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1047937 AATTAAAAAA
1047947 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
1047967 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
1047988 A
1 A
1047989 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:1051941 original size:58 final size:58
Alignment explanation
Indices: 1051895--1052011 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
1051885 CGTTAAAGTG
* * * *
1051895 CCTAGATCATGAAAAATGACCTAAATGACCCCAACATTCATAAAATTGCATAAATTTC
1 CCTAGATAATGAAAAATAAACTAAATGACCCCAACATTCATAAAATTGCATAAATGTC
* * * *
1051953 CCTAGATAATGAAAAATAAACTAAATGACCCTAGCATTCATAAATTTGCATAAAAGTC
1 CCTAGATAATGAAAAATAAACTAAATGACCCCAACATTCATAAAATTGCATAAATGTC
1052011 C
1 C
1052012 TTAAAATATA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (58 bp):
CCTAGATAATGAAAAATAAACTAAATGACCCCAACATTCATAAAATTGCATAAATGTC
Found at i:1052192 original size:59 final size:58
Alignment explanation
Indices: 1052129--1052241 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 58
1052119 TAAATAGTCT
* * * *
1052129 TAAATCATGGCAAATAACTAAAATGATGCAAAAAATGTATGAATTTACATAATAATACC
1 TAAATCAAGGAAAATAACTAAAATGATGC-AAAAATGTAAGAAGTTACATAATAATACC
**
1052188 TAAATCAAGGAAAATAACTAAAATGATGCTTAAATGTAAGAAGTTACATAATAA
1 TAAATCAAGGAAAATAACTAAAATGATGCAAAAATGTAAGAAGTTACATAATAA
1052242 CCCCTAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 21 0.44
59 27 0.56
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.27
Consensus pattern (58 bp):
TAAATCAAGGAAAATAACTAAAATGATGCAAAAATGTAAGAAGTTACATAATAATACC
Found at i:1053338 original size:23 final size:23
Alignment explanation
Indices: 1053312--1053379 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
1053302 TTTTGTTTTC
1053312 TTTTCCTTTTCTCTTTTTTTCTT
1 TTTTCCTTTTCTCTTTTTTTCTT
* * *
1053335 TTTTCTCTCTT-T-TTTATTTCTA
1 TTTTC-CTTTTCTCTTTTTTTCTT
*
1053357 TTTT-CTTCTCTACTTTTTTTCTT
1 TTTTCCTTTTCT-CTTTTTTTCTT
1053380 CTAAAAAGCA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
20 3 0.09
21 1 0.03
22 12 0.35
23 14 0.41
24 4 0.12
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTCCTTTTCTCTTTTTTTCTT
Found at i:1053354 original size:22 final size:22
Alignment explanation
Indices: 1053301--1053378 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 22
1053291 TTGAAGAAAC
* * *
1053301 CTTTTGTTTTCT-TTTCCTTTT
1 CTTTTTTTTTCTATTTTCTTCT
* *
1053322 CTCTTTTTTTCTTTTTTC-TCT
1 CTTTTTTTTTCTATTTTCTTCT
1053343 CTTTTTTATTTCTATTTTCTTCT
1 CTTTTTT-TTTCTATTTTCTTCT
*
1053366 CTACTTTTTTTCT
1 CT-TTTTTTTTCT
1053379 TCTAAAAAGC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 18 0.39
22 14 0.30
23 10 0.22
24 4 0.09
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.74
Consensus pattern (22 bp):
CTTTTTTTTTCTATTTTCTTCT
Found at i:1053373 original size:25 final size:21
Alignment explanation
Indices: 1053325--1053378 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
1053315 TCCTTTTCTC
*
1053325 TTTTTTTCTTTTTTCTCTCTT
1 TTTTTTTCTATTTTCTCTCTT
*
1053346 TTTTATTTCTATTTTCTTCTCTAC
1 TTTT-TTTCTATTTTC-TCTCT-T
1053370 TTTTTTTCT
1 TTTTTTTCT
1053379 TCTAAAAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.14
22 10 0.36
23 10 0.36
24 4 0.14
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTTCTATTTTCTCTCTT
Found at i:1054538 original size:79 final size:78
Alignment explanation
Indices: 1054464--1055016 Score: 515
Period size: 79 Copynumber: 7.0 Consensus size: 78
1054454 AGAGTACCTT
* * *
1054464 CTCAGAAATAACAGGGTTGGAGTATCCTTAATGGTGGAAAATCGATGTTTTGGAAATAAAACCAG
1 CTCAGAAATAAC-GGGTTGGAGTATCCTTGATTGTGAAAAATCGATGTTTTGGAAATAAAACCAG
1054529 GGTTGGAGTATCCC
65 GGTTGGAGTATCCC
* ** * * * * * *
1054543 TTTGGAAATAACGGGGTCGAAGTATCCTCGATTGTGGAAAATCGATGTTTTAGAAATAAAACTAG
1 CTCAGAAATAAC-GGGTTGGAGTATCCTTGATTGTGAAAAATCGATGTTTTGGAAATAAAACCAG
* * *
1054608 AGTTAGAGTATCTC
65 GGTTGGAGTATCCC
* *
1054622 CTCAGAAATAACGGGGTTGGAGTATCCGTGATTGTGAAAAATCAATGTTTTGGAAATAAAACCAG
1 CTCAGAAATAAC-GGGTTGGAGTATCCTTGATTGTGAAAAATCGATGTTTTGGAAATAAAACCAG
1054687 GGTTGGAGTATCCC
65 GGTTGGAGTATCCC
* *** * * * *
1054701 CT-TGAAAATAACGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGTAAATAAAATC-G
1 CTCAG-AAATAACGGGTTGGAGTATCCTTGATTGTGAAAAATCGATGTTTTGGAAATAAAACCAG
* *
1054764 GGATTGAAATAT-CC
65 GG-TTGGAGTATCCC
* * * ** * * *
1054778 CTAAAAAATAATGGGGTTAAAGTATCCTTGATTGTGAATATTC-AGTGTTTTGGAAATAAAATC-
1 CTCAGAAATAA-CGGGTTGGAGTATCCTTGATTGTGAAAAATCGA-TGTTTTGGAAATAAAACCA
* *
1054841 GGTATTAGAGTATCCC
64 GG-GTTGGAGTATCCC
* * **
1054857 ATCGGAAATAACGGGATTGGAGTAT-CTTCGATTGTGAAAAATCGATGTTTTGGAAATAAAACTG
1 CTCAGAAATAACGGG-TTGGAGTATCCTT-GATTGTGAAAAATCGATGTTTTGGAAATAAAACCA
*
1054921 GGGATGGAGTATCCC
64 GGGTTGGAGTATCCC
* * * * * **
1054936 CTCAAAAATAACGGGATTAGAGTATCCCTGATTGTGAAAAATCAATGTTTTGAAAATAAAACTGG
1 CTCAGAAATAACGGG-TTGGAGTATCCTTGATTGTGAAAAATCGATGTTTTGGAAATAAAACCAG
*
1055001 GGTTGAAGTATCCC
65 GGTTGGAGTATCCC
1055015 CT
1 CT
1055017 TGAAAATAAA
Statistics
Matches: 383, Mismatches: 79, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
77 13 0.03
78 103 0.27
79 262 0.68
80 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (78 bp):
CTCAGAAATAACGGGTTGGAGTATCCTTGATTGTGAAAAATCGATGTTTTGGAAATAAAACCAGG
GTTGGAGTATCCC
Found at i:1054867 original size:235 final size:235
Alignment explanation
Indices: 1054464--1055014 Score: 632
Period size: 235 Copynumber: 2.3 Consensus size: 235
1054454 AGAGTACCTT
* * * * *
1054464 CTCAGAAATAACAGGGTTGGAGTATCCTTAATGGTGGAAAATCGATGTTTTGGAAATAAAACCAG
1 CTCAAAAATAAC-GGGTTGGAGTATCCCTAATTGTGAAAAATCGATGTTTTGAAAATAAAA-CAG
* *** *
1054529 GGTTGGAGTATCCCTTTGGAAATAACGGGGTCGAAGTATCCTCGATTGTGGAAAATCGATGTTTT
64 GGTTGAAGTATCCCTTAAAAAATAACGGGGTCAAAGTATCCTCGATTGTGGAAAATCGATGTTTT
*
1054594 AGAAATAAAACTAGAGTTAGAGTATCTCCTCAGAAATAACGGGGTTGGAGTATCCGT-GATTGTG
129 AGAAATAAAACTAGAGTTAGAGTATCTCCTCAGAAATAACGGGATTGGAGTAT-CGTCGATTGTG
*
1054658 AAAAATCAATGTTTTGGAAATAAAACCAGGGTTGGAGTATCCC
193 AAAAATCAATGTTTTGGAAATAAAACCAGGGATGGAGTATCCC
** * * * *
1054701 CTTGAAAATAACGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGTAAATAAAATC-GG
1 CTCAAAAATAACGGGTTGGAGTATCCCTAATTGTGAAAAATCGATGTTTTGAAAATAAAA-CAGG
* * * * *
1054765 GATTGAAATATCCC-TAAAAAATAATGGGGTTAAAGTATCCTTGATTGT-GAATATTC-AGTGTT
65 G-TTGAAGTATCCCTTAAAAAATAACGGGGTCAAAGTATCCTCGATTGTGGAA-AATCGA-TGTT
* * * *
1054827 TTGGAAATAAAA-TCG-GTATTAGAGTATC-CCATCGGAAATAACGGGATTGGAGTATCTTCGAT
127 TTAGAAATAAAACTAGAG--TTAGAGTATCTCC-TCAGAAATAACGGGATTGGAGTATCGTCGAT
* **
1054889 TGTGAAAAATCGATGTTTTGGAAATAAAACTGGGGATGGAGTATCCC
189 TGTGAAAAATCAATGTTTTGGAAATAAAACCAGGGATGGAGTATCCC
* * * *
1054936 CTCAAAAATAACGGGATTAGAGTATCCCTGATTGTGAAAAATCAATGTTTTGAAAATAAAACTGG
1 CTCAAAAATAACGGG-TTGGAGTATCCCTAATTGTGAAAAATCGATGTTTTGAAAATAAAAC-AG
1055001 GGTTGAAGTATCCC
64 GGTTGAAGTATCCC
1055015 CTTGAAAATA
Statistics
Matches: 264, Mismatches: 40, Indels: 21
0.81 0.12 0.06
Matches are distributed among these distances:
233 1 0.00
234 10 0.04
235 140 0.53
236 101 0.38
237 12 0.05
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (235 bp):
CTCAAAAATAACGGGTTGGAGTATCCCTAATTGTGAAAAATCGATGTTTTGAAAATAAAACAGGG
TTGAAGTATCCCTTAAAAAATAACGGGGTCAAAGTATCCTCGATTGTGGAAAATCGATGTTTTAG
AAATAAAACTAGAGTTAGAGTATCTCCTCAGAAATAACGGGATTGGAGTATCGTCGATTGTGAAA
AATCAATGTTTTGGAAATAAAACCAGGGATGGAGTATCCC
Found at i:1055011 original size:158 final size:157
Alignment explanation
Indices: 1054464--1055025 Score: 610
Period size: 158 Copynumber: 3.6 Consensus size: 157
1054454 AGAGTACCTT
* * * * * * *
1054464 CTCAGAAATAACAGGGTTGGAGTATCCTTAATGGTGGAAAATCGATGTTTTGGAAATAAAACCAG
1 CTCAAAAATAACGGGGTTAGAGTATCCTTGATTGTGAAAAATCAATGTTTTGGAAATAAAACCAG
* * * * *
1054529 GGTTGGAGTATCCCTTTGGAAATAACGGGGTCGAAGTATCCTCGATTGTGGAAAATCGATGTTTT
66 GGTTGAAGTATCCCATTGGAAATAAC-GGGTTGGAGTATCCTCGATTGTGAAAAATCGATGTTTT
* * * * *
1054594 AGAAATAAAACTAGAGTTAGAGTATCTC
130 GGAAATAAAACTAGGGATGGAGTATCCC
* * *
1054622 CTCAGAAATAACGGGGTTGGAGTATCCGTGATTGTGAAAAATCAATGTTTTGGAAATAAAACCAG
1 CTCAAAAATAACGGGGTTAGAGTATCCTTGATTGTGAAAAATCAATGTTTTGGAAATAAAACCAG
* * * * * * *
1054687 GGTTGGAGTATCCCCTTGAAAATAACGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTG
66 GGTTGAAGTATCCCATTGGAAATAACGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGTTTTG
* * * *
1054752 TAAATAAAA-TCGGGATTGAAATAT-CC
131 GAAATAAAACTAGGGA-TGGAGTATCCC
* * * * * * *
1054778 CTAAAAAATAATGGGGTTAAAGTATCCTTGATTGTGAATATTCAGTGTTTTGGAAATAAAATC--
1 CTCAAAAATAACGGGGTTAGAGTATCCTTGATTGTGAAAAATCAATGTTTTGGAAATAAAACCAG
* * *
1054841 GGTATTAGAGTATCCCATCGGAAATAACGGGATTGGAGTATCTTCGATTGTGAAAAATCGATGTT
66 GGT-TGA-AGTATCCCATTGGAAATAACGGG-TTGGAGTATCCTCGATTGTGAAAAATCGATGTT
*
1054906 TTGGAAATAAAACTGGGGATGGAGTATCCC
128 TTGGAAATAAAACTAGGGATGGAGTATCCC
* * * **
1054936 CTCAAAAATAACGGGATTAGAGTATCCCTGATTGTGAAAAATCAATGTTTTGAAAATAAAACTGG
1 CTCAAAAATAACGGGGTTAGAGTATCCTTGATTGTGAAAAATCAATGTTTTGGAAATAAAACCAG
* *
1055001 GGTTGAAGTATCCCCTTGAAAATAA
66 GGTTGAAGTATCCCATTGGAAATAA
1055026 AAACATGAAT
Statistics
Matches: 333, Mismatches: 63, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
154 3 0.01
155 1 0.00
156 77 0.23
157 89 0.27
158 158 0.47
159 2 0.01
160 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (157 bp):
CTCAAAAATAACGGGGTTAGAGTATCCTTGATTGTGAAAAATCAATGTTTTGGAAATAAAACCAG
GGTTGAAGTATCCCATTGGAAATAACGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGTTTTG
GAAATAAAACTAGGGATGGAGTATCCC
Found at i:1055719 original size:61 final size:61
Alignment explanation
Indices: 1055626--1056149 Score: 603
Period size: 61 Copynumber: 8.5 Consensus size: 61
1055616 AAAAGGAAAT
* *
1055626 AAAGTGCATCATGCTCTTTGAGGACT-AGAAGGT-CCTACCAACTTAG-GTGGGCCTTAAAAGGA
1 AAAG-GCATCCTGCTCTTTGAGGACTGA-AAGGTGCC-ACCAACTT-GTGTGGGCTTTAAAAGGA
*
1055688 AAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* ** *
1055749 GAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
1055810 AAAGGCATCCTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
1055871 AAAGGCATCCTGCTCTTTGAGGACTGCAAA-GTGCCACTAACTTGTGGGGGTTTTAAAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
1055932 AAAGAGAAAATGTCCTGCTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAG
1 AAAG-G--CA--TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1055996 GA
60 GA
** * ** * *
1055998 AAAGGTGTCATGCTCTTTGAGGACTGAAATATGCTACCAACTTGTGTGGGTTTTAAAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * * * *
1056059 AAAGGCATCCTGCCCTTTAAGGACTGGAAA-GTG-CACTAACTTATATGGGCTTTAAACGGA
1 AAAGGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* **
1056119 AAAGGCATCATGCTCTTCAAGGACTGAAAGG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAGG
1056150 ATAAAAGGTT
Statistics
Matches: 397, Mismatches: 51, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
59 4 0.01
60 45 0.11
61 279 0.70
62 16 0.04
64 2 0.01
65 3 0.01
66 48 0.12
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (61 bp):
AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:1056039 original size:188 final size:182
Alignment explanation
Indices: 1055626--1056149 Score: 633
Period size: 188 Copynumber: 2.8 Consensus size: 182
1055616 AAAAGGAAAT
* *
1055626 AAAGTGCATCATGCTCTTTGAGGACT-AGAAGGTCCTACCAACTTAG-GTGGGCCTTAAAAGGAA
1 AAAG-GCATCATGCTCTTTGAGGACTGA-AAGGTGCTACCAACTT-GTGTGGGCTTTAAAAGGAA
* * * *
1055689 AAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGG
63 AAGGCATCCTGCTCTTTGAGGACTGAAA-GTGCCACTAACTTGTGGGGGCTTTAAAAGGAAAAGG
*
1055754 TGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
127 TGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGA
* * * * *
1055810 AAAGGCATCCTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAG
1 AAAGGCATCATGCTCTTTGAGGACTGAAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
1055875 GCATCCTGCTCTTTGAGGACTGCAAAGTGCCACTAACTTGTGGGGGTTTTAAAAGGAAAAGAGAA
66 GCATCCTGCTCTTTGAGGACTG-AAAGTGCCACTAACTTGTGGGGGCTTTAAAAGGAAAAG-G--
* *
1055940 AATGTCCTGCTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGA
127 --TGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGA
** ** *
1055998 AAAGGTGTCATGCTCTTTGAGGACTGAAATATGCTACCAACTTGTGTGGGTTTTAAAAGGAAAAG
1 AAAGGCATCATGCTCTTTGAGGACTGAAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * ** * **
1056063 GCATCCTGCCCTTTAAGGACTGGAAAGTG-CACTAACTTATATGGGCTTTAAACGGAAAAGGCAT
66 GCATCCTGCTCTTTGAGGACT-GAAAGTGCCACTAACTTGTGGGGGCTTTAAAAGGAAAAGGTGT
* **
1056127 CATGCTCTTCAAGGACTGAAAGG
130 CCTGCTCTTTGAGGACTGAAAGG
1056150 ATAAAAGGTT
Statistics
Matches: 291, Mismatches: 38, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
182 19 0.07
183 103 0.35
184 9 0.03
186 1 0.00
187 27 0.09
188 131 0.45
189 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (182 bp):
AAAGGCATCATGCTCTTTGAGGACTGAAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGGAAAAG
GCATCCTGCTCTTTGAGGACTGAAAGTGCCACTAACTTGTGGGGGCTTTAAAAGGAAAAGGTGTC
CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGA
Found at i:1057149 original size:8 final size:8
Alignment explanation
Indices: 1057138--1057183 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
1057128 TTTTTTTCTC
1057138 TTTTTTTG
1 TTTTTTTG
*
1057146 TTTTTTTA
1 TTTTTTTG
1057154 TTTTTTTG
1 TTTTTTTG
*
1057162 -TTCTTTG
1 TTTTTTTG
*
1057169 GTTTTTTG
1 TTTTTTTG
1057177 TTTTTTT
1 TTTTTTT
1057184 TAAGGAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 6 0.19
8 26 0.81
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:1067503 original size:14 final size:14
Alignment explanation
Indices: 1067481--1067511 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1067471 TGTACAAAAC
*
1067481 AAAACAAAATAAAT
1 AAAAAAAAATAAAT
1067495 AAAAAAAAATAAAT
1 AAAAAAAAATAAAT
1067509 AAA
1 AAA
1067512 TAAACAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAAAAATAAAT
Found at i:1069680 original size:79 final size:78
Alignment explanation
Indices: 1069574--1070012 Score: 447
Period size: 79 Copynumber: 5.6 Consensus size: 78
1069564 AAATTTAGTA
* * ** * * * *
1069574 TTTTGGAGATAAAAACGGGGTCAGAGTACCCCCTCAGAAATAATGGGGTTGGAGTATCCCCAATG
1 TTTTGGAAATAAAATC-GGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATT
*
1069639 GTGGAAAATCGATG
65 GTGAAAAATCGATG
* * ** **
1069653 TATTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAG-AATAACGGGGTCAGAGTATCTTCGATT
1 TTTTGGAAATAAAA-TCGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATT
1069717 GTGAAAAATCGATG
65 GTGAAAAATCGATG
* * * *
1069731 TATTGGAAATAAAATCGGGGTTGGAGTATCCCCTTAAAAATAACGGGGTTGAAGTATCCCCGATT
1 TTTTGGAAATAAAATC-GGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATT
*
1069796 GTGAAAAATCAATG
65 GTGAAAAATCGATG
* * * * * * * *
1069810 TTTTGAAAATAAAACCGGGATTGGAGTATCCCCTCAAAAATAATGTGGTTAGAGTGTCCTCGATT
1 TTTTGGAAATAAAATCGGG-TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATT
*
1069875 GTTG-AAAATCGGTG
65 G-TGAAAAATCGATG
* * * *
1069889 TTTTGAAAATAAAATCGGTGTTAGAATATCCCCTC-GAAAATAACGAGGTTGGAGTATCCCCGAT
1 TTTTGGAAATAAAATCGG-GTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGAT
*
1069953 TGTGAAAAAT-TAGTG
64 TGTGAAAAATCGA-TG
*
1069968 TTTTGGAAATAAAATCGGGGTTAGAGTATCCCCTCA-AAATAACGG
1 TTTTGGAAATAAAATC-GGGTTGGAGTATCCCCTCAGAAATAACGG
1070013 ACTCAATTGT
Statistics
Matches: 299, Mismatches: 50, Indels: 23
0.80 0.13 0.06
Matches are distributed among these distances:
77 1 0.00
78 78 0.26
79 215 0.72
80 5 0.02
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (78 bp):
TTTTGGAAATAAAATCGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTG
TGAAAAATCGATG
Found at i:1069930 original size:158 final size:156
Alignment explanation
Indices: 1069582--1070012 Score: 499
Period size: 158 Copynumber: 2.7 Consensus size: 156
1069572 TATTTTGGAG
* * * * * * * *
1069582 ATAAAAACGGGGTCAGAGTACCCCCTCAGAAATAATGGGGTTGGAGTATCCCCAATGGTGGAAAA
1 ATAAAATCGGGGTTAGAATATCCCCTCA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
* * * * *
1069647 TCGATGTATTGGAAATAAAACTAGGGTTGGAGTATCCCCTC-AGAATAACGGGGTCAGAGTATCT
65 TCAATGTTTTGGAAATAAAAC-CGGGTTGGAGTATCCCCTCAAAAATAACGGGGTCAGAGTATCC
*
1069711 TCGATTGTGAAAAATCGATGTATTGGAA
129 TCGATTGTGAAAAATCGATGTATTGAAA
* * * *
1069739 ATAAAATCGGGGTTGGAGTATCCCCTTAAAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAA
1 ATAAAATCGGGGTTAGAATATCCCC-TCAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
* * * * *
1069804 TCAATGTTTTGAAAATAAAACCGGGATTGGAGTATCCCCTCAAAAATAATGTGGTTAGAGTGTCC
65 TCAATGTTTTGGAAATAAAACCGGG-TTGGAGTATCCCCTCAAAAATAACGGGGTCAGAGTATCC
* *
1069869 TCGATTGTTG-AAAATCGGTGTTTTGAAA
129 TCGATTG-TGAAAAATCGATGTATTGAAA
* *
1069897 ATAAAATCGGTGTTAGAATATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAA
1 ATAAAATCGGGGTTAGAATATCCCCTC-AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
* * * *
1069962 TTAGTGTTTTGGAAATAAAATCGGGGTTAGAGTATCCCCTC-AAAATAACGG
65 TCAATGTTTTGGAAATAAAA-CCGGGTTGGAGTATCCCCTCAAAAATAACGG
1070013 ACTCAATTGT
Statistics
Matches: 232, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
156 3 0.01
157 94 0.41
158 129 0.56
159 6 0.03
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (156 bp):
ATAAAATCGGGGTTAGAATATCCCCTCAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAT
CAATGTTTTGGAAATAAAACCGGGTTGGAGTATCCCCTCAAAAATAACGGGGTCAGAGTATCCTC
GATTGTGAAAAATCGATGTATTGAAA
Found at i:1071970 original size:50 final size:49
Alignment explanation
Indices: 1071906--1072040 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 49
1071896 AAAAATGCCT
* * *
1071906 GAATGTATCGATACATTGAGAAATATATCCTTACATCTAGGTAAAACCCA
1 GAATGTATCGATACAATGA-AAATATATCCATACATATAGGTAAAACCCA
* * * * * *
1071956 GAATGTACCAATACAGTGAAAAATGTATCGATACATATGGGTAAAACCCA
1 GAATGTATCGATACAATG-AAAATATATCCATACATATAGGTAAAACCCA
*
1072006 GAATGTATCGATACAATGAAGAATATATCGATACA
1 GAATGTATCGATACAATGAA-AATATATCCATACA
1072041 AATTGTGAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
49 2 0.03
50 68 0.96
51 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (49 bp):
GAATGTATCGATACAATGAAAATATATCCATACATATAGGTAAAACCCA
Found at i:1072998 original size:21 final size:22
Alignment explanation
Indices: 1072972--1073013 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1072962 AATTCGATAG
*
1072972 TGTATTGATACA-TTAATGAAA
1 TGTATTCATACACTTAATGAAA
*
1072993 TGTATTCATACACTTCATGAA
1 TGTATTCATACACTTAATGAA
1073014 TTTAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (22 bp):
TGTATTCATACACTTAATGAAA
Found at i:1073369 original size:15 final size:15
Alignment explanation
Indices: 1073340--1073388 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
1073330 TTGTCTGGGC
1073340 TTTTA-GTTTTCCATT
1 TTTTATGTTTT-CATT
*
1073355 TTTTGTGTTTTCATT
1 TTTTATGTTTTCATT
*
1073370 TTTTATGTTTTTATT
1 TTTTATGTTTTCATT
1073385 TTTT
1 TTTT
1073389 CATTTTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 25 0.83
16 5 0.17
ACGTcount: A:0.10, C:0.06, G:0.08, T:0.76
Consensus pattern (15 bp):
TTTTATGTTTTCATT
Found at i:1073380 original size:23 final size:24
Alignment explanation
Indices: 1073354--1073418 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 24
1073344 AGTTTTCCAT
*
1073354 TTTTTGTGTTTTCATTTTTT-ATG
1 TTTTTATGTTTTCATTTTTTGATG
* *
1073377 TTTTTATTTTTTCATTTTTTGTTG
1 TTTTTATGTTTTCATTTTTTGATG
* *
1073401 TTTTTTTGTTTTTATTTT
1 TTTTTATGTTTTCATTTT
1073419 GTACGACCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.08, C:0.03, G:0.09, T:0.80
Consensus pattern (24 bp):
TTTTTATGTTTTCATTTTTTGATG
Found at i:1073395 original size:15 final size:15
Alignment explanation
Indices: 1073340--1073396 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
1073330 TTGTCTGGGC
* *
1073340 TTTTAGTTTTCCATT
1 TTTTATTTTTTCATT
* *
1073355 TTTTGTGTTTTCATT
1 TTTTATTTTTTCATT
1073370 TTTTATGTTTTT-ATT
1 TTTTAT-TTTTTCATT
1073385 TTTTCATTTTTT
1 TTTT-ATTTTTT
1073397 GTTGTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 28 0.82
16 6 0.18
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.75
Consensus pattern (15 bp):
TTTTATTTTTTCATT
Found at i:1077245 original size:25 final size:23
Alignment explanation
Indices: 1077216--1077284 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 23
1077206 TAAATATTAG
*
1077216 TAAATAAGTTAAATTAATTTTTTTT
1 TAAATAA-TTAAA-TAATTATTTTT
*
1077241 TAAATAATTACATAATTA-TTTT
1 TAAATAATTAAATAATTATTTTT
* *
1077263 T-AATAGTTACATAATTATTTTT
1 TAAATAATTAAATAATTATTTTT
1077285 ATATTTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 15 0.38
22 9 0.22
23 5 0.12
24 4 0.10
25 7 0.17
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (23 bp):
TAAATAATTAAATAATTATTTTT
Found at i:1077267 original size:21 final size:21
Alignment explanation
Indices: 1077237--1077285 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1077227 AATTAATTTT
1077237 TTTTTAAATAATTACATAATTA
1 TTTTT-AATAATTACATAATTA
*
1077259 TTTTTAATAGTTACATAATTA
1 TTTTTAATAATTACATAATTA
1077280 TTTTTA
1 TTTTTA
1077286 TATTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTTAATAATTACATAATTA
Found at i:1082948 original size:20 final size:20
Alignment explanation
Indices: 1082923--1082976 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1082913 GTTAGAAATA
*
1082923 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1082943 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1082963 ATGTATCGATACAA
1 ATGTATCGATACAA
1082977 ACAATGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1084078 original size:19 final size:19
Alignment explanation
Indices: 1084039--1084090 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
1084029 CAGTTTCATA
*
1084039 TATCGATACAATTGAGTATG
1 TATCGATACAA-TGAGCATG
1084059 TATCGATACAATGAGCATG
1 TATCGATACAATGAGCATG
1084078 TATCGATACAATG
1 TATCGATACAATG
1084091 TATCGATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (19 bp):
TATCGATACAATGAGCATG
Found at i:1084093 original size:13 final size:13
Alignment explanation
Indices: 1084075--1084101 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1084065 TACAATGAGC
1084075 ATGTATCGATACA
1 ATGTATCGATACA
1084088 ATGTATCGATACA
1 ATGTATCGATACA
1084101 A
1 A
1084102 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1086601 original size:13 final size:13
Alignment explanation
Indices: 1086582--1086617 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1086572 TAGTAATCCT
*
1086582 ATATCGATACAAT
1 ATATCGATACAAA
*
1086595 GTATCGATACAAA
1 ATATCGATACAAA
1086608 ATATCGATAC
1 ATATCGATAC
1086618 TTATAACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (13 bp):
ATATCGATACAAA
Found at i:1089581 original size:13 final size:13
Alignment explanation
Indices: 1089563--1089588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1089553 CAATTTTTTG
1089563 TGTATCGATACAT
1 TGTATCGATACAT
1089576 TGTATCGATACAT
1 TGTATCGATACAT
1089589 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1089674 original size:20 final size:20
Alignment explanation
Indices: 1089649--1089721 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1089639 ATCTTTTTTT
1089649 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1089669 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1089690 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1089710 ATGTATCGATAC
1 ATGTATCGATAC
1089722 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1089700 original size:41 final size:42
Alignment explanation
Indices: 1089627--1089721 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1089617 CTGCCAAGAA
*
1089627 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1089669 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1089710 ATGTATCGATAC
1 ATGTATCGATAC
1089722 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1090359 original size:16 final size:16
Alignment explanation
Indices: 1090328--1090373 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
1090318 CTCTCCTTTG
1090328 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
1090346 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
1090362 TCTCCCCCTTAA
1 TCTCCCCCTTAA
1090374 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Found at i:1092197 original size:13 final size:13
Alignment explanation
Indices: 1092179--1092217 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1092169 ATAATCACCC
*
1092179 TGTATCGATACAG
1 TGTATCGATACAA
1092192 TGTATCGATACAA
1 TGTATCGATACAA
1092205 TGTATCGATACAA
1 TGTATCGATACAA
1092218 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1092228 original size:20 final size:20
Alignment explanation
Indices: 1092203--1092281 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1092193 GTATCGATAC
1092203 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
1092223 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
1092248 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
1092267 ACATGTATCGATACA
1 A-ATGTATCGATACA
1092282 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:1094327 original size:15 final size:15
Alignment explanation
Indices: 1094291--1094328 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1094281 TACATCAATT
* *
1094291 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
1094306 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
1094321 TCATTTTG
1 TCATTTTG
1094329 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:1098408 original size:13 final size:13
Alignment explanation
Indices: 1098390--1098415 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1098380 CAATTTTTTG
1098390 TGTATCGATACAT
1 TGTATCGATACAT
1098403 TGTATCGATACAT
1 TGTATCGATACAT
1098416 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1098501 original size:20 final size:20
Alignment explanation
Indices: 1098476--1098548 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1098466 ATCTTTTTTT
1098476 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1098496 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1098517 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1098537 ATGTATCGATAC
1 ATGTATCGATAC
1098549 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1098527 original size:41 final size:42
Alignment explanation
Indices: 1098454--1098548 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1098444 CTGCCAAGAA
*
1098454 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1098496 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1098537 ATGTATCGATAC
1 ATGTATCGATAC
1098549 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1103638 original size:2 final size:2
Alignment explanation
Indices: 1103631--1103664 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1103621 TTTAATAGTG
* *
1103631 AT AT AT AT AT AT AT AA AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1103665 CTAAAACATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1105113 original size:29 final size:29
Alignment explanation
Indices: 1105076--1105140 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
1105066 AGTAATATAC
1105076 ATAAATATAGACATAGATAACATAAATAT
1 ATAAATATAGACATAGATAACATAAATAT
* *
1105105 ATAAATATAGATATAGATAATATAAATAT
1 ATAAATATAGACATAGATAACATAAATAT
1105134 ATAAATA
1 ATAAATA
1105141 AAAAGAAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (29 bp):
ATAAATATAGACATAGATAACATAAATAT
Found at i:1105650 original size:20 final size:20
Alignment explanation
Indices: 1105614--1105654 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1105604 TATTTTTGTG
*
1105614 TTATAATTATATTTAAATTT
1 TTATAATTATATATAAATTT
1105634 TTATATATT-TATATAAATTT
1 TTATA-ATTATATATAAATTT
1105654 T
1 T
1105655 AAGTTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATAATTATATATAAATTT
Found at i:1106001 original size:50 final size:52
Alignment explanation
Indices: 1105916--1106070 Score: 179
Period size: 51 Copynumber: 3.2 Consensus size: 52
1105906 TAAAAATTTC
*
1105916 ATATTAAATCTCAAATTATTATTAAAAATAATAAAAGA-TAAAAA-ATACTTT
1 ATATTAAATCTCAAACTATTATTAAAAATAATAAAA-ATTAAAAATATACTTT
*
1105967 ATATTAAATCTCAAACTATT-TTAAAAATAATAAAAATTAAAAATATATTTT
1 ATATTAAATCTCAAACTATTATTAAAAATAATAAAAATTAAAAATATACTTT
** *
1106018 ATATTAAATC-C--TGTATTATT---ATTAATAAAAATTAAAAATAT--TTT
1 ATATTAAATCTCAAACTATTATTAAAAATAATAAAAATTAAAAATATACTTT
1106062 ATATTAAAT
1 ATATTAAAT
1106071 TTTGATTTTT
Statistics
Matches: 96, Mismatches: 5, Indels: 13
0.84 0.04 0.11
Matches are distributed among these distances:
44 12 0.12
46 20 0.21
48 4 0.04
49 3 0.03
50 22 0.23
51 35 0.36
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (52 bp):
ATATTAAATCTCAAACTATTATTAAAAATAATAAAAATTAAAAATATACTTT
Found at i:1106091 original size:46 final size:47
Alignment explanation
Indices: 1105940--1106111 Score: 172
Period size: 46 Copynumber: 3.6 Consensus size: 47
1105930 ATTATTATTA
* * ** *
1105940 AAAATAATAAAAGATAAAAAATACTTTATATTAAATCTCAAACTATTTTA
1 AAAATAATAAAA-ATTAAAAATATTTTATATTAAAT-TCTGA-TATTTTT
* *
1105990 AAAATAATAAAAATTAAAAATATATTTTATATTAAATCCTG-TATTATT
1 AAAATAATAAAAATT-AAAA-ATATTTTATATTAAATTCTGATATTTTT
* *
1106038 --ATTAATAAAAATTAAAAATATTTTATATTAAATTTTGAT-TTTTT
1 AAAATAATAAAAATTAAAAATATTTTATATTAAATTCTGATATTTTT
* *
1106082 AAAAGAATAAAAAATAAAAATATTTTATAT
1 AAAATAATAAAAATTAAAAATATTTTATAT
1106112 ATGTATTGGG
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
44 22 0.21
45 5 0.05
46 37 0.36
48 5 0.05
49 2 0.02
50 17 0.17
51 15 0.15
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (47 bp):
AAAATAATAAAAATTAAAAATATTTTATATTAAATTCTGATATTTTT
Found at i:1106258 original size:22 final size:23
Alignment explanation
Indices: 1106177--1106258 Score: 71
Period size: 22 Copynumber: 3.7 Consensus size: 23
1106167 GTTCAGCTAA
* * * *
1106177 AATCATGTGTATA-TCTTATTAA
1 AATCATATGTACATTCTGATTAT
1106199 AATCATATGTACATT-TGATTAT
1 AATCATATGTACATTCTGATTAT
* * * *
1106221 AGTTATATTTATATTCTG-TTAT
1 AATCATATGTACATTCTGATTAT
1106243 AATCATATGTACATTC
1 AATCATATGTACATTC
1106259 AATTTTATTT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
22 43 0.93
23 3 0.07
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.48
Consensus pattern (23 bp):
AATCATATGTACATTCTGATTAT
Found at i:1107363 original size:50 final size:52
Alignment explanation
Indices: 1107304--1107424 Score: 180
Period size: 51 Copynumber: 2.4 Consensus size: 52
1107294 TATATAAATA
*
1107304 TTAATATAAAAT-ATTTTTATTT-TTATTATTTTTATATTA-TAATTTT-GAAT
1 TTAATATAAAATAATTTTTATTTATTATTATTTTTA-AATAGTAATTTTAG-AT
1107354 TTAATATAAAATAATTTTT-TTTATTATTATTTTTAAATAGTAATTTTAGAT
1 TTAATATAAAATAATTTTTATTTATTATTATTTTTAAATAGTAATTTTAGAT
1107405 TTAATATAAAATAATTTTTA
1 TTAATATAAAATAATTTTTA
1107425 AATTTTTTCT
Statistics
Matches: 65, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
50 18 0.28
51 46 0.71
52 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (52 bp):
TTAATATAAAATAATTTTTATTTATTATTATTTTTAAATAGTAATTTTAGAT
Found at i:1108478 original size:2 final size:2
Alignment explanation
Indices: 1108471--1108495 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1108461 ACTAACAGAA
1108471 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
1108496 AGGGTGGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1110171 original size:9 final size:9
Alignment explanation
Indices: 1110153--1110216 Score: 51
Period size: 9 Copynumber: 7.2 Consensus size: 9
1110143 AAATATAACA
1110153 TAAATA-AT
1 TAAATATAT
1110161 TAAATATAT
1 TAAATATAT
*
1110170 T-AATATTT
1 TAAATATAT
* *
1110178 TAAATACAAA
1 TAAATA-TAT
*
1110188 TAAATATAA
1 TAAATATAT
*
1110197 TATATATAT
1 TAAATATAT
*
1110206 TAAAAATAT
1 TAAATATAT
1110215 TA
1 TA
1110217 TATTATTCGT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
8 13 0.30
9 25 0.57
10 6 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
TAAATATAT
Found at i:1116313 original size:20 final size:20
Alignment explanation
Indices: 1116260--1116314 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1116250 AAATTCTCAG
**
1116260 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
1116280 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
1116300 ATGTATCGATACATT
1 ATGTATCGATACATT
1116315 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:1116804 original size:33 final size:33
Alignment explanation
Indices: 1116762--1116826 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1116752 TACCACTATT
* * *
1116762 TGTATCGATACGTGGTATATTATATCGATACAA
1 TGTATCGATACATGATAAATTATATCGATACAA
*
1116795 TGTATCGATACATGATAAATTGTATCGATACA
1 TGTATCGATACATGATAAATTATATCGATACA
1116827 TTGCGTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATAAATTATATCGATACAA
Found at i:1121651 original size:19 final size:18
Alignment explanation
Indices: 1121627--1121689 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1121617 AGCGATACAT
1121627 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1121646 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
1121659 TGCATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1121678 TGTATCGATACA
1 TGTATCGATACA
1121690 GTTACAGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1121660 original size:32 final size:32
Alignment explanation
Indices: 1121619--1121689 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
1121609 AGCTTCGTAG
*
1121619 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGCATCGATACAAAACTTATGTAT
*
1121651 CGATACATTGCATCGATACAACACTTATGTAT
1 CGATACATTGCATCGATACAAAACTTATGTAT
1121683 CGATACA
1 CGATACA
1121690 GTTACAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (32 bp):
CGATACATTGCATCGATACAAAACTTATGTAT
Found at i:1122649 original size:49 final size:48
Alignment explanation
Indices: 1122438--1123246 Score: 648
Period size: 49 Copynumber: 16.9 Consensus size: 48
1122428 CGAAGAATGG
* * * * * * *
1122438 CAATGTGCTGATTCATGGCCAGCGACATTAGATTTGAAGAAGA-ATGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
** * * * * * *
1122485 CAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA--AA-GAT-GAGGTGC
* * * *
1122537 CAATATGCTGATGCAAGGCTAACGATATTGGACTTAAAGATGAGGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-GGTGC
* * * * *
1122586 TAATGTGCTAATTCAGGGCCAGCGACATTGGTCTTAAAGATGACGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-GGTGC
* ** *
1122635 CAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG-AGGTGC
* * * *
1122684 CAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGACAGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-GGTGC
* ** *
1122733 CAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG-AGGTGC
*
1122782 CAATGTGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
* * * * * *
1122821 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGGTGAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
* ** *
1122869 CAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG-AGGTGC
* * ** *
1122918 AAATATGCTGATTCAAGGCCAATGATATTGGGC-T-----T-A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
* * ** * * * *
1122957 CAATGTGTTGATTCAGGGCCAATGACATTAGTCTTAAAGATGAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
* * **
1123005 CAATATGCTGATTTAAGGCCAGCGATACCGGACTTAAAGATGAGGATGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGG-TGC
* * * * *
1123054 CAATGTGCTGATTCAAGGCCATCAACATTGGACTTAAAGATGAAGATGT
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG-AGGTGC
* *
1123103 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG----AGGTGC
*
1123155 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG-AGGTGC
* * * *
1123204 CAATGTGTTGATTCAAGGCTAGTGACATTGGACTTAAAGATGA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA
1123247 CGAAGGCGCC
Statistics
Matches: 609, Mismatches: 120, Indels: 65
0.77 0.15 0.08
Matches are distributed among these distances:
39 61 0.10
40 2 0.00
41 2 0.00
43 2 0.00
45 2 0.00
46 2 0.00
47 28 0.05
48 78 0.13
49 346 0.57
50 7 0.01
51 1 0.00
52 78 0.13
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGGTGC
Found at i:1122661 original size:98 final size:98
Alignment explanation
Indices: 1122438--1123246 Score: 732
Period size: 98 Copynumber: 8.4 Consensus size: 98
1122428 CGAAGAATGG
* * * * * * * **
1122438 CAATGTGCTGATTCATGGCCAGCGACATTAGATTTGAAGAAG-A-ATGCCAATGTGCTGAGACAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
* * * * *
1122501 GGCCAACGACATTGGGCTTAGGAATGTTAAAGATGC
66 GGCCAGCGACATTGGACTTA--AA-GATGAAGGTGC
* * * * * * * *
1122537 CAATATGCTGATGCAAGGCTAACGATATTGGACTTAAAGATGAGGGTGCTAATGTGCTAATTCAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
* *
1122602 GGCCAGCGACATTGGTCTTAAAGATGACGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
**
1122635 CAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
* *
1122700 GGCCAGCAACATTGGTCTTAAAGATGACA-GTGC
66 GGCCAGCGACATTGGACTTAAAGATGA-AGGTGC
**
1122733 CAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
* *
1122798 GGCCAGCGATATTGGGC-T-----T--A--TGC
66 GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * * *
1122821 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGGTGAAG-TGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
* ** *
1122885 GGCCAGCGATACCGGACTTAAAGATGAAGATGC
66 GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* ** * * *
1122918 AAATATGCTGATTCAAGGCCAATGATATTGGGC-T-----T----ATGCCAATGTGTTGATTCAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
** * *
1122973 GGCCAATGACATTAGTCTTAAAGATGAA-GTGC
66 GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* ** *
1123005 CAATATGCTGATTTAAGGCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
* * * *
1123070 GGCCATCAACATTGGACTTAAAGATGAAGATGT
66 GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * ** *
1123103 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGATGCCAATGTGCTGATT
*
1123168 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
1123204 CAATGTGTTGATTCAAGGCTAGTGACATTGGACTTAAAGATGA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA
1123247 CGAAGGCGCC
Statistics
Matches: 582, Mismatches: 100, Indels: 57
0.79 0.14 0.08
Matches are distributed among these distances:
87 61 0.10
88 79 0.14
89 1 0.00
91 1 0.00
92 1 0.00
93 2 0.00
95 1 0.00
96 1 0.00
97 72 0.12
98 211 0.36
99 34 0.06
101 118 0.20
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (98 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:1122833 original size:39 final size:39
Alignment explanation
Indices: 1122778--1122856 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
1122768 AAAGATGAAG
* *
1122778 ATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
* *
1122817 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
1122856 A
1 A
1122857 AAGGTGAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (39 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
Found at i:1122927 original size:136 final size:136
Alignment explanation
Indices: 1122680--1123222 Score: 717
Period size: 136 Copynumber: 3.9 Consensus size: 136
1122670 AAAGATGAAG
* *
1122680 ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGACAGTGCCAATATGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGA-AGTGCCAATATGCTGAT
*
1122745 TCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGATAT
65 TCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGATAT
1122810 TGGGCTT
130 TGGGCTT
* *
1122817 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGGTGAAGTGCCAATATGCTGATT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
* * *
1122882 CAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCAAATATGCTGATTCAAGGCCAATGATATT
66 CAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGATATT
1122947 GGGCTT
131 GGGCTT
* * * *
1122953 ATGCCAATGTGTTGATTCAGGGCCAATGACATTAGTCTTAAAGATGAAGTGCCAATATGCTGATT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
* * * * *
1123018 TAAGGCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCATCAACATT
66 CAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGATATT
*
1123083 GGACTTAAAGAT
131 GGGC-T-----T
* * * *
1123095 GAAGATGTCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATA
1 ----ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATG---AA-GTGCCAATA
** * *
1123160 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAAGGC
58 TGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGC
1123223 TAGTGACATT
Statistics
Matches: 357, Mismatches: 35, Indels: 15
0.88 0.09 0.04
Matches are distributed among these distances:
136 206 0.58
137 44 0.12
142 1 0.00
146 39 0.11
149 2 0.01
150 65 0.18
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (136 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
CAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGATATT
GGGCTT
Found at i:1123171 original size:101 final size:99
Alignment explanation
Indices: 1122989--1123262 Score: 356
Period size: 101 Copynumber: 2.7 Consensus size: 99
1122979 TGACATTAGT
* * * **
1122989 CTTAAAGATGAAGTGCCAATATGCTGATTTAAGGCCAGCGATACCGGACTTAAAGATG---AGGA
1 CTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGG-
* * *
1123051 TGCCAATGTGCTGATTCAAGGCCATCAACATTGGA
65 CGCCAATATGCTGATTCAAGGCCAGCAACATTGGA
*
1123086 CTTAAAGATGAAGATGTCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAG
1 CTTAAAGATGAAG-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC-AAG
* *
1123151 GCGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
64 GCGCCAATATGCTGATTCAAGGCCAGCAACATTGGA
* * *
1123187 CTTAAAGATGAAGGTGCCAATGTGTTGATTCAAGGCTAGTGACATTGGACTTAAAGATGACGAAG
1 CTTAAAGATGAA-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC-AAG
1123252 GCGCCAATATG
64 GCGCCAATATG
1123263 TTGGAACTTG
Statistics
Matches: 155, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
97 13 0.08
98 39 0.25
101 99 0.64
102 4 0.03
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (99 bp):
CTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGC
GCCAATATGCTGATTCAAGGCCAGCAACATTGGA
Found at i:1123232 original size:150 final size:146
Alignment explanation
Indices: 1122957--1123246 Score: 395
Period size: 150 Copynumber: 2.0 Consensus size: 146
1122947 GGGCTTATGC
* * * * * *
1122957 CAATGTGTTGATTCAGGGCCAATGACATTAGTCTTAAAGATGAAGTGCCAATATGCTGATTTAAG
1 CAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGAAGCGCCAATATGCTGATTCAAG
1123022 GCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCATCAACATTGGAC
66 GCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCATCAACATTGGAC
1123087 TTAAAGATGAAGATGT
131 TTAAAGATGAAGATGT
* *
1123103 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAGATG---AA-GCGCCAATATGCTGATT
** * * *
1123168 CAAGGCCAGCGATATTGGACTTAAAGATGAAGG-TGCCAATGTGTTGATTCAAGGCTAGT-GACA
62 CAAGGCCAGCGATACCGGACTTAAAGATG-AGGATGCCAATGTGCTGATTCAAGGCCA-TCAACA
1123231 TTGGACTTAAAGATGA
125 TTGGACTTAAAGATGA
1123247 CGAAGGCGCC
Statistics
Matches: 125, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
146 36 0.29
149 2 0.02
150 83 0.66
151 4 0.03
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (146 bp):
CAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGAAGCGCCAATATGCTGATTCAAG
GCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCATCAACATTGGAC
TTAAAGATGAAGATGT
Found at i:1123679 original size:21 final size:20
Alignment explanation
Indices: 1123655--1123700 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1123645 AAAAGTGATG
*
1123655 AAAAAGAAAAGAAAAAACAAA
1 AAAAACAAAA-AAAAAACAAA
* *
1123676 AAAACCAAAACAAAAACAAA
1 AAAAACAAAAAAAAAACAAA
1123696 AAAAA
1 AAAAA
1123701 AAGTGCAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAAAAAAACAAA
Found at i:1123966 original size:32 final size:32
Alignment explanation
Indices: 1123929--1124009 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 32
1123919 CCTTCTCCTT
*
1123929 CCCACACAAGTTGGTGGCAACCTCTTTTAAAG
1 CCCACACAAGCTGGTGGCAACCTCTTTTAAAG
*
1123961 CCCACACAAGCCGGTGGCAACCTCTTTTAAAG
1 CCCACACAAGCTGGTGGCAACCTCTTTTAAAG
*
1123993 CCCACAAAAGCTGGTGG
1 CCCACACAAGCTGGTGG
1124010 TAGCACTTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (32 bp):
CCCACACAAGCTGGTGGCAACCTCTTTTAAAG
Found at i:1124346 original size:13 final size:13
Alignment explanation
Indices: 1124330--1124354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1124320 AGATTACACA
1124330 GTATCGATACATT
1 GTATCGATACATT
1124343 GTATCGATACAT
1 GTATCGATACAT
1124355 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1124367 original size:20 final size:21
Alignment explanation
Indices: 1124342--1124394 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1124332 ATCGATACAT
*
1124342 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
1124362 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
1124383 TGTATCGATACA
1 TGTATCGATACA
1124395 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:1130395 original size:8 final size:8
Alignment explanation
Indices: 1130382--1130407 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1130372 ATTTGATTAA
1130382 ATTTTGTG
1 ATTTTGTG
1130390 ATTTTGTG
1 ATTTTGTG
1130398 ATTTTGTG
1 ATTTTGTG
1130406 AT
1 AT
1130408 GAATGATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1133087 original size:13 final size:13
Alignment explanation
Indices: 1133069--1133093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1133059 GATTGCCACA
1133069 GTATCGATACATT
1 GTATCGATACATT
1133082 GTATCGATACAT
1 GTATCGATACAT
1133094 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1134040 original size:32 final size:31
Alignment explanation
Indices: 1133968--1134052 Score: 111
Period size: 32 Copynumber: 2.8 Consensus size: 31
1133958 CTTGAGCTTT
*
1133968 CAACT-TTTC-AAAGCCCACACAAGTCGGTG
1 CAACTCTTTCTAAAGCCCACATAAGTCGGTG
* * *
1133997 CAACCCCTTCTAAAGCCCACATAAGTTGGTGG
1 CAACTCTTTCTAAAGCCCACATAAGTCGGT-G
1134029 CAACTCTTTCTAAAGCCCACATAA
1 CAACTCTTTCTAAAGCCCACATAA
1134053 ATCGATGGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.09
30 3 0.06
31 17 0.36
32 23 0.49
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (31 bp):
CAACTCTTTCTAAAGCCCACATAAGTCGGTG
Found at i:1134062 original size:32 final size:32
Alignment explanation
Indices: 1133977--1134073 Score: 124
Period size: 32 Copynumber: 3.1 Consensus size: 32
1133967 TCAACTTTTC
* *
1133977 AAAGCCCACACAAGTCGGT-GCAACCCCTTCT
1 AAAGCCCACATAAGTCGGTGGCAACTCCTTCT
* *
1134008 AAAGCCCACATAAGTTGGTGGCAACTCTTTCT
1 AAAGCCCACATAAGTCGGTGGCAACTCCTTCT
* * *
1134040 AAAGCCCACATAAATCGATGGCATCTCCTTCT
1 AAAGCCCACATAAGTCGGTGGCAACTCCTTCT
1134072 AA
1 AA
1134074 GCCTAATGTC
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
31 17 0.30
32 39 0.70
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (32 bp):
AAAGCCCACATAAGTCGGTGGCAACTCCTTCT
Found at i:1134203 original size:52 final size:52
Alignment explanation
Indices: 1134130--1134603 Score: 371
Period size: 52 Copynumber: 8.9 Consensus size: 52
1134120 TATCTCTTTC
* * * * * *
1134130 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGCCACCTTTTTCTTTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * * * * *
1134182 TAAGTCCAATATTGCTAGCCTTGAATCAACATATTGGCACCTTGGCCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * * * * * *
1134234 TAAGTCTAATGTCGTTGGCCTTGAATCAGCACATTTGCACTTTTTTC-TTTCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCT-T
* * * * *
1134286 TAAGTCCAATATCGCTAGCCTTGAATCAGTATATTGACGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * * * * * * *
1134338 CAAGTCCAATGTCGTTGGCCTTAAATTAGTACATTGGCACCATTGTCATATT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * *
1134390 TAAGTCCAATATCGCTGGCCATT-AATCAGCACCTTGGC-CCTTTTTTC-TTTCT
1 TAAGTCCAATATCGCTGGCC-TTGAATCAGCACATTGGCACC-TTTGTCATCT-T
* * *
1134442 TAAGTCCAATATCACTGGCCTTGAATCGGCATATTGGCACCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * * * * *
1134494 TAAGCCCAATATCACTGGCCTTGAATCAGTATATTAGCACCTTTATCATTTTTCTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C-----C---TTTGTCATCTT
* * * *
1134555 TAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTATCAT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
1134604 TCTTCTCATC
Statistics
Matches: 332, Mismatches: 73, Indels: 34
0.76 0.17 0.08
Matches are distributed among these distances:
51 8 0.02
52 267 0.80
53 9 0.03
55 1 0.00
58 1 0.00
60 1 0.00
61 45 0.14
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (52 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
Found at i:1134374 original size:156 final size:155
Alignment explanation
Indices: 1134124--1134536 Score: 416
Period size: 156 Copynumber: 2.7 Consensus size: 155
1134114 TCAAACTATC
* * * * * * * * * * *
1134124 TCTTTC-TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGCCACCTTTTTCTTTTTTAAGTC
1 TCTTTCTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGACACCTTTGTCATCTTCAAGCC
** * * ** * * * * *
1134188 CAATATTGCTAGCCTTGAATCAACATATTGGCACCTTGGCCATCTTTAAGTCTAATGTCGTTGGC
66 CAATATCACTGGCCTTAAATCAGTACATTGGCACCTT-GCCATATTTAAGTCCAATATCGCTGGC
*
1134253 C-TTGAATCAGCACATTTGCACTTTTT
130 CATT-AATCAGCACATTGGCACTTTTT
* * * *
1134279 TCTTTCTTAAGTCCAATATCGCTAGCCTTGAATCAGTATATTGACGCCTTTGTCATCTTCAAGTC
1 TCTTTCTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGACACCTTTGTCATCTTCAAGCC
* ** * *
1134344 CAATGTCGTTGGCCTTAAATTAGTACATTGGCACCATTGTCATATTTAAGTCCAATATCGCTGGC
66 CAATATCACTGGCCTTAAATCAGTACATTGGCACC-TTGCCATATTTAAGTCCAATATCGCTGGC
* *
1134409 CATTAATCAGCACCTTGGCCCTTTTT
130 CATTAATCAGCACATTGGCACTTTTT
* * * *
1134435 TCTTTCTTAAGTCCAATATCACTGGCCTTGAATCGGCATATTGGCACCTTTGTCATCTTTAAGCC
1 TCTTTCTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGACACCTTTGTCATCTTCAAGCC
* * *
1134500 CAATATCACTGGCCTTGAATCAGTATATTAGCACCTT
66 CAATATCACTGGCCTTAAATCAGTACATTGGCACCTT
1134537 TATCATTTTT
Statistics
Matches: 212, Mismatches: 43, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
155 8 0.04
156 200 0.94
157 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (155 bp):
TCTTTCTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGACACCTTTGTCATCTTCAAGCC
CAATATCACTGGCCTTAAATCAGTACATTGGCACCTTGCCATATTTAAGTCCAATATCGCTGGCC
ATTAATCAGCACATTGGCACTTTTT
Found at i:1134589 original size:61 final size:61
Alignment explanation
Indices: 1134487--1134707 Score: 316
Period size: 61 Copynumber: 3.6 Consensus size: 61
1134477 GGCACCTTTG
* * *
1134487 TCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGTATATTAGCACCTTTATCATTTTTC
1 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTATCATTCTTC
* *
1134548 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTATCATTCTTC
1 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTATCATTCTTC
** *
1134609 TCATCTTTAAGCTTAATATCGCTGGCCGTGAATCAGCATATTAGCACCTTTATCATTCTTC
1 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTATCATTCTTC
* * * * * *
1134670 GCATCCTTAAGTCCAACATCGTTGACCTTGAATCAGCA
1 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCA
1134708 CATTGGCATT
Statistics
Matches: 141, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 141 1.00
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (61 bp):
TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTATCATTCTTC
Found at i:1134713 original size:122 final size:122
Alignment explanation
Indices: 1134482--1134741 Score: 333
Period size: 122 Copynumber: 2.1 Consensus size: 122
1134472 ATATTGGCAC
* * * *
1134482 CTTTGTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGTATATTAGCACCTTTATCATTTTT
1 CTTTATCATCTTTAAGCCCAATATCACTGGCCGTGAATCAGCATATTAGCACCTTTATCATTCTT
* * * * * *
1134547 CTCATCTTTAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTATCAT
66 CGCATCCTTAAGCCCAACATCGCTGACCTTGAATCAGCACATTGGCACCTTTATCAT
* ** *
1134604 -TCTTCTCATCTTTAAGCTTAATATCGCTGGCCGTGAATCAGCATATTAGCACCTTTATCATTCT
1 CT-TTATCATCTTTAAGCCCAATATCACTGGCCGTGAATCAGCATATTAGCACCTTTATCATTCT
* * ** *
1134668 TCGCATCCTTAAGTCCAACATCGTTGACCTTGAATCAGCACATTGGCATTTTTCTCAT
65 TCGCATCCTTAAGCCCAACATCGCTGACCTTGAATCAGCACATTGGCACCTTTATCAT
1134726 CTTTATCATCTTTAAG
1 CTTTATCATCTTTAAG
1134742 TGTAGTCTTA
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
121 1 0.01
122 115 0.98
123 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.38
Consensus pattern (122 bp):
CTTTATCATCTTTAAGCCCAATATCACTGGCCGTGAATCAGCATATTAGCACCTTTATCATTCTT
CGCATCCTTAAGCCCAACATCGCTGACCTTGAATCAGCACATTGGCACCTTTATCAT
Found at i:1145249 original size:60 final size:59
Alignment explanation
Indices: 1145183--1145294 Score: 215
Period size: 59 Copynumber: 1.9 Consensus size: 59
1145173 AGAACTCCAT
1145183 AACAAAATGGAATTGTTAAGAGGAAAAATCAGACTTTGGAAGAAATGGCTAGAACTTCTC
1 AACAAAATGGAATTGTTAAGAGG-AAAATCAGACTTTGGAAGAAATGGCTAGAACTTCTC
1145243 AACAAAATGGAATTGTTAAGAGGAAAATCAGACTTTGGAAGAAATGGCTAGA
1 AACAAAATGGAATTGTTAAGAGGAAAATCAGACTTTGGAAGAAATGGCTAGA
1145295 TCCATGCTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 29 0.56
60 23 0.44
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (59 bp):
AACAAAATGGAATTGTTAAGAGGAAAATCAGACTTTGGAAGAAATGGCTAGAACTTCTC
Found at i:1147853 original size:13 final size:13
Alignment explanation
Indices: 1147835--1147861 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1147825 ACAGCATTCC
1147835 TTGTATCGATACA
1 TTGTATCGATACA
1147848 TTGTATCGATACA
1 TTGTATCGATACA
1147861 T
1 T
1147862 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1149798 original size:27 final size:27
Alignment explanation
Indices: 1149771--1149824 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
1149761 AGAAAAAAAA
* *
1149771 TCTCTTTAATCAATTAAGGGGGAGAAAT
1 TCTCTTTAAGC-ATTAAAGGGGAGAAAT
* *
1149799 TTTTTTTAAGCATTAAAGGGGAGAAA
1 TCTCTTTAAGCATTAAAGGGGAGAAA
1149825 AACGAAAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (27 bp):
TCTCTTTAAGCATTAAAGGGGAGAAAT
Found at i:1150411 original size:13 final size:13
Alignment explanation
Indices: 1150393--1150419 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1150383 ACATTATGCT
1150393 TTGTATCGATACA
1 TTGTATCGATACA
1150406 TTGTATCGATACA
1 TTGTATCGATACA
1150419 T
1 T
1150420 AATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1150434 original size:32 final size:33
Alignment explanation
Indices: 1150374--1150440 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 33
1150364 CACACCCAGA
* *
1150374 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATAATGCATTGTATCGATACAT
1150407 TGTATCGATACATAAT-CATTGTATCGATACAT
1 TGTATCGATACATAATGCATTGTATCGATACAT
1150439 TG
1 TG
1150441 ACAATTGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAATGCATTGTATCGATACAT
Found at i:1150449 original size:20 final size:20
Alignment explanation
Indices: 1150404--1150458 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
1150394 TGTATCGATA
1150404 CATTGTATCGATACA-TAAT
1 CATTGTATCGATACATTAAT
*
1150423 CATTGTATCGATACATTGA-
1 CATTGTATCGATACATTAAT
*
1150442 CAATTGTATAGATACAT
1 C-ATTGTATCGATACAT
1150459 GAAACTGGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
CATTGTATCGATACATTAAT
Found at i:1150513 original size:20 final size:20
Alignment explanation
Indices: 1150488--1150541 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1150478 CTACCACTTT
*
1150488 TTGTATCGATACAT-AGGACA
1 TTGTATCGATACATGACGA-A
1150508 TTGTATCGATACATGACGAA
1 TTGTATCGATACATGACGAA
1150528 TTGTATCGATACAT
1 TTGTATCGATACAT
1150542 TGCTTGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.91
21 3 0.09
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGACGAA
Found at i:1152840 original size:572 final size:573
Alignment explanation
Indices: 1151756--1152886 Score: 2165
Period size: 572 Copynumber: 2.0 Consensus size: 573
1151746 CCACATCCGA
1151756 ATATATCTGTGTAAGATGGTCGGGTATGAGAAAAATGAAAAGCTCCTTATCCATTACTTCTAGCA
1 ATATATCTGTGTAAGATGGTCGGGTATGAGAAAAATGAAAAGCTCCTTATCCATTACTTCTAGCA
*
1151821 CAGTCTCACTGGGGCAAGCCGCTCGATGGTATATCGAGTTAGACAGCACAAAAATTCAATCATAG
66 CAGTCTCACTAGGGCAAGCCGCTCGATGGTATATCGAGTTAGACAGCACAAAAATTCAATCATAG
*
1151886 GCTGACTTGGCTAAGGCTTTCCTAAACCAATACCAATATTTGTCAGATTAGGTACCAGATCGACT
131 GCTGACTTGGCTAAGGCTTTCCTAAACCAATACCAATATCTGTCAGATTAGGTACCAGATCGACT
*
1151951 TTTCTTAATGAATTTTGAGAAGAAATCCATGGAGATTTTTAGGCAATATGCCCAAAGGTGGAGGG
196 TTCCTTAATGAATTTTGAGAAGAAATCCATGGAGATTTTTAGGCAATATGCCCAAAGGTGGAGGG
1152016 AAGAGGCAGCCTTAGTCCAACCTCCTTTTATAGAAAAAGAGATGACGGTCACTTTCATCAATACC
261 AAGAGGCAGCCTTAGTCCAACCTCCTTTTATAGAAAAAGAGATGACGGTCACTTTCATCAATACC
*
1152081 TTGTACACTCCTTATTACGAGAAACTCGTGGGGAATGTGACCAAGAGATTTGCAAACCTAGTCCT
326 TTGTACACTCCTTATTACGAGAAACTCGTGGGGAATGTGACCAAGAGATTTGCAAACCTACTCCT
1152146 CTCTGGAGAAATGATTGATGTGGCCATTAAAAGTGGTAGGATGTCTGTCGGAGAAACGTCTGGAT
391 CTCTGGAGAAATGATTGATGTGGCCATTAAAAGTGGTAGGATGTCTGTCGGAGAAACGTCTGGAT
1152211 TGAGCAAGAAACCTTTTGCCAATAAGAAAAAAGAAGGAGAAACCAATGCCATAAGTTACACTAGC
456 TGAGCAAGAAACCTTTTGCCAATAAGAAAAAAGAAGGAGAAACCAATGCCATAAGTTACACTAGC
*
1152276 TCATCTCAGCTAAGATAGCGTTGACCACCTAACCCTCACTACCAAAGCACGCC
521 TCATCTCAGCTAAGATAGCATTGACCACCTAACCCTCACTACCAAAGCACGCC
* * *
1152329 ATATATCTGTGTAAGATGGTCGGGTATGAGAAAGATGAAAAGCTCCTTATCCATTGCTTCTAGTA
1 ATATATCTGTGTAAGATGGTCGGGTATGAGAAAAATGAAAAGCTCCTTATCCATTACTTCTAGCA
* *
1152394 CAGTCTCACTAGGGC-AGTCGCTCGATGGTATATCGAGTTAGACAGCACAAAAATTCAATCATGG
66 CAGTCTCACTAGGGCAAGCCGCTCGATGGTATATCGAGTTAGACAGCACAAAAATTCAATCATAG
1152458 GCTGACTTGGCTAAGGCTTTCCTAAACCAATACCAATATCTGTCAGATTAGGTACCAGATCGACT
131 GCTGACTTGGCTAAGGCTTTCCTAAACCAATACCAATATCTGTCAGATTAGGTACCAGATCGACT
1152523 TTCCTTAATGAATTTTGAGAAGAAATCCATGGAGATTTTTAGGCAATATGCCCAAAGGTGGAGGG
196 TTCCTTAATGAATTTTGAGAAGAAATCCATGGAGATTTTTAGGCAATATGCCCAAAGGTGGAGGG
1152588 AAGAGGCAGCCTTAGTCCAACCTCCTTTTATAGAAAAAGAGATGACGGTCACTTTCATCAATACC
261 AAGAGGCAGCCTTAGTCCAACCTCCTTTTATAGAAAAAGAGATGACGGTCACTTTCATCAATACC
1152653 TTGTACACTCCTTATTACGAGAAACTCGTGGGGAATGTGACCAAGAGATTTGCAAACCTACTCCT
326 TTGTACACTCCTTATTACGAGAAACTCGTGGGGAATGTGACCAAGAGATTTGCAAACCTACTCCT
1152718 CTCTGGAGAAATGATTGATGTGGCCATTAAAAGTGGTAGGATGTCTGTCGGAGAAACGTCTGGAT
391 CTCTGGAGAAATGATTGATGTGGCCATTAAAAGTGGTAGGATGTCTGTCGGAGAAACGTCTGGAT
1152783 TGAGCAAGAAACCTTTTGCCAATAAGAAAAAAGAAGGAGAAACCAATGCCATAAGTTACACTAGC
456 TGAGCAAGAAACCTTTTGCCAATAAGAAAAAAGAAGGAGAAACCAATGCCATAAGTTACACTAGC
1152848 TCATCTCAGCTAAGATAGCATTGACCACCTAACCCTCAC
521 TCATCTCAGCTAAGATAGCATTGACCACCTAACCCTCAC
1152887 AATACCCCCT
Statistics
Matches: 548, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
572 472 0.86
573 76 0.14
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (573 bp):
ATATATCTGTGTAAGATGGTCGGGTATGAGAAAAATGAAAAGCTCCTTATCCATTACTTCTAGCA
CAGTCTCACTAGGGCAAGCCGCTCGATGGTATATCGAGTTAGACAGCACAAAAATTCAATCATAG
GCTGACTTGGCTAAGGCTTTCCTAAACCAATACCAATATCTGTCAGATTAGGTACCAGATCGACT
TTCCTTAATGAATTTTGAGAAGAAATCCATGGAGATTTTTAGGCAATATGCCCAAAGGTGGAGGG
AAGAGGCAGCCTTAGTCCAACCTCCTTTTATAGAAAAAGAGATGACGGTCACTTTCATCAATACC
TTGTACACTCCTTATTACGAGAAACTCGTGGGGAATGTGACCAAGAGATTTGCAAACCTACTCCT
CTCTGGAGAAATGATTGATGTGGCCATTAAAAGTGGTAGGATGTCTGTCGGAGAAACGTCTGGAT
TGAGCAAGAAACCTTTTGCCAATAAGAAAAAAGAAGGAGAAACCAATGCCATAAGTTACACTAGC
TCATCTCAGCTAAGATAGCATTGACCACCTAACCCTCACTACCAAAGCACGCC
Found at i:1155784 original size:10 final size:10
Alignment explanation
Indices: 1155755--1155790 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
1155745 ATAGTGGGCC
1155755 AAAATTTTGA
1 AAAATTTTGA
*
1155765 AAAATGTTTGG
1 AAAAT-TTTGA
1155776 AAAATTTTGA
1 AAAATTTTGA
1155786 AAAAT
1 AAAAT
1155791 CATCTAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (10 bp):
AAAATTTTGA
Found at i:1158536 original size:28 final size:28
Alignment explanation
Indices: 1158325--1158532 Score: 319
Period size: 28 Copynumber: 7.4 Consensus size: 28
1158315 CACCAACTTG
* *
1158325 TGTGGGCTTTGAAAAGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1158353 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1158381 TGTGGGCTTTGAAAGGGTATGCCATTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
*
1158411 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1158439 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1158467 TATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1158495 TATGGGCTTTGAAAGGGTG-CACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1158522 TGTGGGCTTTG
1 TGTGGGCTTTG
1158533 GAAATGTGCC
Statistics
Matches: 166, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
27 18 0.11
28 121 0.73
30 27 0.16
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1159820 original size:8 final size:8
Alignment explanation
Indices: 1159804--1159886 Score: 80
Period size: 8 Copynumber: 10.0 Consensus size: 8
1159794 ATCTGGACCC
1159804 TTTTTTGT
1 TTTTTTGT
*
1159812 TTGTTTGT
1 TTTTTTGT
*
1159820 TTTTTTAT
1 TTTTTTGT
1159828 TTTTTTGT
1 TTTTTTGT
1159836 TTTTTT-T
1 TTTTTTGT
1159843 TATTTTT-T
1 T-TTTTTGT
*
1159851 TTCTTTGTT
1 TTTTTTG-T
1159860 TTTATTTGTT
1 TTT-TTTG-T
1159870 TTTATTTGT
1 TTT-TTTGT
1159879 TTTTTTGT
1 TTTTTTGT
1159887 ACGAAGGACG
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
7 6 0.09
8 38 0.58
9 7 0.11
10 14 0.22
ACGTcount: A:0.05, C:0.01, G:0.10, T:0.84
Consensus pattern (8 bp):
TTTTTTGT
Found at i:1159823 original size:1 final size:1
Alignment explanation
Indices: 1159804--1159884 Score: 54
Period size: 1 Copynumber: 81.0 Consensus size: 1
1159794 ATCTGGACCC
* * * * * * * * * *
1159804 TTTTTTGTTTGTTTGTTTTTTTATTTTTTTGTTTTTTTTTATTTTTTTTCTTTGTTTTTATTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1159869 TTTTATTTGTTTTTTT
1 TTTTTTTTTTTTTTTT
1159885 GTACGAAGGA
Statistics
Matches: 56, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.05, C:0.01, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:1159836 original size:20 final size:20
Alignment explanation
Indices: 1159806--1159884 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
1159796 CTGGACCCTT
1159806 TTTTGTTTGTTTGTTTTTTTA
1 TTTT-TTTGTTTGTTTTTTTA
1159827 TTTTTTTG-TT-TTTTTTTA
1 TTTTTTTGTTTGTTTTTTTA
*
1159845 TTTTTTTTCTTTGTTTTTATT-
1 -TTTTTTTGTTTGTTTTT-TTA
* *
1159866 TGTTTTTATTTGTTTTTTT
1 TTTTTTTGTTTGTTTTTTT
1159885 GTACGAAGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
18 8 0.16
19 11 0.22
20 21 0.41
21 9 0.18
22 2 0.04
ACGTcount: A:0.05, C:0.01, G:0.09, T:0.85
Consensus pattern (20 bp):
TTTTTTTGTTTGTTTTTTTA
Found at i:1159840 original size:10 final size:10
Alignment explanation
Indices: 1159804--1159884 Score: 74
Period size: 11 Copynumber: 7.7 Consensus size: 10
1159794 ATCTGGACCC
1159804 TTTTTTGTTTG
1 TTTTTT-TTTG
1159815 TTTGTTTTTT-
1 TTT-TTTTTTG
*
1159825 TATTTTTTTG
1 TTTTTTTTTG
*
1159835 TTTTTTTTTATT
1 -TTTTTTTT-TG
1159847 TTTTTTCTTTG
1 TTTTTT-TTTG
*
1159858 TTTTTATTTG
1 TTTTTTTTTG
*
1159868 TTTTTATTTG
1 TTTTTTTTTG
1159878 TTTTTTT
1 TTTTTTT
1159885 GTACGAAGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
9 6 0.10
10 22 0.37
11 25 0.42
12 6 0.10
ACGTcount: A:0.05, C:0.01, G:0.09, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:1159840 original size:18 final size:18
Alignment explanation
Indices: 1159819--1159882 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 18
1159809 TGTTTGTTTG
1159819 TTTTTTTATTTTTTTGT-T
1 TTTTTTTATTTTTTT-TCT
1159837 TTTTTTTATTTTTTTTCT
1 TTTTTTTATTTTTTTTCT
*
1159855 TTGTTTTTATTTGTTTTTAT
1 TT-TTTTTATTT-TTTTTCT
1159875 TTGTTTTT
1 TT-TTTTT
1159883 TTGTACGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 1 0.02
18 18 0.43
19 9 0.21
20 14 0.33
ACGTcount: A:0.06, C:0.02, G:0.06, T:0.86
Consensus pattern (18 bp):
TTTTTTTATTTTTTTTCT
Found at i:1159843 original size:19 final size:19
Alignment explanation
Indices: 1159806--1159871 Score: 73
Period size: 18 Copynumber: 3.4 Consensus size: 19
1159796 CTGGACCCTT
1159806 TTTTGTTTGTTTGTTTTTTTA
1 TTTT-TTTGTTT-TTTTTTTA
1159827 TTTTTTTG-TTTTTTTTTA
1 TTTTTTTGTTTTTTTTTTA
*
1159845 TTTTTTT-TCTTTGTTTTTA
1 TTTTTTTGT-TTTTTTTTTA
1159864 TTTGTTTT
1 TTT-TTTT
1159872 TATTTGTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
18 15 0.37
19 14 0.34
20 8 0.20
21 4 0.10
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.85
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTTTTA
Found at i:1159881 original size:19 final size:18
Alignment explanation
Indices: 1159821--1159882 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
1159811 TTTGTTTGTT
* *
1159821 TTTTTATTTTTTTGTTTT
1 TTTTTATTTTTTTATTTG
*
1159839 TTTTTATTTTTTTTCTTTG
1 TTTTTA-TTTTTTTATTTG
1159858 TTTTTATTTGTTTTTATTTG
1 TTTTTA-TT-TTTTTATTTG
1159878 TTTTT
1 TTTTT
1159883 TTGTACGAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
18 6 0.15
19 19 0.49
20 14 0.36
ACGTcount: A:0.06, C:0.02, G:0.06, T:0.85
Consensus pattern (18 bp):
TTTTTATTTTTTTATTTG
Found at i:1166550 original size:23 final size:23
Alignment explanation
Indices: 1166520--1166566 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1166510 AATGACATTT
1166520 CCTTGCCATCACTCGCTTATTGA
1 CCTTGCCATCACTCGCTTATTGA
1166543 CCTTGCCATCACTCGCTTATTGA
1 CCTTGCCATCACTCGCTTATTGA
1166566 C
1 C
1166567 AAAATTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.36, G:0.13, T:0.34
Consensus pattern (23 bp):
CCTTGCCATCACTCGCTTATTGA
Found at i:1176132 original size:11 final size:11
Alignment explanation
Indices: 1176118--1176177 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
1176108 AAAACCTAGG
1176118 AAAAAAACAAA
1 AAAAAAACAAA
1176129 AAAAAAAC---
1 AAAAAAACAAA
* **
1176137 AAAAAACCCCA
1 AAAAAAACAAA
1176148 AAAAAAACAAA
1 AAAAAAACAAA
*
1176159 AAACAAACAAA
1 AAAAAAACAAA
1176170 CAAAAAAA
1 -AAAAAAA
1176178 GGGTCCAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
8 7 0.18
11 26 0.67
12 6 0.15
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:1176140 original size:19 final size:19
Alignment explanation
Indices: 1176118--1176165 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
1176108 AAAACCTAGG
1176118 AAAAAAACAAAAAAAAAAC
1 AAAAAAACAAAAAAAAAAC
* **
1176137 AAAAAACCCCAAAAAAAAC
1 AAAAAAACAAAAAAAAAAC
1176156 -AAAAAACAAA
1 AAAAAAACAAA
1176166 CAAACAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAC
Found at i:1177417 original size:28 final size:28
Alignment explanation
Indices: 1177377--1177938 Score: 622
Period size: 28 Copynumber: 19.9 Consensus size: 28
1177367 TGTTCATCTC
*
1177377 TTCAAACCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
1177405 TTCAAAGCCCACAAGTCAGTGGCATCCC-
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
1177433 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1177461 TTCAAAGCCCACAAGTTAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1177489 TACAAAGCCCACACGAGTCGGTGGCA-AC-
1 TTCAAAGCCCACA--AGTCAGTGGCACCCT
* *
1177517 -T-----CCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1177539 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1177567 TTCAAAGCCCATAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1177595 TTCAAAGCCCCCAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1177623 TTCAAAACCCACAAGTCAGTGTCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1177651 TTCAAAGCCCCCAAGTTAGTGGAACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
1177679 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1177707 TTCAAAGCCCACAAGTCAGTGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* *
1177736 TTCAAAGCCCATAAGTC-GATGGCAACTCTT
1 TTCAAAGCCCACAAGTCAG-TGGC-AC-CCT
* * *
1177766 TTTAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1177794 TTCAAAGCCCACAAGTTAGTGGAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1177822 TTCAAAGGCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1177850 TTCAAAGCCCATAAGTCAGTGGTACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1177879 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
1177911 TTCAAAGCCCATACAAGTTAGTGGCACC
1 TTCAAAGCCC--ACAAGTCAGTGGCACC
1177939 TTTTTTAAAA
Statistics
Matches: 453, Mismatches: 58, Indels: 44
0.82 0.10 0.08
Matches are distributed among these distances:
20 10 0.02
21 1 0.00
22 5 0.01
23 1 0.00
27 3 0.01
28 323 0.71
29 42 0.09
30 30 0.07
31 11 0.02
32 24 0.05
34 3 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1178063 original size:45 final size:47
Alignment explanation
Indices: 1177999--1178107 Score: 123
Period size: 49 Copynumber: 2.3 Consensus size: 47
1177989 CTATCTGACA
* * * *
1177999 TCGCTAGCTTTGAATCAGCATATTGGT-ACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTAGTCACCTTTCATTAGCCCAATG
* *
1178044 TCGCTGGCCTTGAATCAGCACATTAGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTAGT-CACCTTT-CATTAGCCCAATG
*
1178093 TTGCTGGCCTTGAAT
1 TCGCTGGCCTTGAAT
1178108 TGGTACATTG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 23 0.43
47 5 0.09
49 25 0.47
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAGCACATTAGTCACCTTTCATTAGCCCAATG
Found at i:1182490 original size:611 final size:611
Alignment explanation
Indices: 1180163--1184526 Score: 5540
Period size: 611 Copynumber: 7.1 Consensus size: 611
1180153 TATTAGGATA
* * * **
1180163 CACCATAAACAAGTTATCTTCATTGGGATGCATAATGCTGATGCATTGGTTATGCAAGAAAAGTT
1 CACCATAAACACGTTATCTTTATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTT
* * *
1180228 TTTCTTGCCACTTTTTTGCTTCAAGCAAAGTTCATTCATCAAATAAGAC-AAAAAGGATTCTTGT
66 TTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAGGATTCTTGT
** * * **
1180292 AATAATCTCCCCTATATTGTGATTAGGTAGCCAAAACACACTCTATTCATTGGGATGCATGATAT
131 AATAATCTCCATTATTTTGTGATTAGGTAGCCAAAACACGCTCCCTTCATTGGGATGCATGATAT
* * * *
1180357 TGATGCTTTGATTTTTGCAAGAAATGCTTTTCTTTCCATTACCATTTTAAAATCAAAGTTTGTCC
196 TGATGCTTTGATTTTCGAAAGAAATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTGTCC
* * * * * * **
1180422 CTTAAAAGAGATAAAGATGGATTCTCACAATGATCTTCAAAAACACATTCTTTTCACAGGGATAC
261 CTTAAAAGAGACAAAGAAGAATTCTCATAATGATCTCCAAAAACACATTCTATTCATTGGGA-AC
* * *
1180487 ATGATATTGATATTTTGATTTTATAAGAAAAGCTTTTCTTGCCACGATATTCCTTATAATTTGAG
325 ATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGAG
* * * * * *
1180552 TTTGTATGTCAAATGAAACATACATGTATTCTTATAGTAATATTCATTCTTTTCCTGATTAGGCA
390 TTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTCTTTTCATGATTAGGCA
* * * * *
1180617 ACGAAAACACATTCCCCTTATTGCGATACACGATATTAATGCTTTGATTTCATTAGAAAATCATT
455 ACCAAAACACATTCTCCTTATTGGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCATT
* * * * * * *
1180682 TTTCTCCATCGTTTTCCTTAGAATCAAAGTCTATATCTCAACA-AAGATAAACAAGGATTTACGC
520 TTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATACCTTAA-ATGAGACAAACATGGATTTATGC
1180746 AATAATCTCCATTCTTTCAATGATTGGG
584 AATAATCTCCATTCTTTCAATGATTGGG
* * *
1180774 CACCATAAAAACATTATCTTTATTGGGATGCATAATATTGATGCATTGGTTATGCAAGAAAAGTT
1 CACCATAAACACGTTATCTTTATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTT
*
1180839 TTTCTTGCCACTTATTTCCTTAAAGCGAAGTTCATTCATCAAATAAGACAAAAAAAGGATTCTTG
66 TTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCATCAAATAAGAC-AAAAAAGGATTCTTG
* *
1180904 TAATAGTCTCCATTATTTTGTGATTAGGTAGCCAAAACACGCTCTCTTCTTGTAATAATCTTCAA
130 TAATAATCTCCATTATTTTGTGATTAGGTAGCCAAAACACG--CTC--C----------CTTCAT
** * * * **
1180969 TGCAATGCATGCTATTGATGCTTTGATTTTTGGAAGAAATGCTTTTCTTTCCACTATATTTTTAA
181 TGGGATGCATGATATTGATGCTTTGATTTTCGAAAGAAATGCTTTTCTTTCCACTACCTTTTTAA
* ** * * *
1181034 AATCAAAGTTTG-CCCTTAAAAGAGACAAACATTAATTCTCATAATAAT-TTCAAAAACACTTTC
246 AATCAAAGTTTGTCCCTTAAAAGAGACAAAGAAGAATTCTCATAATGATCTCCAAAAACACATTC
* * * * *
1181097 TATTTATTGGGATACATGATATTAATGTTTTGATTACATAAAAAAAGCTTTTCTTGACACGATTT
311 TATTCATTGGGA-ACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTT
* *
1181162 TCCTTATAATTTGAGTTCATATGTCAAATGAAACAAACATGGATTCTTATAAAAATCTTCATTCT
375 TCCTTATAATTTGAGTTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTCT
* * *
1181227 TTTCATGATTAGGCAACCAAAACATATTCTCCTTATTAGGG-TACATGATATTAATGCCTTGATT
440 TTTCATGATTAGGCAACCAAAACACATTCTCCTTATT-GGGATACACGATATTAATGCTTTGATT
* * * *
1181291 TAATAAG-AAA-TATTTTCTCTCCACCGTTTTCCTTAAAATCAAAGTTTATACCTTAACA-GAGA
504 TCATAAGAAAAGCATTTT-TCTCCATCGTTTTCCTTAGAATCAAAGTTTATACCTTAA-ATGAGA
*** *
1181353 CAAACATGGATTTGCACAATAATATCCATTCTTTCAATGATTGGG
567 CAAACATGGATTTATGCAATAATCTCCATTCTTTCAATGATTGGG
* ** * *
1181398 CACCATAAACACGTTATCTTCT-TTGGGATGCATAATATTGACACATTGGTAACGCAAGAAAAGT
1 CACCATAAACACGTTATCTT-TATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGT
* * * * * *
1181462 TTTTCTTGTCACTTATTTCCTTAAAGCAAAGTCCGTTCATCAAATAAGGCAAAAAAGTATTCTTC
65 TTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAGGATTCTTG
*
1181527 TAATAGTCTCCATTATTTTGTGATTAGGTAGCCAAAACACGCAT-CCTTCATTGGGATGCATGAT
130 TAATAATCTCCATTATTTTGTGATTAGGTAGCCAAAACACGC-TCCCTTCATTGGGATGCATGAT
* *
1181591 ATTGATGCTTTGATTTTC-AGAAGAAATTCTTTTCTTTCCACTACTTTTTTAAAATCAAAGTTTG
194 ATTGATGCTTTGATTTTCGA-AAGAAATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTG
* *
1181655 TCCCTTAAAAGAGGCAAAGAAGAATTCTCATAATGATCTCCAAAATCACATTCTATTCATTGGGA
258 TCCCTTAAAAGAGACAAAGAAGAATTCTCATAATGATCTCCAAAAACACATTCTATTCATTGGGA
* * * **
1181720 TACAAGATATTGATGTTTTGATGATATAAGAAAAGCTTTT-TTACCGTGATTTTCCTTATAATTT
323 -ACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTT
* * *
1181784 GAGCTCGTATGTCAAATGAAACAAACAAGGATTCTTATATTAATCTTCA-TCATTTTCATGATTA
387 GAGTTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTC-TTTTCATGATTA
* * *
1181848 GGCAACCAAAACACATTC-CCTTATCGGGATACATGATATTAGTGCTTTGATTTCATAAGAAAAG
451 GGCAACCAAAACACATTCTCCTTATTGGGATACACGATATTAATGCTTTGATTTCATAAGAAAAG
* *
1181912 CATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATACCTTAAATGAGAAAAAAATGGATTTA
516 CATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATACCTTAAATGAGACAAACATGGATTTA
*
1181977 TGCCATAATCTCCATTCTTTCAATGATTGGG
581 TGCAATAATCTCCATTCTTTCAATGATTGGG
* * * *
1182008 CACCATACACATGTTATCTTTATTAGGATGCACAATTTTGATGCATTGGTTATGCAAGAAAAGTT
1 CACCATAAACACGTTATCTTTATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTT
* * * ** *
1182073 TTTCTTGGCACTTATTCCCTTAAAGTAAAGTTCATTTGTTAAATAAGACAAAAAAAGGATTCTTG
66 TTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCATCAAATAAGAC-AAAAAAGGATTCTTG
* * * **
1182138 TAACAATCTCCGTTATTTTGTGATTTGGTAGCCAAAACACGCTCCCTTCATAT-TAATGCATGAT
130 TAATAATCTCCATTATTTTGTGATTAGGTAGCCAAAACACGCTCCCTTCAT-TGGGATGCATGAT
***
1182202 ATTGATGCTTTGATTTTCGAAAGAAATGCTTTTAAATCCACTACCTTTTTAAAATCAAAGTTTGT
194 ATTGATGCTTTGATTTTCGAAAGAAATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTGT
* * *
1182267 CCTTTAAAA-ATGACAAAGAAGAATTC-CTATAAGGATCACCAAAAACACATTCTATTCATT-GG
259 CCCTTAAAAGA-GACAAAGAAGAATTCTC-ATAATGATCTCCAAAAACACATTCTATTCATTGGG
*
1182329 -ACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTAATAATTT
322 AACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTT
* * ** * * * *
1182393 GAGTTTGTATATCAAATGAATTAAACATGGGTTCTTATAATAAGCTTCATTATTTTCACGATTAG
387 GAGTTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTCTTTTCATGATTAG
*
1182458 GCAACCAAAACACATTCTCCTTATTTGGGATACACGATATTAACGCTTTGATTTCATAA-AAATA
452 GCAACCAAAACACATTCTCCTTA-TTGGGATACACGATATTAATGCTTTGATTTCATAAGAAA-A
* * * *
1182522 GTATTTTTCTCCATCATTTTCCTTAGAATCAAAGCTTATACCTTAAATGAGGCAAACATGGA-TT
515 GCATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATACCTTAAATGAGACAAACATGGATTT
* **
1182586 -TGCATAACAATCTCTGTTCTTTCAATGATTGGG
580 ATGC--AATAATCTCCATTCTTTCAATGATTGGG
* * * *
1182619 CACCATAAACATGTTATCTTTTTTGGGATGCACAATATTGATCCATTGGTTATGCAAGTAAAGTT
1 CACCATAAACACGTTATCTTTATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTT
* * *
1182684 TTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCGTTCATCAAATAAGTCAAAAAAGTATTCTTGT
66 TTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAGGATTCTTGT
* *
1182749 AATAATCTCCATTATTTTGTGATTAGGTAGCCAAAACACTCTCCCTTCATTGGAATGCATGATAT
131 AATAATCTCCATTATTTTGTGATTAGGTAGCCAAAACACGCTCCCTTCATTGGGATGCATGATAT
* * * ** *
1182814 TGATGATTTGATTTT-TACAAGGAATGCTTTTCTTTCCACTATTTTTTTAAAATCATAGTTTGTC
196 TGATGCTTTGATTTTCGA-AAGAAATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTGTC
* * *
1182878 CCTTAAAAGAGACAAAGAAGAATTCTCATAATGATCTCCAAAAACACATTCAATTCTTTGCGATA
260 CCTTAAAAGAGACAAAGAAGAATTCTCATAATGATCTCCAAAAACACATTCTATTCATTGGGA-A
* * *
1182943 CATGATATTGATGTTTTGATGATATAAGAAAAGCTTTTCTTGCCATGATTTTCCATATAATTTGA
324 CATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGA
** * * * * *
1183008 ACTCATATCTCAAATGAAACAAACAAGGATTCTTATATTAATCTTCATCCTTTTCATGATTAGGC
389 GTTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTCTTTTCATGATTAGGC
* * *
1183073 AACCAAAACACATTCCCCTTATCGAGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCAT
454 AACCAAAACACATTCTCCTTATTGGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCAT
* *
1183138 TTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATACCTTAAATGAGATAAACAAGGATTTATGC
519 TTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATACCTTAAATGAGACAAACATGGATTTATGC
1183203 AATAATCTCCATTCTTTCAATGATTGGG
584 AATAATCTCCATTCTTTCAATGATTGGG
* * * * *
1183231 C-CCATACACACATTAGT-TTTATTAGGATGCACAGTATTGATGCATTGGTCATGCAAGAAAAGT
1 CACCATAAACACGTTA-TCTTTATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGT
* * * * * * *
1183294 TTTTCTTACCACTTATTCCCTTAAAGTAAAGTGCATTCGTCAAATTAGATAAAAAAGGATTCTTG
65 TTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAGGATTCTTG
* * * *
1183359 TAACAATCTCCATTATTTTGTGATTTGGTATCCAAAACACGCTCCCTTCATAT-TGATGCATGAT
130 TAATAATCTCCATTATTTTGTGATTAGGTAGCCAAAACACGCTCCCTTCAT-TGGGATGCATGAT
* *
1183423 ATTGATGCTTTGATTTTCGAAAGAAATGCTTTT-TGATCCACTACCTTTTCAAAATCAAAGTTTG
194 ATTGATGCTTTGATTTTCGAAAGAAATGCTTTTCT-TTCCACTACCTTTTTAAAATCAAAGTTTG
* * * * * * * *
1183487 TCCTTTAAAAAAGACAAAGAAGAATTC-CTATAAGGATC-ACTAAAGCATATTCTATTCATTAGG
258 TCCCTTAAAAGAGACAAAGAAGAATTCTC-ATAATGATCTCCAAAAACACATTCTATTCATTGGG
*
1183550 ATACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTAATAATT
322 A-ACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATT
* ** * * *
1183615 TGAGTTCATATGTCAAACAAAACAAACATGGGTTCTTATTATAATATTCATTCTTTTCATGATTA
386 TGAGTTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTCTTTTCATGATTA
* * * *
1183680 GGCAGCCAAAACACATTCTCCTTAGTTGGGATACATGATATTAATGCCTTGATTTCATAAGAATA
451 GGCAACCAAAACACATTCTCCTTA-TTGGGATACACGATATTAATGCTTTGATTTCATAAGAAAA
* * * * * *
1183745 GTATTTTTCTCCCTCATTTTCCTTAGAATCAAAGTTTTTACCTTAAATGAGGCAAACATGGATCT
515 GCATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATACCTTAAATGAGACAAACATGGATTT
** * *
1183810 GCGCAACAATCTCCATTCTTTCAGTGATTGGG
580 ATGCAATAATCTCCATTCTTTCAATGATTGGG
* * *
1183842 TACCATAAACATGTTATCATTT-TTGGGATGCACAATATTGATGCATTGGTTATGCAAGTAAAGT
1 CACCATAAACACGTTATC-TTTATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGT
* ** *
1183906 TTTTCTTGCCACTTATTTCCTTAAGGCAAAGTTTGTTCATCAAATAAGAGAAAAAAGGATTCTTA
65 TTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAGGATTCTT-
* * * * * * *
1183971 G-AATAATCGCCATTTTTTTGTGGTTAGATAGCCAAAACACGCTCTCTTCATTGGGATACGTGAT
129 GTAATAATCTCCATTATTTTGTGATTAGGTAGCCAAAACACGCTCCCTTCATTGGGATGCATGAT
* * * *
1184035 ATTGATGCTTTGATTTTTGTAAGAAATGCTTTTCTTTCTACTACC--TTTAAAATCAAAGTTTAT
194 ATTGATGCTTTGATTTTCGAAAGAAATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTGT
* * * * * *
1184098 CCGTTAAAAGAGACAAAGATGAATTCTCATAATAATCTCCAAAAA-ACTTTTTGTTCATTGGGAT
259 CCCTTAAAAGAGACAAAGAAGAATTCTCATAATGATCTCCAAAAACACATTCTATTCATTGGGA-
* ** *
1184162 ACATGACATTGATGTTTTGATTATATAAGAAAAGCTTTTCCCGCCACAATTTTCCTTATAATTTG
323 ACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTG
* * * *
1184227 ATTTCGTATGTCAAATGAAACAAACATGGATTTTTATAATAATCTTTATTCTCTTCATGATTAGG
388 AGTTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTCTTTTCATGATTAGG
* * * * *
1184292 CAACGAAAACACATTGTCCTTATTAGGATACACGATATTAATGATTTGATTTCATAAGAAAAGCT
453 CAACCAAAACACATTCTCCTTATTGGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCA
* * *
1184357 TTTTTCTCC-TCCGTTTTCCTTAGAATAAAAGTTTATACCTTAACTAAGACAAACATGGATTTAT
518 TTTTTCTCCAT-CGTTTTCCTTAGAATCAAAGTTTATACCTTAAATGAGACAAACATGGATTTAT
*
1184421 GCAATAATCTCTATTCTTTCAATGATTGGG
582 GCAATAATCTCCATTCTTTCAATGATTGGG
* * * * * * *
1184451 CACCATAAGCACATTATCTTCATCGGGATGCATAATATTGACGCATTGGTTATGCAAGAAAAGCT
1 CACCATAAACACGTTATCTTTATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTT
*
1184516 TTCCTTGCCAC
66 TTTCTTGCCAC
1184527 GATTTTCCTT
Statistics
Matches: 3246, Mismatches: 439, Indels: 138
0.85 0.11 0.04
Matches are distributed among these distances:
608 43 0.01
609 382 0.12
610 842 0.26
611 932 0.29
612 312 0.10
613 193 0.06
614 3 0.00
615 3 0.00
619 1 0.00
621 1 0.00
622 1 0.00
623 59 0.02
624 183 0.06
625 186 0.06
626 32 0.01
627 73 0.02
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.37
Consensus pattern (611 bp):
CACCATAAACACGTTATCTTTATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTT
TTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAGGATTCTTGT
AATAATCTCCATTATTTTGTGATTAGGTAGCCAAAACACGCTCCCTTCATTGGGATGCATGATAT
TGATGCTTTGATTTTCGAAAGAAATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTGTCC
CTTAAAAGAGACAAAGAAGAATTCTCATAATGATCTCCAAAAACACATTCTATTCATTGGGAACA
TGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGAGT
TCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTCTTTTCATGATTAGGCAA
CCAAAACACATTCTCCTTATTGGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCATTT
TTCTCCATCGTTTTCCTTAGAATCAAAGTTTATACCTTAAATGAGACAAACATGGATTTATGCAA
TAATCTCCATTCTTTCAATGATTGGG
Found at i:1184447 original size:159 final size:157
Alignment explanation
Indices: 1184246--1184759 Score: 390
Period size: 159 Copynumber: 3.2 Consensus size: 157
1184236 GTCAAATGAA
* * * * * *
1184246 ACAAACATGGATTTTTATAATAATCTTTATTCTCTTCATGATTAGGCAACGAAAACACATTGTCC
1 ACAAACATGGATTTATGTAATAATCTCTATTCTATTCATGATTAGGCAACCAAAACACATTATCC
* *
1184311 TTATTAGGATACACGATATTAATGATTTGATTTCATAAGAAAAGCTTTTTTCTCCTCCGTTTTCC
66 TTATTGGGATACACAATATTAATGATTTGA-TTCATAAGAAAAGCTTTTTTCTCC-CCGTTTTCC
1184376 TTAGAATAAAAGTTTATACCTTAACTAAG
129 TTAGAATAAAAGTTTATACCTTAACTAAG
* * *
1184405 ACAAACATGGATTTATGCAATAATCTCTATTCT-TTCAATGATTGGGC-ACCATAAGCACATTAT
1 ACAAACATGGATTTATGTAATAATCTCTATTCTATTC-ATGATTAGGCAACCA-AAACACATTAT
* * * * * * * * *
1184468 -CTTCATCGGGATGCATAATATTGACGCA-TTGGTT-ATGCAAGAAAAGCTTTCCTT-GCCACGA
64 CCTT-ATTGGGATACACAATATTAATG-ATTTGATTCAT--AAGAAAAGCTTT-TTTCTCCCCG-
* * ***
1184529 TTTTCCTTATATTTCGAGTTCGTATA--TT-ACATGAA-
123 TTTTCCTTAGAATAAAAGTT--TATACCTTAAC-T-AAG
* * * * ** *
1184564 ACAAACATAGATTCT-TATAATAATCT-TCATTCTATTCATTATTAGGCAACTAGTACACATTCT
1 ACAAACATGGATT-TATGTAATAATCTCT-ATTCTATTCATGATTAGGCAACCAAAACACATTAT
* *
1184627 CCGTGT-TTGGGATACACAATATTAATGCTTTGATTCATAAGAAAAGTTTTTTTCTCCACCGTTT
64 CC-T-TATTGGGATACACAATATTAATGATTTGATTCATAAGAAAAGCTTTTTTCTCC-CCGTTT
* * * *
1184691 TCCTTGGAATCAAAGTTTATACCTTAAATGAG
126 TCCTTAGAATAAAAGTTTATACCTTAACTAAG
* * *
1184723 ACAAACGTGGATTTATGTGATAATCTCCATTCT-TTCA
1 ACAAACATGGATTTATGTAATAATCTCTATTCTATTCA
1184760 AAGAATGGGC
Statistics
Matches: 268, Mismatches: 58, Indels: 59
0.70 0.15 0.15
Matches are distributed among these distances:
157 6 0.02
158 24 0.09
159 193 0.72
160 37 0.14
161 7 0.03
162 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (157 bp):
ACAAACATGGATTTATGTAATAATCTCTATTCTATTCATGATTAGGCAACCAAAACACATTATCC
TTATTGGGATACACAATATTAATGATTTGATTCATAAGAAAAGCTTTTTTCTCCCCGTTTTCCTT
AGAATAAAAGTTTATACCTTAACTAAG
Found at i:1184855 original size:318 final size:318
Alignment explanation
Indices: 1184188--1184844 Score: 872
Period size: 318 Copynumber: 2.1 Consensus size: 318
1184178 TTGATTATAT
* * * *
1184188 AAGAAAAGCTTTTCC-CGCCACAATTTTCCTTATAATTTGATTTCGTATGTCAAATGAAACAAAC
1 AAGAAAAGC-TTTCCTTGCCACGATTTTCCTTATAATTTGAGTTCGTATATCAAATGAAACAAAC
* * * * *
1184252 ATGGATTTTTATAATAATCTTTATTCTCTTCATGATTAGGCAACGAAAACACATTGTCCTTATTA
65 ATAGATTCTTATAATAATCTTCATTCTATTCATGATTAGGCAACGAAAACACATTCTCCTTATTA
* *
1184317 GGATACACGATATTAATGATTTGATTTCATAAGAAAAGCTTTTTTCTCCTCCGTTTTCCTTAGAA
130 GGATACACAATATTAATGATTTGATTTCATAAGAAAAGCTTTTTTCTCCACCGTTTTCCTTAGAA
* * * *
1184382 TAAAAGTTTATACCTTAACTAAGACAAACATGGATTTATGCAATAATCTCTATTCTTTCAATGAT
195 TAAAAGTTTATACCTTAAATAAGACAAACATGGATTTATGCAATAATCTCCATTCTTTCAAAGAA
* * * *
1184447 TGGGCACCATAAGCACATTATCTTCATCGGGATGCATAATATTGACGCATTGGTTATGC
260 TGGGCACCACAAACACATTATCTTCATCGGGATGCACAATATTGACGCATTGGTTACGC
* *
1184506 AAGAAAAGCTTTCCTTGCCACGATTTTCCTTAT-ATTTCGAGTTCGTATATTACATGAAACAAAC
1 AAGAAAAGCTTTCCTTGCCACGATTTTCCTTATAATTT-GAGTTCGTATATCAAATGAAACAAAC
* * **
1184570 ATAGATTCTTATAATAATCTTCATTCTATTCATTATTAGGCAACTAGTACACATTCTCCGTGT-T
65 ATAGATTCTTATAATAATCTTCATTCTATTCATGATTAGGCAACGAAAACACATTCTCC-T-TAT
* * * *
1184634 TGGGATACACAATATTAATGCTTTGA-TTCATAAGAAAAGTTTTTTTCTCCACCGTTTTCCTTGG
128 TAGGATACACAATATTAATGATTTGATTTCATAAGAAAAGCTTTTTTCTCCACCGTTTTCCTTAG
* * * **
1184698 AATCAAAGTTTATACCTTAAATGAGACAAACGTGGATTTATGTGATAATCTCCATTCTTTCAAAG
193 AATAAAAGTTTATACCTTAAATAAGACAAACATGGATTTATGCAATAATCTCCATTCTTTCAAAG
* * * * * *
1184763 AATGGGCACCACAAATACGTTATCTTCTTTGGGATGCACAATGTTGATGCATTGGTTACGC
258 AATGGGCACCACAAACACATTATCTTCATCGGGATGCACAATATTGACGCATTGGTTACGC
* *
1184824 AAGAAAAGTTTTTCTTGCCAC
1 AAGAAAAGCTTTCCTTGCCAC
1184845 TTATTTCCTT
Statistics
Matches: 293, Mismatches: 42, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
317 9 0.03
318 258 0.88
319 25 0.09
320 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (318 bp):
AAGAAAAGCTTTCCTTGCCACGATTTTCCTTATAATTTGAGTTCGTATATCAAATGAAACAAACA
TAGATTCTTATAATAATCTTCATTCTATTCATGATTAGGCAACGAAAACACATTCTCCTTATTAG
GATACACAATATTAATGATTTGATTTCATAAGAAAAGCTTTTTTCTCCACCGTTTTCCTTAGAAT
AAAAGTTTATACCTTAAATAAGACAAACATGGATTTATGCAATAATCTCCATTCTTTCAAAGAAT
GGGCACCACAAACACATTATCTTCATCGGGATGCACAATATTGACGCATTGGTTACGC
Found at i:1184964 original size:927 final size:928
Alignment explanation
Indices: 1183578--1185465 Score: 2483
Period size: 927 Copynumber: 2.0 Consensus size: 928
1183568 TTGATTATAT
* *
1183578 AAGAAAAGCTTTTCTTGCCACGATTTTCCTAATAATTTGAGTTCATATGTCAAACAAAACAAACA
1 AAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGAGTTCATATATCAAACAAAACAAACA
* * * * * *
1183643 TGGGTTCTTATTATAATATTCATTCTTTTCATGATTAGGCAGCCAAAACACATTCTCCTTAGTTG
66 TAGATTCTTATAATAATATTCATTCTATTCATGATTAGGCAACCAAAACACATTCTCCGTAGTTG
** *
1183708 GGATACATGATATTAATGCCTTGATTTCATAAGAATAGTATTTTTCTCCCTCATTTTCCTTAGAA
131 GGATACACAATATTAATGCCTTGATTTCATAAGAAAAGTATTTTTCTCCCTCATTTTCCTTAGAA
* * * ** *
1183773 TCAAAGTTTTTACCTTAAATGAGGCAAACATGGATCTGCGCAACAATCTCCATTCTTTCAGTGAT
196 TCAAAGTTTATACCTTAAATGAGACAAACATGGATCTACGCAACAATCTCCATTCTTTCAAAGAA
* * * * *
1183838 TGGGTACCATAAACATGTTATCATTTTTGGGATGCACAATATTGATGCATTGGTTATGCAAGTAA
261 TGGGCACCACAAACACGTTATCATTTTTGGGATGCACAATATTGATGCATTGGTTACGCAAGAAA
* ***
1183903 AGTTTTTCTTGCCACTTATTTCCTTAAGGCAAAGTTTGTTCATCAAATAAGAGAAAAAAGGATTC
326 AGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTCCATTCATCAAATAAGAGAAAAAAGGATTC
* * *
1183968 TTAGAATAATCGCCATTTTTTTGTGGTTAGATAGCCAAAACACGCTCTCTTCATTGGGATACGTG
391 TTAGAATAATCGCCATTTTTTTGTGATTAGACAGCCAAAACACGCTCTCTTCATTGGGATACATG
* *** * * *
1184033 ATATTGATGCTTTGATTTTTGTAAGAAATGCTTTTCTTTCTACTACC-TTTAAAATCAAAGTTTA
456 ATATTGATGCTTTGACTTTCACAAGAAATGCTTTTCCTTCCACTACCTTTTAAAATCAAAGATTA
* * * * *
1184097 TCCGTTAAAAGAGACAAAGATGAATTCTCATAATAATCTCCAAAAA-ACTTTTTGTTCATTGGGA
521 TCCCTTAAAAGAGACAAAGATGAATTCTCATAATAATCTCCAAAAACACATTCTATTCATTGAGA
*
1184161 TACATGACATTGATGTTTTGATTATATAAGAAAAGCTTTTCCCGCCACAATTTTCCTTATAATTT
586 TACATGACATTGATGTTTTGATTATATAAG-AAAGCTTTTCCCGCCACAATTTTCCCTATAATTT
* * * *
1184226 GATTTCGTATGTCAAATGAAACAAACATGGATTTTTATAATAATCTTTATTCTCTTCATGATTAG
650 GAGTTCGCATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTCTCTTCATGATTAG
*
1184291 GCAACGAAAACACATTGTCCTTATTAGGATACACGATATTAATGATTTGATTTCATAAGAAAAGC
715 GCAACGAAAACACATTGTCCTTATTAGCATACACGATATTAATGATTTGATTTCATAAGAAAAGC
* * * *
1184356 TTTTTTCTCCTCCGTTTTCCTTAGAATAAAAGTTTATACCTTAACTA-AGACAAACATGGATTTA
780 TTTTTTCTCCACCATTTTCCTTAGAATAAAAGTTTACACCTTAA-TAGAGAAAAACATGGATTTA
** * *
1184420 TGCAATAATCTCTATTCTTTCAATGAT-TGGGCACCATAAGCACATTATCTTCATCGGGATGCAT
844 CACAATAATCTCCATTCTTTCAATGATCT-GGCACCATAAACACA-TATCTTCATCGGGATGCAT
1184484 AATATTGACGCATTGGTTATGC
907 AATATTGACGCATTGGTTATGC
* * * * **
1184506 AAGAAAAGCTTTCCTTGCCACGATTTTCCTTAT-ATTTCGAGTTCGTATATTACATGAAACAAAC
1 AAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTT-GAGTTCATATATCAAACAAAACAAAC
* * * **
1184570 ATAGATTCTTATAATAATCTTCATTCTATTCATTATTAGGCAACTAGTACACATTCTCCGT-GTT
65 ATAGATTCTTATAATAATATTCATTCTATTCATGATTAGGCAACCAAAACACATTCTCCGTAG-T
* * * *
1184634 TGGGATACACAATATTAATGCTTTGA-TTCATAAGAAAAGTTTTTTTCTCCAC-CGTTTTCCTTG
129 TGGGATACACAATATTAATGCCTTGATTTCATAAGAAAAGTATTTTTCTCC-CTCATTTTCCTTA
* * * ** *
1184697 GAATCAAAGTTTATACCTTAAATGAGACAAACGTGGATTTATGTGATAATCTCCATTCTTTCAAA
193 GAATCAAAGTTTATACCTTAAATGAGACAAACATGGATCTACGCAACAATCTCCATTCTTTCAAA
* *
1184762 GAATGGGCACCACAAATACGTTATC-TTCTTTGGGATGCACAATGTTGATGCATTGGTTACGCAA
258 GAATGGGCACCACAAACACGTTATCATT-TTTGGGATGCACAATATTGATGCATTGGTTACGCAA
*
1184826 GAAAAGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTCCATTCGTCAAATAAG-GCAAAAATA
322 GAAAAGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTCCATTCATCAAATAAGAG-AAAAA-A
* * * *
1184890 -GATTCTT-GTAATAA-CATCCATTTTTTTGTGATTTGGCAGCTAAAACACTG-TCTCTTCATTG
385 GGATTCTTAG-AATAATC-GCCATTTTTTTGTGATTAGACAGCCAAAACAC-GCTCTCTTCATTG
* *
1184951 GGATGCATGATATTGATGCTTTGACTTTCACAAGAAATGTTTTTCCTTCCACTACCTTTTTAAAA
447 GGATACATGATATTGATGCTTTGACTTTCACAAGAAATGCTTTTCCTTCCACTACC-TTTTAAAA
* * **
1185016 TCAAAGATTGTCCCTTAAAAGAGACAAAGGTGAATTCTCATAATGCTCTCCAAAAACACATTCTA
511 TCAAAGATTATCCCTTAAAAGAGACAAAGATGAATTCTCATAATAATCTCCAAAAACACATTCTA
* ** **
1185081 TTCATTGAGATACATGATATTGATGTTTTGATTATATAAGAAAGCTTTTCTTGCCATGATTTTCC
576 TTCATTGAGATACATGACATTGATGTTTTGATTATATAAGAAAGCTTTTCCCGCCACAATTTTCC
* * ** *
1185146 CTGTAATTTGAGTTCGCATTTCAAATGAAACAAATGTGGATTCTTATAATAATCTTCATTCTTTT
641 CTATAATTTGAGTTCGCATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTCTCTT
* * * * * * *
1185211 CATGATTAGGCAACTAAAACATATTGTTCTTATTAGCATATATGATATTAATGCTTTGGTTTCAT
706 CATGATTAGGCAACGAAAACACATTGTCCTTATTAGCATACACGATATTAATGATTTGATTTCAT
* * *
1185276 AAGAAAAGTTTTTTTCTCCACCATTTTCCTTAGAATCATAGTTTACACCTTAATAGAGAAAAACA
771 AAGAAAAGCTTTTTTCTCCACCATTTTCCTTAGAATAAAAGTTTACACCTTAATAGAGAAAAACA
* * *
1185341 TGGATTTACACAGTAATCTCCATTCTTTCAATGATCTGGCACCATAAACACATATCTTCTTTGGG
836 TGGATTTACACAATAATCTCCATTCTTTCAATGATCTGGCACCATAAACACATATCTTCATCGGG
**
1185406 ATGCATAATATTGACGTGTTGGTTATGC
901 ATGCATAATATTGACGCATTGGTTATGC
* * *
1185434 AA-ATAAAGTTTTTCTTGCCACCAATTTCCTTA
1 AAGA-AAAGCTTTTCTTGCCACGATTTTCCTTA
1185466 AAGCAAAGTT
Statistics
Matches: 827, Mismatches: 118, Indels: 30
0.85 0.12 0.03
Matches are distributed among these distances:
926 5 0.01
927 295 0.36
928 193 0.23
929 290 0.35
930 44 0.05
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (928 bp):
AAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGAGTTCATATATCAAACAAAACAAACA
TAGATTCTTATAATAATATTCATTCTATTCATGATTAGGCAACCAAAACACATTCTCCGTAGTTG
GGATACACAATATTAATGCCTTGATTTCATAAGAAAAGTATTTTTCTCCCTCATTTTCCTTAGAA
TCAAAGTTTATACCTTAAATGAGACAAACATGGATCTACGCAACAATCTCCATTCTTTCAAAGAA
TGGGCACCACAAACACGTTATCATTTTTGGGATGCACAATATTGATGCATTGGTTACGCAAGAAA
AGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTCCATTCATCAAATAAGAGAAAAAAGGATTC
TTAGAATAATCGCCATTTTTTTGTGATTAGACAGCCAAAACACGCTCTCTTCATTGGGATACATG
ATATTGATGCTTTGACTTTCACAAGAAATGCTTTTCCTTCCACTACCTTTTAAAATCAAAGATTA
TCCCTTAAAAGAGACAAAGATGAATTCTCATAATAATCTCCAAAAACACATTCTATTCATTGAGA
TACATGACATTGATGTTTTGATTATATAAGAAAGCTTTTCCCGCCACAATTTTCCCTATAATTTG
AGTTCGCATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTCTCTTCATGATTAGG
CAACGAAAACACATTGTCCTTATTAGCATACACGATATTAATGATTTGATTTCATAAGAAAAGCT
TTTTTCTCCACCATTTTCCTTAGAATAAAAGTTTACACCTTAATAGAGAAAAACATGGATTTACA
CAATAATCTCCATTCTTTCAATGATCTGGCACCATAAACACATATCTTCATCGGGATGCATAATA
TTGACGCATTGGTTATGC
Found at i:1185680 original size:610 final size:612
Alignment explanation
Indices: 1184506--1185754 Score: 1630
Period size: 610 Copynumber: 2.0 Consensus size: 612
1184496 TTGGTTATGC
* * * *
1184506 AAGAAAAGCTTTCCTTGCCACGATTTTCCTTATATTTCGAGTTCGTATATTACATGAAACAAACA
1 AAGAAAAGCTTTTCTTGCCATGATTTTCCTTATATTTCGAGTTCGCATATTAAATGAAACAAACA
* ** *
1184571 TAGATTCTTATAATAATCTTCATTCTATTCATTATTAGGCAACTAGTACACATTCTCCGTGTTTG
66 TAGATTCTTATAATAATCTTCATTCTATTCATGATTAGGCAACTAAAACACATTCTCCGTGTTTA
* * *
1184636 GGATACACAATATTAATGCTTTGATTCATAAGAAAAGTTTTTTTCTCCACCGTTTTCCTTGGAAT
131 GCATACACAATATTAATGCTTTGATTCATAAGAAAAGTTTTTTTCTCCACCATTTTCCTTAGAAT
* * * ***
1184701 CAAAGTTTATACCTTAAATGAGACAAACGTGGATTTATGTGATAATCTCCATTCTTTCAAAGAAT
196 CAAAGTTTACACCTTAAATGAGAAAAACATGGATTTAACAGATAATCTCCATTCTTTCAAAGAAT
* * * *
1184766 GGGCACCACAAATACGTTATCTTCTTTGGGATGCACAATGTTGATGCATTGGTTACGCAAGAAAA
261 GGGCACCACAAACACGATATCTTCTTTGGGATGCACAATATTGACGCATTGGTTACGCAAGAAAA
**
1184831 GTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTCCATTCGTCAAATAAGGCAAAAATAGATTCT
326 GTTTTTCTTGCCACCAATTTCCTTAAAGCAAAGTCCATTCGTCAAATAAGGCAAAAATAGATTCT
* * * ** *
1184896 TGTAATAACATCCATTTTTTTGTGATTTGGCAGCTAAAACACTGTCTCTTCATTGGGATGCATGA
391 TGTAATAACATCCATTATTTTGTGATTAGGCAGCCAAAACACACTCCCTTCATTGGGATGCATGA
*
1184961 TATTGATGCTTTGACTTTCACAAGAAATGTTTTTCCTTCCACTACCTTTTTAAAATCAAAGATTG
456 TATTGATGCTTTGACTTTCACAAGAAATGTCTTTCCTTCCACTACCTTTTTAAAATCAAAGATTG
* * * **
1185026 TCCCTTAAAAGAGACAAAGGTGAATTCTCATAATGCTCTCCAAAAACACATTCTATTCATTGAGA
521 TCCCTTAAAAGACACAAAGATGAATTCTCACAATAATCTCCAAAAACACATTCTATTCATTGAGA
* *
1185091 TACATGATATTGATGTTTTGATTATAT
586 TACATGAGAGTGATGTTTTGATTATAT
1185118 AAG-AAAGCTTTTCTTGCCATGATTTTCCCTGTA-ATTT-GAGTTCGCAT-TTCAAATGAAACAA
1 AAGAAAAGCTTTTCTTGCCATGATTTT-CCT-TATATTTCGAGTTCGCATATT-AAATGAAACAA
** * * * * *
1185179 ATGTGGATTCTTATAATAATCTTCATTCTTTTCATGATTAGGCAACTAAAACATATTGTTC-T-T
63 ACATAGATTCTTATAATAATCTTCATTCTATTCATGATTAGGCAACTAAAACACATTCTCCGTGT
* ** *
1185242 ATTAGCATATATGATATTAATGCTTTGGTTTCATAAGAAAAGTTTTTTTCTCCACCATTTTCCTT
128 -TTAGCATACACAATATTAATGCTTT-GATTCATAAGAAAAGTTTTTTTCTCCACCATTTTCCTT
*
1185307 AGAATCATAGTTTACACCTT-AATAGAGAAAAACATGGATTTACACAG-TAATCTCCATTCTTTC
191 AGAATCAAAGTTTACACCTTAAAT-GAGAAAAACATGGATTTA-ACAGATAATCTCCATTCTTTC
* * * * ** *
1185370 AATG-ATCTGGCACCATAAACAC-ATATCTTCTTTGGGATGCATAATATTGACGTGTTGGTTATG
254 AAAGAAT-GGGCACCACAAACACGATATCTTCTTTGGGATGCACAATATTGACGCATTGGTTACG
*
1185433 CAA-ATAAAGTTTTTCTTGCCACCAATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGGCAAAA
318 CAAGA-AAAGTTTTTCTTGCCACCAATTTCCTTAAAGCAAAGTCCATTCGTCAAATAAGGCAAAA
* * *
1185497 A-AGGATTCTTGTAATAGTC-TCCATTATTTTGTGATTAGGTAGCCAAAACACACTCCCTTCTTT
382 ATA-GATTCTTGTAATA-ACATCCATTATTTTGTGATTAGGCAGCCAAAACACACTCCCTTCATT
* * *
1185560 GGGATGCATGATATTGATGCTTTGATTTTTGA-AAGAAATG-CTTTCCTTTCCACTACTTTTTTA
445 GGGATGCATGATATTGATGCTTTGA-CTTTCACAAGAAATGTCTTTCC-TTCCACTACCTTTTTA
** * *
1185623 AAATCAAATTTTAG-CCCTTAAAAGACACAAAGATGGATTCTCACAATAATTTCCAAAAACACAT
508 AAATCAAAGATT-GTCCCTTAAAAGACACAAAGATGAATTCTCACAATAATCTCCAAAAACACAT
* *
1185687 TCTATTCATTGGGATGCATGAGAGTGATGTTTTGATTATAT
572 TCTATTCATTGAGATACATGAGAGTGATGTTTTGATTATAT
*
1185728 AAGAAAAGCTTTTCTCGCCATGATTTT
1 AAGAAAAGCTTTTCTTGCCATGATTTT
1185755 TCATGATTAG
Statistics
Matches: 552, Mismatches: 70, Indels: 31
0.85 0.11 0.05
Matches are distributed among these distances:
609 8 0.01
610 312 0.57
611 219 0.40
612 11 0.02
613 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (612 bp):
AAGAAAAGCTTTTCTTGCCATGATTTTCCTTATATTTCGAGTTCGCATATTAAATGAAACAAACA
TAGATTCTTATAATAATCTTCATTCTATTCATGATTAGGCAACTAAAACACATTCTCCGTGTTTA
GCATACACAATATTAATGCTTTGATTCATAAGAAAAGTTTTTTTCTCCACCATTTTCCTTAGAAT
CAAAGTTTACACCTTAAATGAGAAAAACATGGATTTAACAGATAATCTCCATTCTTTCAAAGAAT
GGGCACCACAAACACGATATCTTCTTTGGGATGCACAATATTGACGCATTGGTTACGCAAGAAAA
GTTTTTCTTGCCACCAATTTCCTTAAAGCAAAGTCCATTCGTCAAATAAGGCAAAAATAGATTCT
TGTAATAACATCCATTATTTTGTGATTAGGCAGCCAAAACACACTCCCTTCATTGGGATGCATGA
TATTGATGCTTTGACTTTCACAAGAAATGTCTTTCCTTCCACTACCTTTTTAAAATCAAAGATTG
TCCCTTAAAAGACACAAAGATGAATTCTCACAATAATCTCCAAAAACACATTCTATTCATTGAGA
TACATGAGAGTGATGTTTTGATTATAT
Found at i:1186240 original size:545 final size:545
Alignment explanation
Indices: 1185255--1186299 Score: 1390
Period size: 545 Copynumber: 1.9 Consensus size: 545
1185245 AGCATATATG
* * ** *
1185255 ATATTAATGCTTTGGTTTCATAAGAAAAGTTTTTTTCTCCACCATTTTCCTTAGAATCATAGTTT
1 ATATTAATGCTTTGCTTTCATAAAAAAAGCATTTTTCTCCACCATTTTCCTTAGAATCAAAGTTT
* * *
1185320 ACACCTTAATAGAGAAAAACATGGATTTACACAGTAATCTCCATTCTTTCAATGATCTGGCACCA
66 ACACCTTAATAGAGAAAAACATAGATTTACACAATAATCTCCATTCTTTAAATGATCTGGCACCA
* **
1185385 TAAACACATATCTTCTTTGGGATGCATAATATTGACGTGTTGGTTATGCAAATAAAGTTTTTCTT
131 TAAACACATATCTTCTTTGGGATGCACAATATTGACGCATTGGTTATGCAAATAAAGTTTTTCTT
* * * * * * * **
1185450 GCCACCAATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGGCAAAAAAGGATTCTTGTAATAGT
196 GCAACCAACTTCCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAGGAATCATGCAATAAA
* * * * *
1185515 CTCCATTATTTTGTGATTAGGTAGCCAAAACACACTCCCTTCTTTGGGATGCATGATATTGATGC
261 CTCCATTATTTAGTGATTAGGAAGCCAAAACACACTCCCTTCGTTAGGATGCATGATATTGATGA
* * * *
1185580 TTTGATTTTTGAAAGAAATGCTTTCCTTTCCACTACTTTTTTAAAATCAAATTTTAGCCCTTAAA
326 TTTGAATTTTCAAAGAAATGCTTTCCTTTCCACTACTCTTTTAAAATCAAATTTTACCCCTTAAA
* * *
1185645 AGACACAAAGATGGATTCTCACAATAATTTCCAAAAACACATTCTATTCATTGGGATGCATGAGA
391 AGACACAAAGATGAATTCTCACAATAATCTCCAAAAACACATTCTATTCATTGGGATACATGAGA
*
1185710 GTGATGTTTTGATTATATAAGAAAAGCTTTTCTCGCCATGATTTTTCATGATTAGGGAACCAAAA
456 GTGATGTTTTGATTATATAAGAAAAGCTTTTCTCGCCACGATTTTTCATGATTAGGGAACCAAAA
1185775 CACATTCTCCTTATCGAGATACACA
521 CACATTCTCCTTATCGAGATACACA
* * *
1185800 ATATTAATGCTTTGCTTTCATAAAAAAAGCATTTTTCTCCATCGTTTTCCTTAGAATGAAAGTTT
1 ATATTAATGCTTTGCTTTCATAAAAAAAGCATTTTTCTCCACCATTTTCCTTAGAATCAAAGTTT
* * * *
1185865 ATACCTTAA-ATGAGACAAACATAGATTTACGCAATATTCTCCATTCTTTAAATGAT-TAGGCAC
66 ACACCTTAATA-GAGAAAAACATAGATTTACACAATAATCTCCATTCTTTAAATGATCT-GGCAC
* * * *
1185928 CATAAACGCATTATCTTTTTTGGGATGCCCAATATTGATGCATTGGTTATGCAAGA-AAAG-TTT
129 CATAAACACA-TATCTTCTTTGGGATGCACAATATTGACGCATTGGTTATGCAA-ATAAAGTTTT
** *
1185991 TCTTGCAACTTACTTCCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAATGGAATCATGCAA
192 TCTTGCAACCAACTTCCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAGGAATCATGCAA
** *
1186056 TAAACTCCATT-TTTAGTGATTAGGAAGCCCGAACA-ATGCTTCCTTCGTTAGGATGCATGATAT
257 TAAACTCCATTATTTAGTGATTAGGAAGCCAAAACACA--CTCCCTTCGTTAGGATGCATGATAT
* *
1186119 TGATGATTT-AATTTTCACAAGGAATGCTTTTCTTTCCACTAC-CTTTTAAAATCAAAGTTTGT-
320 TGATGATTTGAATTTTCA-AAGAAATGCTTTCCTTTCCACTACTCTTTTAAAATCAAA-TTT-TA
* * * * *
1186181 CCCCTTAAAAGAGACAAA-ATTGAATTCTCATAATAATCTCCAAAAACATATTTTATTCATTTGG
382 CCCCTTAAAAGACACAAAGA-TGAATTCTCACAATAATCTCCAAAAACACATTCTATTCATTGGG
* * *
1186245 ATACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTT
446 ATACATGAGAGTGATGTTTTGATTATATAAGAAAAGCTTTTCTCGCCACGATTTT
1186300 CTTTATAATT
Statistics
Matches: 430, Mismatches: 60, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
543 1 0.00
544 42 0.10
545 344 0.80
546 42 0.10
547 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (545 bp):
ATATTAATGCTTTGCTTTCATAAAAAAAGCATTTTTCTCCACCATTTTCCTTAGAATCAAAGTTT
ACACCTTAATAGAGAAAAACATAGATTTACACAATAATCTCCATTCTTTAAATGATCTGGCACCA
TAAACACATATCTTCTTTGGGATGCACAATATTGACGCATTGGTTATGCAAATAAAGTTTTTCTT
GCAACCAACTTCCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAGGAATCATGCAATAAA
CTCCATTATTTAGTGATTAGGAAGCCAAAACACACTCCCTTCGTTAGGATGCATGATATTGATGA
TTTGAATTTTCAAAGAAATGCTTTCCTTTCCACTACTCTTTTAAAATCAAATTTTACCCCTTAAA
AGACACAAAGATGAATTCTCACAATAATCTCCAAAAACACATTCTATTCATTGGGATACATGAGA
GTGATGTTTTGATTATATAAGAAAAGCTTTTCTCGCCACGATTTTTCATGATTAGGGAACCAAAA
CACATTCTCCTTATCGAGATACACA
Found at i:1188479 original size:612 final size:611
Alignment explanation
Indices: 1185752--1189154 Score: 4055
Period size: 611 Copynumber: 5.5 Consensus size: 611
1185742 TCGCCATGAT
* * * * *
1185752 TTTTCATGATTAGGGAACCAAAACACATTCTCCTTATCGAGATACACAATATTAATGCTTTGCTT
1 TTTTCATGATTAGGCAACCAAAACACATTCTCTTTATTGGGATACACAATATTAATGCTTTGATT
* * * * *
1185817 TCATAAAAAAAGCATTTTTCTCCATCGTTTTCCTTAGAATGAAAGTTTATACCTTAAATGAGACA
66 TCATAAGAAAAGCATTTTTCTCCACCATTTTCCTTAGAATCAAAGTTTATACCTTAAATAAGACA
* * * * * * * * *
1185882 AACATAGATTTACGCAATATTCTCCATTCTTTAAATGATTAGGCACCATAAACGCATTATCTTTT
131 AACATGGATTTACGAAATAATCTCCGTTCTTTCAATGATTGGGCACCATAAACACGTTATCTTTA
* * *
1185947 TTGGGATGCCCAATATTGATGCATTGGTTATGCAAGAAAAG-TTTTCTTGCAACTTACTTCCTTA
196 TTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCACTTATTTCCTTA
* * * * * * *
1186011 AAGCAAAGTTCATTCATCAAATAAGACAAAAATGGAATCATGCAATAAACTCCATT-TTTAGTGA
261 AAGCAAAGTTCATTCATCAAATAAAACAAAAAAGGATTCTTGTAATAATCTCCATTATTTTGTGA
* ** * * * * * * * *
1186075 TTAGGAAGCCCGAACAATGCTTCCTTCGTTAGGATGCATGATATTGATGATTTAATTTTCACAAG
326 TTAGGTAGCCAAAAC-ACGCTCCCTTCATTGGGATGCATGATATTAATGCTTTGATTTTCGCAAG
* *
1186140 GAATGCTTTTCTTTCCACTACC-TTTTAAAATCAAAGTTTGTCCCCTTAAAAGAGACAAA-ATTG
390 AAATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTG--CCCTTAAAAGAGACAAAGA-AG
* * * *
1186203 AATTCTCATAATAATCTCCAAAAACATATTTTATTCATTTGGATACATGATATTGATGTTTTGAT
452 AATTCTCATAATGATCTCCAAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGAT
* *
1186268 TATATAAGAAAAGCTTTTCTTGCCACGATTTTCTTTATAATTTGAATTCAGTATGTCAAATGAAA
517 TATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGAGTTC-GTATGTCAAATG-AA
* * * *
1186333 ACAAACACGAATTCTTAAAATAATCTTCACTC
580 ACAAACATGGATTCTTATAATAATCTTCATTC
* *
1186365 TTTTCATGATTAGGCAACAAAAACACATTCTCTTTATTGGGATACGA-GATATTAATGCTTTGAT
1 TTTTCATGATTAGGCAACCAAAACACATTCTCTTTATTGGGATAC-ACAATATTAATGCTTTGAT
* * * * * **
1186429 TTCATAAAAAAAGCATTTTTCCCCACCATTTCCCTTACAATCAATGTTTATACCTTAAATTTCG-
65 TTCATAAGAAAAGCATTTTTCTCCACCATTTTCCTTAGAATCAAAGTTTATACCTTAAA-TAAGA
* * * * *
1186493 CAAACATGGATTTACGAAATAATCTTCGTTCTTTTAATGATTGGGCACCATAAATACATTATCTA
129 CAAACATGGATTTACGAAATAATCTCCGTTCTTTCAATGATTGGGCACCATAAACACGTTATCTT
* * ** *
1186558 CATTGGGATACTTAATATTGACGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCACTTATTTCCT
194 TATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCACTTATTTCCT
* * * *
1186623 TAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAGGATTCTTGTAATAATTTCTATTATATTGT
259 TAAAGCAAAGTTCATTCATCAAATAAAACAAAAAAGGATTCTTGTAATAATCTCCATTATTTTGT
* * * * **
1186688 TATTAGGTAGCTAAAACACACTCCTTTCTTGTAATAATCTTCATTGGGATGCAAGATATTGTTGC
324 GATTAGGTAGCCAAAACACGCT-C---C----------CTTCATTGGGATGCATGATATTAATGC
* * * * **
1186753 TTTGGTTTTTGCAAGAAATACTTTTCTTTGCACTATATTTTTAAAATCAAAGTTTGCCCTTAAAA
375 TTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTGCCCTTAAAA
* * * ** * * * *
1186818 TAGACAAAGATGGATTCTCATAACAATTTTCAATAACACATTCTATTCATTGGGATACATGATAA
440 GAGACAAAGAAGAATTCTCATAATGATCTCCAAAAACACATTCTATTCATTGGGATACATGATAT
* * *
1186883 TGATGTTTTGATTTTATAAGAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTGAGTTTGTAT
505 TGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGAGTTCGTAT
* *
1186948 GTCAAATGAAACAAACATGGATTCTTTTAATAATCTTAATTC
570 GTCAAATGAAACAAACATGGATTCTTATAATAATCTTCATTC
* ** *
1186990 TTTTCATTATTAGGCAACCAAAACACATTCTCTTTATTGGGATACATGATATTATTGCTTTGATT
1 TTTTCATGATTAGGCAACCAAAACACATTCTCTTTATTGGGATACACAATATTAATGCTTTGATT
* * * *
1187055 TCATAAGAAAAG-TTTTTTTTCGACCATTTTCCTTAGAATCAAAGTTTATACCTTAACTAAGACA
66 TCATAAGAAAAGCATTTTTCTCCACCATTTTCCTTAGAATCAAAGTTTATACCTTAAATAAGACA
* ** **
1187119 AACAAGGATTTAAAAAATAATCTTTGTTCTTTCAATGATTGGGCACCATAAACACGTTATC-TTA
131 AACATGGATTTACGAAATAATCTCCGTTCTTTCAATGATTGGGCACCATAAACACGTTATCTTTA
* * * * *
1187183 TTTAGGATGCACAATATTGACGCATTGGTTATGCAAGTAAAGTCTTTGTTGCCACTTATTTCCTT
196 -TTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCACTTATTTCCTT
* ** * *
1187248 AATGCAAAGTTCATTTTTCAAATAAAACAAAAAAGGATTCTTGTAATAATCTCCACTACTTTGTG
260 AAAGCAAAGTTCATTCATCAAATAAAACAAAAAAGGATTCTTGTAATAATCTCCATTATTTTGTG
* * * * * *
1187313 ATAAGGTAGCCACATCACGCTCTCTTCATTGGGATGCATGATATTGATGCTTTGATTTTTGCAAG
325 ATTAGGTAGCCAAAACACGCTCCCTTCATTGGGATGCATGATATTAATGCTTTGATTTTCGCAAG
** * *
1187378 AAATGCTTTTCGATCCACTACCTTTTTAAAATCAAAGTTTGTCCTTCAAAAGGGACAAAGAAGAA
390 AAATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTGCCCTT-AAAAGAGACAAAGAAGAA
* * * *
1187443 TTC-CTTTAATGATCTCCAAAATCATATTCTATTCATTGGGATACATGATATTGATGCTTTGATT
454 TTCTC-ATAATGATCTCCAAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATT
* * ** *
1187507 ACATAAGAAAAGCTTTTCCTGCCTTGATTTTCCTTAAAATTTGAGTTCGTATGTCAAATGAAACA
518 ATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAACA
*
1187572 AACATGGATTC-TATTAATAATCTTAATTC
583 AACATGGATTCTTA-TAATAATCTTCATTC
* * ** *
1187601 TTTTCATGATTAGGCAACCAAAACACATTCTCATTATTGGGATATAGGATATTAACGCTTTGATT
1 TTTTCATGATTAGGCAACCAAAACACATTCTCTTTATTGGGATACACAATATTAATGCTTTGATT
* * * * * *
1187666 TCATAGGAAAAG-TTTTTTTTCGACCATTTTCCTTAGAATCAAAGTTTATACCTTAACTTAGACA
66 TCATAAGAAAAGCATTTTTCTCCACCATTTTCCTTAGAATCAAAGTTTATACCTTAAATAAGACA
* * * * * *
1187730 AATATGGATTCACAAAATAATCTCTGTTATTTCAAAGATTGGGCACCATAAACACGTTATC-TTA
131 AACATGGATTTACGAAATAATCTCCGTTCTTTCAATGATTGGGCACCATAAACACGTTATCTTTA
* * * * * *
1187794 TTTGGGATGCACAATATTAATGCATTGGTTACGTAAGTAAAGTCTTTGTTGCCACTTATTTCCTT
196 -TTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCACTTATTTCCTT
* * *
1187859 AAAGCAAAGTGCGTTCGTCAAATAAAACAAAAAAGGATTCTTGTAATAATCTCCATTATTTTGTG
260 AAAGCAAAGTTCATTCATCAAATAAAACAAAAAAGGATTCTTGTAATAATCTCCATTATTTTGTG
* ** *
1187924 ATTAGGTAGCCAAAACACGCTCCCTTCGTTGGGATGCAAAAATAGTAATGCTTTGATTTTCGCAA
325 ATTAGGTAGCCAAAACACGCTCCCTTCATTGGGATGC-ATGATATTAATGCTTTGATTTTCGCAA
* * ** *
1187989 GAAATGCTTTTCTTTCTACTACTTTTTTAAAATCAAAGTTTGCCCCTTAAAAGAGATGAAGAGGA
389 GAAATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTG-CCCTTAAAAGAGACAAAGAAGA
*
1188054 ATTCTCATAATGATCTCCAAAAACACATTCTATTCATTGGGATACATGATATTGAT-ATTTGATT
453 ATTCTCATAATGATCTCCAAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATT
* * *
1188118 ATATAAGAAAAGCTTTTCTTGCCATGATTTTCCCTGTAATTTGAGTTCGTATGTCAAATGAAACA
518 ATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAACA
**
1188183 AATGTGGATTCTTATAATAATCTTCATTC
583 AACATGGATTCTTATAATAATCTTCATTC
* * * *
1188212 TTTTCATGATTAGGCAACTAAAACACATTGT-TCTTATCGGGTTACACAATATTAATGCTTTGAT
1 TTTTCATGATTAGGCAACCAAAACACATTCTCT-TTATTGGGATACACAATATTAATGCTTTGAT
* * * * *
1188276 TTGATAAGAAAAGCATTTTTCTCTATCGTTTTCCTTAGAATCAAAGTTTATACCTTAAATAAGAT
65 TTCATAAGAAAAGCATTTTTCTCCACCATTTTCCTTAGAATCAAAGTTTATACCTTAAATAAGAC
* * * * *
1188341 AAACATGGATTTATGCAATAATCACCATTCTTTCAATGATTGGGCACCATACACACGTTATCTTT
130 AAACATGGATTTACGAAATAATCTCCGTTCTTTCAATGATTGGGCACCATAAACACGTTATCTTT
* * *
1188406 ATTAGGATGCATAATATTGATGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCACTTATTTCTTT
195 ATTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCACTTATTTCCTT
* **
1188471 AAAGCAAAGTTCATTCATCAAATAAGAA-AAAAAAGGATTCTTGTAACAATCTCCACGATTTTGT
260 AAAGCAAAGTTCATTCATCAAATAA-AACAAAAAAGGATTCTTGTAATAATCTCCATTATTTTGT
* * * * *
1188535 GATTTGGTAGCCAAAACATGCTCCCTTCATAT-TGATGCGTGATATTAATGCTTTGATTTTCGAA
324 GATTAGGTAGCCAAAACACGCTCCCTTCAT-TGGGATGCATGATATTAATGCTTTGATTTTCGCA
* * * * * *
1188599 AGAAAAGCTTTT-TGATCCTCTACCTTTTTCAAATCAAAGTTTGTCCTTTAAAAAAGACAAAGAA
388 AGAAATGCTTTTCT-TTCCACTACCTTTTTAAAATCAAAGTTTG-CCCTTAAAAGAGACAAAGAA
* * * *
1188663 GAATTC-C-TATATGGATCACCAAAAACACATTCCATTTATTGGGATACACGATATTGATGTTTT
451 GAATTCTCATA-AT-GATCTCCAAAAACACATTCTATTCATTGGGATACATGATATTGATG-TTT
* *
1188726 TG-TTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTAATAATTTGAGTTCATATGTCAAATG
513 TGATTATATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGAGTTCGTATGTCAAATG
* *
1188790 AAACAAACATGGGTTCTTATAGTAATCTTCATTC
578 AAACAAACATGGATTCTTATAATAATCTTCATTC
* *
1188824 TTTTCATGATTAGGCAACCAAAACACATTCTCTTTATTTGGGATACATGAA-ATTGATGCTTTGA
1 TTTTCATGATTAGGCAACCAAAACACATTCTCTTTA-TTGGGATACA-CAATATTAATGCTTTGA
* *
1188888 TTTCATAAGAAAAGTATTTTTCTCC-CTCATTTTCCTTAGAATCAAAGTTTATACCTTAAAAAAG
64 TTTCATAAGAAAAGCATTTTTCTCCAC-CATTTTCCTTAGAATCAAAGTTTATACCTTAAATAAG
* * * * * * * * *
1188952 GCAAACATGGATTTGCGTAGTAAACTTCGTTCATTCAATAATTGTGCACCATAAACACGTTATCT
128 ACAAACATGGATTTACGAAATAATCTCCGTTCTTTCAATGATTGGGCACCATAAACACGTTATCT
* * *
1189017 TTTTTGGGATGCATAATATTG-TCGCATTGGTTATGCAAGAAAAGTTTTTTTTTGCCACTTATTT
193 TTATTGGGATGCACAATATTGAT-GCATTGGTTATGCAAGAAAAG-TTTTTCTTGCCACTTATTT
* * * **
1189081 CCTTAAAGCAAAGTTCATTCGTCAAATAAGAC-AACAAGGATTCTTGTAATAATCTCCATTAAAT
256 CCTTAAAGCAAAGTTCATTCATCAAATAAAACAAAAAAGGATTCTTGTAATAATCTCCATTATTT
1189145 TGTGATTAGG
321 TGTGATTAGG
1189155 CTACTAGGGA
Statistics
Matches: 2400, Mismatches: 343, Indels: 94
0.85 0.12 0.03
Matches are distributed among these distances:
609 2 0.00
610 84 0.04
611 749 0.31
612 482 0.20
613 419 0.17
614 123 0.05
615 16 0.01
618 1 0.00
623 4 0.00
624 222 0.09
625 99 0.04
626 12 0.00
627 118 0.05
628 51 0.02
629 18 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (611 bp):
TTTTCATGATTAGGCAACCAAAACACATTCTCTTTATTGGGATACACAATATTAATGCTTTGATT
TCATAAGAAAAGCATTTTTCTCCACCATTTTCCTTAGAATCAAAGTTTATACCTTAAATAAGACA
AACATGGATTTACGAAATAATCTCCGTTCTTTCAATGATTGGGCACCATAAACACGTTATCTTTA
TTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCACTTATTTCCTTA
AAGCAAAGTTCATTCATCAAATAAAACAAAAAAGGATTCTTGTAATAATCTCCATTATTTTGTGA
TTAGGTAGCCAAAACACGCTCCCTTCATTGGGATGCATGATATTAATGCTTTGATTTTCGCAAGA
AATGCTTTTCTTTCCACTACCTTTTTAAAATCAAAGTTTGCCCTTAAAAGAGACAAAGAAGAATT
CTCATAATGATCTCCAAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTATA
TAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAACAAAC
ATGGATTCTTATAATAATCTTCATTC
Found at i:1192350 original size:613 final size:610
Alignment explanation
Indices: 1191192--1193516 Score: 2671
Period size: 613 Copynumber: 3.8 Consensus size: 610
1191182 TTGTAAGCAT
* * *
1191192 GCTCTTTTCGTTGGGATGCATGATATCGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCAC
1 GCTCTCTTCATTGGGATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCAC
* * * *
1191257 TACCTTTTTAAAATCAATGTTTGT-CCATCAAAAGAGACAGAGATGGATTCTCATAATGATCTTC
66 TACCTTTTTAAAATCAAAGTTTGTCCCA-CAAAAGAGACAAAGATGAATTCTCATAATGATCTCC
* * * * *
1191321 AAAAACGCATTTTATTCATTGGGATACATGATATT-ATTGTTTTGATCATATAAGAAAAGCTTTT
130 AAAAACACATTCTATTCATTGGGATACAAGATATTGA-TGTTTTGATTATATAAGAAAAACTTTT
* * * * * * *
1191385 CTTACCATGATTTTCCTTGTAATTTAAGTTCCTATGTCAAATGAAACAAACAGGGATTCTAATAA
194 CTTGCCACGATTTTCCTTATAATTTGAGTTCATATGTCAAATGAAACAAACATGGATTCTTATAA
* * *
1191450 AAATCTTCATTCTTTTCATGGTTAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATA-T
259 TAATCTTCATTCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACAAGATATT
*
1191514 --TA-TTG-CTT--G--G---A--TTTTTCTCCATCATTTTCCTTAGAATCAAAGTTTATACCTT
324 AATATTTGATTTCAGAAGAAAAGTTTTTTCTCCATCATTTTCCTTAGAATCAAAGTTTATACCTT
* * * * * *
1191566 AAATAAGTCAAACATGGATTTACGCAATAATCTTCGTCCA-TTCAATGATTGGGCACCATAAACA
389 AACTGAGACAAACATGGATTTACGCAATAATCTCCAT-TATTTCAATGATTGGGCACCATAAACA
* * ** * **
1191630 TGTTATCTTCTTTGGGATGCACAATATTGACGTGTTGATTATGCAAGAAAAGTTTTTCTCACCAC
453 CGTTATCTTCTTCGGGATGCACAATATTGACGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCAC
* *
1191695 TTATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGATAAAAAAGGATTCTTATAATAATCTCTA
518 TTACTTCCTTAAAGCAAAGTTCATTAGTCAAATAAGATAAAAAAGGATTCTTATAATAATCTCTA
1191760 TTATATTGTGATTAGGCAGCCAAAACAC
583 TTATATTGTGATTAGGCAGCCAAAACAC
* *
1191788 GCTCTCTTCATTGGGATGCATAATATTGATGCTTTGATTTTTGCAAGAAATGCTTTTCTTTCC-C
1 GCTCTCTTCATTGGGATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCAC
* * *
1191852 TTACCTTTTTAATATCAAAGTTTGTCCCACAGAAGGGACAAAGATGAATTCTCATAATGATCTCC
66 -TACCTTTTTAAAATCAAAGTTTGTCCCACAAAAGAGACAAAGATGAATTCTCATAATGATCTCC
* *
1191917 AAAAACACGTTCTATTCATTGGGATACAAGATATTGATGTTTTGATTATTTAAGAAAAACTTTTC
130 AAAAACACATTCTATTCATTGGGATACAAGATATTGATGTTTTGATTATATAAGAAAAACTTTTC
* * * * * *
1191982 TTGCCACGGTTTTCCTTATAAATTTGAGTTCATATGTCGAAGGAGACAAACCTGAATTCTTATAA
195 TTGCCACGATTTTCCTTAT-AATTTGAGTTCATATGTCAAATGAAACAAACATGGATTCTTATAA
* *
1192047 TAATCTTCATTCTGTTCATGATTAGGCAACCAAAACACATTCTCCTTATTAGGATACAAGATATT
259 TAATCTTCATTCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACAAGATATT
* * * * * *
1192112 AATGATTTGATTTCAGAAGTAAAGTTTTTTTCTCCACCATTTTCCATGGAATCAATGTTTATACG
324 AAT-ATTTGATTTCAGAAGAAAAG-TTTTTTCTCCATCATTTTCCTTAGAATCAAAGTTTATACC
* **
1192177 TTAACTGAGACAAACATGGGTTTACATAATAATCTCCATTATTTCAATGATTGGGCACCATAAAC
387 TTAACTGAGACAAACATGGATTTACGCAATAATCTCCATTATTTCAATGATTGGGCACCATAAAC
*
1192242 ACGTTATCTTCTTCGGGATGCACAATATTGACGCATTGGTTATGCAAGAAAAGGTTTTCTTGCCA
452 ACGTTATCTTCTTCGGGATGCACAATATTGACGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCA
* * * * *
1192307 CTTACTTGCTTAAAGCAATGTTCATTTGTCAAATATGATAAAAAAGGATTCTTACAATAATCTCT
517 CTTACTTCCTTAAAGCAAAGTTCATTAGTCAAATAAGATAAAAAAGGATTCTTATAATAATCTCT
* * *
1192372 ATTATACTATGATTAGGTAGCCAAAACAC
582 ATTATATTGTGATTAGGCAGCCAAAACAC
* * * ** *
1192401 GCTCTCTTCATTGGGATGCATGATTTTGAAGCTTTAATTTAGGCAAGAAATGCTTTTTTTTTTCC
1 GCTCTCTTCATTGGGATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGC--TTTTCTTTCC
* * * * ** * * *
1192466 ACTACCTTTCTAAAATCAAAGTCTATTCCTTAAAAGAGACAAAGATGAACTCTAATAAAGATCTC
64 ACTACCTTTTTAAAATCAAAGTTTGTCCCACAAAAGAGACAAAGATGAATTCTCATAATGATCTC
* *
1192531 CAAAAACACATTCTATTCATTGGGATACAATATATTGATGTTTTGATTATATAGGAAAAACTTTT
129 CAAAAACACATTCTATTCATTGGGATACAAGATATTGATGTTTTGATTATATAAGAAAAACTTTT
* * * * * * * *
1192596 CTTGCCGCGTTTTTTCATATAATTTGAGTTTACATGTCAAATG-AACAAACAAGGATTCTTATAT
194 CTTGCCACGATTTTCCTTATAATTTGAGTTCATATGTCAAATGAAACAAACATGGATTCTTATAA
* * * *
1192660 TAATCTTCA-TCATTTCCATGATTAGGCAACCAAAACACATTCTCATTATTGGGATACATGACAT
259 TAATCTTCATTC-TTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACAAGATAT
** *
1192724 TAATAGTTTGATTTCATTAGAAAAGCATTTTTTCTCCATCGTTTTCCTTAGAATCAAAG----T-
323 TAATA-TTTGATTTCAGAAGAAAAG--TTTTTTCTCCATCATTTTCCTTAGAATCAAAGTTTATA
* * * *
1192784 --TT-A-TGAGATAAACATGGATTTACGCAACAATTTCCATTCTTTCAATGATTGGGCACCATAA
385 CCTTAACTGAGACAAACATGGATTTACGCAATAATCTCCATTATTTCAATGATTGGGCACCATAA
* * * * * *
1192845 ACACATTATCTTCTTCGAGATGCAGAATATTGATGCACTGGTTATGCAAGAAAAGCTTTTCTTGC
450 ACACGTTATCTTCTTCGGGATGCACAATATTGACGCATTGGTTATGCAAGAAAAGTTTTTCTTGC
* * * * * * *
1192910 CACTTAGTTCCTTAAATCAAAGTTCATCAATCAAATAAAACAAAAATGGATTCTTATAATAATCT
515 CACTTACTTCCTTAAAGCAAAGTTCATTAGTCAAATAAGATAAAAAAGGATTCTTATAATAATCT
* * * * *
1192975 CCATTTTTTTGGTGACTAGGCAGCCAAAACAT
580 CTATTATATT-GTGATTAGGCAGCCAAAACAC
* * * * * * * *
1193007 GTTCTTTTCGTTGGGATGCATGATATTGTTGCTTCGATTTTCACAAAAAAAGCTTTTCTTTCCAC
1 GCTCTCTTCATTGGGATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCAC
* * ** * * * * *
1193072 TACCATTTTAAAATCGAAGTTTGTCCCTTAAAAGAGACAAAGATTG-AGTCTTATAGTGATTTTC
66 TACCTTTTTAAAATCAAAGTTTGTCCCACAAAAGAGACAAAGA-TGAATTCTCATAATGATCTCC
* * ** * *
1193136 AAAAACACATTCTATTCATTGGGATACATGATCTTGATGGCTTGATTATATAAGAAAAGCTTCTC
130 AAAAACACATTCTATTCATTGGGATACAAGATATTGATGTTTTGATTATATAAGAAAAACTTTTC
* * * * *
1193201 TTGCCATGATATTCCTTATAATTTGAGTTCGTATGTCAACTGAAACAAACATGGATTCTTATATT
195 TTGCCACGATTTTCCTTATAATTTGAGTTCATATGTCAAATGAAACAAACATGGATTCTTATAAT
* * * * *
1193266 AATCTTTATTCTTTTCCTGATTAGGCAACCAAAACATATTTTCCTTATTTGGATACACA-ATATT
260 AATCTTCATTCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACA-AGATATT
* * * * * *
1193330 AATTGTTTGATTTCATAGGAAAAGCTTTTTTCTCCATCGTTTTCCTTAGAATTAAAGTCTATACC
324 AA-TATTTGATTTCAGAAGAAAAG-TTTTTTCTCCATCATTTTCCTTAGAATCAAAGTTTATACC
* * * * * * ** * *
1193395 TTAACTGAAAGAAAGATGGATTTTCTCAA-ATTCTGAAATCTTTCAATGATTGGGCACCATAAAC
387 TTAACTGAGACAAACATGGATTTACGCAATAATCTCCATTATTTCAATGATTGGGCACCATAAAC
* * *
1193459 ACGTTATCTTCTTTGGGATGTACAATATTGATGCATTGGTTATGCAAGAAAAGTTTTT
452 ACGTTATCTTCTTCGGGATGCACAATATTGACGCATTGGTTATGCAAGAAAAGTTTTT
1193517 TTTTCATAAT
Statistics
Matches: 1458, Mismatches: 229, Indels: 68
0.83 0.13 0.04
Matches are distributed among these distances:
595 1 0.00
596 182 0.12
597 98 0.07
598 1 0.00
600 1 0.00
601 1 0.00
602 3 0.00
603 2 0.00
604 180 0.12
605 263 0.18
606 61 0.04
607 3 0.00
608 1 0.00
610 2 0.00
611 2 0.00
612 86 0.06
613 387 0.27
614 46 0.03
615 137 0.09
616 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (610 bp):
GCTCTCTTCATTGGGATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCAC
TACCTTTTTAAAATCAAAGTTTGTCCCACAAAAGAGACAAAGATGAATTCTCATAATGATCTCCA
AAAACACATTCTATTCATTGGGATACAAGATATTGATGTTTTGATTATATAAGAAAAACTTTTCT
TGCCACGATTTTCCTTATAATTTGAGTTCATATGTCAAATGAAACAAACATGGATTCTTATAATA
ATCTTCATTCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACAAGATATTAA
TATTTGATTTCAGAAGAAAAGTTTTTTCTCCATCATTTTCCTTAGAATCAAAGTTTATACCTTAA
CTGAGACAAACATGGATTTACGCAATAATCTCCATTATTTCAATGATTGGGCACCATAAACACGT
TATCTTCTTCGGGATGCACAATATTGACGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCACTTA
CTTCCTTAAAGCAAAGTTCATTAGTCAAATAAGATAAAAAAGGATTCTTATAATAATCTCTATTA
TATTGTGATTAGGCAGCCAAAACAC
Found at i:1198249 original size:21 final size:19
Alignment explanation
Indices: 1198225--1198277 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
1198215 AATAATTTGA
1198225 ATCGATACAAATAGTAAATGT
1 ATCGATACAAA-AGT-AATGT
* **
1198246 ATCGATACATAAGTTTTGT
1 ATCGATACAAAAGTAATGT
1198265 ATCGATACAAAAG
1 ATCGATACAAAAG
1198278 CTACCCTGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.54
20 3 0.11
21 10 0.36
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (19 bp):
ATCGATACAAAAGTAATGT
Found at i:1199978 original size:21 final size:21
Alignment explanation
Indices: 1199941--1199980 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1199931 CTAGCAGACG
*
1199941 ATTTTTCCAAATTATTTCAAC
1 ATTTTTCCAAATAATTTCAAC
1199962 ATTTTTCCTAAA-AATTTCA
1 ATTTTTCC-AAATAATTTCA
1199981 TGAAATTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTTTCCAAATAATTTCAAC
Found at i:1203304 original size:612 final size:611
Alignment explanation
Indices: 1201482--1204804 Score: 4054
Period size: 610 Copynumber: 5.5 Consensus size: 611
1201472 ATCAACATAC
* ** * * * *
1201482 TTCTCATAATGATCTTAAAAATTACATTCTATTCATTGGGATA-ATGATATTAATATTTTCATTA
1 TTCTCATATTGATCTCCAAAA-CACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTA
* * ** * * * *
1201546 TATAACAAAAGCTTTTCTTGCCA-AGATTTTCCTTGTAATTTAAGTTTGTATGGCAAACGAAACA
65 TAAAAGAAAAGCTTTTCTTGCCACA-ATTTTCCTCATAATTTGAGTTCGTATGTCAAATGAAACA
* * * * * *
1201610 AACATGGATTCATATAATAACCTTCATTCTTTTCATCATTAGGCAACCAAAACACATTCTCCTTA
129 AACATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTA
* *
1201675 TTGGGAT--AC-A-ATT--T--TTTGATTTCATAAGAAAAGCTTTTTTCTCCATCATTTTCTTTA
194 TTGGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCTTTTTTCTCCATCGTTTTCCTTA
* * ** *
1201732 GAATCAAAGTTTATACCTTAATTGAGGCAAATATGGATTTACGCAATAATCTCCATTCTTTCAAT
259 GAATCAAAGTTTATTCCTTAAATGAGATAAACATGGATTTACGCAATAATCTCCATTCTTTCAAT
* * * * *
1201797 GATTAGGCACCATATAGATGTTATTTTCTTTGGGATGCACAATATTGACACTTTGGTTATGCAAG
324 GATTGGGCACCATACAGACGTTATCTTCTTTGGGATGCACAATATTGACACATTGGTTATGCAAG
* *
1201862 TAAAGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCGTCAAACAAGACAAAAAAGGT
389 TAAAGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGT
* * * * * * *
1201927 TTCTTGTAATGATCTCCATTGCATTGTGATTAGGTAGGCAAAATACGCTCTCTTT-AATAGGATG
454 TTCTTGTAATAATCTCCATTGTATTGTGATTAGGTAGCCAAAACACGTTCTCTTTCATTGGGATG
* *
1201991 CATGATATTGATGCTCTGATTTTCACAA-AAACTGCTTTTCTTTCC-CTTACCTTTTTAAAATCA
519 CATGATATTGATGCTTTGATTTTCAGAAGAAA-TGCTTTTCTTTCCAC-T-CCTTTTTAAAATCA
* *
1202054 AAGTCTGACCCTTAAAAGAGACAAAGATGAA
581 AAGTTTGTCCCTTAAAAGAGACAAAGATGAA
* * * **
1202085 TTCTCATATTAATCTCCAAAACACATTATATTCATTGGGAAACATGATATTGATGTTTTGAACAT
1 TTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTAT
* * *
1202150 AAAAGAAAAGCGTTTATTGCTACAATTTTCCTCATAATTTGAGTTCGTATGTCAAATGAAACAAA
66 AAAAGAAAAGCTTTTCTTGCCACAATTTTCCTCATAATTTGAGTTCGTATGTCAAATGAAACAAA
* * * * * * * **
1202215 CATGGATTCTTAGAGTAATCTTTATTCTATTCATGATTGGGCAGGCAAAACACATTC-CCTTTAT
131 CATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGGCAACCAAAACACATTCTCC-TTAT
* * * * *
1202279 TGGGATACACAACATTAATGCTTTGATTTCATTAGAAAAGTTTTTTTCTCCACCAG-TTTCCTTA
195 TGGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCTTTTTTCTCCATC-GTTTTCCTTA
* * * * * **
1202343 GAAT-ATAAGTTTATACCTTAAGTGATATAAACATGCATTTGCAAAATAATCTCCATTCTTTCAA
259 GAATCA-AAGTTTATTCCTTAAATGAGATAAACATGGATTTACGCAATAATCTCCATTCTTTCAA
* * * * **
1202407 TGATTGGGCACCATACACAGGTTA-CTTCATTGGGATGCATAATATTGATGCATTGGTTATGCAA
323 TGATTGGGCACCATACAGACGTTATCTTCTTTGGGATGCACAATATTGACACATTGGTTATGCAA
* * * * *
1202471 GAAAAGTTTTTCTTTCCACTTATTTCCTTAAAGCAAAGTTAATTCGTCAAATAAGACAGAAAAGG
388 GTAAAGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAG
* * * *
1202536 ATTCATGTAATAATCTCCGTTGTATTGTGATTAGGTAGCCAAAACA--TGCTCTATTCATTGGGA
453 TTTCTTGTAATAATCTCCATTGTATTGTGATTAGGTAGCCAAAACACGTTCTCT-TTCATTGGGA
* * * *
1202599 TGCATGATATTGATGCTATGATTTTC-GCAAAAAATACTTTTCTTTCCACTACTTTTTTAAAATC
517 TGCATGATATTGATGCTTTGATTTTCAG-AAGAAATGCTTTTCTTTCCACT-CCTTTTTAAAATC
*
1202663 AAAGTTTTTCCCTTAAAAGAGACAAAGATGAA
580 AAAGTTTGTCCCTTAAAAGAGACAAAGATGAA
*
1202695 TTCTCATATTGATCTCCAAAACACATTCTATTCATTAGGATACATGATATTGATGTTTTGATTAT
1 TTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTAT
* * * * * ** *
1202760 ATAAGAAAAGCTTTTCTTGCCACGATTTTCCTTATAATATT-AGTTCATATGTTAAATGGTACGA
66 AAAAGAAAAGCTTTTCTTGCCACAATTTTCCTCATAAT-TTGAGTTCGTATGTCAAATGAAACAA
* **
1202824 GCATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGGCAACCAAAACACAAACTCCTTAT
130 ACATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTAT
* * * *
1202889 TGGGACACACGATATTAATGCTTTGATTTCATAAGAAAAGCTTTTTTTCTCCATTGTTTCCCATA
195 TGGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGC-TTTTTTCTCCATCGTTTTCCTTA
* *
1202954 GAATCAAAGTTTATTCCTTAAATGAGATAAACATGGATTTACACAATAATCTCCGTTCTTTCAAT
259 GAATCAAAGTTTATTCCTTAAATGAGATAAACATGGATTTACGCAATAATCTCCATTCTTTCAAT
* * * *
1203019 GATTGGGCACCATACAGATGTTATTTTCTTTGGGATGCACAATATTAACACATTGGTTGTGCAAG
324 GATTGGGCACCATACAGACGTTATCTTCTTTGGGATGCACAATATTGACACATTGGTTATGCAAG
*
1203084 TACAGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGT
389 TAAAGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGT
** *
1203149 TTCTTGTAATAATCTCTGTTGTGTTGTGATTAGGTAGCCAAAACACGTTCTCTTTC-TTGGGATG
454 TTCTTGTAATAATCTCCATTGTATTGTGATTAGGTAGCCAAAACACGTTCTCTTTCATTGGGATG
* * * * *
1203213 CGTGATATTAATGCTTTGCTTTTCAGAAGAAATGCTTTTCTTTTTC-CTGCCTTTTTTAAATCAA
519 CATGATATTGATGCTTTGATTTTCAGAAGAAATGCTTTTC-TTTCCACT-CCTTTTTAAAATCAA
*
1203277 AGTTTGGCCCTTAAAAGAGACAAAGATGAA
582 AGTTTGTCCCTTAAAAGAGACAAAGATGAA
* * **
1203307 TTCTCATATTGATCTCCAAAACACATTCTATTCATTCGGAAACATGATATTGATGTTTTGAACAT
1 TTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTAT
* * * *
1203372 AAAAGACAAGCTTTTGTTGCCACAATTTTCTTTATAATTTGAGTTCGTATGTCAAATGAAACAAA
66 AAAAGAAAAGCTTTTCTTGCCACAATTTTCCTCATAATTTGAGTTCGTATGTCAAATGAAACAAA
* * * *
1203437 CATGGATTCTTATAATAATCTTCATTCTATTCATGATTAGGCAACCAAAACACATTC-CCTTTAT
131 CATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGGCAACCAAAACACATTCTCC-TTAT
* * * * *
1203501 AGGGAAACACAAGATTAATGCTATGATTTCATAAGAAAA--TTTTTTCTCCA--------C----
195 TGGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCTTTTTTCTCCATCGTTTTCCTTAG
* * * * * * *
1203552 ---C--A--TT-TTCCTTAAGTGAGGTAAACATGCATTCACGCAATAATATCCTTTCTTGCAATG
260 AATCAAAGTTTATTCCTTAAATGAGATAAACATGGATTTACGCAATAATCTCCATTCTTTCAATG
* *
1203609 ATTGGGCACCATAAACG-CGTTATCTTCTTTGGGATGCACAATATTGACACATTGGTTTTGCAAG
325 ATTGGGCACCATACA-GACGTTATCTTCTTTGGGATGCACAATATTGACACATTGGTTATGCAAG
* * * **
1203673 -AAATGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTCCATCCATCAAATATTAC-----AAG
389 TAAA-GTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAG
* * * *
1203732 TGTCTTCTAATAATCTCCATTTTATTGTG-TTAGGCAGCCAAAACACGTTCTC-TTCATTGGGAT
453 TTTCTTGTAATAATCTCCATTGTATTGTGATTAGGTAGCCAAAACACGTTCTCTTTCATTGGGAT
* * *
1203795 GCATGATATTGACGCTTTGATTTTC-GCAAGAAATGCTTTTGTTTCCACTACTATTTTAAAATCA
518 GCATGATATTGATGCTTTGATTTTCAG-AAGAAATGCTTTTCTTTCCACTCCT-TTTTAAAATCA
*
1203859 AAGTTTGTCCCTTAAAAGGGACAAAGATGAA
581 AAGTTTGTCCCTTAAAAGAGACAAAGATGAA
*
1203890 TTCTCATATTGATCTCCAAAACACATTCTATTCAATGGGATACATGATATTGATGTTTTGATTAT
1 TTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTAT
* *
1203955 AAAAGAAAAGCTTTTCTTGCCACGATTTTCCTCATAATTTGGGTTCGTATGTCAAATGAAACAAA
66 AAAAGAAAAGCTTTTCTTGCCACAATTTTCCTCATAATTTGAGTTCGTATGTCAAATGAAACAAA
* *
1204020 CATAGATTCTTATATTAATCTTCATCCTTTTCATAATTAGGCAACCAAAACACATTGTCCTTATT
131 CATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATT
* * * * *
1204085 GGGATACATGATATTAATGCTTTGATTTGATAGGAAAAGCATTTTTCTCCGTCGTTTTCCTTAGA
196 GGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCTTTTTTCTCCATCGTTTTCCTTAGA
**
1204150 ATCAAAGTTTATAT-CTTAAATGAGATAAACATGGATTTACGCAATAATCTCGGTTCTTTCAATG
261 ATCAAAGTTTAT-TCCTTAAATGAGATAAACATGGATTTACGCAATAATCTCCATTCTTTCAATG
*** * * *
1204214 ATTGGGCACCATACAGACACCATCTTCTTTGGTATGCACAATATTGACGCATTGGTTACGCAAGT
325 ATTGGGCACCATACAGACGTTATCTTCTTTGGGATGCACAATATTGACACATTGGTTATGCAAGT
* * * **
1204279 AAAGTTTTCCTTGCCACTTATTTCCTTAAAGCAATGTTCGTTTTTCAAATAAGACAAAAAAAGAT
390 AAAGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAG-T
* * * *
1204344 TT-TTGTAAAAATCTCCATTGTATTATGATTAGGTAGCCAAAACACGCTCTC-TTCGTTGGGATG
454 TTCTTGTAATAATCTCCATTGTATTGTGATTAGGTAGCCAAAACACGTTCTCTTTCATTGGGATG
* * *
1204407 CATGATATTGATGCTTTGATTTTTGCAG--GAATTGCTTTTATTTCCACTACCTTTTTAAAATGA
519 CATGATATTGATGCTTTGA-TTTT-CAGAAGAAATGCTTTTCTTTCCACT-CCTTTTTAAAATCA
*
1204470 AAGTTTGTCCCTTAAAA-AGACAAAGACGAA
581 AAGTTTGTCCCTTAAAAGAGACAAAGATGAA
* * *
1204500 TTCTCATATTGATCTTCAAAACACATTCTATTCATTGGGATATATGATATTGATGTTTTGACTAT
1 TTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTAT
* * *
1204565 ATAAGAAAAGCTTTTCTTGCCACAATTTTCCTCATAATTTGGGTTCGTATGTCAAATAAAACAAA
66 AAAAGAAAAGCTTTTCTTGCCACAATTTTCCTCATAATTTGAGTTCGTATGTCAAATGAAACAAA
*
1204630 CATAGATTCTTATATTAATCTTCATCCTTTTCACGATTAGGCAACCAAAACACATTCTCCTTATT
131 CATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATT
* * * * * * * * *
1204695 GGGATACATGATATCATTGCTTTGATTTGATAGGAAAAACATTTTTCTCTATTGTTTTCCTTAGA
196 GGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCTTTTTTCTCCATCGTTTTCCTTAGA
1204760 ATCAAAGTTTATAT-CTTAAATGAGATAAACATGGATTTACGCAAT
261 ATCAAAGTTTAT-TCCTTAAATGAGATAAACATGGATTTACGCAAT
1204805 CCTTTTCATG
Statistics
Matches: 2345, Mismatches: 302, Indels: 139
0.84 0.11 0.05
Matches are distributed among these distances:
582 10 0.00
583 309 0.13
584 28 0.01
585 9 0.00
588 2 0.00
589 149 0.06
590 3 0.00
592 1 0.00
593 1 0.00
594 1 0.00
600 1 0.00
601 1 0.00
602 21 0.01
603 143 0.06
604 4 0.00
605 142 0.06
606 5 0.00
607 3 0.00
608 4 0.00
609 14 0.01
610 741 0.32
611 313 0.13
612 425 0.18
613 9 0.00
614 6 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (611 bp):
TTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTAT
AAAAGAAAAGCTTTTCTTGCCACAATTTTCCTCATAATTTGAGTTCGTATGTCAAATGAAACAAA
CATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATT
GGGATACACGATATTAATGCTTTGATTTCATAAGAAAAGCTTTTTTCTCCATCGTTTTCCTTAGA
ATCAAAGTTTATTCCTTAAATGAGATAAACATGGATTTACGCAATAATCTCCATTCTTTCAATGA
TTGGGCACCATACAGACGTTATCTTCTTTGGGATGCACAATATTGACACATTGGTTATGCAAGTA
AAGTTTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGTTT
CTTGTAATAATCTCCATTGTATTGTGATTAGGTAGCCAAAACACGTTCTCTTTCATTGGGATGCA
TGATATTGATGCTTTGATTTTCAGAAGAAATGCTTTTCTTTCCACTCCTTTTTAAAATCAAAGTT
TGTCCCTTAAAAGAGACAAAGATGAA
Found at i:1204924 original size:150 final size:150
Alignment explanation
Indices: 1204653--1204954 Score: 514
Period size: 150 Copynumber: 2.0 Consensus size: 150
1204643 ATTAATCTTC
* *
1204653 ATCCTTTTCACGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATCATTGCTTT
1 ATCCTTTTCACGATAAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATCAATGCTTT
* * *
1204718 GATTTGATAGGAAAAACATTTTTCTCTATTGTTTTCCTTAGAATCAAAGTTTATATCTTAAATGA
66 GATTTGATAGCAAAAACATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATATCTTAAATGA
1204783 GATAAACATGGATTTACGCA
131 GATAAACATGGATTTACGCA
* *
1204803 ATCCTTTTCATGATAAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATTAATGCTTT
1 ATCCTTTTCACGATAAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATCAATGCTTT
* *
1204868 GATTTGATAGCAAAAACATTTTTCTCCGTCGTTTTCCTTCGAATCAAAGTTTATATCTTAAATGA
66 GATTTGATAGCAAAAACATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATATCTTAAATGA
*
1204933 GATAAACATGGATTTATGCA
131 GATAAACATGGATTTACGCA
1204953 AT
1 AT
1204955 AATCTCGGTT
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
150 142 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (150 bp):
ATCCTTTTCACGATAAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATCAATGCTTT
GATTTGATAGCAAAAACATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATATCTTAAATGA
GATAAACATGGATTTACGCA
Found at i:1206057 original size:610 final size:609
Alignment explanation
Indices: 1204803--1207381 Score: 3300
Period size: 610 Copynumber: 4.3 Consensus size: 609
1204793 GATTTACGCA
*
1204803 ATCCTTTTCATGATAAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATTAATGCTTT
1 ATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATTAATGCTTT
* * *
1204868 GATTTGAT-AGCAAAAACATTTTTCTCCGTCGTTTTCCTTCGAATCAAAGTTTATATCTTAAATG
66 GATTTGATAAG-AAAAGCATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATATCTTAAATG
*
1204932 AGATAAACATGGATTTATGCAATAATCTCGGTTCTTTCAATGATTGGGCACCATACAGACACCAT
130 AGATAAACATGGATTTACGCAATAATCTCGGTTCTTTCAATGATTGGGCACCATA-A-ACACCAT
1204997 CTTCTTTGGTATGCACAATATTGACGCATTGGTTATGCAAGTAAAGTTTTTCTTGCCACTTATTT
193 CTTCTTTGGTATGCACAATATTGACGCATTGGTTATGCAAGTAAAGTTTTTCTTGCCACTTATTT
* *
1205062 CCTTAAAGCAACGTTCATTTTTCAAATAAGACAAAAAAAGATTCTTGTAAAAATCTCCATTGTAT
258 CCTTAAAGCAAAGTTCATTCTTCAAATAAGACAAAAAAAGATTCTTGTAAAAATCTCCATTGTAT
* * *
1205127 TATGATTAGGTAGCCAAAACATGCTCTCCTCGTTGGGATGCATGATATTGATGCTTTGATTTTCG
323 TGTGATTAGGTAGCCAAAACACGCTCTCTTCGTTGGGATGCATGATATTGATGCTTTGATTTTCG
*
1205192 CAAGAAATGCTTTTATTTCCACTACCTTTTTAAAATGAAAGTTTGTCCCTTAAAAGAGACAAAGA
388 CAAGAAATGCTTTTATTTCCACTACCTTTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAAGA
* * *
1205257 CGAATTCTCATATTGATCTTCAAAACACATTCTATTCATTGGGATACGTGATATTGATGTTTTTA
453 CGAATTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGA
* * * *
1205322 TTATATAAGAAAAGCTTTTCTTGCCATAATTTTCCTCATAATTT-AGGTCCGTATGTCAAATAAA
518 TTATATAAGAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTGA-GTTCGTATGTCAAATGAA
*
1205386 ACAAACATAGATTCTTATATTAATCTTC
582 ACAAACATAGATTCTTATAATAATCTTC
*
1205414 ATCCTTTCCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATTAATGCTTT
1 ATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATTAATGCTTT
* *
1205479 GATTTGATAGGAAAAGCATTTTTCTCCGTCGTTTTCCTTAGAATCAAAGTTTATATCTTAAATGA
66 GATTTGATAAGAAAAGCATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATATCTTAAATGA
1205544 GATAAACATGGATTTACGCAATAATCTCGGTTCTTTCAATGATTGGGCACCATACAGACACCATC
131 GATAAACATGGATTTACGCAATAATCTCGGTTCTTTCAATGATTGGGCACCATA-A-ACACCATC
* * *
1205609 TTCTTTGGTATGCACAATATTGACGCATTGGTTACGCAAGTAATGTTTTTCTTCCCACTTATTTC
194 TTCTTTGGTATGCACAATATTGACGCATTGGTTATGCAAGTAAAGTTTTTCTTGCCACTTATTTC
* * *** *
1205674 CTTAAAGCAAAGTTCTTTTTTCAAATAAGACAAAAAAA-ATTCCCATAAAAATCTCTATTGTATT
259 CTTAAAGCAAAGTTCATTCTTCAAATAAGACAAAAAAAGATTCTTGTAAAAATCTCCATTGTATT
* * *
1205738 GTTATTAGGTAGCCAAAACACGCTCTCTTCGTTGGGGTGCATGGTATTGATGCTTTGATTTTCGC
324 GTGATTAGGTAGCCAAAACACGCTCTCTTCGTTGGGATGCATGATATTGATGCTTTGATTTTCGC
*
1205803 AAGAATTGCTTTTATTTCCACTACCTTTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAAGAC
389 AAGAAATGCTTTTATTTCCACTACCTTTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAAGAC
* * *
1205868 GAATTCTCTTATTGATCTCCAAAACACATTCTATTCATTGGGATGCTTGATATTGATGTTTTGAT
454 GAATTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGAT
* * *
1205933 TATATAAGAAAAGCTTTTCTTGCCACAATTTTTCTTATAATTTGAGTTCGTTTGTAAAATGAAAC
519 TATATAAGAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAAC
*
1205998 AAACATGGATTCTTATAATAATCTTC
584 AAACATAGATTCTTATAATAATCTTC
* * * * * *
1206024 ATTCTTTTCATTATTAGGCAACCAAAGCACATTCTCCTTATTGGGAGACACGATATTAATGCCTT
1 ATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATTAATGCTTT
* ** * **
1206089 GATTTGATAAGAAATGTTTTTTTCT-CAACTGTTTTCCTTAGAATCAAAGTTTATA-CGTTAGCT
66 GATTTGATAAGAAAAGCATTTTTCTCCATC-GTTTTCCTTAGAATCAAAGTTTATATC-TTAAAT
* * * * * * * **
1206152 AAGATAAACATGGGTTTACGCAAAAATCT-GCATTATTTCAATGATTAGGCATCATAAACATGTT
129 GAGATAAACATGGATTTACGCAATAATCTCG-GTTCTTTCAATGATTGGGCACCATAAACA--CC
* * *
1206216 ATCTTTTTTGGGATGGAC-A-A-T-----ATT-G--ATGC---------TTTTCTTGCCACTTAT
191 ATCTTCTTTGGTATGCACAATATTGACGCATTGGTTATGCAAGTAAAGTTTTTCTTGCCACTTAT
* * * * ** * * *
1206261 TTCCTTAAAGCAAAGATCATCCATCAAATAATACAAAAATGGAGTCTTGTAATAATCTCCATTTT
256 TTCCTTAAAGCAAAGTTCATTCTTCAAATAAGACAAAAAAAGATTCTTGTAAAAATCTCCATTGT
* * * * * * *
1206326 TTTGTGATTAAGTAGCCAAAACGCGTTCTCTTCCTTGGAATGCATGATATTGTTGCTTTGATTTT
321 ATTGTGATTAGGTAGCCAAAACACGCTCTCTTCGTTGGGATGCATGATATTGATGCTTTGATTTT
* * ** * *
1206391 CGCAAGACATAC-TTTGCTTCCACTA-CTATTTTAAAATCAAAGTTTGTTCCTTAAAAGTGACAA
386 CGCAAGAAATGCTTTTATTTCCACTACCT-TTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAA
* * * * *
1206454 AGATGAATTCTCATGTTGATCTCTAAAACACATTCTATTCATTGGGATA-ATGATATTTAGGTTT
450 AGACGAATTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTT
* * * * *
1206518 TGATTACATAAGAAAAGCTTTTCTTACC-CTGATTTTTCTTATAATTTGAGTTCGTATGTTAAAT
515 TGATTATATAAGAAAAGCTTTTCTTGCCAC-AATTTTCCTTATAATTTGAGTTCGTATGTCAAAT
*
1206582 GAAACAAACATAGATTCTTATACTAATCTTC
579 GAAACAAACATAGATTCTTATAATAATCTTC
* * * * *
1206613 ATCCTTGTCATGATTAGGCAGCTAACACACATTCTCCCTATTGGGATACACT-ATATTAATGCTT
1 ATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACA-TGATATTAATGCTT
* * * * * *
1206677 TGGTTTCATAAGAAAAGCATTTTTCTCCATCATTTTCCCTAAAATCAAAGTTTATACCTTAAATG
65 TGATTTGATAAGAAAAGCATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATATCTTAAATG
* * * *
1206742 TGTTAAACATGGATTTACGCAATAATCTCCGTTCTTTCAATGATTGGGCACCATAAACACGTTAT
130 AGATAAACATGGATTTACGCAATAATCTCGGTTCTTTCAATGATTGGGCACCATAAACAC--CAT
* * * * * *
1206807 GTTCATTAGG-ATACATAATATTGATGCATTGGTTATGCAAGAAAAGTTTTTCGTT-CCACTTAT
193 CTTC-TTTGGTATGCACAATATTGACGCATTGGTTATGCAAGTAAAGTTTTTC-TTGCCACTTAT
* * * *
1206870 TTCCTTAAAGCAATGTTCATTCGTCAAATAAGACAAAAAAAGATTCTTGTAATAATCTCCATTCT
256 TTCCTTAAAGCAAAGTTCATTCTTCAAATAAGACAAAAAAAGATTCTTGTAAAAATCTCCATTGT
* * * *
1206935 ATTGTGATTAGGTAGCCAAAACACGCTTTCTTCATTAGGATACATGATATTGATGCTTTGATTTT
321 ATTGTGATTAGGTAGCCAAAACACGCTCTCTTCGTTGGGATGCATGATATTGATGCTTTGATTTT
* * * * * * *
1207000 CACAGGAAATGCTTTTTTTTCCATTACCTTTTCAAAATCAATGTTTGTCCCTTAAAAAAGACAAA
386 CGCAAGAAATGCTTTTATTTCCACTACCTTTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAA
* *
1207065 GATGAATTCTCATATTGATCTCCAAAACAAATTCTATTCATTGGGATACATGATATTGATGTTTT
451 GACGAATTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTT
* **
1207130 GATTATATAAGAAAAGCTTTTATTGCCATGATTTTCCTTATAATTTGAGTTCGTATGTCAAATGA
516 GATTATATAAGAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTGAGTTCGTATGTCAAATGA
* *
1207195 AATAAACGTAGATTCTTATAATAATCTTC
581 AACAAACATAGATTCTTATAATAATCTTC
* * ** * * * * *
1207224 ATTCTTTTCATGATTAGGCCATGAAAACACATTTTACTTATTGAGATACATGAAATTAATGATTT
1 ATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATTAATGCTTT
* * * * * * *
1207289 GATGTCATAAGAAAAGCTTTTTTCTCTATCGTTGTCCTTAGAATCAAAGTTTATAGCTTAACA-A
66 GATTTGATAAGAAAAGCATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATATCTTAA-ATG
* * *
1207353 AGACAAACATGGATGTACGCTATAATCTC
130 AGATAAACATGGATTTACGCAATAATCTC
1207382 CATTTTTCAC
Statistics
Matches: 1699, Mismatches: 225, Indels: 88
0.84 0.11 0.04
Matches are distributed among these distances:
588 1 0.00
589 256 0.15
590 145 0.09
591 81 0.05
592 1 0.00
597 3 0.00
598 1 0.00
599 3 0.00
600 4 0.00
601 1 0.00
602 3 0.00
607 1 0.00
608 4 0.00
609 138 0.08
610 543 0.32
611 512 0.30
612 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (609 bp):
ATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTGGGATACATGATATTAATGCTTT
GATTTGATAAGAAAAGCATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATATCTTAAATGA
GATAAACATGGATTTACGCAATAATCTCGGTTCTTTCAATGATTGGGCACCATAAACACCATCTT
CTTTGGTATGCACAATATTGACGCATTGGTTATGCAAGTAAAGTTTTTCTTGCCACTTATTTCCT
TAAAGCAAAGTTCATTCTTCAAATAAGACAAAAAAAGATTCTTGTAAAAATCTCCATTGTATTGT
GATTAGGTAGCCAAAACACGCTCTCTTCGTTGGGATGCATGATATTGATGCTTTGATTTTCGCAA
GAAATGCTTTTATTTCCACTACCTTTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAAGACGA
ATTCTCATATTGATCTCCAAAACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTA
TATAAGAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAACAA
ACATAGATTCTTATAATAATCTTC
Found at i:1208017 original size:902 final size:901
Alignment explanation
Indices: 1206549--1208292 Score: 2440
Period size: 902 Copynumber: 1.9 Consensus size: 901
1206539 TCTTACCCTG
* * * *
1206549 ATTTTTCTTATAATTTGAGTTCGTATGTTAAATGAAACAAACATAGATTCTTATACTAATCTTCA
1 ATTTTCCTTATAATTTGAGTTCGTATGTTAAATAAAACAAACATAGATTCATATAATAATCTTCA
* * * * *
1206614 TCCTTGTCATGATTAGGCAGCTAACACACATTCTCCCTATTGGGATACACTATATTAATGCTTTG
66 TCATTGTCATGATTAGGCAACCAAAACACATTCTCCCTATTGGGATACACGATATTAATGCTTTG
* * * *
1206679 GTTTCATAAGAAAAGCATTTTTCTCCATCATTTTCCCTAAAATCAAAGTTTATACCTTAAATGTG
131 ATTTCATAAGAAAAGCATTTTTCTCCACCATTTTCCCTAAAATCAAAGTTTATACCGTAAATGAG
** * *
1206744 TTAAACATGGATTTACGCAATAATCTCCGTTCTTTCAATGATTGGGCACCATAAACACGTTATGT
196 CCAAACATGGATTTACGCAATAATCTCCGTTCTTTCAATGATTAGGCACCATAAACACGTTATCT
* * * * ** * *
1206809 TCATTAGGATACATAATATTGATGCATTGGTTATGCAAGAAAAGTTTTTCGTTCCACTTATTTCC
261 TCATTAGGATACACAATACTGACGCAATAATTATGCAAGAAAAGTTTTTCATGCCACTTATTTCC
* * * *
1206874 TTAAAGCAATGTTCATTCGTCAAATAAGACAAAAAAAGATTCTTGTAATAATCTCCATTCTATTG
326 TTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAAGAATCATGTAATAATCTCCATTCTATTG
* * * *
1206939 TGATTAGGTAGCCAAAACACGCTTTCTTCATTAGGATACATGATATTGATGCTTTGATTTTCACA
391 TGATTAGGAAACCAAAACACGCTCTCTTCATTAGGATACATGATATTAATGCTTTGATTTTCACA
* * * * * *
1207004 GGAAATGCTTTTTTTTCCATTACCTTTTCAAAATCAATGTTTGTCCCTTAAAAAAGACAAAGATG
456 AGAAATACTTTTCTTTCCACTACCTTTTCAAAATCAAAGTTTATCCCTTAAAAAAGACAAAGATG
** *
1207069 AATTCTCATATTGATCTCCAAAACAAATTCTATTCATTGGGATACATGATATTGATGTTTTGATT
521 AATTCTCATAAAGATCTCCAAAACAAATTCCATTCATTGGGATACATGATATTGATGTTTTGATT
* * *
1207134 ATATAAGAAAAGCTTTTATTGCCATGATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAATA
586 ATATAAGAAAAGCTTTTATTGCCATGATTTCCCTTATAATTTGAGTTCATATGTCAAATGAAACA
* * * * * * * *
1207199 AACGTAGATTCTTATAATAATCTTCATTCTTTTCATGATTAGGCCAT-GAAAACACATTTTACTT
651 AACATAGATTCTTATAAAAATATTCATTCTTTCCATGATCAGG-CATCCAAAACACAATCTACTT
* * *
1207263 ATTGAGATACATGAAATTAATGATTTGATGTCATAAGAAAAGCTTTTTTCTCTATCGTTGTCCTT
715 ATTG-GATAAATGAAATTAATGATTTGATGTCATAAGAAAAGCTTTTTTCTCCACCGTTGTCCTT
1207328 AGAATCAAAGTTTATAG-CTTAAC-AAAGACAAACATGGATGTACGC-TATAATCTCCATT-TTT
779 AGAATCAAAGTTTAT-GCCTTAACTAAA-ACAAACATGGATGTACGCAT-TAATCTCCATTCTTT
1207389 CACTAATTGGGATGCACACTTTTGACGCATTGGTTATCCAAGAAAAGTTTTCCTTGCCACA
841 CACTAATTGGGATGCACACTTTTGACGCATTGGTTATCCAAGAAAAGTTTTCCTTGCCACA
* * *
1207450 ATTTTCCTTATATTTTGAGTTCGTTTGTTAAATAAAACAAACATTGATTCATATAATAATCTTCA
1 ATTTTCCTTATAATTTGAGTTCGTATGTTAAATAAAACAAACATAGATTCATATAATAATCTTCA
* * ** *
1207515 TTATTTTCATGATTAGGCAACCAAAACACATTCTCTTTATTGGGATGCACGATATTAATGCTTTG
66 TCATTGTCATGATTAGGCAACCAAAACACATTCTCCCTATTGGGATACACGATATTAATGCTTTG
** * * **
1207580 ATTTCATAA-AAAATGTTTTTTTTCTCCACCGTTTTCCTTGGAATCAAAGTTTATACCGTAAATG
131 ATTTCATAAGAAAA-G-CATTTTTCTCCACCATTTTCCCTAAAATCAAAGTTTATACCGTAAATG
* * *
1207644 AGCCATACATGGATTTCCGTAATAATCTCCGTTCTTTCAATGATTAGGCACCATAAACACGTTAT
194 AGCCAAACATGGATTTACGCAATAATCTCCGTTCTTTCAATGATTAGGCACCATAAACACGTTAT
* * * *
1207709 CTTCTTTGGGATGCACAATACTGACGTAATAATTATGCAAGAAAAGTTTTTCATGCCACTTATTT
259 CTTCATTAGGATACACAATACTGACGCAATAATTATGCAAGAAAAGTTTTTCATGCCACTTATTT
** *
1207774 CCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAATGGAATCATGTAATAATCTCCATT-TTT
324 CCTTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAAGAATCATGTAATAATCTCCATTCTAT
* * * *
1207838 TGTGATTAGGAAACCTAAACATGCTCTCTTCATTAGGATGCATGATATTAATGCTTTGATTTTCG
389 TGTGATTAGGAAACCAAAACACGCTCTCTTCATTAGGATACATGATATTAATGCTTTGATTTTCA
* * * *
1207903 TAAGAAATACTTTTCTTTCCACTATCTTTTTAAAATCAAAGTTTATCCCTTAAAAGAGACAAAGA
454 CAAGAAATACTTTTCTTTCCACTACCTTTTCAAAATCAAAGTTTATCCCTTAAAAAAGACAAAGA
* *
1207968 TGAATTCTCTTAAAGATCTCCAAAAACAAATTCCATTCATTTGGATACATGATATTGATGTTTTG
519 TGAATTCTCATAAAGATCTCC-AAAACAAATTCCATTCATTGGGATACATGATATTGATGTTTTG
*
1208033 ATTATATAAGAAAAGCTTTTCTTGCCATGATTTCCCTTATAATTTGAGTTCATATGTCAAATGAA
583 ATTATATAAGAAAAGCTTTTATTGCCATGATTTCCCTTATAATTTGAGTTCATATGTCAAATGAA
* * *
1208098 ACAAATATGGATTCTTATAAAAATATTCATTCTTTCCATGATCAGGCATCCAAAACACAATCTCC
648 ACAAACATAGATTCTTATAAAAATATTCATTCTTTCCATGATCAGGCATCCAAAACACAATCTAC
* * * * * *
1208163 TTATTGGGTAAATGATATTAATGCTTTGATTTCATAAGAAAAGTTTTTTTCTCCACCGTTTTCCT
713 TTATTGGATAAATGAAATTAATGATTTGATGTCATAAGAAAAGCTTTTTTCTCCACCGTTGTCCT
* * *
1208228 TAGAATCAAAGTTTCTGCCTTAACTGAAACAAACATGGATTTACGCATTAATCTCCATTCTTTCA
778 TAGAATCAAAGTTTATGCCTTAACTAAAACAAACATGGATGTACGCATTAATCTCCATTCTTTCA
1208293 ATGAATGGGC
Statistics
Matches: 732, Mismatches: 103, Indels: 15
0.86 0.12 0.02
Matches are distributed among these distances:
900 5 0.01
901 356 0.49
902 371 0.51
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (901 bp):
ATTTTCCTTATAATTTGAGTTCGTATGTTAAATAAAACAAACATAGATTCATATAATAATCTTCA
TCATTGTCATGATTAGGCAACCAAAACACATTCTCCCTATTGGGATACACGATATTAATGCTTTG
ATTTCATAAGAAAAGCATTTTTCTCCACCATTTTCCCTAAAATCAAAGTTTATACCGTAAATGAG
CCAAACATGGATTTACGCAATAATCTCCGTTCTTTCAATGATTAGGCACCATAAACACGTTATCT
TCATTAGGATACACAATACTGACGCAATAATTATGCAAGAAAAGTTTTTCATGCCACTTATTTCC
TTAAAGCAAAGTTCATTCATCAAATAAGACAAAAAAAGAATCATGTAATAATCTCCATTCTATTG
TGATTAGGAAACCAAAACACGCTCTCTTCATTAGGATACATGATATTAATGCTTTGATTTTCACA
AGAAATACTTTTCTTTCCACTACCTTTTCAAAATCAAAGTTTATCCCTTAAAAAAGACAAAGATG
AATTCTCATAAAGATCTCCAAAACAAATTCCATTCATTGGGATACATGATATTGATGTTTTGATT
ATATAAGAAAAGCTTTTATTGCCATGATTTCCCTTATAATTTGAGTTCATATGTCAAATGAAACA
AACATAGATTCTTATAAAAATATTCATTCTTTCCATGATCAGGCATCCAAAACACAATCTACTTA
TTGGATAAATGAAATTAATGATTTGATGTCATAAGAAAAGCTTTTTTCTCCACCGTTGTCCTTAG
AATCAAAGTTTATGCCTTAACTAAAACAAACATGGATGTACGCATTAATCTCCATTCTTTCACTA
ATTGGGATGCACACTTTTGACGCATTGGTTATCCAAGAAAAGTTTTCCTTGCCACA
Found at i:1208294 original size:610 final size:614
Alignment explanation
Indices: 1207428--1208583 Score: 1581
Period size: 610 Copynumber: 1.9 Consensus size: 614
1207418 TTGGTTATCC
* * * * *
1207428 AAGAAAAGTTTTCCTTGCCACAATTTTCCTTATATTTTGAGTTCGTTTGTTAAATAAAACAAACA
1 AAGAAAAGTTTTCCTTGCCACAATTTCCCTTATAATTTGAGTTCATATGTCAAATAAAACAAACA
* * * * * * *
1207493 TTGATTCATATAATAATCTTCATTATTTTCATGATTAGGCAACCAAAACACATTCTCTTTATTGG
66 TGGATTCATATAAAAATATTCATTATTTCCATGATCAGGCAACCAAAACACAATCTCCTTATTGG
** *
1207558 GATGCACGATATTAATGCTTTGATTTCATAAAAAATGTTTTTTTTCTCCACCGTTTTCCTTGGAA
131 GATAAACGATATTAATGCTTTGATTTCATAAAAAATGTTTTTTTTCTCCACCGTTTTCCTTAGAA
** * * * * *
1207623 TCAAAGTTTATACCGTAAATGAGCCATACATGGATTTCCGTAATAATCTCCGTTCTTTCAATGAT
196 TCAAAGTTTATACCGTAAATGAAACAAACATGGATTTACGCAATAATCTCCATTCTTTCAATGAA
* *
1207688 TAGGCACCATAAACACGTTATCTTCTTTGGGATGCACAATACTGACGTAATAATTATGCAAGAAA
261 TAGGCACCATAAAAACGTTATCTTCTTTGGGATGCACAATACTGACGCAATAATTATGCAAGAAA
* * *
1207753 AGTTTTTCATGCCACTTATTTCCTT-AAAGCAAAGTTCATTCATCAAATAAGACAAAAATGGAA-
326 AGTTTTTCATGCCACTTATTTACTTAAAAGAAAAGTTCATACATCAAATAAGACAAAAAT-GAAT
*
1207816 TCATGTAATAATCTCCA-TTTTTTGTGATTAGGAAACCTAAACATGCTCT-CTTCATTAGGATGC
390 TCATGTAATAATCTCCATTTTTTTGTGATTAGGAAACCAAAACATGCTCTCCTT-ATTAGGATGC
* * * *
1207879 ATGATATTAATGCTTTGATTTTCGTAAGAAATACTTTTCTTTCCACTATCTTTTTAAAATCAAAG
454 ATGATATTAATGCTTTGATTTTAGCAAAAAATACTTTTCTTTCCACTACCTTTTTAAAATCAAAG
*
1207944 TTTATCCCTTAAAAGAGACAAAGATGAATTCTCTTAAAGATCTCCAAAAACAAATTCCATTCATT
519 TTTATCCCTTAAAAGAAACAAAGATGAATTCTCTTAAAGATCTCCAAAAACAAATTCCATTCATT
1208009 TGGATACATGATATTGATGTTTTGATTATAT
584 TGGATACATGATATTGATGTTTTGATTATAT
** * *
1208040 AAGAAAAGCTTTT-CTTGCCATGATTTCCCTTATAATTTGAGTTCATATGTCAAATGAAACAAAT
1 AAGAAAAG-TTTTCCTTGCCACAATTTCCCTTATAATTTGAGTTCATATGTCAAATAAAACAAAC
* * *
1208104 ATGGATTCTTATAAAAATATTCATTCTTTCCATGATCAGGCATCCAAAACACAATCTCCTTATTG
65 ATGGATTCATATAAAAATATTCATTATTTCCATGATCAGGCAACCAAAACACAATCTCCTTATTG
*
1208169 GG-TAAATGATATTAATGCTTTGATTTCATAAGAAAA-G-TTTTTTTCTCCACCGTTTTCCTTAG
130 GGATAAACGATATTAATGCTTTGATTTCATAA-AAAATGTTTTTTTTCTCCACCGTTTTCCTTAG
* * * * *
1208231 AATCAAAGTTTCTGCCTTAACTGAAACAAACATGGATTTACGCATTAATCTCCATTCTTTCAATG
194 AATCAAAGTTTATACCGTAAATGAAACAAACATGGATTTACGCAATAATCTCCATTCTTTCAATG
* * * * * **
1208296 AATGGGCACCATAAAAATGTTATCTTCTTTGGGATGCACAATATTGATGCATTGGTTATGCAAGA
259 AATAGGCACCATAAAAACGTTATCTTCTTTGGGATGCACAATACTGACGCAATAATTATGCAAGA
* * * * * *
1208361 AAAGTTTTTCTTGCCATTTATTTACTTAAAATAAAAGTTCATACGTCAAATAATATAAAAATGAA
324 AAAGTTTTTCATGCCACTTATTTACTTAAAAGAAAAGTTCATACATCAAATAAGACAAAAATGAA
* * * *
1208426 TTCATGTAATAATCTCCACTTTTTTTTGTGATTAGGTAGCCAAAACATGCTCTCCTTTTTGGGAT
389 TTCATGTAATAATCTCCA--TTTTTTTGTGATTAGGAAACCAAAACATGCTCTCCTTATTAGGAT
* * * * *
1208491 GCATGATATTGATGGTTTGATTTTAGCAAAAAATGCTTTTTTTTCCACTACCTTTTTGAAATCAA
452 GCATGATATTAATGCTTTGATTTTAGCAAAAAATACTTTTCTTTCCACTACCTTTTTAAAATCAA
*
1208556 AGTTTGTCCCTTAAAAGAAACAAAGATG
517 AGTTTATCCCTTAAAAGAAACAAAGATG
1208584 GATGAAAGCT
Statistics
Matches: 467, Mismatches: 69, Indels: 14
0.85 0.13 0.03
Matches are distributed among these distances:
610 160 0.34
611 72 0.15
612 111 0.24
613 4 0.01
614 117 0.25
615 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (614 bp):
AAGAAAAGTTTTCCTTGCCACAATTTCCCTTATAATTTGAGTTCATATGTCAAATAAAACAAACA
TGGATTCATATAAAAATATTCATTATTTCCATGATCAGGCAACCAAAACACAATCTCCTTATTGG
GATAAACGATATTAATGCTTTGATTTCATAAAAAATGTTTTTTTTCTCCACCGTTTTCCTTAGAA
TCAAAGTTTATACCGTAAATGAAACAAACATGGATTTACGCAATAATCTCCATTCTTTCAATGAA
TAGGCACCATAAAAACGTTATCTTCTTTGGGATGCACAATACTGACGCAATAATTATGCAAGAAA
AGTTTTTCATGCCACTTATTTACTTAAAAGAAAAGTTCATACATCAAATAAGACAAAAATGAATT
CATGTAATAATCTCCATTTTTTTGTGATTAGGAAACCAAAACATGCTCTCCTTATTAGGATGCAT
GATATTAATGCTTTGATTTTAGCAAAAAATACTTTTCTTTCCACTACCTTTTTAAAATCAAAGTT
TATCCCTTAAAAGAAACAAAGATGAATTCTCTTAAAGATCTCCAAAAACAAATTCCATTCATTTG
GATACATGATATTGATGTTTTGATTATAT
Found at i:1211143 original size:612 final size:605
Alignment explanation
Indices: 1209776--1211414 Score: 2107
Period size: 612 Copynumber: 2.7 Consensus size: 605
1209766 GATCCTAACA
* * * *
1209776 ATGGATTCTCATAATGAACTTCAAAAACACATTTTATTCATTAGGATACATGATATTGATGTTTC
1 ATGGATTCTCATAATGATCTTCAAAAACACATTCTATTCATTAGGAAACATGATATTGATGTTTT
** * * *
1209841 GATTATATAAGAAAAGCTTTTCTTGCCATGATTTACCTTATAATTTGAGTTCGTATGTCAAATTA
66 GATTATATAAGAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTGAGTTCGTAT-TGAAATGA
*
1209906 AACAAACATGGATTCTTATAATAATCTTCATTCTTTTTATGATTAGGCAACCAAAACACATTCTC
130 AACAAACATGGATTCTTATAATAATCTTCATTCTTTTCATGATTAGGCAACCAAAACACATTCTC
* * ** *
1209971 CTTATTGGGATACACGATATTAATGCCTTGATTTCATAAGAAAAACATTTTTCTCTA-TCGTTTT
195 CTTATTGGGATACACAATATTAATGCTTTGATTTCATAAG-AAAAGTTTTTTCTC-ACT-ATTTT
* * *
1210035 CCTTAGAATCAAAGGTTATTCCTTTAATGAGATAAACATTGATTTACGCAAAAATCTCGGTTCTT
257 CCTTAGAATCAAAGGTTATACC-TTAATGAGACAAACA-TGATTTACGCAATAATCTCGGTTCTT
1210100 TCCATGATTGGGCACCAT--ACGATGTTATCTTCTTTGGGATGCACAATATTGATGCATTGGTTA
320 T-CATGATTGGGCACCATAAAC-ATGTTATCTTCTTTGGGATGCACAATATTGATGCATTGGTTA
** * *
1210163 TGCAAGCAAAGTTTTTCTTGCCACTTATTTCCTTAAGGCAATGTACATTTTTCAAATAATACAAA
383 TGCAAG-AAAGTTTTTCTTGCCACTTATTTCCTTAAAACAAAGTACATTGTTCAAATAATACAAA
* * *
1210228 AATAGATTCCTGTAATAATCTCTATTTTTTTGTGATTAGGCAGCCAAAACACGTTCTCTTCATTG
447 AATAGATTCCTGTAATAATCACTATTTTTTTGTGATGAGGCAGCCAAAACACGCTCTCTTCATTG
* * ** * *
1210293 GGATGCATGATATTGATGCCTTGATTTTTGCAAGAAATGCTTTTGTTTCCACTACTATTTTAAAA
512 GGAAGCAAGATATTGACACCTTGATTTTAGCAAGAAATGCTTTTCTTTCCACTACTATTTTAAAA
* * *
1210358 TCAAAGTTTATCCCTTAAAGGAGACGAAG
577 TCAAAGTTTATCCCTGAAAAGAGAAGAAG
* * * *
1210387 ATGAATTCTCAT-ATGGATCTCCAAAATAC-C-TTCTATTCATTGGGACACATGATATTGATGTT
1 ATGGATTCTCATAAT-GATCTTCAAAA-ACACATTCTATTCATTAGGAAACATGATATTGATGTT
* * * *
1210449 TTGATTATATAAAAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTAAGTTCGTATGGCAACT
64 TTGATTATATAAGAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTGAGTTCGTATTG-AAAT
* * * * *
1210514 GAAACAAAGAAGGATTCTTATAACAATCTTCATTCTTTTCATGATTATGCAACCAAAACGCATTC
128 GAAACAAACATGGATTCTTATAATAATCTTCATTCTTTTCATGATTAGGCAACCAAAACACATTC
1210579 TCCTTATTGGGATACACAATATTAATGCTTTGATTTCATAAGAAAAGTTTTTTCTACACTATTTT
193 TCCTTATTGGGATACACAATATTAATGCTTTGATTTCATAAGAAAAGTTTTTTCT-CACTATTTT
* * * **
1210644 CCTTAGAATCAAAGTTTATGCCTTAACTGCGACAAACATCGATTTACGCAATAATCTCTATTCTT
257 CCTTAGAATCAAAGGTTATACCTTAA-TGAGACAAACAT-GATTTACGCAATAATCTCGGTTCTT
* *
1210709 TCATGAATT-GGCACAATAAACATGTTATCTTCTTTGGGATGCATAATATTGATGCATTGGTTAT
320 TCATG-ATTGGGCACCATAAACATGTTATCTTCTTTGGGATGCACAATATTGATGCATTGGTTAT
* * *
1210773 GTAAGAAAGGTTTTTCTTGCCACTTATTTCCTTAAAACAAAGTTCATATGTT-AAATAATATAAA
384 GCAAGAAA-GTTTTTCTTGCCACTTATTTCCTTAAAACAAAGTACAT-TGTTCAAATAATACAAA
* * * *
1210837 AATGGATTCTTGTAATAATCCCCACTTTTTTTTTGTGATGAGGCAGCCAAAACATGCTCTACTT-
447 AATAGATTCCTGTAATAAT---CACTATTTTTTTGTGATGAGGCAGCCAAAACACGCTCT-CTTC
*
1210901 ATTGGGAAGCAAGATATTGACACTTTGATTTTAGCAA-AAATGCTTTTCTTTCCACTACCT-TTT
508 ATTGGGAAGCAAGATATTGACACCTTGATTTTAGCAAGAAATGCTTTTCTTTCCACTA-CTATTT
* * *
1210964 TAAAATTAAGGTTTGTCCCTGAAAAGAGATAG-AG
572 TAAAATCAAAGTTTATCCCTGAAAAGAGA-AGAAG
**
1210998 ATGGATTCTTTTAATGATCTTCAAAAACACATTCTATTCATTAGGAAACATGATATTGATGTTTT
1 ATGGATTCTCATAATGATCTTCAAAAACACATTCTATTCATTAGGAAACATGATATTGATGTTTT
* * *
1211063 GATCATATATGAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTGAGTTCATATATGAAATGA
66 GATTATATAAGAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTGAGTTCGTAT-TGAAATGA
* * *
1211128 AACAAACATGGATTCTTATAATAATCTCCATTCTATTCTTGATTAGGCAACCAAAACACATTC-C
130 AACAAACATGGATTCTTATAATAATCTTCATTCTTTTCATGATTAGGCAACCAAAACACATTCTC
* * *
1211192 CTTTATTGGGATACACAAGATTAATGCTTTAATTTCATAAGAAAAGTTGTTTTCTCCACCATTTT
195 C-TTATTGGGATACACAATATTAATGCTTTGATTTCATAAGAAAAGTT-TTTTCT-CACTATTTT
* * * * *
1211257 CCTTAGAATAAAAGGTTATACCTTATGTGAGGCAAACATGCATTCACGCAATACTCTCGGTTCTT
257 CCTTAGAATCAAAGGTTATACCTTA-ATGAGACAAACATG-ATTTACGCAATAATCTCGGTTCTT
** * *
1211322 TCAATGATTGGGCACCATAAACACATTATCTTCATAGGGATGCACAATATTGATGCATTGGTTAT
320 TC-ATGATTGGGCACCATAAACATGTTATCTTCTTTGGGATGCACAATATTGATGCATTGGTTAT
** *
1211387 GCAAGAAAAGCCTTTCTTGCCTCTTATT
384 GCAAG-AAAGTTTTTCTTGCCACTTATT
1211415 GGAAAGCATG
Statistics
Matches: 891, Mismatches: 108, Indels: 55
0.85 0.10 0.05
Matches are distributed among these distances:
608 19 0.02
609 179 0.20
610 193 0.22
611 91 0.10
612 259 0.29
613 75 0.08
614 72 0.08
615 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (605 bp):
ATGGATTCTCATAATGATCTTCAAAAACACATTCTATTCATTAGGAAACATGATATTGATGTTTT
GATTATATAAGAAAAGCTTTTCTTGCCACAATTTTCCTTATAATTTGAGTTCGTATTGAAATGAA
ACAAACATGGATTCTTATAATAATCTTCATTCTTTTCATGATTAGGCAACCAAAACACATTCTCC
TTATTGGGATACACAATATTAATGCTTTGATTTCATAAGAAAAGTTTTTTCTCACTATTTTCCTT
AGAATCAAAGGTTATACCTTAATGAGACAAACATGATTTACGCAATAATCTCGGTTCTTTCATGA
TTGGGCACCATAAACATGTTATCTTCTTTGGGATGCACAATATTGATGCATTGGTTATGCAAGAA
AGTTTTTCTTGCCACTTATTTCCTTAAAACAAAGTACATTGTTCAAATAATACAAAAATAGATTC
CTGTAATAATCACTATTTTTTTGTGATGAGGCAGCCAAAACACGCTCTCTTCATTGGGAAGCAAG
ATATTGACACCTTGATTTTAGCAAGAAATGCTTTTCTTTCCACTACTATTTTAAAATCAAAGTTT
ATCCCTGAAAAGAGAAGAAG
Found at i:1211865 original size:511 final size:511
Alignment explanation
Indices: 1210897--1211925 Score: 1368
Period size: 511 Copynumber: 2.0 Consensus size: 511
1210887 AACATGCTCT
*
1210897 ACTTATTGGGAAGCAAGATATTGACACTTTGATTTTAGCAAAAATGCTTTTCTTTCCACTACCTT
1 ACTTATTGGAAAGCAAGATATTGACACTTTGATTTTAGCAAAAATGCTTTTCTTTCCACTACCTT
* * * * * * * *
1210962 TTTAAAATTAAGGTTTGTCCCTGAAAAGAGATAGAGATGGATTCTTTTAATGATCTTCAAAAACA
66 TTTAAAATCAAAGTTTGTCCCTGAAAAGAAACAAAGATGAATTCCTATAATGATCTTCAAAAACA
* * *
1211027 CATTCTATTCATTAGGAAACATGATATTGATGTTTTGATCATATATGAAAAGCTTTTCTTGCCAC
131 CATTCTATTCATTAGGAAACATGATATTGATGTTTTAATCATATAAGAAAAGCTTTTCTTACCAC
* * *
1211092 AATTTTCCTTATAATTTGAGTTCATATATGAAATGAAACAAACATGGATTCTTATAATAATCTCC
196 AATTTTCCTTAAAATTTGAGTTCATATATCAAATGAAACAAACATAGATTCTTATAATAATCTCC
* *
1211157 ATTCTATTCTTGATTAGGCAACCAAAACACATTCCCTTTATTGGGATACACAAGATTAATGCTTT
261 ATCCTATTCATGATTAGGCAACCAAAACACATTCCCTTTATTGGGATACACAAGATTAATGCTTT
* ** *
1211222 AATTTCATAAGAAAAGTTGTTTTCTCCACCATTTTCCTTAGAATAAAAGGTTATACCTTATGTGA
326 AATTTCATAAGAAAAGATGTTTTCTCCACCATTTTCCTTAGAATAAAAGGTTATACCTTAAATAA
* * * *
1211287 GGCAAACATGCATTCACGCAATACTCTCGGTTCTTTCAATGATTGGGCACCATAAACACATTATC
391 GACAAACATGCATTCACGCAATAATCCCCGTTCTTTCAATGATTGGGCACCATAAACACATTATC
*
1211352 TTCATAGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAAGCCTTTCTTGCC
456 TTCATAGGGATGCACAATATTGATGCATTAGTTATGCAAGAAAAGCCTTTCTTGCC
* * ** *
1211408 TCTTATTGGAAAGCATGATATTGATGCTTTGATTTTTGCAAGAAATGCTTTTCTTTCCACTA-CT
1 ACTTATTGGAAAGCAAGATATTGACACTTTGATTTTAGCAA-AAATGCTTTTCTTTCCACTACCT
* * * *
1211472 ATTTTAAAATCAAAGTTTGTCCCTTAAAAGAAACAAAGATGAATTCCTATATTTATC-TCCAAAA
65 -TTTTAAAATCAAAGTTTGTCCCTGAAAAGAAACAAAGATGAATTCCTATAATGATCTTCAAAAA
* * * *
1211536 CACATTCTATTCATTGGGATACATGATATTGATGTTTTAATTATATAAGAAAAGCTTTTTTTACC
129 CACATTCTATTCATTAGGAAACATGATATTGATGTTTTAATCATATAAGAAAAGCTTTTCTTACC
* * * *
1211601 ACGATTTTCCTTAAAATTTGAGTTCGTATGTCAAATGAAACAAACATAGATTCTTATATTAATCT
194 ACAATTTTCCTTAAAATTTGAGTTCATATATCAAATGAAACAAACATAGATTCTTATAATAATCT
* * * * * *
1211666 TCATCCTTTTCATGATTAGGCAACCAAAGCACATTCTCC-TTATTTGGATACACGATATTAATGC
259 CCATCCTATTCATGATTAGGCAACCAAAACACATTC-CCTTTATTGGGATACACAAGATTAATGC
* * * * *
1211730 TTTGATTTCATAGGAAAAGCAT-TTTTCTCCATCC-TTTTCCTTAGAATCAAAGTTTATATCTTA
323 TTTAATTTCATAAGAAAAG-ATGTTTTCTCCA-CCATTTTCCTTAGAATAAAAGGTTATACCTTA
* * * * *
1211793 AATAAGATAAACATGGATTTACGCAATAATCCCCGTTCTTTCAATGATTGGGCACCATATAGAC-
386 AATAAGACAAACATGCATTCACGCAATAATCCCCGTTCTTTCAATGATTGGGCACCATAAACACA
* * * * * **
1211857 TCTATCTTCTTTGGGATGCACAATATTTATGTATTAGTTATGCAAGTAAAGTTTTTCTTGCC
451 T-TATCTTCATAGGGATGCACAATATTGATGCATTAGTTATGCAAGAAAAGCCTTTCTTGCC
1211919 ACTTATT
1 ACTTATT
1211926 TCCTTAAAGC
Statistics
Matches: 445, Mismatches: 67, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
510 1 0.00
511 374 0.84
512 70 0.16
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (511 bp):
ACTTATTGGAAAGCAAGATATTGACACTTTGATTTTAGCAAAAATGCTTTTCTTTCCACTACCTT
TTTAAAATCAAAGTTTGTCCCTGAAAAGAAACAAAGATGAATTCCTATAATGATCTTCAAAAACA
CATTCTATTCATTAGGAAACATGATATTGATGTTTTAATCATATAAGAAAAGCTTTTCTTACCAC
AATTTTCCTTAAAATTTGAGTTCATATATCAAATGAAACAAACATAGATTCTTATAATAATCTCC
ATCCTATTCATGATTAGGCAACCAAAACACATTCCCTTTATTGGGATACACAAGATTAATGCTTT
AATTTCATAAGAAAAGATGTTTTCTCCACCATTTTCCTTAGAATAAAAGGTTATACCTTAAATAA
GACAAACATGCATTCACGCAATAATCCCCGTTCTTTCAATGATTGGGCACCATAAACACATTATC
TTCATAGGGATGCACAATATTGATGCATTAGTTATGCAAGAAAAGCCTTTCTTGCC
Found at i:1212745 original size:608 final size:610
Alignment explanation
Indices: 1211407--1213357 Score: 2731
Period size: 608 Copynumber: 3.2 Consensus size: 610
1211397 CCTTTCTTGC
* *
1211407 CTCTT-ATTGGAAAGCATGATATTGATGCTTTGATTTTTGCAAGAAATGCTTTTCTTTCCACTAC
1 CTCTTCATTGGAATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTAC
* * *
1211471 TATTTTAAAATCAAAGTTTGTCCCTTAAAAGAAACAAAGATGAATTCCTATATTTATCTCCAAAA
66 TATTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAAGATGAATTCTTATATTGATCTCCAAAA
* * *
1211536 CACATTCTATTCATTGGGATACATGATATTGATGTTTTAATTATATAAGAAAAGCTTTTTTTACC
131 CACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTATAT-AGAAAAGCTTTTCTTGCC
*
1211601 ACGATTTTCCTTAAAATTTGAGTTCGTATGTCAAATGAAACAAACATAGATTCTTATATTAATCT
195 ACGATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAACAAACATAGATTCTTATATTAATCT
*
1211666 TCATCCTTTTCATGATTAGGCAACCAAAGCACATTCTCCTTATTTGGATACACGATATTAATGCT
260 TCATCCTTTTCATGATTAGGCAACCAAAGCACATTCTCCTTATTCGGATACACGATATTAATGCT
1211731 TTGATTTCATAGGAAAAGCATTTTTCTCCATCCTTTTCCTTAGAATCAAAGTTTATATCTTAAAT
325 TTGATTTCATAGGAAAAGCATTTTTCTCCATCCTTTTCCTTAGAATCAAAGTTTATATCTTAAAT
* * *
1211796 AAGATAAACATGGATTTACGCAATAATCCCCGTTCTTTCAATGATTGGGCACCATATAGACTCTA
390 AAGATAAACATGCATTTACGCAATAATCTCCGTTCTTTCAATGATTGGGCACCATACAGACTCTA
* * *
1211861 TCTTCTTTGGGATGCACAATATTTATGTATTAGTTATGCAAGTAAAGTTTTTCTTGCCACTTATT
455 TCTTCTTTGGGATGCACAATATTGATGCATTGGTTATGCAAGTAAAGTTTTTCTTGCCACTTATT
*
1211926 TCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGATTCTTATAATAATCTCCATTGTA
520 TCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGATTCTTGTAATAATCTCCATTGTA
*
1211991 TTGTGATTAGGTAGCCAAAACATGCT
585 TTGTGATTAGGTAGCCAAAACACGCT
* * * * *
1212017 CTCTTCATT-GAGATGCATGGTATTAATGCTTTGATTTTCACGAGAAATGCTTTTCTTTCCCCTA
1 CTCTTCATTGGA-ATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTA
** * * * *
1212081 CCGTTTT-AATTCAAAGTTTGACCCTTAAAATAGATAAAGATGAATTCTCT-TATTGATCTCCAA
65 CTATTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAAGATGAATTCT-TATATTGATCTCCAA
* * * * *
1212144 AACACATTCTATCCAATGGGAAACATGATATTGATGTTTTGATCATAT-GAAAAGCTTTTCATGC
129 AACACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTATATAGAAAAGCTTTTCTTGC
* * * * *
1212208 CACAATTTTCCTTATAATTTGAGTTCATATGTCAAATGAAACAAATATGGATTCTTATAATAATC
194 CACGATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAACAAACATAGATTCTTATATTAATC
* * * *** * * * *
1212273 -TCTATTCTATTCAAGATTAGATGACCAAAGCACATTCCCCTTATTGGGATACACAAGATTAATG
259 TTC-ATCCTTTTCATGATTAGGCAACCAAAGCACATTCTCCTTATTCGGATACACGATATTAATG
* * ** * *
1212337 CTTTAATTTCATATG-AAAGGTTTGTTTCTCCA-CCGTTTTCCTTAGAATAAAAGTTTATACCTT
323 CTTTGATTTCATAGGAAAAGCATT-TTTCTCCATCC-TTTTCCTTAGAATCAAAGTTTATATCTT
** * ** * ** * * *
1212400 ATGTGAGGCAAGCATGCATTCGCGCAATAATCTCCTTTTTTTCAATGATTGGGCACTATA-AGCA
386 AAATAAGATAAACATGCATTTACGCAATAATCTCCGTTCTTTCAATGATTGGGCACCATACAG-A
* * * * *
1212464 CGT-TATCTTCATTGGGATGCACAATATTGATGCATTGGTTGTGCAAGAAAAGCTTTTCTTGCCT
450 C-TCTATCTTCTTTGGGATGCACAATATTGATGCATTGGTTATGCAAGTAAAGTTTTTCTTGCCA
* * * * *
1212528 CTTATTTCCTTAAAGCAAAGTTCATCCATCAAATAATAC-AAAAATGCTGTCTTGTAATAATCTC
514 CTTATTTCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGAT-TCTTGTAATAATCTC
* * *
1212592 CATT-TTTTGTGATTAGGCAGCCAAAACACGTT
578 CATTGTATTGTGATTAGGTAGCCAAAACACGCT
* * * * *
1212624 ATCTTCATTGGAATGGATGATATTGATGCTTTGATTTTTGTAAGAAATGCTTTTCTTTCCACGAC
1 CTCTTCATTGGAATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTAC
*
1212689 TATTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAAGATGAATTCTTATATTGATTTCCAAAA
66 TATTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAAGATGAATTCTTATATTGATCTCCAAAA
* *
1212754 CACATTCTATTCATTGGGATACATGATATTGATGTTCTGATTATATAAAAAAAGCTTTTCTTGCC
131 CACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTATAT-AGAAAAGCTTTTCTTGCC
* *
1212819 ACGATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAACAAACATAGATTCTTATATTAGTTT
195 ACGATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAACAAACATAGATTCTTATATTAATCT
* *
1212884 TCATCCTTTTCATGATTAGGCAACCAAAACGCATTCTCCTTATTCGGATACACGATATTAATGCT
260 TCATCCTTTTCATGATTAGGCAACCAAAGCACATTCTCCTTATTCGGATACACGATATTAATGCT
1212949 TTGATTTCATAGGAAAAGCATTTTTCTCCATCCTTTTTCCTTAGAATCAAAGTTTATATCTTAAA
325 TTGATTTCATAGGAAAAGCATTTTTCTCCATCC-TTTTCCTTAGAATCAAAGTTTATATCTTAAA
* * *
1213014 TAAGATAAACATGTATTTACGCAATAATCTCCGTTCTTTCAAAGATTAGGCACCATACAGACTCT
389 TAAGATAAACATGCATTTACGCAATAATCTCCGTTCTTTCAATGATTGGGCACCATACAGACTCT
* *
1213079 ATCTTCTTTGGGATGCATAATATTGATGCATTGGTTTTGCAAGTAAAGTTTTTCTTGCCACTTAT
454 ATCTTCTTTGGGATGCACAATATTGATGCATTGGTTATGCAAGTAAAGTTTTTCTTGCCACTTAT
* * *
1213144 TTCCTGAAAGCAAAGTTCATTCGTCAAAGAAGACAAAAAACGATTCTTGTAATAATCTCCATTGT
519 TTCCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGATTCTTGTAATAATCTCCATTGT
1213209 ATTGTGATTAGGTAGCCAAAACACGCT
584 ATTGTGATTAGGTAGCCAAAACACGCT
* * * **
1213236 CTCGTCATTGGGATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGTTTTTCTTTCCTTTAC
1 CTCTTCATTGGAATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTA-
* * * *
1213301 CT-TTTTAAAATAAAAGTTTGTCCCTTAAAAGAGACATAGACGAATTCTCATATTGAT
65 CTATTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAAGATGAATTCTTATATTGAT
1213358 GTTTTGATTA
Statistics
Matches: 1148, Mismatches: 171, Indels: 42
0.84 0.13 0.03
Matches are distributed among these distances:
607 100 0.09
608 420 0.37
609 1 0.00
610 240 0.21
611 246 0.21
612 139 0.12
613 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (610 bp):
CTCTTCATTGGAATGCATGATATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTAC
TATTTTAAAATCAAAGTTTGTCCCTTAAAAGAGACAAAGATGAATTCTTATATTGATCTCCAAAA
CACATTCTATTCATTGGGATACATGATATTGATGTTTTGATTATATAGAAAAGCTTTTCTTGCCA
CGATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAACAAACATAGATTCTTATATTAATCTT
CATCCTTTTCATGATTAGGCAACCAAAGCACATTCTCCTTATTCGGATACACGATATTAATGCTT
TGATTTCATAGGAAAAGCATTTTTCTCCATCCTTTTCCTTAGAATCAAAGTTTATATCTTAAATA
AGATAAACATGCATTTACGCAATAATCTCCGTTCTTTCAATGATTGGGCACCATACAGACTCTAT
CTTCTTTGGGATGCACAATATTGATGCATTGGTTATGCAAGTAAAGTTTTTCTTGCCACTTATTT
CCTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGATTCTTGTAATAATCTCCATTGTAT
TGTGATTAGGTAGCCAAAACACGCT
Found at i:1215474 original size:543 final size:542
Alignment explanation
Indices: 1214438--1215491 Score: 1592
Period size: 542 Copynumber: 1.9 Consensus size: 542
1214428 TTCGTAAGAA
1214438 ATGCTTTTGCTTCCACTACTATTTTAAAATCAAAGTTTGTCCCATAAAAGAGACAAAGATGAATT
1 ATGCTTTTGCTTCCACTACTATTTTAAAATCAAAGTTTGTCCCATAAAAGAGACAAAGATGAATT
* *
1214503 CTCATACTAATCTCCAAAATACATTCTATTCATTGGGACACATGATATTGATGTCTTGATTGTAT
66 CTCATACTAATCTCCAAAACACATTCTATTCATTGGGACACATGATATTGATGTCTTGATTATAT
* * *
1214568 AAGAAAAGCTTTTCTTGCCACGATTTTCATTATAATTTGACTTCGTATGTCAAATGAAACAAAAA
131 AAGAAAAGCTTTTCATGCCACGATTTTCATTATAATTTGACTTCGTACGTAAAATGAAACAAAAA
* *
1214633 ATGGATTCTTATATTAATCTTCATCCTTTTCATGATTAGGCAACCAAAACACATTCTCCTTATTG
196 ATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGACAACCAAAACACATTCTCCTTATTG
* *
1214698 GGATACACGAAATTAATGCTTTGATTTCATAAGTAAAGTTTTTTCTCCACCATTTTCCTTAGAAT
261 GGATACACGAAATTAATGCTTTGATTTCATAAGAAAAGATTTTTCTCCACCATTTTCCTTAGAAT
* * * *
1214763 CAAAGTTTATACCTTAACTGAAACAAACATGGGTTCACGCAATAATCTCTATTATTTCAATGATT
326 CAAAGTTTATACCTTAACTGAAACAAACATAGATTCACGCAATAATCTCCATTATATCAATGATT
** * *
1214828 GGGCACCATAAACATGTTATCTTCTTTGGGATGCACAATATTGATGCATTGGTTATGCAAGAAAA
391 GGGCACCATAAACACATTATCTTATTTGGGATGCAAAATATTGATGCATTGGTTATGCAAGAAAA
* *
1214893 GCTTTTCTTACCATTTATTTCCATAAAGTAAAGTTCATTCGTCAAGTAAGCCAAAACATGCTCTC
456 GCTTTTCTTACCATTTATTTCCATAAAGTAAAGTTCATTCGTCAAATAAGACAAAACATGCTCTC
1214958 TTCATTGGGATGCATGATATCG
521 TTCATTGGGATGCATGATATCG
* * * *
1214980 ATGCTTTT-CTTTCCACTACTTTTTTAAAATTAAAGTTTGTCCCATAAAAGAGACAAAGATTATT
1 ATGCTTTTGC-TTCCACTACTATTTTAAAATCAAAGTTTGTCCCATAAAAGAGACAAAGATGAAT
* * * * *
1215044 TCTCATATTGATCTCCAAAACACATTCTTTTCATTGGGATACATGATATTGATGTTTTGATTATA
65 TCTCATACTAATCTCCAAAACACATTCTATTCATTGGGACACATGATATTGATGTCTTGATTATA
* * *
1215109 TAAGAAAAGCTTTTCATGCCAC-ACTTTTCCTTATAATTTGAGTTCGTACGTAAAATGGAAC-AA
130 TAAGAAAAGCTTTTCATGCCACGA-TTTTCATTATAATTTGACTTCGTACGTAAAATGAAACAAA
** * * *
1215172 ATGTAGATTCTTATATTAATCTTCATCCTTTTCATGCTTAGATACCCAAAACACATTCTCCTTAT
194 AAATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGACAACCAAAACACATTCTCCTTAT
* * * ***
1215237 TGGGATATATGATTATTAATGCTTTGATTTCATAAGAAAAGCATTTTTCTCCATTGTTTTCCTTA
259 TGGGATACACGA-AATTAATGCTTTGATTTCATAAGAAAAG-ATTTTTCTCCACCATTTTCCTTA
* * ** * * *
1215302 GAATCAAAGTTTATACCTTAAGTGAGATTAACATAGATTTACGTAATAATCTCCATTCTATCAAT
322 GAATCAAAGTTTATACCTTAACTGAAACAAACATAGATTCACGCAATAATCTCCATTATATCAAT
*
1215367 GATTGGGCACCATAAACACATTATCTTATTTGGGATGGAAAATATTGATGCATTGGTTATGCAAG
387 GATTGGGCACCATAAACACATTATCTTATTTGGGATGCAAAATATTGATGCATTGGTTATGCAAG
*
1215432 AAAAGCTTTTCTTACCATTTATTTCCATAAAGTAAAGTTCATTGGTCAAATAAGACAAAA
452 AAAAGCTTTTCTTACCATTTATTTCCATAAAGTAAAGTTCATTCGTCAAATAAGACAAAA
1215492 AAAGTATTCT
Statistics
Matches: 457, Mismatches: 51, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
541 72 0.16
542 195 0.43
543 190 0.42
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (542 bp):
ATGCTTTTGCTTCCACTACTATTTTAAAATCAAAGTTTGTCCCATAAAAGAGACAAAGATGAATT
CTCATACTAATCTCCAAAACACATTCTATTCATTGGGACACATGATATTGATGTCTTGATTATAT
AAGAAAAGCTTTTCATGCCACGATTTTCATTATAATTTGACTTCGTACGTAAAATGAAACAAAAA
ATAGATTCTTATATTAATCTTCATCCTTTTCATGATTAGACAACCAAAACACATTCTCCTTATTG
GGATACACGAAATTAATGCTTTGATTTCATAAGAAAAGATTTTTCTCCACCATTTTCCTTAGAAT
CAAAGTTTATACCTTAACTGAAACAAACATAGATTCACGCAATAATCTCCATTATATCAATGATT
GGGCACCATAAACACATTATCTTATTTGGGATGCAAAATATTGATGCATTGGTTATGCAAGAAAA
GCTTTTCTTACCATTTATTTCCATAAAGTAAAGTTCATTCGTCAAATAAGACAAAACATGCTCTC
TTCATTGGGATGCATGATATCG
Found at i:1216060 original size:589 final size:591
Alignment explanation
Indices: 1214941--1216153 Score: 1585
Period size: 589 Copynumber: 2.1 Consensus size: 591
1214931 TCGTCAAGTA
* * *
1214941 AGCCAAAACATGCTCTCTTCATTGGGATGCATGATATCGATGCTTTTCTTTCCACTACTTTTTTA
1 AGCCAAAACATGCTCTCTTCATTGGGATGCATGATATCAATGCTTTTCTTTCCACTACCTTATTA
* * * * * **
1215006 AAATTAAAGTTTGTCCCATAAAAGAGACAAAGATTATTTCTCATATTGATCTCCAAAACACATTC
66 AAATCAAAATCTGTCCCATAAAAGAGACAAAGATGAATTCTCATAAAGATCTCCAAAACACATTC
*
1215071 TTTTCATTGGGATACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCATGCCACACTTT
131 TTTTCATTGAGATACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCATGCCACACTTT
* * * * *
1215136 TCCTTATAATTTGAGTTCGTACGTAAAATGGAACAAATGTAGATTCTTATATTAATCTTCATCCT
196 TCCTTATAATCTGAGTTCATACGTAAAATGAAACAAATATAGATTCTTATATAAATCTTCATCCT
* * * * * * *
1215201 TTTCATGCTTAGATACCCAAAACACATTCTCCTTATTGGGATATATGATTATTAATGCTTTGATT
261 TTTCATGATTAGACAACAAAAACACATTCTCCATATTGGGATACACGATTATTAATGCTTTGATT
* *** * * **
1215266 TCATAAGAAAAGCATTTTTCTCCATTGTTTTCCTTAGAATCAAAGTTTATACCTTAAGTGAGATT
326 TCATAAGAAAAGCATTTTTCACCACCATTTCCCTTAGAATCAAAGTTTATACCTTAACTGAGACA
**
1215331 AACATAGATTTACGTAATAATCTCCATTCTATCAATGATTGGGCACCATAAACACATTATCTTAT
391 AACATAGATTTACACAATAATCTCCATTCTATCAATGATTGGGCACCATAAACACATTATCTTAT
* * *
1215396 TTGGGATGGAAAATATTGATGCATTGGTTATGCAAGAAAAGCTTTTCTTACCATTTATTTCCATA
456 TTAGGATGCAAAATATTGACGCATTGGTTATGCAAGAAAAGCTTTTCTTACCATTTATTTCCATA
* *
1215461 AAGTAAAGTTCATTGGTCAAATAAGACAAAAAAAGTATTCTTGTAAAAATCTCCATTATATTGTG
521 AAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAG-ATTCTTGTAAAAATCTCCATTATATTGTG
1215526 ATCAGGT
585 ATCAGGT
*
1215533 AGCCAAAACATGCTCTCTTCATTGGGATGCATGATATTAATGCTTTTCTTTCCACTACCTTATTA
1 AGCCAAAACATGCTCTCTTCATTGGGATGCATGATATCAATGCTTTTCTTTCCACTACCTTATTA
** * **
1215598 AAATCAAAATCTGTCCCATAAAAGAGGTAAAGATGAATTCTCATAAAGATCTTCGTAACACATT-
66 AAATCAAAATCTGTCCCATAAAAGAGACAAAGATGAATTCTCATAAAGATCTCCAAAACACATTC
* * *
1215662 TTATTCATTGAGAT-GATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCCTG-CATGA-T
131 TT-TTCATTGAGATACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCATGCCA-CACT
* * * * *
1215724 TTTCCTTATGATCTGAGTTCATATGTCAATTGAAACAAATATGGATTCTTATA-AAAGTCTTCAT
194 TTTCCTTATAATCTGAGTTCATACGTAAAATGAAACAAATATAGATTCTTATATAAA-TCTTCAT
* * *
1215788 TCTTTTCATGATTAGGCAACAAAAACACATTCTCCATATTGGGATGCACGA-TATTAATGCTTTG
258 CCTTTTCATGATTAGACAACAAAAACACATTCTCCATATTGGGATACACGATTATTAATGCTTTG
**
1215852 ATTTCATAAGAAAAGTTTTTTTCACCACCATTTCCCTTAGAATCAAAGTTTATACCTTAACTGAG
323 ATTTCATAAGAAAAGCATTTTTCACCACCATTTCCCTTAGAATCAAAGTTTATACCTTAACTGAG
* * * * * * ** * * *
1215917 GCAAATATGGATTTACACAATAATCTCCGTTCTTTCACTGATTGGGTGCCATACAGACGTTATCT
388 ACAAACATAGATTTACACAATAATCTCCATTCTATCAATGATTGGGCACCATAAACACATTATCT
* * * * *
1215982 TCTTTAGGATGCACAATATTGACGCATTGGTTATGCAAGTAAAGTTTTTCTTGCCACTTT-TTTC
453 TATTTAGGATGCAAAATATTGACGCATTGGTTATGCAAGAAAAGCTTTTCTTACCA-TTTATTTC
* * * *
1216046 CTTAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAATGATTCTTGTAATAATCTCCATTGTATT
517 CATAAAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGATTCTTGTAAAAATCTCCATTATATT
*
1216111 GTGATTAGGT
582 GTGATCAGGT
** ** *
1216121 AGCCAAAACACACTCAATTCTTTGGGATGCATG
1 AGCCAAAACATGCTCTCTTCATTGGGATGCATG
1216154 GCATTGATGC
Statistics
Matches: 534, Mismatches: 83, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
588 61 0.11
589 209 0.39
590 98 0.18
591 43 0.08
592 123 0.23
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.37
Consensus pattern (591 bp):
AGCCAAAACATGCTCTCTTCATTGGGATGCATGATATCAATGCTTTTCTTTCCACTACCTTATTA
AAATCAAAATCTGTCCCATAAAAGAGACAAAGATGAATTCTCATAAAGATCTCCAAAACACATTC
TTTTCATTGAGATACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCATGCCACACTTT
TCCTTATAATCTGAGTTCATACGTAAAATGAAACAAATATAGATTCTTATATAAATCTTCATCCT
TTTCATGATTAGACAACAAAAACACATTCTCCATATTGGGATACACGATTATTAATGCTTTGATT
TCATAAGAAAAGCATTTTTCACCACCATTTCCCTTAGAATCAAAGTTTATACCTTAACTGAGACA
AACATAGATTTACACAATAATCTCCATTCTATCAATGATTGGGCACCATAAACACATTATCTTAT
TTAGGATGCAAAATATTGACGCATTGGTTATGCAAGAAAAGCTTTTCTTACCATTTATTTCCATA
AAGCAAAGTTCATTCGTCAAATAAGACAAAAAAAGATTCTTGTAAAAATCTCCATTATATTGTGA
TCAGGT
Found at i:1221184 original size:24 final size:24
Alignment explanation
Indices: 1221152--1221202 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1221142 TATCATCCTT
* * *
1221152 TCTCTCTCTATTATCTCTCCTATC
1 TCTCCCTCTATCATCTATCCTATC
*
1221176 TCTCCCTCTATCATCTATTCTATC
1 TCTCCCTCTATCATCTATCCTATC
1221200 TCT
1 TCT
1221203 ACTATCTCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.37, G:0.00, T:0.49
Consensus pattern (24 bp):
TCTCCCTCTATCATCTATCCTATC
Found at i:1221241 original size:42 final size:42
Alignment explanation
Indices: 1221141--1221253 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
1221131 TCTCCTTCTC
* * *
1221141 CTATCATCCTTTCTCTCTCTATTATCTCTCCTATCTCTCCCT
1 CTATCATCCATTCTATCTCTACTATCTCTCCTATCTCTCCCT
* *
1221183 CTATCATCTATTCTATCTCTACTATCTCTCTTATCTCT-CCT
1 CTATCATCCATTCTATCTCTACTATCTCTCCTATCTCTCCCT
* * * *
1221224 CATATCATCCCTCCTATCTCTTCTTTCTCT
1 C-TATCATCCATTCTATCTCTACTATCTCT
1221254 TTGAGGGATA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 4 0.07
42 56 0.93
ACGTcount: A:0.14, C:0.38, G:0.00, T:0.48
Consensus pattern (42 bp):
CTATCATCCATTCTATCTCTACTATCTCTCCTATCTCTCCCT
Found at i:1223988 original size:587 final size:589
Alignment explanation
Indices: 1222868--1224026 Score: 1646
Period size: 587 Copynumber: 2.0 Consensus size: 589
1222858 GGTTCTCATC
* * * * * ** *
1222868 AAAATCAATGTTTGTCCCTTAAAATAGACGAAGATGAATTCTCATATTGATCTCCAAAATAGATT
1 AAAATCAAAGGTTGTCCCATAAAAGAGACAAAGATGAATTCTCATAAAGATCTCCAAAATACATT
1222933 CTATTCATTCGGATACTGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCGTGCCATGATTT
66 CTATTCATTCGGATACTGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCGTGCCATGATTT
* *
1222998 TCCTTATAATTTGAGTTCATATGTCAAATGAAACAAACATGGAGTTTTTATAATAATCTTAATTC
131 TCCTTATAATTTGAGTTCATATGTCAAAAGAAACAAACATGGAGTTCTTATAATAATCTTAATTC
* *
1223063 TTTTCATGATTAGGCAACCAAAACACATTCGCCTTATTGGGATACATAAGATTAATGCTTTGATT
196 TTTTCATGATTAGGCAACCAAAACACATTCGCCATATTGGGATACACAAGATTAATGCTTTGATT
* * * * *
1223128 TCATAGGAAAAGCATTTTTCTCCATCGTTTTCCTTAGAATCAAAGTTTATACCTTAAATGAGATA
261 TCATAAGAAAAGCATTTTTCTCCACCGTTTTCCTTAAAATCAAAGTTTATACCTTAAATAAGACA
* * *
1223193 AACATGGATTTATGCAATAATCTTCATTCTTTCAATGATTGGGCACCATAAACACGTTATCTTCT
326 AACATGGATTTATGCAATAATCTCCATTCCTTCAATGATTGGGCACCATAAACACGCTATCTTCT
* *
1223258 TTGGGATGCACAATATTGACACATTAGTTATGCAAGAAAAGCTTTTCTTACCATTTATTTCATTA
391 TTGGGATGCACAATATTGACACATTAGTTATGCAAGAAAAGCTTTTCTTACCACTTATTTCACTA
* * ** * *
1223323 AAGCAAAGTTTATTCATCAAATAAGACAAAAAAGGATTGTTGTAATAATCTCCACTATATTGTGA
456 AAACAAAGTTCATTCATCAAATAAGACAAAAAAAAATTCTCGTAATAATCTCCACTATATTGTGA
*
1223388 TTAGGCAGCCAAAACACGCTCTCTTCATTGGGATGCATGATACTGATGCTTTTCTGTCCATTACC
521 TTAGGCAGCCAAAACACACTCTCTTCATTGGGATGCATGATACTGATG-TTTTCTGTCCATTACC
1223453 ATTTT
585 ATTTT
* ** *
1223458 AAAATCAAAGGTTGTCCCATAAAAGAGATAAAGATGAATTCTCATAAAGATCTCGGTAACT-CAT
1 AAAATCAAAGGTTGTCCCATAAAAGAGACAAAGATGAATTCTCATAAAGATCTC-CAAAATACAT
* * *
1223522 TCTATTCATTGGGATACATTATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTG-CATGAT
65 TCTATTCATTCGGATAC-TGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCGTGCCATGAT
* * *
1223586 TTTCCTTATAATTTGAGTTCGTATGTCAAAAGAAACAAACATGGA-TTCTTGTAA-AATCTTCAT
129 TTTCCTTATAATTTGAGTTCATATGTCAAAAGAAACAAACATGGAGTTCTTATAATAATCTTAAT
* * * *
1223649 TCTTTTCATGATTAGGCAACCAAAACACATTCTCCATATTGGGATGCACGATATTAATGCTTTGA
194 TCTTTTCATGATTAGGCAACCAAAACACATTCGCCATATTGGGATACACAAGATTAATGCTTTGA
* * * *
1223714 TTTCATAAGAAAAGCTTTTTTCTCTACCGTTTTCCTTAAAATCAAAGTTTATGCCTTAACTAAG-
259 TTTCATAAGAAAAGCATTTTTCTCCACCGTTTTCCTTAAAATCAAAGTTTATACCTTAAATAAGA
* * * * *
1223778 CAAATATGGATTTGTGCAATAATCTCCATTCCTTCAATGATTGGGTACCATACAGACGCTATCTT
324 CAAACATGGATTTATGCAATAATCTCCATTCCTTCAATGATTGGGCACCATAAACACGCTATCTT
* * * * *
1223843 TTTTGGGATGCACAATATTGACGCATTGGTTATGCAAGAAAAGTTTTTCTTGCCACTTATTTC-C
389 CTTTGGGATGCACAATATTGACACATTAGTTATGCAAGAAAAGCTTTTCTTACCACTTATTTCAC
* * * * *
1223907 TAAAACAAAAGTTCATTCGTCGAATAAGATAAAAAAAAATTCTCGTAATAATCTCCATTGTATTG
454 TAAAAC-AAAGTTCATTCATCAAATAAGACAAAAAAAAATTCTCGTAATAATCTCCACTATATTG
** * *
1223972 TGATTAGGTTGCCAAAACACACTCTCTTCATTGGGATGCATGTTATTGATGTTTT
518 TGATTAGGCAGCCAAAACACACTCTCTTCATTGGGATGCATGATACTGATGTTTT
1224027 GATTTTCGCA
Statistics
Matches: 500, Mismatches: 66, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
586 9 0.02
587 207 0.41
588 123 0.25
589 7 0.01
590 113 0.23
591 41 0.08
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (589 bp):
AAAATCAAAGGTTGTCCCATAAAAGAGACAAAGATGAATTCTCATAAAGATCTCCAAAATACATT
CTATTCATTCGGATACTGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCGTGCCATGATTT
TCCTTATAATTTGAGTTCATATGTCAAAAGAAACAAACATGGAGTTCTTATAATAATCTTAATTC
TTTTCATGATTAGGCAACCAAAACACATTCGCCATATTGGGATACACAAGATTAATGCTTTGATT
TCATAAGAAAAGCATTTTTCTCCACCGTTTTCCTTAAAATCAAAGTTTATACCTTAAATAAGACA
AACATGGATTTATGCAATAATCTCCATTCCTTCAATGATTGGGCACCATAAACACGCTATCTTCT
TTGGGATGCACAATATTGACACATTAGTTATGCAAGAAAAGCTTTTCTTACCACTTATTTCACTA
AAACAAAGTTCATTCATCAAATAAGACAAAAAAAAATTCTCGTAATAATCTCCACTATATTGTGA
TTAGGCAGCCAAAACACACTCTCTTCATTGGGATGCATGATACTGATGTTTTCTGTCCATTACCA
TTTT
Found at i:1224825 original size:453 final size:451
Alignment explanation
Indices: 1223871--1224771 Score: 1260
Period size: 453 Copynumber: 2.0 Consensus size: 451
1223861 TGACGCATTG
* *
1223871 GTTATGCAAGAAAAGTTTTTCTTGCCACTTATTTCC-TAAAACAAAAGTTCATTCGTCGAATAAG
1 GTTAT-CAAGAAAAG-CTTTCTTGCCACTTATTTCCTTAAAGC-AAAGTTCATTCGTCGAATAAG
* * *
1223935 ATAAAAAAAAATTCTCGTAATAATCTCCATTGTATTGTGATTAGGTTGCCAAAACACACTCTCTT
63 ACAAAAAAAAATTCTCGTAATAATCTCCATTGTATTGTGATTAGGTAGCCAAAACACACTCACTT
* ** *
1224000 CATTGGGATGCATGTTATTGATGTTTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTACCCTTT
128 CATTAGGATGCATGACATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTACCCTTT
* *
1224065 TAAAATCAATGTTTGCCCCTTAAAAGAGACAATGATGGATTCTCACAATGATCTGTAAAAACACA
193 TAAAATCAATGTTTGCCCCTTAAAAGAGACAAAGATGGATTCTCACAATGATCTGCAAAAACACA
* * * *
1224130 ATCTCTTCATTAAGATGCATGATACTGATGTTTTGTTTATATAAGAAAAACTTTTCTTGTCACAG
258 ATCTATTCATTAAGATACATGATACTGATGTTTTGATTATATAAGAAAAACTTTTCTTGCCACAG
* * *
1224195 TTTTCCTTATAATTTGAGCTCGTATGTCAAATGAAACAAACATTGATTCTTATAATAATGTTCAT
323 TTTTCCTTATAATTTGAGCTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCAA
* * * * * * * *
1224260 TCTTTTCATGATTGGGCACAAAAAACACGTTATCTTCTTTGGGATGCACAATATTGATGCACTA
388 TCTTTTCATGATTAGGCACAAAAAACACATTACCTTCATTAGGATACACAAGATTAATGCACTA
*
1224324 GTTATGCAAGAAAAGCTTTCCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTTGTC-AAGTAAG
1 GTTAT-CAAGAAAAGCTTT-CTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCGTCGAA-TAAG
* *
1224388 ACAAAAAAAGATT-TCTGTAATAATCTCCATTGTATTGTGATTAGGTAGCCAAAACACGCTCACT
63 ACAAAAAAAAATTCTC-GTAATAATCTCCATTGTATTGTGATTAGGTAGCCAAAACACACTCACT
*
1224452 TTATTAGGATGCATGACATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTACCCTT
127 TCATTAGGATGCATGACATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTACCCTT
* * * *
1224517 TTAAAATCATTGTTTGCCCCTTAAAAGAGACAAAGAT-GAGTTCTCATATTGATC-GCCAAAACA
192 TTAAAATCAATGTTTGCCCCTTAAAAGAGACAAAGATGGA-TTCTCACAATGATCTGCAAAAACA
* ** * *
1224580 CATTCTATTCATTGGGATACATGATATTGATGTTTTGATTATATAAGAAAAGCTTTTCTTGCCAC
256 CAATCTATTCATTAAGATACATGATACTGATGTTTTGATTATATAAGAAAAACTTTTCTTGCCAC
*
1224645 -GATTTTCCTTATAATTTGAGTTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTT
321 AG-TTTTCCTTATAATTTGAGCTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTT
* * *
1224709 CAATCTTTTCTTGATTAGGCA-ACCAAAACACATTCCCCTT-ATTAGGATACACAAGATTAATGC
385 CAATCTTTTCATGATTAGGCACA-AAAAACACATT-ACCTTCATTAGGATACACAAGATTAATGC
1224772 TTTGATTTTA
Statistics
Matches: 397, Mismatches: 43, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
451 2 0.01
452 176 0.44
453 214 0.54
454 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (451 bp):
GTTATCAAGAAAAGCTTTCTTGCCACTTATTTCCTTAAAGCAAAGTTCATTCGTCGAATAAGACA
AAAAAAAATTCTCGTAATAATCTCCATTGTATTGTGATTAGGTAGCCAAAACACACTCACTTCAT
TAGGATGCATGACATTGATGCTTTGATTTTCGCAAGAAATGCTTTTCTTTCCACTACCCTTTTAA
AATCAATGTTTGCCCCTTAAAAGAGACAAAGATGGATTCTCACAATGATCTGCAAAAACACAATC
TATTCATTAAGATACATGATACTGATGTTTTGATTATATAAGAAAAACTTTTCTTGCCACAGTTT
TCCTTATAATTTGAGCTCGTATGTCAAATGAAACAAACATGGATTCTTATAATAATCTTCAATCT
TTTCATGATTAGGCACAAAAAACACATTACCTTCATTAGGATACACAAGATTAATGCACTA
Found at i:1233833 original size:79 final size:79
Alignment explanation
Indices: 1233711--1233916 Score: 236
Period size: 79 Copynumber: 2.6 Consensus size: 79
1233701 GAGATAATAA
* * * * * *
1233711 CGGGGTTGGAGTATCCCCTTGAAAAT-ATGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATA-
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAT
*
1233774 ATTAGGAAATAAAAT
66 ATTA-GAAATAAAAC
* * * * *
1233789 CGGGATTGGAGTATCCGCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAT
* *
1233854 TTTAGAAATAAAGC
66 ATTAGAAATAAAAC
* **
1233868 CGGGGTTGGAGTATCCCCTCAGAGGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
1233917 GAATTAACGA
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
78 22 0.21
79 81 0.76
80 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAT
ATTAGAAATAAAAC
Found at i:1233908 original size:28 final size:28
Alignment explanation
Indices: 1233868--1233939 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
1233858 GAAATAAAGC
*
1233868 CGGGGTTGGAGTATCCCCTCA-GAGGTAA
1 CGGGGTTGGAGTATCCCC-CATGAAGTAA
* *
1233896 CGGGGTTGGAGTATCCCCGATGAATTAA
1 CGGGGTTGGAGTATCCCCCATGAAGTAA
*
1233924 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1233940 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAGTAA
Found at i:1233933 original size:107 final size:107
Alignment explanation
Indices: 1233789--1234204 Score: 375
Period size: 107 Copynumber: 3.9 Consensus size: 107
1233779 GAAATAAAAT
* * * *
1233789 CGGGATTGGAGTATCCGCTCG-GAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATTAAT-
1 CGGGATTGGAGTATCC-C-CGAGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAATG
* * *
1233852 ATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAGAGGTAA
64 TTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAGAGGTAA
* * * *
1233896 CGGGGTTGGAGTATCCCCGATGAATTAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGATGT
1 CGGGATTGGAGTATCCCCGA-GAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAATGT
* * *
1233961 TTTTGGAAATAAAATCGGAGTTGGAGTAT-CCC-C-GA-TTAA
65 TTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAGAGGTAA
* * * * *** * * *
1234000 AGGAAATTTG-GT-GCTTTGA-AAATAAAACTGGGGTTGGAGTATCCCCGATTGTGGAAAATTAG
1 CGG-GATTGGAGTATCCCCGAGAAAT--AAC-GAGGTTGGAGTATCCCCGATTGTGAAAAATTAA
* * * *
1234062 TG-TTTTAGAAATAAAGCCAGCGTTAGAGTATCCCCTCAGAGGTAA
62 TGTTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAGAGGTAA
* * * **
1234107 CGGGGTTGGAGTATCCCGGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGT
1 CGGGATTGGAGTATCCCCGA-GAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAATGT
* *
1234172 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
65 TTTTAGAAATAAAACCGGAGTTGGAGTATCCCC
1234205 GATTAAAGGA
Statistics
Matches: 240, Mismatches: 53, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
101 3 0.01
103 29 0.12
104 40 0.17
105 8 0.03
106 7 0.03
107 91 0.38
108 58 0.24
110 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (107 bp):
CGGGATTGGAGTATCCCCGAGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTT
TTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAGAGGTAA
Done.