Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold446
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: 3567220
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 22
Found at i:1162629 original size:22 final size:20
Alignment explanation
Indices: 1162604--1162677 Score: 80
Period size: 22 Copynumber: 3.6 Consensus size: 20
1162594 AGATTTGACA
1162604 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAAT-CTTT-ATT
1162626 AAGGGGGAGAAAT-TTT-TT
1 AAGGGGGAGAAATCTTTATT
* *
1162644 AAAGGAGAGAAATTCTTTAATT
1 AAGGGGGAGAAA-TCTTT-ATT
1162666 AAGGGGGAGAAA
1 AAGGGGGAGAAA
1162678 AACGAAAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 12 0.27
19 1 0.02
20 6 0.14
22 25 0.57
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (20 bp):
AAGGGGGAGAAATCTTTATT
Found at i:1163308 original size:20 final size:20
Alignment explanation
Indices: 1163282--1163335 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
1163272 CTACCACTGT
1163282 TTGTATCGATACATGGTAT-AA
1 TTGTATCGATACAT-G-ATGAA
1163303 -TGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
1163322 TTGTATCGATACAT
1 TTGTATCGATACAT
1163336 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.06
19 3 0.10
20 26 0.84
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1168234 original size:18 final size:18
Alignment explanation
Indices: 1168204--1168250 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1168194 ATCTTCTTCT
1168204 CTCCTC-CTCCTATCATCC
1 CTCCTCTCT-CTATCATCC
* *
1168222 CTCCTCTCTCTATTATCT
1 CTCCTCTCTCTATCATCC
*
1168240 CTCCTATCTCT
1 CTCCTCTCTCT
1168251 TCTCCTATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.11, C:0.47, G:0.00, T:0.43
Consensus pattern (18 bp):
CTCCTCTCTCTATCATCC
Found at i:1168247 original size:9 final size:9
Alignment explanation
Indices: 1168235--1168295 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 9
1168225 CTCTCTCTAT
1168235 TATCTCTCC
1 TATCTCTCC
1168244 TATCTCTTCTCC
1 TA--TC-TCTCC
*
1168256 TATCATCCCTCT
1 TATC-T--CTCC
*
1168268 TATCTCTAC
1 TATCTCTCC
1168277 TATCTCTCC
1 TATCTCTCC
1168286 TATCTCTCC
1 TATCTCTCC
1168295 T
1 T
1168296 CTTTTCATCC
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
9 22 0.52
10 3 0.07
11 3 0.07
12 14 0.33
ACGTcount: A:0.13, C:0.41, G:0.00, T:0.46
Consensus pattern (9 bp):
TATCTCTCC
Found at i:1168309 original size:42 final size:42
Alignment explanation
Indices: 1168207--1168325 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
1168197 TTCTTCTCTC
* * *
1168207 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCTTATCTCTACTATCTCTCCTATCT
*
1168249 CTTCTCCTATCATCCCTCTTATCTCTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCTTATCTCTACTATCTCTCCTATCT
* * * * *
1168291 CTCCTCTTTTCATCCCTCTTAGCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCTTATCTCTACTATCTCT
1168326 TTGAAGGCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.11, C:0.42, G:0.01, T:0.46
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCTTATCTCTACTATCTCTCCTATCT
Found at i:1170364 original size:26 final size:27
Alignment explanation
Indices: 1170335--1170388 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
1170325 TTCTTAATTG
* *
1170335 AAAATCTTTT-ATAAGGA-TTTTTAAT
1 AAAAACTTTTCATAAGGACTTTTCAAT
*
1170360 AAAAACTTTTCTTAAGGACTTTTCAAT
1 AAAAACTTTTCATAAGGACTTTTCAAT
1170387 AA
1 AA
1170389 GGATTTCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 9 0.38
26 6 0.25
27 9 0.38
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (27 bp):
AAAAACTTTTCATAAGGACTTTTCAAT
Found at i:1170533 original size:26 final size:26
Alignment explanation
Indices: 1170477--1170534 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
1170467 AGAAAAACTT
* * *
1170477 TCAAAGCCTCTTTTAAAGATATTTTA
1 TCAAAACCTCTCTTAAAGATATTTCA
* *
1170503 GCAAAACCTCTCTTAAGGATATTTCA
1 TCAAAACCTCTCTTAAAGATATTTCA
1170529 TCAAAA
1 TCAAAA
1170535 ATTTTCGAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (26 bp):
TCAAAACCTCTCTTAAAGATATTTCA
Found at i:1170642 original size:36 final size:36
Alignment explanation
Indices: 1170567--1170762 Score: 116
Period size: 36 Copynumber: 5.5 Consensus size: 36
1170557 ACATATCATC
* ** *
1170567 AAAACTTCCAAAGCCTTTATCGAGGATATTT-TAGT-A
1 AAAACTTCCAAAGCCTTTCTTAAAGATATTTCT--TCA
* * *
1170603 AAAACTTCTAAAGTCTTTCTTAAAGATCTTTCTTCA
1 AAAACTTCCAAAGCCTTTCTTAAAGATATTTCTTCA
**
1170639 AAAACTTCCAAAGCCTTTCTTAAAGATATTTCAGC-
1 AAAACTTCCAAAGCCTTTCTTAAAGATATTTCTTCA
* * * * ** * * * *
1170674 AAAACCTCCAAAACCTCTATGGAGGATGTTTCATAA
1 AAAACTTCCAAAGCCTTTCTTAAAGATATTTCTTCA
* * *
1170710 AAAACTT-CAAAACCTCTCTTAAAGATGTTTCGTT-A
1 AAAACTTCCAAAGCCTTTCTTAAAGATATTTC-TTCA
*
1170745 AAAACTTTCAAAG-CTTTC
1 AAAACTTCCAAAGCCTTTC
1170763 CTTTTGGATA
Statistics
Matches: 125, Mismatches: 30, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
35 58 0.46
36 66 0.53
37 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (36 bp):
AAAACTTCCAAAGCCTTTCTTAAAGATATTTCTTCA
Found at i:1170700 original size:107 final size:105
Alignment explanation
Indices: 1170566--1170762 Score: 245
Period size: 107 Copynumber: 1.9 Consensus size: 105
1170556 GACATATCAT
* * * * ** *
1170566 CAAAACTTCCAAAGCCTTTATCGAGGATATTTTAGT-AAAAACTTCTAAAGTCTTTCTTAAAGAT
1 CAAAACCTCCAAAACCTCTATCGAGGATATTTCA-TAAAAAACTTC-AAAACCTCTCTTAAAGAT
1170630 CTTTC-TTCAAAAACTTCCAAAGCCTTTCTTAAAGATATTTCAG
64 CTTTCGTT-AAAAACTTCCAAAG-CTTTCTTAAAGATATTTCAG
* * *
1170673 CAAAACCTCCAAAACCTCTATGGAGGATGTTTCATAAAAAACTTCAAAACCTCTCTTAAAGATGT
1 CAAAACCTCCAAAACCTCTATCGAGGATATTTCATAAAAAACTTCAAAACCTCTCTTAAAGATCT
*
1170738 TTCGTTAAAAACTTTCAAAGCTTTC
66 TTCGTTAAAAACTTCCAAAGCTTTC
1170763 CTTTTGGATA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
105 5 0.06
106 33 0.43
107 39 0.51
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.33
Consensus pattern (105 bp):
CAAAACCTCCAAAACCTCTATCGAGGATATTTCATAAAAAACTTCAAAACCTCTCTTAAAGATCT
TTCGTTAAAAACTTCCAAAGCTTTCTTAAAGATATTTCAG
Found at i:1170737 original size:35 final size:35
Alignment explanation
Indices: 1170602--1170756 Score: 121
Period size: 35 Copynumber: 4.3 Consensus size: 35
1170592 ATATTTTAGT
** * * *
1170602 AAAAACTTCTAAAGTCTTTCTTAAAGATCTTTCTTC
1 AAAAACTTC-AAAACCTCTCTTAAAGATGTTTCATC
* * * *
1170638 AAAAACTTCCAAAGCCTTTCTTAAAGATATTTCAGC
1 AAAAACTT-CAAAACCTCTCTTAAAGATGTTTCATC
* * * ** * *
1170674 AAAACCTCCAAAACCTCTATGGAGGATGTTTCATA
1 AAAAACTTCAAAACCTCTCTTAAAGATGTTTCATC
* *
1170709 AAAAACTTCAAAACCTCTCTTAAAGATGTTTCGTT
1 AAAAACTTCAAAACCTCTCTTAAAGATGTTTCATC
1170744 AAAAACTTTCAAA
1 AAAAAC-TTCAAA
1170757 GCTTTCCTTT
Statistics
Matches: 94, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
35 51 0.54
36 42 0.45
37 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (35 bp):
AAAAACTTCAAAACCTCTCTTAAAGATGTTTCATC
Found at i:1170855 original size:36 final size:36
Alignment explanation
Indices: 1170683--1170988 Score: 137
Period size: 36 Copynumber: 8.7 Consensus size: 36
1170673 CAAAACCTCC
* * * *
1170683 AAAACCTCTATGGAGGATGTTTCATAAAAAAC-TTC
1 AAAACCTCTCTTGAGGATGTTTCATTAAAAACTTTT
* * *
1170718 AAAACCTCTCTTAAAGATGTTTCGTTAAAAAC-TTT
1 AAAACCTCTCTTGAGGATGTTTCATTAAAAACTTTT
* * * ** * * *
1170753 CAAAGCTTTCCTTTTGGATATTTCA--ACAAGACCTTT
1 AAAACCTCT-CTTGAGGATGTTTCATTA-AAAACTTTT
* ** *
1170789 AAATA-CTTTCTTGAGGACATTTTATTAAAAACTTTT
1 AAA-ACCTCTCTTGAGGATGTTTCATTAAAAACTTTT
* * **
1170825 AAAACCTCTCTTGAGGATGTTTCATCAAAAAATTCC
1 AAAACCTCTCTTGAGGATGTTTCATTAAAAACTTTT
* ** * *
1170861 AAAGCAACTCTTGAGGATGTTTTATTAAAAACTTCT
1 AAAACCTCTCTTGAGGATGTTTCATTAAAAACTTTT
* * * * * * *
1170897 AAAGCCTCTATTAAGGATATTTC---AATAACATCT
1 AAAACCTCTCTTGAGGATGTTTCATTAAAAACTTTT
* * *
1170930 AAAACCACTTTTGGGGATG-TTCATTAAAAA-TTTT
1 AAAACCTCTCTTGAGGATGTTTCATTAAAAACTTTT
* * *
1170964 CAAAGCCTCTCTTAAGGATATTTCA
1 -AAAACCTCTCTTGAGGATGTTTCA
1170989 AAAACTTCCA
Statistics
Matches: 198, Mismatches: 61, Indels: 23
0.70 0.22 0.08
Matches are distributed among these distances:
32 3 0.02
33 21 0.11
34 3 0.02
35 67 0.34
36 102 0.52
37 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (36 bp):
AAAACCTCTCTTGAGGATGTTTCATTAAAAACTTTT
Found at i:1171001 original size:33 final size:33
Alignment explanation
Indices: 1170887--1171002 Score: 88
Period size: 33 Copynumber: 3.5 Consensus size: 33
1170877 ATGTTTTATT
*
1170887 AAAAACTTCTAAAGCCTCTATTAAGGATATTTC
1 AAAAACTTCCAAAGCCTCTATTAAGGATATTTC
* * * * * * ** * *
1170920 AATAACATCTAAAACCACTTTTGGGGATGTTCATT
1 AAAAACTTCCAAAGCCTCTATTAAGGATATT--TC
* * *
1170955 AAAAATTTTCAAAGCCTCTCTTAAGGATATTTC
1 AAAAACTTCCAAAGCCTCTATTAAGGATATTTC
1170988 AAAAACTTCCAAAGC
1 AAAAACTTCCAAAGC
1171003 TTTTTTTGAG
Statistics
Matches: 58, Mismatches: 23, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
33 37 0.64
35 21 0.36
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (33 bp):
AAAAACTTCCAAAGCCTCTATTAAGGATATTTC
Found at i:1171010 original size:68 final size:69
Alignment explanation
Indices: 1170812--1171002 Score: 190
Period size: 68 Copynumber: 2.7 Consensus size: 69
1170802 AGGACATTTT
* * * * *
1170812 ATTAAAAACTTTT-AAAACCTCTCTTGAGGATGTTTCATCAAAAAATTCCAAAGCAACTCTTGAG
1 ATTAAAAA-TTTTCAAAGCCTCTCTTAAGGAT-ATT--TCAAAAACTTCCAAAGCAACTTTTGAG
*
1170876 GATGTTTT
62 GATGTTTC
* * * * * * * *
1170884 ATTAAAAA-CTTCTAAAGCCTCTATTAAGGATATTTCAATAACATCTAAAACCACTTTTGGGGAT
1 ATTAAAAATTTTC-AAAGCCTCTCTTAAGGATATTTCAAAAACTTCCAAAGCAACTTTTGAGGAT
1170948 G-TTC
65 GTTTC
1170952 ATTAAAAATTTTCAAAGCCTCTCTTAAGGATATTTCAAAAACTTCCAAAGC
1 ATTAAAAATTTTCAAAGCCTCTCTTAAGGATATTTCAAAAACTTCCAAAGC
1171003 TTTTTTTGAG
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
68 43 0.45
69 26 0.27
70 2 0.02
71 2 0.02
72 23 0.24
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (69 bp):
ATTAAAAATTTTCAAAGCCTCTCTTAAGGATATTTCAAAAACTTCCAAAGCAACTTTTGAGGATG
TTTC
Found at i:1171119 original size:23 final size:23
Alignment explanation
Indices: 1171090--1171153 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
1171080 AGAATACCCA
* * *
1171090 AAAAGCCTCTTTTGAGGCATTTC
1 AAAAGCCTCTTTTAAGGAATTCC
1171113 AAAAGCCTCTTTTAAGGAATTCC
1 AAAAGCCTCTTTTAAGGAATTCC
* *
1171136 AAAATCCTCTTTCAAGGA
1 AAAAGCCTCTTTTAAGGA
1171154 TATTTCATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (23 bp):
AAAAGCCTCTTTTAAGGAATTCC
Found at i:1171788 original size:15 final size:15
Alignment explanation
Indices: 1171746--1171788 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
1171736 CCCTATGTTC
1171746 TTATTTAATTA-A-T
1 TTATTTAATTATATT
* *
1171759 TTATTTAAGTCTATT
1 TTATTTAATTATATT
1171774 TTATTTAATTATATT
1 TTATTTAATTATATT
1171789 AGGTCATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 9 0.38
14 1 0.04
15 14 0.58
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATTTAATTATATT
Found at i:1171915 original size:116 final size:116
Alignment explanation
Indices: 1171673--1171916 Score: 280
Period size: 116 Copynumber: 2.1 Consensus size: 116
1171663 AGCTAAGGTA
* ** *
1171673 AAGTCGTAAATTATTTAATTTAAGGCCAAGTATTATAAAAAATATATTTTAGATAAAAATAAGCC
1 AAGTCATAAATTATTTAATTTAAGGCCAAGTATTATAAAAAATATACATTAAATAAAAATAAGCC
* ** * *
1171738 CTATGTTCTTATTTAATTAATTTATTTAAGTCTATTTTATTTAATTATATT
66 CTAAGAGCTTATTTAATTAATTTATTTAAGGCTATTTTATTTAATTACATT
* * *
1171789 AGGTCATAAATTATTTAATTTAAGGCCAAGTGTTATAAAACATATATACATTAAAT-AAAATAGG
1 AAGTCATAAATTATTTAATTTAAGGCCAAGTATTATAAAA-A-ATATACATTAAATAAAAATA-A
* * **
1171853 GCCC-AAGAGCTTATTTCATTTATTTATTTGGGGCTTATTTTATTTAATTACATT
63 GCCCTAAGAGCTTATTTAATTAATTTATTTAAGGC-TATTTTATTTAATTACATT
1171907 AAG-C-TAAATT
1 AAGTCATAAATT
1171917 TTAATTATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
116 43 0.40
117 30 0.28
118 34 0.32
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (116 bp):
AAGTCATAAATTATTTAATTTAAGGCCAAGTATTATAAAAAATATACATTAAATAAAAATAAGCC
CTAAGAGCTTATTTAATTAATTTATTTAAGGCTATTTTATTTAATTACATT
Found at i:1175959 original size:21 final size:18
Alignment explanation
Indices: 1175934--1175985 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 18
1175924 TTTAAAAAAA
1175934 TTTATATTAATATTTATATAT
1 TTTATATTAA-ATTTA-AT-T
1175955 TTTATAATTAAATTTAATT
1 TTTAT-ATTAAATTTAATT
*
1175974 TTTTTATTAAAT
1 TTTATATTAAAT
1175986 AGTAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 7 0.24
19 5 0.17
20 2 0.07
21 10 0.34
22 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTATATTAAATTTAATT
Found at i:1179499 original size:28 final size:24
Alignment explanation
Indices: 1179467--1179517 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 24
1179457 AAATGCAAAA
1179467 AAAATAATATATTAAATATTAATTTTTT
1 AAAATAATA-A-TAAA-A-TAATTTTTT
1179495 AAAATAATAATAAAATAATTTTT
1 AAAATAATAATAAAATAATTTTT
1179518 AGATCATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.35
25 1 0.04
26 4 0.17
27 1 0.04
28 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAATAATAATAAAATAATTTTTT
Found at i:1184438 original size:23 final size:23
Alignment explanation
Indices: 1184395--1184439 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1184385 ACCTTTCAAT
*
1184395 TTCTTCAAGAATTATACCCCAAA
1 TTCTTCAAGAATTATAACCCAAA
*
1184418 TTCTT-AAGAGATTGTAACCCAA
1 TTCTTCAAGA-ATTATAACCCAA
1184440 GGTTTAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (23 bp):
TTCTTCAAGAATTATAACCCAAA
Found at i:1184862 original size:20 final size:20
Alignment explanation
Indices: 1184837--1184890 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1184827 ATTGGGCACA
* *
1184837 ATGTATCGATAC-TTTTCACT
1 ATGTATCGATACAATGTC-CT
1184857 ATGTATCGATACAATGTCCT
1 ATGTATCGATACAATGTCCT
1184877 ATGTATCGATACAA
1 ATGTATCGATACAA
1184891 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCT
Found at i:1185626 original size:21 final size:22
Alignment explanation
Indices: 1185573--1185640 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
1185563 TCTCCCCCTT
* * *
1185573 AAAATAATCTCTCCC-TTTTTAT
1 AAAATAATTTCGCCCATTTTT-C
***
1185595 AAAATAATTTCTTTCATTTTTC
1 AAAATAATTTCGCCCATTTTTC
1185617 AAAA-AATTTCGCCCATTTTTC
1 AAAATAATTTCGCCCATTTTTC
1185638 AAA
1 AAA
1185641 TTTATTTTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 17 0.45
22 16 0.42
23 5 0.13
ACGTcount: A:0.35, C:0.19, G:0.01, T:0.44
Consensus pattern (22 bp):
AAAATAATTTCGCCCATTTTTC
Found at i:1187628 original size:79 final size:77
Alignment explanation
Indices: 1187447--1187683 Score: 251
Period size: 79 Copynumber: 3.0 Consensus size: 77
1187437 ATATGTCTCG
* * *
1187447 ATGAGAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCT-TGAAAATAACGGGGT
1 ATGAGAAA-TCAATA-TTTGGAAATAA-AACGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGT
*
1187511 TGGAGTATCCCCGGTT
62 TGGAGTATCCCCGATT
* * * * * * *
1187527 GTGAAAAATCGATGATTGGGAAATAAAATCGGGATTAGAGTATCCCCTCAGAAATAACGAGGTTG
1 ATGAGAAATCAAT-ATTTGGAAATAAAA-CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
1187592 GAGTATCCCCGATT
64 GAGTATCCCCGATT
* * ** *
1187606 ATGAGAAATCAATATTCTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAATGGGGTTG
1 ATGAGAAATCAATATT-TGGAAATAAA-ACGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
1187671 GAGTATCCCCGAT
64 GAGTATCCCCGAT
1187684 GAAATAACGA
Statistics
Matches: 129, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
78 5 0.04
79 116 0.90
80 8 0.06
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (77 bp):
ATGAGAAATCAATATTTGGAAATAAAACGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGA
GTATCCCCGATT
Found at i:1187758 original size:52 final size:50
Alignment explanation
Indices: 1187694--1187862 Score: 166
Period size: 53 Copynumber: 3.3 Consensus size: 50
1187684 GAAATAACGA
*
1187694 GGTTGGAATATCCTCGATTGTCAAAGATTGGTGTTTTTTAAAATAAAACCGG
1 GGTTGGAGTATCCTCGATT-T-AAAGATTGGTGTTTTTTAAAATAAAACCGG
**
1187746 GGTTGGAGTATCCTCGA-TTAAAGGAAATTTGGTGTTTTGAAAAATAAAACCGG
1 GGTTGGAGTATCCTCGATTTAAA-G--A-TTGGTGTTTTTTAAAATAAAACCGG
* * *
1187799 GGTTAGAGTATCCCCGATTATGGAAA-ATTAGTG--TTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCTCGATT-T--AAAGATTGGTGTTTTTTA-AAATAAAACCGG
1187850 GGTTGGAGTATCC
1 GGTTGGAGTATCC
1187863 CCAATTATGA
Statistics
Matches: 99, Mismatches: 9, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
49 3 0.03
50 5 0.05
51 25 0.25
52 22 0.22
53 39 0.39
54 1 0.01
55 1 0.01
57 3 0.03
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCTCGATTTAAAGATTGGTGTTTTTTAAAATAAAACCGG
Found at i:1187900 original size:263 final size:261
Alignment explanation
Indices: 1187587--1188081 Score: 846
Period size: 263 Copynumber: 1.9 Consensus size: 261
1187577 GAAATAACGA
*
1187587 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTCTGGAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTCTGGAAATAAAGCCGGGGTTGGAGTATCCC
* *
1187652 CTCGGAGGTAATGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTGTCA
66 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCATCGATTGTCA
* * * *
1187717 AAGATTGGTGTTTTTTAAAATAAAACCGGGGTTGGAGTATCCTCGATTAAAGGAAATTTGGTGTT
131 AAAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAAA-TTGGTGTT
1187782 TTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAAC
195 TTG-AAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAAC
1187847 CGG
259 CGG
*
1187850 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTCTGGAAATAAAGCCGGGGTTGGAGTATCCC
* * *
1187915 CTCGGAGGTAACGGGGTTGGAGTATCCCTGATGAAATAACGAGGTTGGAGTATCATCGATTGTGA
66 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCATCGATTGTCA
* *
1187980 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTT
131 AAAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTT
*
1188045 TGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATG
196 TGAAAATAAAACCGGGGTTAGAGTATCCCCGATTATG
1188082 AGCAATTGAG
Statistics
Matches: 218, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
261 34 0.16
262 11 0.05
263 173 0.79
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (261 bp):
GGTTGGAGTATCCCCAATTATGAGAAATCAATATTCTGGAAATAAAGCCGGGGTTGGAGTATCCC
CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCATCGATTGTCA
AAAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTT
TGAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAACCG
G
Found at i:1187954 original size:28 final size:27
Alignment explanation
Indices: 1187898--1187968 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
1187888 GAAATAAAGC
**
1187898 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTAT-CCCTCGGAAATAA
1187926 CGGGGTTGGAGTATCCCT-GATGAAATAA
1 CGGGGTTGGAGTATCCCTCG--GAAATAA
*
1187954 CGAGGTTGGAGTATC
1 CGGGGTTGGAGTATC
1187969 ATCGATTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 4 0.11
28 33 0.87
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGGAAATAA
Found at i:1188089 original size:51 final size:51
Alignment explanation
Indices: 1187694--1188089 Score: 263
Period size: 51 Copynumber: 7.6 Consensus size: 51
1187684 GAAATAACGA
* * * * *
1187694 GGTTGGAATATCCTCGATTGTCA-AAGATTGGTGTTTTTTAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAGAA-ATTGGTG-TTTTGAAAATAAAACCGG
* *
1187746 GGTTGGAGTATCCTCGATTA-AAGGAAATTTGGTGTTTTGAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGA-GAAA-TTGGTGTTTTG-AAAATAAAACCGG
* *
1187799 GGTTAGAGTATCCCCGATTATG-GAAAATTAGTGTTTT-AGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAG-AAATTGGTGTTTTGA-AAATAAAACCGG
* *** * * *
1187850 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGAAAATAAAACCGG
* *** * * *
1187901 GGTTGGAGTATCCCCTCGGAGGTA--ACGGGGTTGGAGTATCCCTGATGAAAT--AA-CGA
1 GGTTGGAGTAT-CCC-C-GA-TTATGA-GAAATTGGTGT-T--TTGA--AAATAAAACCGG
** * * * *
1187957 GGTTGGAGTATCATCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTGGTG-TTTTGAAAATAAAACCGG
* *
1188009 AGTTGGAGTATCCCCGATTA-AAGGAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGA-GAAATTGGTGTTTTGAAAATAAAACCGG
*
1188060 GGTTGGAGTATCCCCGATTATGAGCAATTG
1 GGTTGGAGTATCCCCGATTATGAGAAATTG
1188090 AGAAGCTTAA
Statistics
Matches: 265, Mismatches: 52, Indels: 55
0.71 0.14 0.15
Matches are distributed among these distances:
49 4 0.02
50 1 0.00
51 111 0.42
52 66 0.25
53 52 0.20
54 7 0.03
55 4 0.02
56 13 0.05
57 3 0.01
59 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGAAAATAAAACCGG
Found at i:1189027 original size:18 final size:18
Alignment explanation
Indices: 1189004--1189073 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
1188994 ATTGCTACCT
*
1189004 GCTGGAGTTGCTGCTCTC
1 GCTGGAGCTGCTGCTCTC
*
1189022 GCTGGAGCTGCTGTTGCGT-
1 GCTGGAGCTGCTGCT-C-TC
* *
1189041 GCTGGAGCTGCAG-TCGC
1 GCTGGAGCTGCTGCTCTC
*
1189058 TGCTGGAGTTGCTGCT
1 -GCTGGAGCTGCTGCT
1189074 GCTGTTGCGT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
17 1 0.02
18 25 0.61
19 14 0.34
20 1 0.02
ACGTcount: A:0.07, C:0.24, G:0.39, T:0.30
Consensus pattern (18 bp):
GCTGGAGCTGCTGCTCTC
Found at i:1189075 original size:43 final size:43
Alignment explanation
Indices: 1189028--1189123 Score: 183
Period size: 43 Copynumber: 2.2 Consensus size: 43
1189018 TCTCGCTGGA
1189028 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
1189071 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
*
1189114 GCTACTGTTG
1 GCTGCTGTTG
1189124 GAGCTGCTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.07, C:0.23, G:0.39, T:0.31
Consensus pattern (43 bp):
GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
Found at i:1189112 original size:31 final size:30
Alignment explanation
Indices: 1189059--1189116 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
1189049 TGCAGTCGCT
* * *
1189059 GCTGGAGTTGCTGCTGCTGTTGCGTGCTGGA
1 GCTGCAGTCGCTGCTGCAGTTGC-TGCTGGA
*
1189090 GCTGCAGTCGCTGCTGGAGTTGCTGCT
1 GCTGCAGTCGCTGCTGCAGTTGCTGCT
1189117 ACTGTTGGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 4 0.17
31 19 0.83
ACGTcount: A:0.07, C:0.22, G:0.40, T:0.31
Consensus pattern (30 bp):
GCTGCAGTCGCTGCTGCAGTTGCTGCTGGA
Found at i:1189115 original size:55 final size:55
Alignment explanation
Indices: 1189064--1189201 Score: 152
Period size: 55 Copynumber: 2.5 Consensus size: 55
1189054 TCGCTGCTGG
* * * *
1189064 AGTTGCTGCTGCTGTTGCGTGCTGGAGCTG-CAGTCGCTGCTGGAGTTGCTGCTAC
1 AGTTGCAGCTGCTGTTGCGTGCTAGAGCTGTC-GCCGCCGCTGGAGTTGCTGCTAC
* * *
1189119 TGTTGGAGCTGCTGTTGCGTGCTAGAGCTGTCGCCGCCGCTGGAGTTGGTGCTAC
1 AGTTGCAGCTGCTGTTGCGTGCTAGAGCTGTCGCCGCCGCTGGAGTTGCTGCTAC
* * * * *
1189174 TGCTGGAGCTGCTTTTGCGTGCTGGAGC
1 AGTTGCAGCTGCTGTTGCGTGCTAGAGC
1189202 CGTTGGCTAC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
55 71 0.99
56 1 0.01
ACGTcount: A:0.09, C:0.23, G:0.38, T:0.30
Consensus pattern (55 bp):
AGTTGCAGCTGCTGTTGCGTGCTAGAGCTGTCGCCGCCGCTGGAGTTGCTGCTAC
Found at i:1189567 original size:26 final size:26
Alignment explanation
Indices: 1189533--1189608 Score: 145
Period size: 26 Copynumber: 3.0 Consensus size: 26
1189523 TCCAATTGCA
1189533 ATTTT-TATTTCCTTTCCCATGCTGC
1 ATTTTCTATTTCCTTTCCCATGCTGC
1189558 ATTTTCTATTTCCTTTCCCATGCTGC
1 ATTTTCTATTTCCTTTCCCATGCTGC
1189584 ATTTTCTATTTCCTTTCCCATGCTG
1 ATTTTCTATTTCCTTTCCCATGCTG
1189609 TAAGTTTTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 5 0.10
26 45 0.90
ACGTcount: A:0.12, C:0.29, G:0.08, T:0.51
Consensus pattern (26 bp):
ATTTTCTATTTCCTTTCCCATGCTGC
Found at i:1189737 original size:6 final size:6
Alignment explanation
Indices: 1189703--1189729 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1189693 TTATTATTTT
1189703 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1189730 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:1191243 original size:283 final size:282
Alignment explanation
Indices: 1190444--1191594 Score: 2079
Period size: 283 Copynumber: 4.1 Consensus size: 282
1190434 AAAAGAAAAG
* * *
1190444 GCGTCATGCTCTTTGAGGACTGGAGAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
* *
1190509 CTTTGACGAGTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA
66 CTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA
1190574 CTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAGTAAAGGGTGAAAGGAGAGAGCGTCCT
131 CTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAGTAAAGGGTGAAAGGAGAGAGCGTCCT
* *
1190639 ACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAC
196 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
1190704 GAGTAAAGGGTGAAAGGAGAGA
261 GAGTAAAGGGTGAAAGGAGAGA
1190726 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
1190791 CTTTGAGGAGTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA
66 CTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA
1190856 CTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAGTAAAGGGTGAAAGGAGAGAGCGTCCT
131 CTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAGTAAAGGGTGAAAGGAGAGAGCGTCCT
*
1190921 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
196 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
1190986 GAGTAAAGGGTGAAAGGAGAGA
261 GAGTAAAGGGTGAAAGGAGAGA
* *
1191008 GCGTCCTGCTCTTTGAGGATTGAAAAGTGCCATCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1191073 CTTTGAGGACTAAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCA
66 CTTTGAGGACT-AAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCA
* *
1191138 ACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGAGTAAAGGGTGAAAGGAGAGAGCGTCC
130 ACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAGTAAAGGGTGAAAGGAGAGAGCGTCC
*
1191203 TGCTCTTTGAGGACTGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
195 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
1191268 GGAGTAAAGGGTGAAAGGAGAGA
260 GGAGTAAAGGGTGAAAGGAGAGA
*
1191291 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
1191356 CTTTGAGGACTAAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCATCA
66 CTTTGAGGACT-AAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCA
*
1191421 ACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGAAAGGAGAGAGCGTC
130 ACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAGT-AAAGGGTGAAAGGAGAGAGCGTC
* * * *
1191486 CTGCTCTTTGAGGATTGAAAAGT-CCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTA
194 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
1191550 AGGAGTAAAGGGTGAAAGGAGAGA
259 AGGAGTAAAGGGTGAAAGGAGAGA
1191574 GCGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
1191595 AGGAAAGTAG
Statistics
Matches: 841, Mismatches: 26, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
282 348 0.41
283 448 0.53
284 45 0.05
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (282 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA
CTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAGTAAAGGGTGAAAGGAGAGAGCGTCCT
GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
GAGTAAAGGGTGAAAGGAGAGA
Found at i:1191602 original size:94 final size:94
Alignment explanation
Indices: 1190444--1191594 Score: 2079
Period size: 94 Copynumber: 12.2 Consensus size: 94
1190434 AAAAGAAAAG
* * *
1190444 GCGTCATGCTCTTTGAGGACTGGAGAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
1190509 CTTTGACGAGTAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
1190538 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1190603 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
*
1190632 GCGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
1190697 CTTTGACGAGTAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
1190726 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1190791 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
1190820 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1190885 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
*
1190914 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1190979 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
* *
1191008 GCGTCCTGCTCTTTGAGGATTGAAAAGTGCCATCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
1191073 CTTTGAGGACTAAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGT-AAAGGGTGAAAGGAGAGA
* *
1191103 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1191168 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
*
1191197 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1191262 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
*
1191291 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
1191356 CTTTGAGGACTAAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGT-AAAGGGTGAAAGGAGAGA
*
1191386 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCATCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
1191451 CTTTGAGGACTAAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGT-AAAGGGTGAAAGGAGAGA
* * *
1191481 GCGTCCTGCTCTTTGAGGATTGAAAAGT-CCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
1191545 CTTTAAGGAGTAAAGGGTGAAAGGAGAGA
66 CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
1191574 GCGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
1191595 AGGAAAGTAG
Statistics
Matches: 1022, Mismatches: 33, Indels: 5
0.96 0.03 0.00
Matches are distributed among these distances:
93 38 0.04
94 757 0.74
95 227 0.22
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (94 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGAGTAAAGGGTGAAAGGAGAGA
Found at i:1192608 original size:27 final size:24
Alignment explanation
Indices: 1192560--1192615 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 24
1192550 AAGCAGGTTC
*
1192560 TTTTTTTTTTTTTGTCTTTTTTCGTT
1 TTTTTTTTTTTTTGTCTATTTT--TT
1192586 TTTTTTTATTTTTTGT-TGATTTTTT
1 TTTTTTT-TTTTTTGTCT-ATTTTTT
1192611 TTTTT
1 TTTTT
1192616 AGAAGAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 7 0.26
26 8 0.30
27 12 0.44
ACGTcount: A:0.04, C:0.04, G:0.07, T:0.86
Consensus pattern (24 bp):
TTTTTTTTTTTTTGTCTATTTTTT
Found at i:1197300 original size:51 final size:52
Alignment explanation
Indices: 1197193--1197313 Score: 165
Period size: 51 Copynumber: 2.3 Consensus size: 52
1197183 GAGATAATAA
*
1197193 CGGGGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAAC
** * *
1197245 CGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAACAG-TGTTCTAAAAAATAAAAC
*
1197296 CGGGGTTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
1197314 TCGAAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
51 34 0.55
52 28 0.45
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (52 bp):
CGGGGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAAC
Found at i:1197340 original size:79 final size:79
Alignment explanation
Indices: 1197245--1197831 Score: 978
Period size: 79 Copynumber: 7.4 Consensus size: 79
1197235 AAAATAAAAT
*
1197245 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1197310 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
1197324 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1197389 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * *
1197403 CGGGATTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1197468 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * *
1197482 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1197547 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
1197561 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1197626 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
* *
1197640 CGGGTTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1197705 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * *
1197719 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1197784 CCCCTCAAAAATAA
66 CCCCTCGAAAATAA
*
1197798 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1197832 GAAACTTAAC
Statistics
Matches: 480, Mismatches: 26, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
78 1 0.00
79 479 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:1199100 original size:27 final size:27
Alignment explanation
Indices: 1199047--1199226 Score: 159
Period size: 27 Copynumber: 6.1 Consensus size: 27
1199037 TTTCATCATT
*
1199047 CCATGCCTTCA-TTTCTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
1199073 CCATGCCTTCATTTTTTTATTCCATGCC
1 CCATGCCTTCATTTTTTTATTCCATG-C
1199101 CATCATCCCAGGCCTTCAATTTTTTTATTCCATG-
1 C--CAT-----GCCTTC-ATTTTTTTATTCCATGC
*
1199135 CCAGGCCTTCA-TTTTTTATTCCATGCCCATCAC
1 CCATGCCTTCATTTTTTTATTCCATG-------C
*
1199168 TCCATGCCTTCAATTTTTTATTCCATGC
1 -CCATGCCTTCATTTTTTTATTCCATGC
1199196 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
1199223 CCAT
1 CCAT
1199227 CATTCCGTGT
Statistics
Matches: 130, Mismatches: 4, Indels: 39
0.75 0.02 0.23
Matches are distributed among these distances:
25 14 0.11
26 12 0.09
27 49 0.38
28 3 0.02
30 3 0.02
32 2 0.02
34 11 0.08
35 20 0.15
36 16 0.12
ACGTcount: A:0.17, C:0.32, G:0.08, T:0.43
Consensus pattern (27 bp):
CCATGCCTTCATTTTTTTATTCCATGC
Found at i:1199116 original size:61 final size:62
Alignment explanation
Indices: 1199040--1199229 Score: 298
Period size: 61 Copynumber: 3.1 Consensus size: 62
1199030 TTCATTTTTT
* *
1199040 CATCATTCCATGCCTTC-ATTTCTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
1 CATCATCCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
* *
1199101 CATCATCCCAGGCCTTCAATTTTTTTATTCCATG-CCAGGCCTTCA-TTTTTTATTCCATGCC
1 CATCATCCCATGCCTTCAA-TTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
1199162 CATCA-CTCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
1 CATCATC-CCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
1199224 CATCAT
1 CATCAT
1199230 TCCGTGTTTT
Statistics
Matches: 117, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
60 15 0.13
61 57 0.49
62 32 0.27
63 13 0.11
ACGTcount: A:0.18, C:0.32, G:0.07, T:0.43
Consensus pattern (62 bp):
CATCATCCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
Found at i:1199239 original size:27 final size:27
Alignment explanation
Indices: 1199169--1199240 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
1199159 GCCCATCACT
*
1199169 CCATGCCTTCAAT-TTTTTATTCCATGC
1 CCATGCATTC-ATGTTTTTATTCCATGC
* *
1199196 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCATTCATGTTTTTATTCCATGC
*
1199223 CCAT-CATTCCGTGTTTTT
1 CCATGCATT-CATGTTTTT
1199241 TTTTTATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 5 0.12
27 35 0.88
ACGTcount: A:0.15, C:0.29, G:0.08, T:0.47
Consensus pattern (27 bp):
CCATGCATTCATGTTTTTATTCCATGC
Found at i:1200160 original size:40 final size:41
Alignment explanation
Indices: 1200068--1200211 Score: 128
Period size: 45 Copynumber: 3.4 Consensus size: 41
1200058 ACGAAATACT
* * * * *
1200068 TCCTGTTCTCTAAGGACAAAAGAAAAAGGAAAATAAAGTGCG
1 TCCTGCTCTTTAAGGACAAAAGAAGAAGGGAAA-AAAGTGTG
* *
1200110 TCCTGTTCTTTAAGGACAAAAG-AGAAGGGAAAGAAGTGTG
1 TCCTGCTCTTTAAGGACAAAAGAAGAAGGGAAAAAAGTGTG
** *
1200150 TCCTGCTCTTTGGGGACAAAAGAGAAAAGAAGGGAAACAAGTGTG
1 TCCTGCTCTTTAAGGAC-AAA-AG--AAGAAGGGAAAAAAGTGTG
* *
1200195 CCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTAAGGAC
1200212 TGAAAAGTGC
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
40 20 0.23
41 11 0.13
42 23 0.27
45 32 0.37
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (41 bp):
TCCTGCTCTTTAAGGACAAAAGAAGAAGGGAAAAAAGTGTG
Found at i:1200296 original size:61 final size:61
Alignment explanation
Indices: 1200196--1200390 Score: 269
Period size: 61 Copynumber: 3.3 Consensus size: 61
1200186 ACAAGTGTGC
* * *
1200196 CCTGCTCTTTGAGGACTGAAAAGTGCCACTAACTAGTGTGGTCTTTGAAAAGAAAAGGCGT
1 CCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGCGT
* *
1200257 CCTGCTCTTTGAGGACTGGAGAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGT
1 CCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGCGT
* *
1200312 CCTGCTCTTTGAGAACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGT
1 CCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGCGT
1200373 CCTGCTCTTTGAGGACTG
1 CCTGCTCTTTGAGGACTG
1200391 AAAAAGGAAA
Statistics
Matches: 117, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
54 3 0.03
55 47 0.40
56 1 0.01
60 1 0.01
61 65 0.56
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (61 bp):
CCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGCGT
Found at i:1200401 original size:39 final size:39
Alignment explanation
Indices: 1200358--1200433 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
1200348 TGTGGGCTTT
1200358 GAAAAGAAAAG-GCGTCCTGCTCTTTGAGGACTGAAAAAG
1 GAAAA-AAAAGTGCGTCCTGCTCTTTGAGGACTGAAAAAG
* *
1200397 GAAAATAAAGTGCGTCCTGCTCTTTGAGGATTGAAAA
1 GAAAAAAAAGTGCGTCCTGCTCTTTGAGGACTGAAAA
1200434 GTGCCACCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 4 0.12
39 30 0.88
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.22
Consensus pattern (39 bp):
GAAAAAAAAGTGCGTCCTGCTCTTTGAGGACTGAAAAAG
Found at i:1200481 original size:100 final size:99
Alignment explanation
Indices: 1200304--1200489 Score: 300
Period size: 100 Copynumber: 1.9 Consensus size: 99
1200294 GTGGGCTTTG
*
1200304 AAAGGCGTCCTGCTCTTTGAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAG
1 AAAGGCGTCCTGCTCTTTGAGAACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAG
*
1200369 GCGTCCTGCTCTTTGAGGACTGAAAAAGGAAAAT
66 GCGTCCAGCTCTTTGAGGACTGAAAAAGGAAAAT
* * * * *
1200403 AAAGTGCGTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTTTGGGCTTTGAAAGGAAAA
1 AAAG-GCGTCCTGCTCTTTGAGAACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAA
1200468 GGCGTCCAGCTCTTTGAGGACT
65 GGCGTCCAGCTCTTTGAGGACT
1200490 AAAGGGTGCC
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 4 0.05
100 75 0.95
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (99 bp):
AAAGGCGTCCTGCTCTTTGAGAACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAG
GCGTCCAGCTCTTTGAGGACTGAAAAAGGAAAAT
Found at i:1200484 original size:61 final size:60
Alignment explanation
Indices: 1200403--1202974 Score: 1853
Period size: 60 Copynumber: 42.4 Consensus size: 60
1200393 AAAGGAAAAT
* * * *
1200403 AAAGTGCGTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTTTGGGCTTTGAAAGGA
1 AAAG-GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* * **
1200465 AAAGGCGTCCAGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTTTGGGCTTTGAAAGGC
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* * * * * *
1200526 GAAGGCGTCCTGCTCTTTGAGGACTTGAGGGTGCCACCAACTTATGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGAC-TAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* * * * *
1200587 ACAGCCATCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
*
1200648 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAA
1200709 AAA-GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1200768 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAA
1200829 AAA-GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* *
1200888 AAAGGCATCCTGCTCTTTGAGGACAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* *
1200948 AATGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
*
1201009 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAA
* *
1201070 AAA-GCGTCCTGCTCTTTCAAGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* * *
1201129 AAAGGCATCCTGCTGTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAA
* *
1201190 AAA-GCGTCCTGCTCTTTCAAGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* *
1201249 AAAGACGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* ** *
1201310 AAAGGCGTCCTGCTCTTTGAGGACTAGAGGTTTCACCAACTTGTGTGGGCTTTAAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1201370 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
*
1201431 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGAGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* * *
1201492 AAAGGCGTCCTACTCTTTGAGGACTATAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* ** * * * * ** * ** *** *
1201553 AAAGGTG-CCACCAACTTGTGTGGGCTTTAAAAG-G--AAAAAGCAT-CCTACTCTTTG-AGGAC
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--TAAAGGTGCCACCAA-CTTGTGTGGGCTTTGAAAGA-
*
1201612 T
60 A
* ** * * * ** *** * ** *
1201613 AAAGGTG-CCACCAACTTGTGTGGGCTTTGAAA---G--AAAAAGGCGTCCTGCTCTTTG-AGGA
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--T-AAAGGTGCCACCAACTTGT-GTGGGCTTTGAAAGA
*
1201671 CT
60 -A
* ** * * * * ** ** * * * ** *
1201673 AAAGGTG-CCACCAACTTGTGTGGGCT----TTGAAAGAAAATGGCGTCCTGCTCTTTG-ACGAC
1 AAAGGCGTCCTGC-TCTT-TGAGGACTAAAGGTGCCACCAACT--TGT-GTGGGCTTTGAAAGA-
*
1201732 T
60 A
* ** * * * ** *** * ** *
1201733 AGAGG-GTGCCACCAACTTGTGTGGGCTTTGAAA---G--AAAAAGGCGTCCTGCTCTTTG-AGG
1 AAAGGCGT-CCTGC-TCTT-TGAGGAC--T-AAAGGTGCCACCAACTTGT-GTGGGCTTTGAAAG
*
1201791 ACT
59 A-A
* ** * * * * ** * * ** *
1201794 AAAGGTG-CCACCAACTTGTGTGGGCTTTAAAAG-G--AAAAAGCGTCT-TGCTCTTTG-AGGAC
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--TAAAGGTGCCACCAA-CTTGTGTGGGCTTTGAAAGA-
*
1201853 T
60 A
* ** * * * ** *** * ** *
1201854 AAAGGTG-CCACCAACTTGTGTGGGCTTTGAAA---G--AAAAAGGCGTCCTGCTCTTTG-AGGA
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--T-AAAGGTGCCACCAACTTGT-GTGGGCTTTGAAAGA
*
1201912 CT
60 -A
* ** * * * ** * ** *
1201914 AAAGGTG-CCACCAACTTGTGTGGGCTTTGAAA-G-G--AAAAAGC--GTCCTGCTCTTTG-AGG
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--T-AAAGGTGCCACCAA-CTTGT-GTGGGCTTTGAAAG
*
1201971 ACT
59 A-A
* ** * * * ** * * ** *
1201974 AAAGGTG-CCACCAACTTGTGTGGGCTTTGAAA---G--AAAAAGGCGTCT-TGCTCTTTG-AGG
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--T-AAAGGTGCCACCAA--CTTGTGTGGGCTTTGAAAG
1202031 ACTA
59 A--A
* ** * * * * ** * * * *
1202035 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGA-AAAAGGCGTCCTGC-TCTT-TGAGGAC-TAG
1 AAAG-G-CGTC--C-TG-CT---CTTTG-AGGACTAAAGGTG-CCACCAACTTGTGTGGGCTTTG
** *
1202096 AGGTGCCAC
55 A-AAG--AA
* *** * ** * * * *
1202105 CAACTTGT-GTGGGCTTTAAAAGA-AAAAGGCGTCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTT-GAGGACTAAAGGTG-CCACCAACTTGTGTGGGCTTTGAAAGAA
*
1202165 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGAGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
*
1202226 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* *
1202287 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAA
* *
1202348 AAA-GCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGCGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1202407 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* * * *
1202467 AAAGGCGTCCTGCTCTTTTAGGACTAGAGGTGCCACCAACTTCTGTGGGCTTTAAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* *
1202527 AAAGGCGTCCTGCTCTTTGGGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAA-GAA
*
1202589 AAA-GCGTCCTGCTTTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
*
1202649 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAA
* *
1202710 AAA-GCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGGTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
*
1202769 AAAGGCGTCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* *
1202829 AAAGGCGTCCTGCTCTTTGAGGACTAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAA
* * *
1202890 AAA-ACGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
*
1202950 AAAGGTGTCCTGCTCTTTGAGGACT
1 AAAGGCGTCCTGCTCTTTGAGGACT
1202975 GGAATGGCTA
Statistics
Matches: 2221, Mismatches: 199, Indels: 181
0.85 0.08 0.07
Matches are distributed among these distances:
56 1 0.00
58 7 0.00
59 61 0.03
60 1256 0.57
61 825 0.37
62 33 0.01
63 11 0.00
64 5 0.00
65 1 0.00
66 4 0.00
68 3 0.00
69 7 0.00
70 6 0.00
72 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (60 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
Found at i:1200542 original size:161 final size:154
Alignment explanation
Indices: 1200249--1200550 Score: 426
Period size: 161 Copynumber: 1.9 Consensus size: 154
1200239 TTTGAAAAGA
* *
1200249 AAAGGCGTCCTGCTCTTTGAGGACTGGAGAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
*
1200314 TGCTCTTTGAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCT
66 AGCTCTTTGAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCT
1200379 CTTTGAGGACTGAAAAAGGAAAAT
131 CTTTGAGGACTGAAAAAGGAAAAT
* *
1200403 AAAGTGCGTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTTTGGGCTTTGAAAGGAAAA
1 AAAG-GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAA
* * * * **
1200468 GGCGTCCAGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTTTGGGCTTTGAAAGGCGAAGGC
59 GGCGTCCAGCTCTTTGAGAACTGAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGC
1200532 GTCCTGCTCTTTGAGGACT
123 GTCCTGCTCTTTGAGGACT
1200551 TGAGGGTGCC
Statistics
Matches: 129, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
154 4 0.03
155 46 0.36
160 4 0.03
161 75 0.58
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (154 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
AGCTCTTTGAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCT
CTTTGAGGACTGAAAAAGGAAAAT
Found at i:1200892 original size:35 final size:35
Alignment explanation
Indices: 1200853--1200949 Score: 81
Period size: 35 Copynumber: 3.1 Consensus size: 35
1200843 TTTGAGGACT
1200853 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* * *
1200888 AAA-G-G-CATC--C-TG-CT---CTTTG-AGGACA
1 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGA-A
1200913 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1200948 AA
1 AA
1200950 TGGCGTCCTG
Statistics
Matches: 44, Mismatches: 6, Indels: 24
0.59 0.08 0.32
Matches are distributed among these distances:
24 3 0.07
25 9 0.20
26 1 0.02
27 1 0.02
28 4 0.09
29 2 0.05
30 2 0.05
31 2 0.05
32 4 0.09
33 1 0.02
34 1 0.02
35 11 0.25
36 3 0.07
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (35 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
Found at i:1200991 original size:301 final size:303
Alignment explanation
Indices: 1200403--1201557 Score: 1797
Period size: 301 Copynumber: 3.8 Consensus size: 303
1200393 AAAGGAAAAT
* * * * *
1200403 AAAGTGCGTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTTTGGGCTTTGAAAGGAAAA
1 AAAG-GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAA
* * ***
1200468 GGCGTCCAGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTTTGGGCTTTGAAAGGCGAAGGCG
64 GGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCG
* * * * * *
1200533 TCCTGCTCTTTGAGGACTTGAGGGTGCCACCAACTTATGTGGGCTTTAAAAGGAACAGCCATCCT
129 TCCTGCTCTTTGAGGAC-TAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCT
* *
1200598 GCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTC
193 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTC
* *
1200663 TTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
258 TTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAA
*
1200709 AAA-GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGG
1200773 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAA-GCGT
66 CGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAAGGCGT
*
1200836 CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCATCCTGC
130 CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTGC
* *
1200901 TCTTTGAGGAC-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAATGGCGTCCTGCTCTT
195 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTT
1200965 TGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
260 TGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
1201009 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA-
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAG
* * *
1201073 GCGTCCTGCTCTTTCAAGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCAT
65 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGT
* *
1201137 CCTGCTGTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA-GCGTCCTG
130 CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGGCATCCTG
* * * *
1201201 CTCTTTCAAGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCTGCTCT
194 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCT
1201265 TTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
259 TTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
* **
1201310 AAAGGCGTCCTGCTCTTTGAGGACTAGAGGTTTCACCAACTTGTGTGGGCTTTAAAAGAAAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGG
1201375 CGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTC
66 CGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTC
* * * *
1201440 CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGAGCTTTGAAAGAAAAAGGCGTCCTAC
131 CTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTGC
* *
1201505 TCTTTGAGGACTATAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGG
195 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGG
1201558 TGCCACCAAC
Statistics
Matches: 788, Mismatches: 49, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
300 76 0.10
301 422 0.54
302 124 0.16
303 107 0.14
304 56 0.07
306 3 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (303 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGG
CGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTC
CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCT
CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTT
GAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAA
Found at i:1201567 original size:35 final size:36
Alignment explanation
Indices: 1201521--1201592 Score: 137
Period size: 35 Copynumber: 2.0 Consensus size: 36
1201511 AGGACTATAG
1201521 GGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
1201556 GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
1201592 G
1 G
1201593 CATCCTACTC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.81
36 7 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (36 bp):
GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
Found at i:1201580 original size:96 final size:95
Alignment explanation
Indices: 1201460--1201652 Score: 316
Period size: 96 Copynumber: 2.0 Consensus size: 95
1201450 AGGACTAAAG
* * *
1201460 GGTGCCACCAACTTGTGTGAGCTTTGAAA-GAAAAAGGCGTCCTACTCTTTGAGGACTATAGGGT
1 GGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAA-GCATCCTACTCTTTGAGGACTA-AAGGT
1201524 GCCACCAACTTGTGTGGGCTTTAAAAGAAAAA
64 GCCACCAACTTGTGTGGGCTTTAAAAGAAAAA
*
1201556 GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCATCCTACTCTTTGAGGACTAAAGGTGC
1 GGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAAGCATCCTACTCTTTGAGGACTAAAGGTGC
*
1201621 CACCAACTTGTGTGGGCTTTGAAAGAAAAA
66 CACCAACTTGTGTGGGCTTTAAAAGAAAAA
1201651 GG
1 GG
1201653 CGTCCTGCTC
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
95 37 0.41
96 48 0.53
97 6 0.07
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (95 bp):
GGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAAGCATCCTACTCTTTGAGGACTAAAGGTGC
CACCAACTTGTGTGGGCTTTAAAAGAAAAA
Found at i:1201679 original size:760 final size:761
Alignment explanation
Indices: 1200408--1202974 Score: 3936
Period size: 760 Copynumber: 3.3 Consensus size: 761
1200398 AAAATAAAGT
* * * *
1200408 GCGTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTTTGGGCTTTGAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGT
** * ***
1200473 CCAGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTTTGGGCTTTGAAAGGCGAAGGCGTCCTG
65 CTTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTG
* * ** *
1200538 CTCTTTGAGGACTTGAGGGTGCCACCAACTTATGTGGGCTTTAAAAGGAACAGCCATCCTGCTCT
129 CTCTTTGAGGACTAGA-GGTGCCACCAACTTGTGTGGGCTTTAAAA-GAA-AAACGTCCTGCTCT
* *
1200603 TTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGA
191 TTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGA
* * *
1200668 GGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA-GCGTCCTGCTCTTTGAGGA
256 GGACTAAAGGGTGCCACCAACTTGTGTGAGCTTTGAAA-GAAAAAGGCGTCCTACTCTTTGAGGA
1200731 CTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAA
320 CTAAAGGGTGCCACCAACTTGTGTGGGCTTT-----AAAAA--------------TGA-GAC-AA
* *
1200795 AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGTG
364 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTG
* *
1200860 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCATCCTGCTCTTTGAGGACAAAAGGTGCCACC
429 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACC
1200925 AACTTGTGTGGGCTTTGAAAGAAAATGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACT
494 AACTTGTGTGGGCTTTGAAAGAAAATGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACT
1200990 TGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGT
559 TGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGT
* *
1201055 GGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTCAAGACTAAAGGTGCCACCAACTTGTGTGGGCT
624 GGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCT
* *
1201120 TTGAAAGAAAAAGGCATCCTGCTGTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAA
689 TTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAA
1201185 AGGAAAAA
754 AGGAAAAA
* * *
1201193 GCGTCCTGCTCTTTCAAGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTC
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTC
* *
1201258 CTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGC
66 TTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGC
**
1201323 TCTTTGAGGACTAGAGGTTTCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTT
130 TCTTTGAGGACTAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAA--CGTCCTGCTCTTT
1201388 GAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGG
193 GAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGG
1201453 ACTAAAGGGTGCCACCAACTTGTGTGAGCTTTGAAAGAAAAAGGCGTCCTACTCTTTGAGGACTA
258 ACTAAAGGGTGCCACCAACTTGTGTGAGCTTTGAAAGAAAAAGGCGTCCTACTCTTTGAGGACTA
*
1201518 TAGGGTGCCACCAACTTGTGTGGGCTTT-AAAA-GA-A-AAAGGTGCCACCAACTTGTGTGGGCT
323 AAGGGTGCCACCAACTTGTGTGGGCTTTAAAAATGAGACAAAGGTGCCACCAACTTGTGTGGGCT
*
1201579 TTAAAAGGAAAAAGCATCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
388 TTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
1201644 AGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAA
453 AGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAA
*
1201709 ATGGCGTCCTGCTCTTTGACGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGG
518 ATGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGG
*
1201774 CGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCT
583 CGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCC
1201839 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTC
648 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTC
*
1201904 TTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAA
713 TTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
1201953 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTC
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTC
1202018 TTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCT
66 TTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCT
1202083 CTTTGAGGACTAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAA--------------AG
131 CTTTGAGGACTAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAACGTCCTGCTCTTTGAG
1202133 G-C------GT-CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT
196 GACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT
*
1202190 AAAGGGTGCCACCAACTTGTGTGAGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAG
261 AAAGGGTGCCACCAACTTGTGTGAGCTTTGAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAG
1202255 GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGC
326 GGTGCCACCAACTTGTGTGGGCTTT-----AAAAA--------------TGA-GAC-AAAGGTGC
*
1202320 CACCAACTTGTGTGGGTTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCA
370 CACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCA
*
1202385 ACTTGTGCGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTG
435 ACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTG
* * *
1202450 TGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTTAGGACTAGA-GGTGCCACCAACTTCTGTG
500 TGTGGGCTTTGAAAGAAAATGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTG
* *
1202514 GGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGGGGACTAAAGGGTGCCACCAACTTGTGTGGGCT
565 GGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCT
*
1202579 TTAAAAGGAAAAAGCGTCCTGCTTTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGA
629 TTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGA
1202644 AAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
693 AAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1202709 AAAA
758 AAAA
* *
1202713 GCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGGTTTGAAAGAAAAAGGCGTC
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTC
1202778 TTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCT
66 TTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCT
1202843 CTTTGAGGACTAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAACGTCCTGCTCTTTG
131 CTTTGAGGACTAGAGGTGCCACCAACTTGTGTGGGCTTTAAAA-G-AAAAACGTCCTGCTCTTTG
* * *
1202908 AGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGA
194 AGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGA
1202973 CT
259 CT
1202975 GGAATGGCTA
Statistics
Matches: 1660, Mismatches: 64, Indels: 116
0.90 0.03 0.06
Matches are distributed among these distances:
734 141 0.08
735 2 0.00
740 4 0.00
741 1 0.00
742 3 0.00
755 2 0.00
757 1 0.00
758 61 0.04
759 324 0.20
760 732 0.44
761 1 0.00
762 1 0.00
763 4 0.00
764 2 0.00
777 3 0.00
778 1 0.00
779 4 0.00
781 1 0.00
782 3 0.00
783 113 0.07
784 162 0.10
785 94 0.06
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (761 bp):
GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTC
TTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCT
CTTTGAGGACTAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAACGTCCTGCTCTTTGAG
GACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT
AAAGGGTGCCACCAACTTGTGTGAGCTTTGAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAG
GGTGCCACCAACTTGTGTGGGCTTTAAAAATGAGACAAAGGTGCCACCAACTTGTGTGGGCTTTA
AAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGA
AAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAATG
GCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGT
CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGC
TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTT
GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
Found at i:1201897 original size:880 final size:857
Alignment explanation
Indices: 1201282--1202967 Score: 2656
Period size: 880 Copynumber: 1.9 Consensus size: 857
1201272 CTAGAGGGTG
* **
1201282 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGA-GGTTTCAC
1 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
*
1201346 CAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAAC
66 CAACTTGTGTGAGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAAC
*
1201411 TTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGT
131 TTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGT
* * *
1201476 GTGAGCTTTGAAA-GAAAAAGGCGTCCTACTCTTTGAGGACTATAGGGTGCCACCAACTTGTGTG
195 GTGAGCTTTAAAAGGAAAAA-GCGTCCTACTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGCG
* *
1201540 GGCTTT-AAAA-GA-A-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCATCCTAC
258 GGCTTTAAAAATGAGACAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGC
1201601 TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTT
323 TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTT
* *
1201666 GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAATGGCGTCCTGCTCTTTGACG
388 GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA-AGCGTCCTGCTCTTTGAGG
1201730 ACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA
452 ACTA-AGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA
*
1201795 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCTTGCTCTTTGAGGACTAAAGGT
516 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGT
1201860 GCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCAC
581 GCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCAC
1201925 CAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACT
646 CAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACT
*
1201990 TGTGTGGGCTTTGAAAGAAAAAGGCGTCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGT
711 TGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGT
* * * *
1202055 GGGCTTTGAAA-GAAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGTGCCACCAACTTGTGTGGGC
776 GGGCTTTAAAAGGAAAAA-GCGTCCTGCTCTTTCAAGACTAAAGGTGCCACCAACTTGTGTGGGC
*
1202119 TTTAAAAGAAAAAGGCGT
840 TTTAAAAAAAAAAGGCGT
1202137 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
1 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
*
1202202 CAACTTGTGTGAGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAAC
66 CAACTTGTGTGAGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAAC
1202267 TTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTG
131 TTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTG
* *
1202332 TGGGTTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGCGGGC
196 TGAGCTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGCGGGC
*
1202397 TTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGA
261 TTT-----AAAAA--------------TGA-GAC-AAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1202462 AA-GAAAAAGGCGTCCTGCTCTTTTAGGACTAGAGGTGCCACCAACTTCTGTGGGCTTTAAAAGA
305 AAGGAAAAA-GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGA
* *
1202526 AAAAGGCGTCCTGCTCTTTGGGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
369 AAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
*
1202591 AGCGTCCTGCTTTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCG
433 AGCGTCCTGCTCTTTGAGGACT-AAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCG
*
1202656 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTA
497 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTG
* *
1202721 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGGTTTGAAAGAAAAAGGCGTCTTGCTCTT
562 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTT
1202786 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAAGGCGTCCTGCTCTTTGAG
627 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAA-GCGTCCTGCTCTTTGAG
* * *
1202850 GACTAGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA-ACGTCCTGCTCTTTGAGGACT
691 GACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAAGGCGTCCTGCTCTTTGAGGACT
* *
1202914 AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
755 AAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTT
1202968 GAGGACTGGA
Statistics
Matches: 762, Mismatches: 34, Indels: 44
0.91 0.04 0.05
Matches are distributed among these distances:
854 25 0.03
855 103 0.14
856 122 0.16
860 4 0.01
875 2 0.00
877 1 0.00
878 6 0.01
879 114 0.15
880 327 0.43
881 53 0.07
882 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (857 bp):
CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
CAACTTGTGTGAGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAAC
TTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTG
TGAGCTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGCGGGC
TTTAAAAATGAGACAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCT
TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAG
GACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTA
AGGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGT
GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGTGCCAC
CAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACT
TGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGT
GGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCT
TTAAAAGGAAAAAGCGTCCTGCTCTTTCAAGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAA
AAAAAAAGGCGT
Found at i:1202148 original size:36 final size:36
Alignment explanation
Indices: 1202101--1202174 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
1202091 ACTAGAGGTG
1202101 CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGT
1 CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGT
*
1202137 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGT
1 CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGT
1202173 CC
1 CC
1202175 TGCTCTTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (36 bp):
CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGT
Found at i:1202157 original size:96 final size:97
Alignment explanation
Indices: 1202041--1202235 Score: 356
Period size: 96 Copynumber: 2.0 Consensus size: 97
1202031 ACTAAAGGTG
*
1202041 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGA-GGTGCCAC
1 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
*
1202105 CAACTTGTGTGGGCTTTAAAAGAAAAAGGCGT
66 CAACTTGTGTGAGCTTTAAAAGAAAAAGGCGT
1202137 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
1 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
*
1202202 CAACTTGTGTGAGCTTTGAAAGAAAAAGGCGT
66 CAACTTGTGTGAGCTTTAAAAGAAAAAGGCGT
1202234 CC
1 CC
1202236 TGCTCTTTGA
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 55 0.58
97 40 0.42
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (97 bp):
CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
CAACTTGTGTGAGCTTTAAAAGAAAAAGGCGT
Found at i:1202802 original size:362 final size:362
Alignment explanation
Indices: 1202137--1202974 Score: 1509
Period size: 362 Copynumber: 2.3 Consensus size: 362
1202127 AAAAAGGCGT
*
1202137 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
1 CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
* *
1202202 CAACTTGTGTGAGCTTTGAAA-GAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAA
66 CAACTTGTGTGGGCTTTAAAAGGAAAAA-GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAA
1202266 CTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGT
130 CTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGT
*
1202331 GTGGGTTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGCGGG
195 GTGGGCTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGCGGG
1202396 CTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTG
260 CTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTG
*
1202461 AAAGAAAAAGGCGTCCTGCTCTTTTAGGACTAGAGGTG
325 AAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGTG
* *
1202499 CCACCAACTTCTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGGGGACTAAAGGGTGCCAC
1 CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
*
1202564 CAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTTTTTGAGGACTAAAGGGTGCCACCAAC
66 CAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAAC
*
1202629 TTGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTG
131 TTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTG
* *
1202694 TGGGCTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGG
196 TGGGCTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGCGGGC
*
1202759 TTTGAAAGAAAAAGGCGTCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGA
261 TTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGA
1202824 AAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGTG
326 AAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGTG
*
1202861 CCACCAACTTGTGTGGGCTTTAAAAGGAAAAA-ACGTCCTGCTCTTTGAGGACTAAAGGGTGCCA
1 CCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCA
* *
1202925 CCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACT
65 CCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACT
1202975 GGAATGGCTA
Statistics
Matches: 456, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
362 444 0.97
363 12 0.03
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (362 bp):
CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
CAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAAC
TTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTG
TGGGCTTTAAAAGGAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGCGGGC
TTTGAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGA
AAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGTG
Found at i:1209185 original size:51 final size:52
Alignment explanation
Indices: 1209078--1209198 Score: 165
Period size: 51 Copynumber: 2.3 Consensus size: 52
1209068 GAGATAATAA
*
1209078 CGGGGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAAC
** * *
1209130 CGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAACAG-TGTTCTAAAAAATAAAAC
*
1209181 CGGGGTTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
1209199 TCGGAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
51 34 0.55
52 28 0.45
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (52 bp):
CGGGGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAAC
Found at i:1209226 original size:79 final size:79
Alignment explanation
Indices: 1209130--1209716 Score: 976
Period size: 79 Copynumber: 7.4 Consensus size: 79
1209120 AAAATAAAAT
*
1209130 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1209195 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
*
1209209 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1209274 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * * *
1209288 CGGGATTAGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1209353 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* * *
1209367 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1209432 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* *
1209446 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTGT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1209511 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
1209525 CGGGTTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1209590 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
1209604 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
**
1209669 CCCCTCAAAAATAA
66 CCCCTCGGAAATAA
*
1209683 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1209717 GAAACTTAAC
Statistics
Matches: 479, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 479 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:1210985 original size:27 final size:27
Alignment explanation
Indices: 1210932--1211112 Score: 177
Period size: 27 Copynumber: 6.1 Consensus size: 27
1210922 TTTCATCATT
*
1210932 CCATGCCTTCA-TTTCTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
1210958 CCATGCCTTCATTTTTTTATTCCATGCCCATCATC
1 CCATGCCTTCATTTTTTTATTCCATG--------C
1210993 CCATGCCTTCAATTTTTTTATTCCATGC
1 CCATGCCTTC-ATTTTTTTATTCCATGC
1211021 CCATGCCTTCA-TTTTTTATTCCATGCCCATCAC
1 CCATGCCTTCATTTTTTTATTCCATG-------C
*
1211054 TCCATGCCTTCAATTTTTTATTCCATGC
1 -CCATGCCTTCATTTTTTTATTCCATGC
1211082 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
1211109 CCAT
1 CCAT
1211113 CATTCCGTGT
Statistics
Matches: 134, Mismatches: 2, Indels: 37
0.77 0.01 0.21
Matches are distributed among these distances:
26 25 0.19
27 44 0.33
28 12 0.09
33 1 0.01
34 11 0.08
35 25 0.19
36 16 0.12
ACGTcount: A:0.17, C:0.33, G:0.07, T:0.44
Consensus pattern (27 bp):
CCATGCCTTCATTTTTTTATTCCATGC
Found at i:1210997 original size:61 final size:62
Alignment explanation
Indices: 1210925--1211115 Score: 325
Period size: 62 Copynumber: 3.1 Consensus size: 62
1210915 TTCATTTTTT
* *
1210925 CATCATTCCATGCCTTC-ATTTCTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
1 CATCATCCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
1210986 CATCATCCCATGCCTTCAATTTTTTTATTCCATGCCCATGCCTTCA-TTTTTTATTCCATGCC
1 CATCATCCCATGCCTTCAA-TTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
1211048 CATCA-CTCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
1 CATCATC-CCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
1211110 CATCAT
1 CATCAT
1211116 TCCGTGTTTT
Statistics
Matches: 123, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
61 43 0.35
62 55 0.45
63 25 0.20
ACGTcount: A:0.18, C:0.32, G:0.06, T:0.43
Consensus pattern (62 bp):
CATCATCCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCC
Found at i:1211125 original size:27 final size:27
Alignment explanation
Indices: 1210992--1211126 Score: 87
Period size: 27 Copynumber: 4.7 Consensus size: 27
1210982 TGCCCATCAT
* *
1210992 CCCATGCCTTCAATTTTTTTATTCCATG
1 CCCATGCATTC-ATGTTTTTATTCCATG
*
1211020 CCCATGCCTTCAT-TTTTTATTCCATG
1 CCCATGCATTCATGTTTTTATTCCATG
*
1211046 CCCAT-CACTCCATGCCTTCAATTTTTTATTCCATG
1 CCCATGCA-TTCATG--------TTTTTATTCCATG
* *
1211081 CCCATGCCTTCATTTTTTTATTCCATG
1 CCCATGCATTCATGTTTTTATTCCATG
*
1211108 CCCAT-CATTCCGTGTTTTT
1 CCCATGCATT-CATGTTTTT
1211127 TTTTATTTCT
Statistics
Matches: 87, Mismatches: 8, Indels: 25
0.73 0.07 0.21
Matches are distributed among these distances:
25 1 0.01
26 25 0.29
27 27 0.31
28 11 0.13
35 22 0.25
36 1 0.01
ACGTcount: A:0.16, C:0.31, G:0.07, T:0.45
Consensus pattern (27 bp):
CCCATGCATTCATGTTTTTATTCCATG
Found at i:1220296 original size:79 final size:79
Alignment explanation
Indices: 1220198--1220396 Score: 215
Period size: 79 Copynumber: 2.5 Consensus size: 79
1220188 AACGGGGTTG
* * * * *
1220198 GAGTATCCCCT-TGAAAATAACGGGGTTGGAGTATCTCCGGTTGTGAAAAATCGAT-GAT-TGGG
1 GAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAG-TCT-GG
*
1220260 AAATAAAATCGGGATTA
63 AAATAAAACCGGGATTA
*
1220277 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAGTCTGGAAA
1 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAGTCTGGAAA
* * *
1220342 TAAAGCCGGGGTTG
66 TAAAACCGGGATTA
* ** * *
1220356 GAGTATCCCCTCGGAGGTAATGGGGTTGGAGTATCCTCGAT
1 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGAT
1220397 GAAATAACGA
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 99 0.97
80 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAGTCTGGAAA
TAAAACCGGGATTA
Found at i:1220612 original size:263 final size:261
Alignment explanation
Indices: 1220297--1220792 Score: 857
Period size: 263 Copynumber: 1.9 Consensus size: 261
1220287 TCAGAAATAA
*
1220297 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAGTCTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAGTCTGGAAATAAAGCCGGGGTTGGAGTAT
* *
1220362 CCCCTCGGAGGTAATGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAATATCCTCGATTG
66 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTG
* * * *
1220427 TGAAAGATTGGTGTTTTTTAAAATAAAACCGGGGTTGGAGTATCCTCGATTAAAGGAAATTTGGT
131 TGAAAAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAAA-TTGGT
1220492 GTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATTACGAAAAATTAGTGTTTTAGAGATAA
195 GTTTTG-AAAATAAAACCGGGGTTAGAGTATCCCCGATTACGAAAAATTAGTGTTTTAGAGATAA
1220557 AAC
259 AAC
* *
1220560 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAGTCTGGAAATAAAGCCGGGGTTGGAGTAT
*
1220625 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTG
* *
1220690 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAATTGGTG
131 TGAAAAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAAATTGGTG
*
1220755 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
196 TTTTGAAAATAAAACCGGGGTTAGAGTATCCCCGATTA
1220793 TGAGCAATTG
Statistics
Matches: 220, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
261 32 0.15
262 11 0.05
263 177 0.80
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (261 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAGTCTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTG
TGAAAAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAAATTGGTG
TTTTGAAAATAAAACCGGGGTTAGAGTATCCCCGATTACGAAAAATTAGTGTTTTAGAGATAAAA
C
Found at i:1220667 original size:28 final size:28
Alignment explanation
Indices: 1220611--1220687 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
1220601 GAAATAAAGC
*** **
1220611 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1220639 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
1220667 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1220688 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1220802 original size:51 final size:51
Alignment explanation
Indices: 1220407--1220802 Score: 264
Period size: 51 Copynumber: 7.6 Consensus size: 51
1220397 GAAATAACGA
* * * *
1220407 GGTTGGAATATCCTCGATTGTGA-AAGATTGGTGTTTTTTAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAGAA-ATTGGTG-TTTTGAAAATAAAACCGG
* *
1220459 GGTTGGAGTATCCTCGATTA-AAGGAAATTTGGTGTTTTGAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGA-GAAA-TTGGTGTTTTG-AAAATAAAACCGG
* * * * *
1220512 GGTTAGAGTATCCCCGATTACGAAAAATTAGTGTTTT-AGAGATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGA-AAATAAAACCGG
* *** * * *
1220563 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGAAAATAAAACCGG
* *** * * ***** * *
1220614 GGTTGGAGTATCCCCTCGGAGGTA--ACGGGGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTAT-CCC-C-GA-TTATGA-GAAATTGGTGTTTTGAAAAT-AAA-ACCGG
* * * * *
1220670 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTGGTG-TTTTGAAAATAAAACCGG
* *
1220722 AGTTGGAGTATCCCCGATTA-AAGGAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGA-GAAATTGGTGTTTTGAAAATAAAACCGG
*
1220773 GGTTGGAGTATCCCCGATTATGAGCAATTG
1 GGTTGGAGTATCCCCGATTATGAGAAATTG
1220803 AGAAGCTTAA
Statistics
Matches: 260, Mismatches: 65, Indels: 39
0.71 0.18 0.11
Matches are distributed among these distances:
50 1 0.00
51 105 0.40
52 66 0.25
53 54 0.21
54 14 0.05
55 7 0.03
56 13 0.05
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGAAAATAAAACCGG
Found at i:1221740 original size:18 final size:18
Alignment explanation
Indices: 1221716--1221786 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
1221706 AATTGCTACC
*
1221716 TGCTGGAGTTGCTGCTC-
1 TGCTGGAGCTGCTGCTCA
*
1221733 TCGCTGGAGCTGCTGTTGCA
1 T-GCTGGAGCTGCTGCT-CA
* *
1221753 TGCTGGAGCTGCAG-TCGT
1 TGCTGGAGCTGCTGCTC-A
*
1221771 TGCTGGAGTTGCTGCT
1 TGCTGGAGCTGCTGCT
1221787 GCTGTTGCGT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
17 2 0.05
18 26 0.60
19 14 0.33
20 1 0.02
ACGTcount: A:0.08, C:0.23, G:0.37, T:0.32
Consensus pattern (18 bp):
TGCTGGAGCTGCTGCTCA
Found at i:1221790 original size:43 final size:43
Alignment explanation
Indices: 1221741--1221836 Score: 156
Period size: 43 Copynumber: 2.2 Consensus size: 43
1221731 TCTCGCTGGA
**
1221741 GCTGCTGTTGCATGCTGGAGCTGCAGTCGTTGCTGGAGTTGCT
1 GCTGCTGTTGCATGCTGGAGCTGCAGTCACTGCTGGAGTTGCT
*
1221784 GCTGCTGTTGCGTGCTGGAGCTGCAGTCACTGCTGGAGTTGCT
1 GCTGCTGTTGCATGCTGGAGCTGCAGTCACTGCTGGAGTTGCT
*
1221827 GCTACTGTTG
1 GCTGCTGTTG
1221837 GAGCTGCTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.09, C:0.22, G:0.36, T:0.32
Consensus pattern (43 bp):
GCTGCTGTTGCATGCTGGAGCTGCAGTCACTGCTGGAGTTGCT
Found at i:1221844 original size:18 final size:18
Alignment explanation
Indices: 1221796--1221846 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
1221786 TGCTGTTGCG
*
1221796 TGCTGGAGCTGCAGTCAC
1 TGCTGGAGCTGCTGTCAC
*
1221814 TGCTGGAGTTGCTG-CTAC
1 TGCTGGAGCTGCTGTC-AC
*
1221832 TGTTGGAGCTGCTGT
1 TGCTGGAGCTGCTGT
1221847 TGCGTGCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.12, C:0.22, G:0.35, T:0.31
Consensus pattern (18 bp):
TGCTGGAGCTGCTGTCAC
Found at i:1221847 original size:55 final size:55
Alignment explanation
Indices: 1221784--1221900 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 55
1221774 TGGAGTTGCT
** * *
1221784 GCTGCTGTTGCGTGCTGGAGCTG-CAGTCACTGCTGGAGTTGCTGCTACTGTTGGA
1 GCTGCTGTTGCGTGCTAAAGCTGTC-GTCACCGCTGGAGTTGCTGCTACTGCTGGA
* * *
1221839 GCTGCTGTTGCGTGCTAAAGCTGTCGTCGCCGCTGGAGTTGGTGCTGCTGCTGGA
1 GCTGCTGTTGCGTGCTAAAGCTGTCGTCACCGCTGGAGTTGCTGCTACTGCTGGA
1221894 GCTGCTG
1 GCTGCTG
1221901 CTGTTGTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 53 0.98
56 1 0.02
ACGTcount: A:0.09, C:0.23, G:0.38, T:0.30
Consensus pattern (55 bp):
GCTGCTGTTGCGTGCTAAAGCTGTCGTCACCGCTGGAGTTGCTGCTACTGCTGGA
Found at i:1222245 original size:26 final size:26
Alignment explanation
Indices: 1222211--1222286 Score: 145
Period size: 26 Copynumber: 3.0 Consensus size: 26
1222201 TCCAATTGCA
1222211 ATTTT-TATTTCCTTTCCCATGCTGC
1 ATTTTCTATTTCCTTTCCCATGCTGC
1222236 ATTTTCTATTTCCTTTCCCATGCTGC
1 ATTTTCTATTTCCTTTCCCATGCTGC
1222262 ATTTTCTATTTCCTTTCCCATGCTG
1 ATTTTCTATTTCCTTTCCCATGCTG
1222287 TAAGTTTTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 5 0.10
26 45 0.90
ACGTcount: A:0.12, C:0.29, G:0.08, T:0.51
Consensus pattern (26 bp):
ATTTTCTATTTCCTTTCCCATGCTGC
Found at i:1224571 original size:6 final size:6
Alignment explanation
Indices: 1224562--1224606 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
1224552 TTTATGATTA
*
1224562 TTAATT TTAATT TTAATT TTAATT TTACATTT TTTATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TTA-A-TT TTAATT TTAATT T
1224607 CTTATTAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 29 0.83
7 2 0.06
8 4 0.11
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:1225858 original size:12 final size:13
Alignment explanation
Indices: 1225843--1225875 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
1225833 GTTGCACCTC
1225843 ATTTTTTTA-TTT
1 ATTTTTTTATTTT
1225855 A-TTTTTTATTTT
1 ATTTTTTTATTTT
1225867 ATTTTTTTA
1 ATTTTTTTA
1225876 ATGTCGTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.37
12 5 0.26
13 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:1225861 original size:11 final size:12
Alignment explanation
Indices: 1225845--1225873 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1225835 TGCACCTCAT
1225845 TTTTTTA-TTTA
1 TTTTTTATTTTA
1225856 TTTTTTATTTTA
1 TTTTTTATTTTA
1225868 TTTTTT
1 TTTTTT
1225874 TAATGTCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:1226105 original size:27 final size:26
Alignment explanation
Indices: 1226027--1226108 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
1226017 TTAAAAAGAA
* * * *
1226027 AAAGGGTGTCACAGAGTCATGAAATT
1 AAAGGGTGCCACGGAGTTATGAACTT
* * *
1226053 AAAAGGTGCCATGGAGTTGT-AGACTT
1 AAAGGGTGCCACGGAGTTATGA-ACTT
1226079 AAAGGGGTGCCACGGAGTTATGAACTT
1 AAA-GGGTGCCACGGAGTTATGAACTT
1226106 AAA
1 AAA
1226109 AAGAAAAAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
25 1 0.02
26 20 0.47
27 21 0.49
28 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.23
Consensus pattern (26 bp):
AAAGGGTGCCACGGAGTTATGAACTT
Found at i:1226124 original size:34 final size:34
Alignment explanation
Indices: 1226084--1226552 Score: 155
Period size: 34 Copynumber: 14.8 Consensus size: 34
1226074 GACTTAAAGG
*
1226084 GGTGCCACGGAGTTATGAACTTAAAAAGAAAAAA
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
* * *
1226118 GGTGCCATGGAGTTGTG-ACCTAAAAAGAAAAAG
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
* * **
1226151 GGTACCATGGAGTTGCAAACTT-AAAAG-AAAAA
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
* *
1226183 GGTGCCACGAAGTTGTGGACTT-------AAAAA
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
* * *
1226210 GGTGTCATGGAATTGT-AGACTT-AAAAG------
1 GGTGCCACGGAGTTGTGA-ACTTAAAAAGAAAAAA
* *
1226237 GGTGCCACGAAGTTGT-AGACTTAAAAAAAAAAAA
1 GGTGCCACGGAGTTGTGA-ACTTAAAAAGAAAAAA
* **
1226271 GGTGCCACGGAGTTGTGGACTT-AAAA-AAAAGG
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
* ** *
1226303 GGTACCACAAAGTTGTGGACTT-AAAAG------
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
** * *
1226330 GGCACCACGGAATTGTAAACTT-AAAAG------
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
* ** * *
1226357 TGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAA
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
* * * * *
1226391 GATGCTACGGAGTTGTGGACTTAAAAAGACAAAG
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
* * * *
1226425 GGTGCCATGAAGTTGTGGACTT-AAAAGGAAAAA
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
* * * ** *
1226458 TGTTCTATAGAGTTGTGGACTTAAAAAGAAAAAA
1 GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
*** * * * * *
1226492 GACACTATGGAGTTATGGATTTAAAAAGAAAAAAA
1 GGTGCCACGGAGTTGTGAACTTAAAAAG-AAAAAA
**
1226527 GGTGCCACGGAGTCATGAACTTAAAA
1 GGTGCCACGGAGTTGTGAACTTAAAA
1226553 GGTGCCATGG
Statistics
Matches: 327, Mismatches: 83, Indels: 49
0.71 0.18 0.11
Matches are distributed among these distances:
27 74 0.23
28 8 0.02
32 47 0.14
33 62 0.19
34 112 0.34
35 24 0.07
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (34 bp):
GGTGCCACGGAGTTGTGAACTTAAAAAGAAAAAA
Found at i:1226147 original size:33 final size:33
Alignment explanation
Indices: 1226084--1226210 Score: 121
Period size: 33 Copynumber: 3.8 Consensus size: 33
1226074 GACTTAAAGG
* *
1226084 GGTGCCACGGAGTTATGAACTTAAAAAGAAAAAA
1 GGTGCCACGGAGTTGTG-ACCTAAAAAGAAAAAA
* *
1226118 GGTGCCATGGAGTTGTGACCTAAAAAGAAAAAG
1 GGTGCCACGGAGTTGTGACCTAAAAAGAAAAAA
* * ** * *
1226151 GGTACCATGGAGTTGCAAACTTAAAAG-AAAAA
1 GGTGCCACGGAGTTGTGACCTAAAAAGAAAAAA
* *
1226183 GGTGCCACGAAGTTGTGGACTTAAAAAG
1 GGTGCCACGGAGTTGT-GACCTAAAAAG
1226211 GTGTCATGGA
Statistics
Matches: 74, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
32 16 0.22
33 43 0.58
34 15 0.20
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.19
Consensus pattern (33 bp):
GGTGCCACGGAGTTGTGACCTAAAAAGAAAAAA
Found at i:1226225 original size:27 final size:27
Alignment explanation
Indices: 1226178--1226263 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
1226168 AACTTAAAAG
*
1226178 AAAAAGGTGCCACGAAGTTGTGGACTT
1 AAAAAGGTGCCACGAAGTTGTAGACTT
* *
1226205 AAAAAGGTGTCATGGAA-TTGTAGACTT
1 AAAAAGGTGCCA-CGAAGTTGTAGACTT
*
1226232 AAAAGGGTGCCACGAAGTTGTAGACTT
1 AAAAAGGTGCCACGAAGTTGTAGACTT
1226259 AAAAA
1 AAAAA
1226264 AAAAAAAGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.06
27 44 0.88
28 3 0.06
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (27 bp):
AAAAAGGTGCCACGAAGTTGTAGACTT
Found at i:1226316 original size:120 final size:117
Alignment explanation
Indices: 1226113--1226450 Score: 361
Period size: 120 Copynumber: 2.8 Consensus size: 117
1226103 CTTAAAAAGA
* * * * * * ***
1226113 AAAAAGGTGCCATGGAGTTGTGACCTAAAAAGAAAAAGGGTACCATGGAGTTGCAAACTTAAAAG
1 AAAAGGGTGCCA-GAAGTTGTGACTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-
* *** * *
1226178 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAAGGTGTCATGGAATTGTAGACTT
64 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGGCACCACGGAATTGTAAACTT
*
1226232 AAAAGGGTGCCACGAAGTTGTAGACTTAAAAAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCA-GAAGTTGT-GACTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* * *
1226297 AAAAGGGGTACCACAAAGTTGTGGACTTAAAAGGGCACCACGGAATTGTAAACTT
64 AAAA-GGGTGCCACGAAGTTGTGGACTTAAAAAGGCACCACGGAATTGTAAACTT
* * * * *
1226352 AAAAGTGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAAGATGCTACGGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCAGA-AGTTGT-GACTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTT-AAA
*
1226417 AGACAAAGGGTGCCATGAAGTTGTGGACTTAAAA
63 A-A-AAAGGGTGCCACGAAGTTGTGGACTTAAAA
1226451 GGAAAAATGT
Statistics
Matches: 183, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
119 23 0.13
120 128 0.70
121 4 0.02
122 25 0.14
123 3 0.02
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (117 bp):
AAAAGGGTGCCAGAAGTTGTGACTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAA
AAGGGTGCCACGAAGTTGTGGACTTAAAAAGGCACCACGGAATTGTAAACTT
Found at i:1226345 original size:27 final size:27
Alignment explanation
Indices: 1226297--1226384 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
1226287 GGACTTAAAA
*
1226297 AAAAGGGGTACCACA-AAGTTGTGGACTT
1 AAAA-GGGCACCACAGAA-TTGTGGACTT
* **
1226325 AAAAGGGCACCACGGAATTGTAAACTT
1 AAAAGGGCACCACAGAATTGTGGACTT
* ** * *
1226352 AAAAGTGTGCCATAGAGTTGTGGACTT
1 AAAAGGGCACCACAGAATTGTGGACTT
1226379 AAAAGG
1 AAAAGG
1226385 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
27 40 0.87
28 6 0.13
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (27 bp):
AAAAGGGCACCACAGAATTGTGGACTT
Found at i:1226516 original size:67 final size:68
Alignment explanation
Indices: 1226361--1226525 Score: 188
Period size: 67 Copynumber: 2.4 Consensus size: 68
1226351 TAAAAGTGTG
* * * *
1226361 CCATAGAGTTGTGGACTTAAAAGGAAAAAAGATGCTACGGAGTTGTGGACTTAAAAAGACAAAGG
1 CCATGGAGTTGTGGACTTAAAAGGAAAAAAGATGCTACAGAGTTGTGGACTTAAAAAGAAAAAAG
***
1226426 GTG
66 ACA
* * * *
1226429 CCATGAAGTTGTGGACTTAAAAGGAAAAATG-TTCTATAGAGTTGTGGACTTAAAAAGAAAAAAG
1 CCATGGAGTTGTGGACTTAAAAGGAAAAAAGATGCTACAGAGTTGTGGACTTAAAAAGAAAAAAG
1226493 ACA
66 ACA
* * * *
1226496 CTATGGAGTTATGGATTTAAAAAGAAAAAA
1 CCATGGAGTTGTGGACTTAAAAGGAAAAAA
1226526 AGGTGCCACG
Statistics
Matches: 80, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
67 52 0.65
68 28 0.35
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.23
Consensus pattern (68 bp):
CCATGGAGTTGTGGACTTAAAAGGAAAAAAGATGCTACAGAGTTGTGGACTTAAAAAGAAAAAAG
ACA
Found at i:1226559 original size:26 final size:25
Alignment explanation
Indices: 1226523--1226605 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
1226513 TAAAAAGAAA
1226523 AAAAGGTGCCACGGAGTCATGAACTT
1 AAAAGGTGCCACGGAGT-ATGAACTT
*
1226549 AAAAGGTGCCATGGAGT-TGTAGACTT
1 AAAAGGTGCCACGGAGTATG-A-ACTT
* * *
1226575 AAAAGGGTGCCACAGAATTATGGACTT
1 AAAA-GGTGCCAC-GGAGTATGAACTT
1226602 AAAA
1 AAAA
1226606 AAGAAAAAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 2 0.04
25 1 0.02
26 24 0.51
27 15 0.32
28 3 0.06
29 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (25 bp):
AAAAGGTGCCACGGAGTATGAACTT
Found at i:1226600 original size:27 final size:27
Alignment explanation
Indices: 1226570--1226693 Score: 72
Period size: 27 Copynumber: 4.3 Consensus size: 27
1226560 TGGAGTTGTA
1226570 GACTTAAAAGGGTGCCACAGAATTATG
1 GACTTAAAAGGGTGCCACAGAATTATG
* * *
1226597 GACTTAAAAAAGAAAAAGGATGCCACAGAGTCATA
1 GACTT--AAAAG-----GG-TGCCACAGAATTATG
* *
1226632 GACTTAAAA-GGTGTCAC-GAAGTTGTG
1 GACTTAAAAGGGTGCCACAGAA-TTATG
** * *
1226658 GACTTAAAAGGGTGCCATGGAGTTGTG
1 GACTTAAAAGGGTGCCACAGAATTATG
1226685 GACTTAAAA
1 GACTTAAAA
1226694 AGAAAAAAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
25 2 0.03
26 16 0.21
27 27 0.36
28 2 0.03
29 5 0.07
33 4 0.05
34 2 0.03
35 17 0.23
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.22
Consensus pattern (27 bp):
GACTTAAAAGGGTGCCACAGAATTATG
Found at i:1226663 original size:26 final size:27
Alignment explanation
Indices: 1226632--1226693 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
1226622 CAGAGTCATA
*
1226632 GACTTAAAA-GGTGTCACGAAGTTGTG
1 GACTTAAAAGGGTGCCACGAAGTTGTG
* *
1226658 GACTTAAAAGGGTGCCATGGAGTTGTG
1 GACTTAAAAGGGTGCCACGAAGTTGTG
1226685 GACTTAAAA
1 GACTTAAAA
1226694 AGAAAAAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (27 bp):
GACTTAAAAGGGTGCCACGAAGTTGTG
Found at i:1226702 original size:61 final size:60
Alignment explanation
Indices: 1226637--1226784 Score: 206
Period size: 61 Copynumber: 2.4 Consensus size: 60
1226627 TCATAGACTT
* *
1226637 AAAAGGTGTCACGAAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGAA
1 AAAAGGTG-CACGAAGTTGTGGACTTAAAAGGGTGCCATAGAGTTATGGACTTAAAAAGAA
** * *
1226698 AAAAGGCACCATGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTATGGACTTAAAAAGAA
1 AAAAGG-TGCACGAAGTTGTGGACTTAAAAGGGTGCCATAGAGTTATGGACTTAAAAAGAA
*
1226759 AAAAGGTGCTACAAAGTTGTGGACTT
1 AAAAGGTGC-ACGAAGTTGTGGACTT
1226785 TTAAAGAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
60 1 0.01
61 73 0.99
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (60 bp):
AAAAGGTGCACGAAGTTGTGGACTTAAAAGGGTGCCATAGAGTTATGGACTTAAAAAGAA
Found at i:1226727 original size:26 final size:27
Alignment explanation
Indices: 1226697--1226754 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
1226687 CTTAAAAAGA
* * *
1226697 AAAAAGGCACCATGGAGTTGTGGACTT
1 AAAAGGGCACCATAGAGTTATGGACTT
**
1226724 AAAAGGGTGCCATAGAGTTATGGACTT
1 AAAAGGGCACCATAGAGTTATGGACTT
1226751 AAAA
1 AAAA
1226755 AGAAAAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (27 bp):
AAAAGGGCACCATAGAGTTATGGACTT
Found at i:1226748 original size:88 final size:86
Alignment explanation
Indices: 1226498--1226754 Score: 275
Period size: 88 Copynumber: 2.9 Consensus size: 86
1226488 AAAAGACACT
* * * *
1226498 ATGGAGTTATGGATTTAAAAAGAAAAAAAGGTGCCACGGAGTCATGAACTTAAAAGGTGCCATGG
1 ATGGAGTTATGGACTTAAAAAG-AAAAAAGG-ACCACGGAGTCATGGACTTAAAAGGTGCCATAG
*
1226563 AGTTGTAGACTTAAAAGGGTGCC
64 AGTTGTGGACTTAAAAGGGTGCC
** * * * * *
1226586 ACAGAATTATGGACTTAAAAA-AGAAAAAGGATGCCACAGAGTCATAGACTTAAAAGGTGTCA-C
1 ATGGAGTTATGGACTTAAAAAGA-AAAAAGGA--CCACGGAGTCATGGACTTAAAAGGTGCCATA
1226649 GAAGTTGTGGACTTAAAAGGGTGCC
63 G-AGTTGTGGACTTAAAAGGGTGCC
* * **
1226674 ATGGAGTTGTGGACTTAAAAAGAAAAAAGGCACCATGGAGTTGTGGACTTAAAAGGGTGCCATAG
1 ATGGAGTTATGGACTTAAAAAGAAAAAAGG-ACCACGGAGTCATGGACTTAAAA-GGTGCCATAG
*
1226739 AGTTATGGACTTAAAA
64 AGTTGTGGACTTAAAA
1226755 AGAAAAAAGG
Statistics
Matches: 138, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
86 1 0.01
87 25 0.18
88 109 0.79
89 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (86 bp):
ATGGAGTTATGGACTTAAAAAGAAAAAAGGACCACGGAGTCATGGACTTAAAAGGTGCCATAGAG
TTGTGGACTTAAAAGGGTGCC
Found at i:1226782 original size:34 final size:34
Alignment explanation
Indices: 1226739--1226921 Score: 155
Period size: 34 Copynumber: 5.6 Consensus size: 34
1226729 GGTGCCATAG
*
1226739 AGTTATGGACTTAAAAAGAAAAAAGGTGCTACAA
1 AGTTGTGGACTTAAAAAGAAAAAAGGTGCTACAA
** * ****
1226773 AGTTGTGGACTTTTAAAGAAAAAAGGTGTTGTGG
1 AGTTGTGGACTTAAAAAGAAAAAAGGTGCTACAA
*
1226807 AGTTGTGGACTT-------AAAAAGGTGCCACAA
1 AGTTGTGGACTTAAAAAGAAAAAAGGTGCTACAA
* * * *
1226834 AGTTATAGACTTAAAAAGAAAAAAGGTGCCACGA
1 AGTTGTGGACTTAAAAAGAAAAAAGGTGCTACAA
* * * *
1226868 AGTTGTGAACTTAAAAAGAAAAAAGATGCTATAG
1 AGTTGTGGACTTAAAAAGAAAAAAGGTGCTACAA
*
1226902 AGTTGTGGACTTTAAAAGAA
1 AGTTGTGGACTTAAAAAGAA
1226922 CTGATGCCAT
Statistics
Matches: 115, Mismatches: 27, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
27 19 0.17
34 96 0.83
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (34 bp):
AGTTGTGGACTTAAAAAGAAAAAAGGTGCTACAA
Found at i:1226782 original size:95 final size:95
Alignment explanation
Indices: 1226678--1226951 Score: 332
Period size: 95 Copynumber: 2.8 Consensus size: 95
1226668 GGTGCCATGG
** *
1226678 AGTTGTGGACTTAAAAAGAAAAAAGGCACCATGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTT
1 AGTTGTGGACTTAAAAAGAAAAAAGGTGCTATGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTT
*
1226743 ATGGACTTAAAAAGAAAAAAGGTGCTACAA
66 ATGGACTTAAAAAGAAAAAAGGTGCCACAA
** * * * * *
1226773 AGTTGTGGACTTTTAAAGAAAAAAGGTGTTGTGGAGTTGTGGACTTAAAAAGGTGCCACAAAGTT
1 AGTTGTGGACTTAAAAAGAAAAAAGGTGCTATGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTT
* *
1226838 ATAGACTTAAAAAGAAAAAAGGTGCCACGA
66 ATGGACTTAAAAAGAAAAAAGGTGCCACAA
* * * *
1226868 AGTTGTGAACTTAAAAAGAAAAAAGATGCTATAGAGTTGTGGACTTTAAAAGAACTGATGCCATA
1 AGTTGTGGACTTAAAAAGAAAAAAGGTGCTATGGAGTTGTGGAC-TTAAAAG----GGTGCCATA
* *
1226933 GGGTTGTGGACTTAAAAAG
61 GAGTTATGGACTTAAAAAG
1226952 GTGCCATGAA
Statistics
Matches: 147, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
95 119 0.81
96 6 0.04
100 22 0.15
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (95 bp):
AGTTGTGGACTTAAAAAGAAAAAAGGTGCTATGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTT
ATGGACTTAAAAAGAAAAAAGGTGCCACAA
Found at i:1226872 original size:61 final size:61
Alignment explanation
Indices: 1226758--1226885 Score: 157
Period size: 61 Copynumber: 2.1 Consensus size: 61
1226748 CTTAAAAAGA
* * * ** **** * *
1226758 AAAAAGGTGCTACAAAGTTGTGGACTTTTAAAGAAAAAAGGTGTTGTGGAGTTGTGGACTT
1 AAAAAGGTGCCACAAAGTTATAGACTTAAAAAGAAAAAAGGTGCCACGAAGTTGTGAACTT
1226819 AAAAAGGTGCCACAAAGTTATAGACTTAAAAAGAAAAAAGGTGCCACGAAGTTGTGAACTT
1 AAAAAGGTGCCACAAAGTTATAGACTTAAAAAGAAAAAAGGTGCCACGAAGTTGTGAACTT
1226880 AAAAAG
1 AAAAAG
1226886 AAAAAAGATG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.42, C:0.09, G:0.25, T:0.23
Consensus pattern (61 bp):
AAAAAGGTGCCACAAAGTTATAGACTTAAAAAGAAAAAAGGTGCCACGAAGTTGTGAACTT
Found at i:1227004 original size:27 final size:27
Alignment explanation
Indices: 1226939--1227065 Score: 110
Period size: 27 Copynumber: 4.5 Consensus size: 27
1226929 CATAGGGTTG
*
1226939 TGGACTTAAAAAGGTGCCATGAAATTA
1 TGGACTTAAAAGGGTGCCATGAAATTA
* *
1226966 TGGACATAAAAGGGTGCCATGAAGTTA
1 TGGACTTAAAAGGGTGCCATGAAATTA
* * *
1226993 TGGACTTAAAAGGAAAAAGGTGCCATGGAGTTG
1 TGGACTTAAAA-G-----GGTGCCATGAAATTA
* * **
1227026 TGGACCTAAAAGGGTGTCACAAAATTA
1 TGGACTTAAAAGGGTGCCATGAAATTA
1227053 TGGACTTAAAAGG
1 TGGACTTAAAAGG
1227066 AAAAAGGTGC
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
27 55 0.69
28 1 0.01
32 1 0.01
33 23 0.29
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.23
Consensus pattern (27 bp):
TGGACTTAAAAGGGTGCCATGAAATTA
Found at i:1227013 original size:60 final size:60
Alignment explanation
Indices: 1226946--1227077 Score: 192
Period size: 60 Copynumber: 2.2 Consensus size: 60
1226936 TTGTGGACTT
** *
1226946 AAAAAGGTGCCATGAAATTATGGACATAAAAGGGTGCCATGAAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCATGAAATTATGGACATAAAAGGGTGCCACAAAATTATGGACTTAAAAGG
* * * * *
1227006 AAAAAGGTGCCATGGAGTTGTGGACCTAAAAGGGTGTCACAAAATTATGGACTTAAAAGG
1 AAAAAGGTGCCATGAAATTATGGACATAAAAGGGTGCCACAAAATTATGGACTTAAAAGG
1227066 AAAAAGGTGCCA
1 AAAAAGGTGCCA
1227078 GGATTTGTGG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.20
Consensus pattern (60 bp):
AAAAAGGTGCCATGAAATTATGGACATAAAAGGGTGCCACAAAATTATGGACTTAAAAGG
Found at i:1227016 original size:33 final size:33
Alignment explanation
Indices: 1226973--1227038 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1226963 TTATGGACAT
* *
1226973 AAAAGGGTGCCATGAAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCATGAAGTTATGGACCTAAAAGG
* *
1227006 AAAAAGGTGCCATGGAGTTGTGGACCTAAAAGG
1 AAAAAGGTGCCATGAAGTTATGGACCTAAAAGG
1227039 GTGTCACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.20
Consensus pattern (33 bp):
AAAAAGGTGCCATGAAGTTATGGACCTAAAAGG
Found at i:1227164 original size:32 final size:32
Alignment explanation
Indices: 1227085--1227164 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 32
1227075 CCAGGATTTG
* * *
1227085 TGGAC-TTTGAATAAGGAATGCCACTGATTCA
1 TGGACTTTTGAAAAAAGAATGCCACTGAGTCA
*
1227116 TGGA-TTTTGAAGAAAGAATGCCACTGAGTCA
1 TGGACTTTTGAAAAAAGAATGCCACTGAGTCA
1227147 TGGACTTTTGAAAAAAGA
1 TGGACTTTTGAAAAAAGA
1227165 TTTGAAGGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 31 0.72
32 12 0.28
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (32 bp):
TGGACTTTTGAAAAAAGAATGCCACTGAGTCA
Found at i:1235832 original size:20 final size:19
Alignment explanation
Indices: 1235803--1235841 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1235793 AGGTCAAAAC
*
1235803 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCAATACA
1235822 CCTTCAAATGTATCAATACA
1 CCTT-AAATGTATCAATACA
1235842 GAATGCACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCAATACA
Found at i:1236006 original size:13 final size:13
Alignment explanation
Indices: 1235988--1236013 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1235978 TACACACAAG
1235988 ATGTATCGATACA
1 ATGTATCGATACA
1236001 ATGTATCGATACA
1 ATGTATCGATACA
1236014 TCCCAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1236033 original size:33 final size:32
Alignment explanation
Indices: 1235972--1236033 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
1235962 TAACTGTTTA
*
1235972 TATCGATACACACAAGATGTATCGATACAATG
1 TATCGATACACACAAGATGTATCAATACAATG
*
1236004 TATCGATACATCCCAA-ATTGTATCAATACA
1 TATCGATACA-CACAAGA-TGTATCAATACA
1236034 TTGGCTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 11 0.42
33 15 0.58
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.27
Consensus pattern (32 bp):
TATCGATACACACAAGATGTATCAATACAATG
Found at i:1242174 original size:13 final size:13
Alignment explanation
Indices: 1242155--1242193 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1242145 ACAGCATTCT
1242155 CTGTATCGATACA
1 CTGTATCGATACA
*
1242168 TTGTATCGATACA
1 CTGTATCGATACA
*
1242181 CTATATCGATACA
1 CTGTATCGATACA
1242194 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:1244644 original size:20 final size:19
Alignment explanation
Indices: 1244615--1244653 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1244605 AGGTCAAAAC
1244615 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
1244634 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
1244654 GAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:1244805 original size:13 final size:13
Alignment explanation
Indices: 1244787--1244812 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1244777 TACACATAAG
1244787 ATGTATCGATACA
1 ATGTATCGATACA
1244800 ATGTATCGATACA
1 ATGTATCGATACA
1244813 TCCCAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1245722 original size:51 final size:51
Alignment explanation
Indices: 1245645--1245751 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
1245635 ATTCATATTT
* * *
1245645 GAATTGTATCAATACATTATGAATTGTATTGATAGATTAAGCTCAAC-GCTA
1 GAATTGTACCAATACATTATGAATTGTATCGATACATTAAGC-CAACGGCTA
* * * * *
1245696 TAATTGTACCGATATATTATGGATTGTATCGATACATTGAGCCAACGGCTA
1 GAATTGTACCAATACATTATGAATTGTATCGATACATTAAGCCAACGGCTA
1245747 GAATT
1 GAATT
1245752 TTAAATGCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
50 4 0.09
51 42 0.91
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (51 bp):
GAATTGTACCAATACATTATGAATTGTATCGATACATTAAGCCAACGGCTA
Found at i:1253288 original size:18 final size:17
Alignment explanation
Indices: 1253258--1253306 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
1253248 TTGAAATGTA
1253258 TAAAGGGGAAATTGTTT
1 TAAAGGGGAAATTGTTT
1253275 TAAAGGGAGAAATTGTTT
1 TAAAGGG-GAAATTGTTT
*
1253293 TCAAAGAGGAAATT
1 T-AAAGGGGAAATT
1253307 AGAACATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.24
18 17 0.59
19 5 0.17
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.31
Consensus pattern (17 bp):
TAAAGGGGAAATTGTTT
Found at i:1253915 original size:13 final size:13
Alignment explanation
Indices: 1253897--1253921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1253887 ATATTGCTTA
1253897 GTATCGATACATT
1 GTATCGATACATT
1253910 GTATCGATACAT
1 GTATCGATACAT
1253922 GTTTTTTGTA
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:1254021 original size:20 final size:20
Alignment explanation
Indices: 1253996--1254034 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1253986 TATTCATAAT
1253996 TGAATTGTATCGATACATTA
1 TGAATTGTATCGATACATTA
1254016 TGAATTGTATCGATACATT
1 TGAATTGTATCGATACATT
1254035 GAGCTCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (20 bp):
TGAATTGTATCGATACATTA
Found at i:1254059 original size:32 final size:32
Alignment explanation
Indices: 1254017--1254085 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
1254007 GATACATTAT
* * *
1254017 GAATTGTATCGATACATTGAGCTCAATGGCTA
1 GAATTGTATCGATACATTAAGCCCAACGGCTA
*
1254049 TAATTGTATCGATACATTAAGCCCAACGGCTA
1 GAATTGTATCGATACATTAAGCCCAACGGCTA
1254081 GAATT
1 GAATT
1254086 TCACATGCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (32 bp):
GAATTGTATCGATACATTAAGCCCAACGGCTA
Found at i:1254554 original size:35 final size:34
Alignment explanation
Indices: 1254504--1254569 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
1254494 GAAGTGATTG
*
1254504 AGAGGTTCTTACTTAGCCTTCGTAAAAGATAGGGA
1 AGAGGTTCTTACTTAGCCTTAG-AAAAGATAGGGA
1254539 AGAGGTTC-TATCTTAGCCTTAGAAAAGATAG
1 AGAGGTTCTTA-CTTAGCCTTAGAAAAGATAG
1254570 TATTGTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (34 bp):
AGAGGTTCTTACTTAGCCTTAGAAAAGATAGGGA
Found at i:1260614 original size:21 final size:21
Alignment explanation
Indices: 1260589--1260643 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1260579 CACTTGCAAC
*
1260589 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
1260610 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
1260631 TCACTTAATTTCT
1 TCATTTATTTTCT
1260644 TTTCAAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:1260644 original size:21 final size:21
Alignment explanation
Indices: 1260604--1260647 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1260594 TCTTTTCTCC
* *
1260604 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
1260625 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
1260646 TC
1 TC
1260648 AAGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:1262829 original size:10 final size:10
Alignment explanation
Indices: 1262808--1262848 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
1262798 GTATCGATAC
1262808 ATGAACAGTG
1 ATGAACAGTG
* *
1262818 ATTAATAGTG
1 ATGAACAGTG
1262828 ATGAACAGTG
1 ATGAACAGTG
*
1262838 ATAAACAGTG
1 ATGAACAGTG
1262848 A
1 A
1262849 AAAATGAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.24
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:1262847 original size:20 final size:20
Alignment explanation
Indices: 1262808--1262848 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1262798 GTATCGATAC
* *
1262808 ATGAACAGTGATTAATAGTG
1 ATGAACAGTGATAAACAGTG
1262828 ATGAACAGTGATAAACAGTG
1 ATGAACAGTGATAAACAGTG
1262848 A
1 A
1262849 AAAATGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.24
Consensus pattern (20 bp):
ATGAACAGTGATAAACAGTG
Found at i:1264023 original size:13 final size:13
Alignment explanation
Indices: 1264005--1264029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1263995 CTGCCAGTTT
1264005 ATGTATCGATACA
1 ATGTATCGATACA
1264018 ATGTATCGATAC
1 ATGTATCGATAC
1264030 TAAGCAAAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1271490 original size:28 final size:30
Alignment explanation
Indices: 1271437--1271513 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 30
1271427 GAAATAAAAT
1271437 CGGGATTGGAGTAT-CCC-ATCGAAAATAA
1 CGGGATTGGAGTATCCCCGATCGAAAATAA
*
1271465 TGGGATTGGAGTATCCCCGAT-G-AAATAA
1 CGGGATTGGAGTATCCCCGATCGAAAATAA
* *
1271493 CGGGGTTGGAGTACCCCCGAT
1 CGGGATTGGAGTATCCCCGAT
1271514 TATGAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 37 0.86
29 4 0.09
30 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (30 bp):
CGGGATTGGAGTATCCCCGATCGAAAATAA
Found at i:1273962 original size:20 final size:20
Alignment explanation
Indices: 1273937--1274043 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
1273927 AAAATGCTTG
*
1273937 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
* *
1273957 AATGTATCGATCCAATGAGC
1 AATGTATCGATACAATGAGA
1273977 AATGTATCGATACAAT--G-
1 AATGTATCGATACAATGAGA
* * *
1273994 --T-T-TCAATACAAGGAGC
1 AATGTATCGATACAATGAGA
1274010 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
1274030 AATGTATCGATACA
1 AATGTATCGATACA
1274044 TCTGGGTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
13 8 0.12
14 1 0.01
15 2 0.03
18 2 0.03
19 2 0.03
20 53 0.77
21 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:1274711 original size:2 final size:2
Alignment explanation
Indices: 1274704--1274733 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1274694 GGAAATAGAA
1274704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1274734 TTATTTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 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:1282738 original size:36 final size:36
Alignment explanation
Indices: 1282691--1282772 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
1282681 ATTCACCTTT
* *
1282691 ATTCACTTTGATTTTAGCCCTGATATTT-TCCCTATG
1 ATTCACCTTGATTTTAGCCCTGAT-TTTCTCCCTATA
* *
1282727 ATTCACCTTGATTTTAGCCTTGATTTTCTTCCTATA
1 ATTCACCTTGATTTTAGCCCTGATTTTCTCCCTATA
1282763 ATTCACCTTG
1 ATTCACCTTG
1282773 GATCTTAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 3 0.07
36 38 0.93
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.48
Consensus pattern (36 bp):
ATTCACCTTGATTTTAGCCCTGATTTTCTCCCTATA
Found at i:1283002 original size:18 final size:17
Alignment explanation
Indices: 1282956--1283003 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
1282946 CATATTATAA
*
1282956 TTATAT-TTAAAAAATT
1 TTATATATTAATAAATT
1282972 TTATAT-TTAAATAAATT
1 TTATATATT-AATAAATT
1282989 TTAATATATTAATAA
1 TT-ATATATTAATAA
1283004 TTTATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 8 0.29
17 9 0.32
18 9 0.32
19 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATATATTAATAAATT
Found at i:1283006 original size:17 final size:17
Alignment explanation
Indices: 1282956--1282991 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
1282946 CATATTATAA
1282956 TTATATTTAAA-AAATT
1 TTATATTTAAATAAATT
1282972 TTATATTTAAATAAATT
1 TTATATTTAAATAAATT
1282989 TTA
1 TTA
1282992 ATATATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATATTTAAATAAATT
Found at i:1283048 original size:33 final size:33
Alignment explanation
Indices: 1282982--1283049 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
1282972 TTATATTTAA
* *
1282982 ATAAATTTTAATATATTAATAATTTATTTTTAT
1 ATAAAATTTAATATATTAATAATTTATTATTAT
* *
1283015 ATAAAATTTAATATGTTTATATATTT-TTATTAT
1 ATAAAATTTAATATATTAATA-ATTTATTATTAT
1283048 AT
1 AT
1283050 TTCAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (33 bp):
ATAAAATTTAATATATTAATAATTTATTATTAT
Found at i:1283348 original size:30 final size:29
Alignment explanation
Indices: 1283313--1283381 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
1283303 TATATAATAC
*
1283313 TAATATTATATAAAAATATAAAATAAATTA
1 TAATATAATATAAAAATATAAAA-AAATTA
*
1283343 TAATATAATATAAAAATATTAAAAAATTA
1 TAATATAATATAAAAATATAAAAAAATTA
1283372 T-ATA-AATATA
1 TAATATAATATA
1283382 TCAAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 6 0.16
28 3 0.08
29 7 0.19
30 21 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
TAATATAATATAAAAATATAAAAAAATTA
Found at i:1283388 original size:30 final size:29
Alignment explanation
Indices: 1283319--1283389 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
1283309 ATACTAATAT
*
1283319 TATATAAAAATATAAAATAAATTATAATA
1 TATATAAAAATATAAAATAAATTATAAAA
*
1283348 TAATATAAAAATATTAAA-AAATTATATAAA
1 T-ATATAAAAATATAAAATAAATTATA-AAA
1283378 TATATCAAAAAT
1 TATAT-AAAAAT
1283390 TATATAATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (29 bp):
TATATAAAAATATAAAATAAATTATAAAA
Found at i:1283389 original size:20 final size:21
Alignment explanation
Indices: 1283350--1283396 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
1283340 TTATAATATA
1283350 ATATAAAAATATTAAAAAATT
1 ATATAAAAATATTAAAAAATT
* *
1283371 ATATAAATATA-TCAAAAATT
1 ATATAAAAATATTAAAAAATT
1283391 ATATAA
1 ATATAA
1283397 TCAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATATAAAAATATTAAAAAATT
Found at i:1285491 original size:17 final size:17
Alignment explanation
Indices: 1285469--1285502 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1285459 GACAGAAGTT
1285469 TTAGAGA-AGAATGTAAG
1 TTAGAGAGAGAA-GTAAG
1285486 TTAGAGAGAGAAGTAAG
1 TTAGAGAGAGAAGTAAG
1285503 CTAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (17 bp):
TTAGAGAGAGAAGTAAG
Done.