Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 5 of 313
Found at i:1239032 original size:14 final size:14
Alignment explanation
Indices: 1239009--1239067 Score: 91
Period size: 14 Copynumber: 4.2 Consensus size: 14
1238999 GGTAAAATAT
*
1239009 TTTCTGGAAACTGA
1 TTTCTGGAAAATGA
*
1239023 TTTTTGGAAAATGA
1 TTTCTGGAAAATGA
1239037 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
*
1239051 TTTCTGAAAAATGA
1 TTTCTGGAAAATGA
1239065 TTT
1 TTT
1239068 ACTTTTCTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.41
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:1240871 original size:18 final size:18
Alignment explanation
Indices: 1240845--1240908 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
1240835 ATTGAAACTT
*
1240845 CAACTTATAAATGAACAA
1 CAACATATAAATGAACAA
1240863 CAACATATAAATGAACAA
1 CAACATATAAATGAACAA
*
1240881 CAAC-TCCCTAAA-GAACAA
1 CAACAT--ATAAATGAACAA
1240899 CAACATATAA
1 CAACATATAA
1240909 CTTATTTCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 31 0.77
19 5 0.12
ACGTcount: A:0.56, C:0.22, G:0.05, T:0.17
Consensus pattern (18 bp):
CAACATATAAATGAACAA
Found at i:1241663 original size:48 final size:47
Alignment explanation
Indices: 1241590--1241683 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 47
1241580 TTCAGATCAG
1241590 TCAGGGAAAAGAAGAAGAAGAAGAAAAAGCCATACCCAAAAACCAATT
1 TCAGGGAAAAGAAGAAGAAGAAGAAAAAGCCATACCC-AAAACCAATT
* *
1241638 TCAGGGAAAAGAAGAAGAAGCAGAAAAAGCCGTACCCAAAACCAAT
1 TCAGGGAAAAGAAGAAGAAGAAGAAAAAGCCATACCCAAAACCAAT
1241684 CTTACAGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 9 0.20
48 35 0.80
ACGTcount: A:0.54, C:0.18, G:0.20, T:0.07
Consensus pattern (47 bp):
TCAGGGAAAAGAAGAAGAAGAAGAAAAAGCCATACCCAAAACCAATT
Found at i:1246693 original size:85 final size:85
Alignment explanation
Indices: 1246575--1246737 Score: 308
Period size: 85 Copynumber: 1.9 Consensus size: 85
1246565 AATGAGAATC
1246575 AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAA
1 AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAA
1246640 TCAGAATCAGAATCAGTAAT
66 TCAGAATCAGAATCAGTAAT
*
1246660 AGAATCAGAATCAGAATCAGTATTCGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAA
1 AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAA
*
1246725 TTAGAATCAGAAT
66 TCAGAATCAGAAT
1246738 GTGAATGCAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAA
TCAGAATCAGAATCAGTAAT
Found at i:1246731 original size:6 final size:6
Alignment explanation
Indices: 1246569--1246712 Score: 154
Period size: 6 Copynumber: 23.8 Consensus size: 6
1246559 AACCAAAATG
* *
1246569 AGAATC AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
1246617 AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAAT- AGAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC
*
1246666 AGAATC AGAATC AGTATTC -GTAA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AG-AATC AG-AATC AGAATC AGAATC AGAATC AGAAT
1246713 TAGGTGACAG
Statistics
Matches: 118, Mismatches: 10, Indels: 20
0.80 0.07 0.14
Matches are distributed among these distances:
5 9 0.08
6 99 0.84
7 9 0.08
8 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:1246907 original size:27 final size:26
Alignment explanation
Indices: 1246877--1246975 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
1246867 CAGTTATCAA
* *
1246877 ATATTGTGACAGAGTCACCAAATACAG
1 ATATTGTGGCAGAGCCACCAAA-ACAG
* *
1246904 ATATTGTGGCAGAGCCATCAGAACAG
1 ATATTGTGGCAGAGCCACCAAAACAG
*
1246930 ATATTTGTGGCATAGCCACCAGAAACAG
1 ATA-TTGTGGCAGAGCCACCA-AAACAG
* *
1246958 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
1246976 TTAACAGAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 46 0.75
28 8 0.13
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAAAACAG
Found at i:1247168 original size:22 final size:22
Alignment explanation
Indices: 1247134--1247198 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
1247124 GCAAATACGT
* *
1247134 TTGGTACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
1247156 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
1247178 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
1247199 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:1247683 original size:27 final size:27
Alignment explanation
Indices: 1247653--1247890 Score: 257
Period size: 27 Copynumber: 8.8 Consensus size: 27
1247643 GGTATCTCGA
*
1247653 TAATTCCACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTTAG
* *
1247680 TAATTCTACCCTATAGGGGGTA-TTTCG
1 TAATTCTACCCTACA-GGGGTATTTTAG
* * * *
1247707 ATAATTTTACCCTATAGGGGTATTTCAA
1 -TAATTCTACCCTACAGGGGTATTTTAG
* **
1247735 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTTAG
* **
1247762 TAATTCTACCCTACAAGGGTA-TTGCG
1 TAATTCTACCCTACAGGGGTATTTTAG
1247788 ATAATTCTACCCTACAGGGGTATTTTAG
1 -TAATTCTACCCTACAGGGGTATTTTAG
* *
1247816 TAATTCTACCCTACAGGGGTATTCTGG
1 TAATTCTACCCTACAGGGGTATTTTAG
* *
1247843 TAATTCTACCCTACAAGGGTA-TTTCG
1 TAATTCTACCCTACAGGGGTATTTTAG
*
1247869 ATAATTCTATCCTACAGGGGTA
1 -TAATTCTACCCTACAGGGGTA
1247891 ATTACCTTAC
Statistics
Matches: 181, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.03
27 150 0.83
28 25 0.14
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTTAG
Found at i:1247782 original size:54 final size:54
Alignment explanation
Indices: 1247643--1247938 Score: 310
Period size: 54 Copynumber: 5.6 Consensus size: 54
1247633 TACCCCACAA
* * * * *
1247643 GGTATCTCGATAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACA-GG
* * *
1247698 GGTATTTCGATAATTTTACCCTATAGGGGTATTTCAATAATTCTACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGG
* * * *
1247752 GGTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGG
* ** *
1247806 GGTATTT-TAGTAATTCTACCCTACAGGGGTA-TTCTGGTAATTCTACCCTACAAG
1 GGTATTTCGA-TAATTCTACCCTACAGGGGTATTTC-AATAATTCTACCCTACAGG
* *
1247860 GGTATTTCGATAATTCTATCCTACAGGGG--------TAA-T-TACCTTACAGG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGG
*
1247904 GGTATTTCGATAATTCTACCGTACAGGGGTATTTC
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTC
1247939 GGTAATTTTG
Statistics
Matches: 207, Mismatches: 25, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
44 36 0.17
45 1 0.00
46 3 0.01
53 2 0.01
54 118 0.57
55 47 0.23
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (54 bp):
GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGG
Found at i:1247820 original size:81 final size:81
Alignment explanation
Indices: 1247643--1247890 Score: 345
Period size: 81 Copynumber: 3.0 Consensus size: 81
1247633 TACCCCACAA
* * * ** * *
1247643 GGTATCTCGATAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGGTATTTCGA
1 GGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-AGGGTATTTCGA
* *
1247708 TAATTTTACCCTATAGG
65 TAATTCTACCCTACAGG
* *
1247725 GGTATTTCAATAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTGCGAT
1 GGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGAT
1247790 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
* *
1247806 GGTATTTTAGTAATTCTACCCTACAGGGGTA-TTCTGGTAATTCTACCCTACAAGGGTATTTCGA
1 GGTATTTCAATAATTCTACCCTACAGGGGTATTTC-GGTAATTCTACCCTACAAGGGTATTTCGA
*
1247870 TAATTCTATCCTACAGG
65 TAATTCTACCCTACAGG
1247887 GGTA
1 GGTA
1247891 ATTACCTTAC
Statistics
Matches: 149, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
80 3 0.02
81 101 0.68
82 45 0.30
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
GGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGAT
AATTCTACCCTACAGG
Found at i:1247909 original size:44 final size:44
Alignment explanation
Indices: 1247849--1247934 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
1247839 CTGGTAATTC
1247849 TACCCTACAAGGGTATTTCGATAATTCTATCC-TACAGGGGTAAT
1 TACCCTACAAGGGTATTTCGATAATTCTA-CCGTACAGGGGTAAT
* *
1247893 TACCTTACAGGGGTATTTCGATAATTCTACCGTACAGGGGTA
1 TACCCTACAAGGGTATTTCGATAATTCTACCGTACAGGGGTA
1247935 TTTCGGTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 2 0.05
44 37 0.95
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (44 bp):
TACCCTACAAGGGTATTTCGATAATTCTACCGTACAGGGGTAAT
Found at i:1247928 original size:27 final size:27
Alignment explanation
Indices: 1247893--1247945 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1247883 CAGGGGTAAT
*
1247893 TACCTTACAGGGGTATTTCGATAATTC
1 TACCGTACAGGGGTATTTCGATAATTC
*
1247920 TACCGTACAGGGGTATTTCGGTAATT
1 TACCGTACAGGGGTATTTCGATAATT
1247946 TTGTAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (27 bp):
TACCGTACAGGGGTATTTCGATAATTC
Found at i:1247986 original size:27 final size:27
Alignment explanation
Indices: 1247939--1248002 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
1247929 GGGGTATTTC
* **
1247939 GGTAATTTTGTAAATTGAGGGTAAAAT
1 GGTAATTTTATAAATCAAGGGTAAAAT
***
1247966 GGTAATTTTATAAATCAAGGGTACTTT
1 GGTAATTTTATAAATCAAGGGTAAAAT
1247993 GGTAATTTTA
1 GGTAATTTTA
1248003 CAAGTCGAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTAATTTTATAAATCAAGGGTAAAAT
Found at i:1248040 original size:81 final size:81
Alignment explanation
Indices: 1247928--1248243 Score: 296
Period size: 81 Copynumber: 3.9 Consensus size: 81
1247918 TCTACCGTAC
** ** ** ** *
1247928 AGGGGTATTTCGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTATAAATCAAGGGTACTTT
1 AGGGGTATTTCAATAATTTTACAAACCGAGGGTAATTTGGTAATTTTATAAATCAAGGGTATTTT
*
1247993 GGTAATTTTACAAGTCG
66 GGTAATTTTACAA-ACG
** * * *
1248010 A-GGGTATTTCAATAATTTTACAAGTCGAGGGT-ATTTCAGTAATTTCACAAATCAAGGGTATTT
1 AGGGGTATTTCAATAATTTTACAAACCGAGGGTAATTT-GGTAATTTTATAAATCAAGGGTATTT
*
1248073 TGGTAATTTTACAAACT
65 TGGTAATTTTACAAACG
** * * *
1248090 AGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTT
1 AGGGGTATTTCAATAATTTTACAAACCGAGGGTAATTTGGTAATTTTATAAATCAAGGGTATTTT
* *
1248155 AGTAATTTTACAAACC
66 GGTAATTTTACAAACG
*** ** * * * *
1248171 AGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTT
1 AGGGGTATTTCAATAATTTTACAAACCGAGGGTAATTTGGTAATTTTATAAATC-AAGGGTATTT
1248235 TGGTAATTT
65 TGGTAATTT
1248244 GGTAAACTAA
Statistics
Matches: 198, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
80 5 0.03
81 189 0.95
82 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTCAATAATTTTACAAACCGAGGGTAATTTGGTAATTTTATAAATCAAGGGTATTTT
GGTAATTTTACAAACG
Found at i:1248252 original size:27 final size:27
Alignment explanation
Indices: 1247965--1248243 Score: 324
Period size: 27 Copynumber: 10.3 Consensus size: 27
1247955 GAGGGTAAAA
* * *
1247965 TGGTAATTTTATAAATCAAGGGTACTT
1 TGGTAATTTTACAAACCAAGGGTATTT
** *
1247992 TGGTAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*** ** *
1248019 CAATAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
** * *
1248046 CAGTAATTTCACAAATCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* *
1248073 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*
1248100 TGATAATTTTACAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*
1248127 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* *
1248154 TAGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
**
1248181 TGGTAATTTTGTAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* *
1248208 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
1248235 TGGTAATTT
1 TGGTAATTT
1248244 GGTAAACTAA
Statistics
Matches: 219, Mismatches: 33, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 219 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
TGGTAATTTTACAAACCAAGGGTATTT
Found at i:1256676 original size:24 final size:23
Alignment explanation
Indices: 1256643--1256700 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
1256633 AGTTGAAAAG
1256643 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
1256667 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
1256689 TATATATAATAA
1 TATA-ATAATAA
1256701 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:1257053 original size:49 final size:47
Alignment explanation
Indices: 1256971--1257079 Score: 182
Period size: 49 Copynumber: 2.3 Consensus size: 47
1256961 CTTACTTTGA
1256971 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
1257018 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1257067 GAATGTGATAAGT
1 GAATGTGA-AAGT
1257080 CCCGAAGGGC
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
47 13 0.22
49 41 0.71
50 4 0.07
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.30
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:1257253 original size:37 final size:37
Alignment explanation
Indices: 1257197--1257275 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
1257187 CCGAGCTCTA
* * * *
1257197 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
*
1257234 AAGACCCGATAAATTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
1257271 AAGAC
1 AAGAC
1257276 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
Found at i:1261077 original size:40 final size:40
Alignment explanation
Indices: 1261022--1261168 Score: 249
Period size: 40 Copynumber: 3.7 Consensus size: 40
1261012 CAATTGAGGA
*
1261022 TTATATCCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
1261062 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGTTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
1261102 TTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
1261142 TTATATCCGGGCTAAGTCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
1261169 ATTGGGTTGG
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:1267895 original size:40 final size:40
Alignment explanation
Indices: 1267840--1267920 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
1267830 TTAAATGACA
*
1267840 TTCGGCCAAGGACTATATGTGCTCGCTAATTCGGTTTAGC
1 TTCGGCCAAGGACTATATGTGATCGCTAATTCGGTTTAGC
*
1267880 TTCGGCCAAGGACTATATGTGATTGCTAATTCGGTTTAGC
1 TTCGGCCAAGGACTATATGTGATCGCTAATTCGGTTTAGC
1267920 T
1 T
1267921 GAAGAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (40 bp):
TTCGGCCAAGGACTATATGTGATCGCTAATTCGGTTTAGC
Found at i:1268826 original size:40 final size:40
Alignment explanation
Indices: 1268771--1268877 Score: 178
Period size: 40 Copynumber: 2.7 Consensus size: 40
1268761 CAATTGAGGA
*
1268771 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGATTG
*
1268811 TTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTGATTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGATTG
* *
1268851 TTATATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
1268878 ATTGGGTTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGATTG
Found at i:1270250 original size:43 final size:42
Alignment explanation
Indices: 1270198--1270308 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 42
1270188 TGCCATATTG
* *
1270198 CAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCC
1 CAGATATGGTCTTACACGTAATCTCATATCGATGCC-ATAGCC
* *
1270241 CAGCTATGGTCTTACACG-AAGTCTCATATCGATGCCATATCC
1 CAGATATGGTCTTACACGTAA-TCTCATATCGATGCCATAGCC
*
1270283 CAGATATGGTCTTACACGTAGTCTCA
1 CAGATATGGTCTTACACGTAATCTCA
1270309 ATAACCATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
CAGATATGGTCTTACACGTAATCTCATATCGATGCCATAGCC
Found at i:1270298 original size:42 final size:42
Alignment explanation
Indices: 1270187--1270308 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
1270177 TTCCATACCA
** * *
1270187 ATGCCATATTGCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* *
1270229 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
1270272 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCA
1270309 ATAACCATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 36 0.52
43 33 0.48
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:1275102 original size:80 final size:79
Alignment explanation
Indices: 1274965--1275185 Score: 230
Period size: 80 Copynumber: 2.8 Consensus size: 79
1274955 TTGAATGCTG
* * * * * * * * *
1274965 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
1275029 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
*
1275045 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAA-CCGGGCTAAGTCCCGAAGGCATT
* ** *
1275109 CGTGCGAGTTGTTGAA
64 CGTGCGAGATACTAAA
* * *
1275125 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
1275186 CTTGAACGAG
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
79 32 0.27
80 83 0.70
81 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:1275169 original size:39 final size:40
Alignment explanation
Indices: 1275018--1275185 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
1275008 GGACTAAGAT
* * * *
1275018 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
1275058 CCGAAGGCATTCGTGCGAGTTA-TAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAA-CCGGGTTAAGTC
** * * *
1275098 CCGAAGGCATTCGTGCGAGTTGTTGAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
* * *
1275138 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
1275177 CCGAAGGCA
1 CCGAAGGCA
1275186 CTTGAACGAG
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.31
40 74 0.66
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
Found at i:1275207 original size:79 final size:80
Alignment explanation
Indices: 1275043--1275222 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
1275033 CGAGATACTA
*
1275043 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAAATCCGGGCTAAGTCCCGAAGGCAT
** ** *
1275108 TCGTGCGAGTTGTTG
66 TCGAACGAGGAGCTG
* * *
1275123 AATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA-CCGGGCTATGTCCCGAAGGCA
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TAAAATCCGGGCTAAGTCCCGAAGGCA
1275186 CTT-GAACGAGGAGCT-
65 -TTCGAACGAGGAGCTG
* *
1275201 ATATCC-GGTTAAATTCCGAAGG
1 A-ATCCGGGTTAAGTCCCGAAGG
1275223 TACGTGATTT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 14 0.16
79 39 0.46
80 32 0.38
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAAATCCGGGCTAAGTCCCGAAGGCAT
TCGAACGAGGAGCTG
Found at i:1279125 original size:28 final size:28
Alignment explanation
Indices: 1279074--1279264 Score: 222
Period size: 28 Copynumber: 6.6 Consensus size: 28
1279064 TCGATATTTT
*
1279074 GCACACAAAGTGCCATAC-CAAATGTCTC
1 GCACACTAAGTGCCATACTC-AATGTCTC
* * * *
1279102 GCATACTAAGTGTCATAGTTAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
*
1279130 ACACACTAAGTGCCATACTCAATGTCTCGCACTC
1 GCACACTAAGTGCCATACTCAATG--T----CTC
1279164 GCACACTAAGTGCCATACTCAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
*
1279192 GCACACTAAGTGCCATACTTAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
***
1279220 GCACACTAAGTGTTGTACTCAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
1279248 GCACACTAAGTGCCATA
1 GCACACTAAGTGCCATA
1279265 TATAGTTAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
28 109 0.80
30 1 0.01
32 1 0.01
34 26 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCAATGTCTC
Found at i:1279227 original size:90 final size:90
Alignment explanation
Indices: 1279074--1279251 Score: 268
Period size: 90 Copynumber: 2.0 Consensus size: 90
1279064 TCGATATTTT
* * *
1279074 GCACACAAAGTGCCATACCAAATGTCTCGCATACTAAGTGTCATAGTTAATGTCTCACACACTAA
1 GCACACAAAGTGCCATACCAAATGTCTCGCACACTAAGTGCCATACTTAATGTCTCACACACTAA
1279139 GTGCCATACTCAATGTCTCGCACTC
66 GTGCCATACTCAATGTCTCGCACTC
* *
1279164 GCACACTAAGTGCCATACTC-AATGTCTCGCACACTAAGTGCCATACTTAATGTCTCGCACACTA
1 GCACACAAAGTGCCATAC-CAAATGTCTCGCACACTAAGTGCCATACTTAATGTCTCACACACTA
***
1279228 AGTGTTGTACTCAATGTCTCGCAC
65 AGTGCCATACTCAATGTCTCGCAC
1279252 ACTAAGTGCC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 78 0.99
91 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (90 bp):
GCACACAAAGTGCCATACCAAATGTCTCGCACACTAAGTGCCATACTTAATGTCTCACACACTAA
GTGCCATACTCAATGTCTCGCACTC
Found at i:1280879 original size:28 final size:28
Alignment explanation
Indices: 1280839--1280904 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
1280829 TGGGAAGTAG
* *
1280839 TTGGGCCTGATGGGCCATTTGAAT-ATGA
1 TTGGGCCTAATGGGCCATGTGAATGA-GA
1280867 TTGGGCCTAATGGGCCATGTGAATGAGA
1 TTGGGCCTAATGGGCCATGTGAATGAGA
1280895 TTGGGCCTAA
1 TTGGGCCTAA
1280905 AGGGGCCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATGTGAATGAGA
Found at i:1281249 original size:27 final size:27
Alignment explanation
Indices: 1281219--1281559 Score: 348
Period size: 27 Copynumber: 12.7 Consensus size: 27
1281209 TAATAAAGAG
* * *
1281219 AAATTATCGAAGTACCCCCGGTTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
1281246 AAATTATCAAAATACCATCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
1281273 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * * * *
1281300 GAATTATTGAAATACCCT-TAATTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
1281326 AAATTA-CTGAAATACCCTCAATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
1281353 AAATTA-CTAGAATACCCTCAACTTGTA
1 AAATTATCGA-AATACCCTCGATTTGTA
* *
1281380 AAATTATCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
1281407 AAATTACCTAAACACCCTCGATTTTTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
1281434 AAATTACCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
1281461 AAATTATCAAAATACCTTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
1281488 AAATTATCGAAATACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
1281515 AAATTATCGAAACAACCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
1281542 AAATTATCTAAATACCCT
1 AAATTATCGAAATACCCT
1281560 TGCAGTGTAA
Statistics
Matches: 264, Mismatches: 44, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.08
27 240 0.91
28 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:1281568 original size:27 final size:27
Alignment explanation
Indices: 1281219--1281612 Score: 341
Period size: 27 Copynumber: 14.6 Consensus size: 27
1281209 TAATAAAGAG
* ** *
1281219 AAATTATCGAAGTACCCCCGGTTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* * *
1281246 AAATTATCAAAATACCATCGATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
*
1281273 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTTGATTTGTA
* * * *
1281300 GAATTATTGAAATACCCTT-AATTGTG
1 AAATTATCGAAATACCCTTGATTTGTA
**
1281326 AAATTA-CTGAAATACCCTCAATTTGTA
1 AAATTATC-GAAATACCCTTGATTTGTA
* ** *
1281353 AAATTA-CTAGAATACCCTCAACTTGTA
1 AAATTATCGA-AATACCCTTGATTTGTA
*
1281380 AAATTATCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* * * * *
1281407 AAATTACCTAAACACCCTCGATTTTTA
1 AAATTATCGAAATACCCTTGATTTGTA
* *
1281434 AAATTACCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* *
1281461 AAATTATCAAAATACCTTTGATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
1281488 AAATTATCGAAATACCCTTGATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* * **
1281515 AAATTATCGAAACAACCTCAATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* *
1281542 AAATTATCTAAATACCCTTGCA-GTGTA
1 AAATTATCGAAATACCCTTG-ATTTGTA
* * * *
1281569 AAGTTACCAAAATACCCTTG-TAGTGTA
1 AAATTATCGAAATACCCTTGAT-TTGTA
* *
1281596 AAATGATCGACATACCC
1 AAATTATCGAAATACCC
1281613 CTGTAGGGTA
Statistics
Matches: 303, Mismatches: 55, Indels: 18
0.81 0.15 0.05
Matches are distributed among these distances:
26 22 0.07
27 278 0.92
28 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTTGATTTGTA
Found at i:1284345 original size:47 final size:47
Alignment explanation
Indices: 1284248--1285484 Score: 2159
Period size: 47 Copynumber: 26.3 Consensus size: 47
1284238 TACTTGATAG
* *
1284248 TATATGTGATAAGACCGAATGGTCAATGTGATGAATGTGAAAGTGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTGTA
* *
1284297 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
1284344 TATAAGTGATATGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
1284391 TATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
1284438 TATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
1284485 TATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1284532 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1284579 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1284626 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1284673 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1284720 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1284767 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1284814 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1284861 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1284908 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1284955 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1285002 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1285049 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
1285096 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
1285143 TATATGTGATAAGGCCGGATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
1285190 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
1285237 TATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1285284 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
1285331 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
1285378 TATAAGTGATATGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
1285425 TATATGTGATAGGGCCGAGTGGCCGACGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
1285472 TAAATGTGATAAG
1 TATATGTGATAAG
1285485 TCCCGAAGGG
Statistics
Matches: 1146, Mismatches: 42, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
47 1108 0.97
49 38 0.03
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:1284422 original size:22 final size:22
Alignment explanation
Indices: 1284394--1284516 Score: 66
Period size: 22 Copynumber: 5.3 Consensus size: 22
1284384 AAGTGTATAT
1284394 ATGTGATAAGGTCTAATGGCCG
1 ATGTGATAAGGTCTAATGGCCG
* ** ****
1284416 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAT-AAGGTCTAA-TG-GCCG
1284441 ATGTGATAAGGTCTAATGGCCG
1 ATGTGATAAGGTCTAATGGCCG
* ** ****
1284463 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAT-AAGGTCTAA-TG-GCCG
1284488 ATGTGATAAGGTCTAATGGCCG
1 ATGTGATAAGGTCTAATGGCCG
1284510 ATGTGAT
1 ATGTGAT
1284517 GAATGTGAAA
Statistics
Matches: 67, Mismatches: 28, Indels: 12
0.63 0.26 0.11
Matches are distributed among these distances:
22 21 0.31
23 16 0.24
24 16 0.24
25 14 0.21
ACGTcount: A:0.31, C:0.07, G:0.30, T:0.32
Consensus pattern (22 bp):
ATGTGATAAGGTCTAATGGCCG
Found at i:1298152 original size:39 final size:40
Alignment explanation
Indices: 1298031--1298215 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
1298021 GCTACTCGTT
* *
1298031 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
1298071 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
1298111 CAAATGCCTTCGGG-CTTAGCTCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
1298150 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
1298191 C-AAGGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1298216 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:1298199 original size:79 final size:80
Alignment explanation
Indices: 1298031--1298215 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
1298021 GCTACTCGTT
* * *
1298031 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
1 CAAAGGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
* *
1298095 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
* * * * **
1298111 CAAATGCCTTCGGG-CTTAGCTCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCG
* *
1298174 GATATGGTCACTTAGCA
65 GATATAGTAAC-TAGCA
1298191 C-AAGGCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAGCCCGGA
1298216 CATCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 30 0.34
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:1303338 original size:24 final size:24
Alignment explanation
Indices: 1303309--1303356 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1303299 CAACGGACAG
1303309 TTCTTGTACACTTTATCAACCAAC
1 TTCTTGTACACTTTATCAACCAAC
1303333 TTCTTGTACACTTTATCAACCAAC
1 TTCTTGTACACTTTATCAACCAAC
1303357 ACACACTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.38
Consensus pattern (24 bp):
TTCTTGTACACTTTATCAACCAAC
Found at i:1307385 original size:26 final size:26
Alignment explanation
Indices: 1307349--1307400 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1307339 ATTCATTTTA
1307349 AAAATATAAATTTAAAACATACTTGC
1 AAAATATAAATTTAAAACATACTTGC
1307375 AAAATATAAATTTAAAACATACTTGC
1 AAAATATAAATTTAAAACATACTTGC
1307401 GCCTGGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAATATAAATTTAAAACATACTTGC
Found at i:1308052 original size:19 final size:18
Alignment explanation
Indices: 1308015--1308058 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1308005 ATACATACAG
1308015 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
1308032 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
1308051 TACTAATT
1 TAATAATT
1308059 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:1310495 original size:29 final size:30
Alignment explanation
Indices: 1310432--1310498 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
1310422 GTCATGAGAT
*
1310432 TGGCACTAAGTGTGCGGGTTTAAATTGTACA
1 TGGCACTAAGTGTGCGAGTTTAAA-TGTACA
1310463 --GCACTAAGTGTGCGAGTTTAAA-GTACA
1 TGGCACTAAGTGTGCGAGTTTAAATGTACA
1310490 TGGCACTAA
1 TGGCACTAA
1310499 CAGCTTGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 5 0.15
29 28 0.85
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGAGTTTAAATGTACA
Found at i:1314419 original size:61 final size:61
Alignment explanation
Indices: 1314353--1314660 Score: 287
Period size: 61 Copynumber: 5.1 Consensus size: 61
1314343 TTTAAATTAT
* *
1314353 ATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 ATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
* * ** * * * * *
1314414 ATTTTATTA-AATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTCAA-ATT-A-T
1 ATTTTA-TAGTATCATATATTATAATTTTAGTAAATTCATATAAGAA-TATTT-AATATTAAGA
1314473 ATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 ATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
* ** * * * * *
1314534 ATTTTATTA-AATCATATATCT-TAATTAAAATATATTTA-ATAATAATTATTTCAA-ATT-A-T
1 ATTTTA-TAGTATCATATAT-TATAATTTTAGTAAATTCATATAAGAA-TATTT-AATATTAAGA
* *
1314593 ATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATATTGATTATTAAGA
1 ATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1314654 ATTTTAT
1 ATTTTAT
1314661 TAAATTTAAA
Statistics
Matches: 191, Mismatches: 38, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
58 8 0.04
59 70 0.37
60 28 0.15
61 76 0.40
62 9 0.05
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (61 bp):
ATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
Found at i:1314474 original size:120 final size:120
Alignment explanation
Indices: 1314319--1314665 Score: 631
Period size: 120 Copynumber: 2.9 Consensus size: 120
1314309 TATATTTAGA
* * *
1314319 AAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 AAAA-TATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTTAGT
*
1314384 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATCTTAATT
1314440 AAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
1 AAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
1314505 AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATCTTAATT
66 AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATCTTAATT
1314560 AAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
1 AAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
* *
1314625 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
66 AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1314666 TTAAAGTACA
Statistics
Matches: 220, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
120 216 0.98
121 4 0.02
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (120 bp):
AAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTTAGTA
AATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATCTTAATT
Found at i:1314864 original size:174 final size:174
Alignment explanation
Indices: 1314665--1315324 Score: 1248
Period size: 174 Copynumber: 3.8 Consensus size: 174
1314655 TTTTATTAAA
*
1314665 TTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACTCAATAT
1 TTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACTCAATAT
1314730 ATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAA
66 ATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAA
1314795 AGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAG
131 AGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAG
*
1314839 TTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACTCAATAT
1 TTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACTCAATAT
1314904 ATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAA
66 ATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAA
1314969 AGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAG
131 AGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAG
* * *
1315013 TTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTGTGCGAACCCAATAT
1 TTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACTCAATAT
*
1315078 ATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCTAGTCGATTTTGGACAGCGGAAA
66 ATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAA
1315143 AGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAG
131 AGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAG
1315187 TTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACTCAATAT
1 TTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACTCAATAT
* *
1315252 ATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAA
66 ATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAA
1315317 AGGTAAGT
131 AGGTAAGT
1315325 ACCTTGAGTT
Statistics
Matches: 475, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 475 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (174 bp):
TTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACTCAATAT
ATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAA
AGGTAAGTGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAG
Found at i:1318186 original size:28 final size:28
Alignment explanation
Indices: 1318032--1318185 Score: 236
Period size: 28 Copynumber: 5.5 Consensus size: 28
1318022 ACTCGATATT
* * *
1318032 TCGCACACTAAGTGTCATATTCAATATC
1 TCGCACACTAAGTGCCATACTCAATGTC
1318060 TCGCACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
1318088 TCGCACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
* *
1318116 TCGTACACTAAGTGCCATTCTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
* **
1318144 TCACACACTAAGTGTTATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
1318172 TCGCACACTAAGTG
1 TCGCACACTAAGTG
1318186 TCGTATATAC
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 115 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATACTCAATGTC
Found at i:1322319 original size:42 final size:41
Alignment explanation
Indices: 1322273--1322426 Score: 137
Period size: 42 Copynumber: 3.5 Consensus size: 41
1322263 TGATTTCGTA
*
1322273 TAAGACCATGTCTGGGACATGGCATCGATATGAGGTTCTGTG
1 TAAGACCATGTCTGGGACATGGCATCGATATGAGGTTC-ATG
* * *
1322315 TAAGACCATGTCTGGGACATGGCGTCGGCACTGATTTGAGACTTCATA
1 TAAGACCATGTCTGGGACATGGCATC-G-A-T-A--TGAG-GTTCATG
* * * * *
1322363 TAAGACCATATCTGGGATATGGCATCGATGTGTGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATCGATATGAGGT-TCATG
*
1322405 TAAGTCCATGTCTGGGACATGG
1 TAAGACCATGTCTGGGACATGG
1322427 ATTTGGCACC
Statistics
Matches: 89, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 50 0.56
43 1 0.01
44 1 0.01
45 2 0.02
46 2 0.02
47 1 0.01
48 28 0.31
49 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (41 bp):
TAAGACCATGTCTGGGACATGGCATCGATATGAGGTTCATG
Found at i:1337032 original size:14 final size:14
Alignment explanation
Indices: 1337013--1337039 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1337003 TCATCGCTCG
1337013 TAAAGCAAACAATA
1 TAAAGCAAACAATA
1337027 TAAAGCAAACAAT
1 TAAAGCAAACAAT
1337040 GATTTCCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (14 bp):
TAAAGCAAACAATA
Found at i:1341777 original size:79 final size:81
Alignment explanation
Indices: 1341666--1341850 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
1341656 GCTACTCGTT
* * *
1341666 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
1341729 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
1341746 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
1341810 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
1341826 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTC-GGGCTTAGCCCGGA
1341851 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 51 0.57
80 36 0.40
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:1341783 original size:39 final size:40
Alignment explanation
Indices: 1341666--1341850 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
1341656 GCTACTCGTT
*
1341666 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
1341706 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
1341746 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
1341785 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
1341826 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1341851 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:1343612 original size:37 final size:37
Alignment explanation
Indices: 1343571--1343643 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
1343561 ATAGCTAGTG
1343571 TGACTAAAAATGCAATGAGGTTAAAATTGTTTCCATT
1 TGACTAAAAATGCAATGAGGTTAAAATTGTTTCCATT
* * *
1343608 TGACTGAAGATGCACTGAGGTTAAAATTGTTTCCAT
1 TGACTAAAAATGCAATGAGGTTAAAATTGTTTCCAT
1343644 ACTCATTGCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (37 bp):
TGACTAAAAATGCAATGAGGTTAAAATTGTTTCCATT
Found at i:1348909 original size:36 final size:37
Alignment explanation
Indices: 1348835--1348939 Score: 110
Period size: 36 Copynumber: 2.9 Consensus size: 37
1348825 TTCGAATTCG
* * * * *
1348835 TTTTAATCTTT-TC-TTAGTTTTATTTTTATTTCTCAT
1 TTTTAGTCTTTATCTTTAATTTTAATTTTAGTT-TCAA
*
1348871 TTTTA-TCTTTGTCTTTAATTTTAA-TTTAGTTTCAA
1 TTTTAGTCTTTATCTTTAATTTTAATTTTAGTTTCAA
*
1348906 TTTTAGTCTTTATTTTTAATTTTAATTTTAGTTT
1 TTTTAGTCTTTATCTTTAATTTTAATTTTAGTTT
1348940 TATTTTTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
35 13 0.22
36 30 0.51
37 16 0.27
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.68
Consensus pattern (37 bp):
TTTTAGTCTTTATCTTTAATTTTAATTTTAGTTTCAA
Found at i:1348946 original size:12 final size:12
Alignment explanation
Indices: 1348848--1348946 Score: 69
Period size: 12 Copynumber: 8.2 Consensus size: 12
1348838 TAATCTTTTC
1348848 TTAGTTTTATTT
1 TTAGTTTTATTT
1348860 TTA-TTTCTCATTT
1 TTAGTTT-T-ATTT
* *
1348873 TTA-TCTTTGTCT
1 TTAGT-TTTATTT
* *
1348885 TTAATTTTA-AT
1 TTAGTTTTATTT
* *
1348896 TTAGTTTCAATT
1 TTAGTTTTATTT
1348908 TTAGTCTTTATTT
1 TTAGT-TTTATTT
* *
1348921 TTAATTTTAATT
1 TTAGTTTTATTT
1348933 TTAGTTTTATTT
1 TTAGTTTTATTT
1348945 TT
1 TT
1348947 TTAATAAAGG
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
11 11 0.16
12 36 0.53
13 19 0.28
14 2 0.03
ACGTcount: A:0.20, C:0.06, G:0.05, T:0.69
Consensus pattern (12 bp):
TTAGTTTTATTT
Found at i:1348947 original size:25 final size:25
Alignment explanation
Indices: 1348895--1348946 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
1348885 TTAATTTTAA
*
1348895 TTTAGTTTCAATTTTAGTCTTTATT
1 TTTAATTTCAATTTTAGTCTTTATT
*
1348920 TTTAATTTTAATTTTAGT-TTTATT
1 TTTAATTTCAATTTTAGTCTTTATT
1348944 TTT
1 TTT
1348947 TTAATAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTAATTTCAATTTTAGTCTTTATT
Found at i:1357893 original size:50 final size:50
Alignment explanation
Indices: 1357772--1357949 Score: 202
Period size: 50 Copynumber: 3.6 Consensus size: 50
1357762 TGTTACAAAA
*
1357772 GCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGGTGCCAAT
* * * *
1357821 GCTATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAAT
** ** * *
1357871 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAAT
*
1357921 GCCATGTCCCAG-CATGGTCTTATATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
1357950 TCTCATTCCC
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
48 4 0.04
49 46 0.43
50 58 0.54
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAAT
Found at i:1378487 original size:80 final size:80
Alignment explanation
Indices: 1378350--1378498 Score: 235
Period size: 80 Copynumber: 1.9 Consensus size: 80
1378340 AAATTAGATC
* * *
1378350 AATTAATCGACTGATTAACTAAATTAGATTGGTTTGATTGATTAATTTAGTTCTAATCAAAATTT
1 AATTAATCGACTGATTAACTAAATTAAATTGATTTGATTAATTAATTTAGTTCTAATCAAAATTT
1378415 AAACACTCTTACTAA
66 AAACACTCTTACTAA
* * * *
1378430 AATTAATCGATTGATTAACTAAATTAAATTGATTTGGTTAATTAATTTAGTTTTAATCGAAATTT
1 AATTAATCGACTGATTAACTAAATTAAATTGATTTGATTAATTAATTTAGTTCTAATCAAAATTT
1378495 AAAC
66 AAAC
1378499 CCTCATTATA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.42
Consensus pattern (80 bp):
AATTAATCGACTGATTAACTAAATTAAATTGATTTGATTAATTAATTTAGTTCTAATCAAAATTT
AAACACTCTTACTAA
Found at i:1385682 original size:22 final size:23
Alignment explanation
Indices: 1385643--1385690 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1385633 GCATTCGATG
* *
1385643 TTTATATTTTTTTATTAATTTAA
1 TTTATATATTTTTATTAATTAAA
1385666 TTTATATATTTTT-TTAATTAAA
1 TTTATATATTTTTATTAATTAAA
1385688 TTT
1 TTT
1385691 GGTTTTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTATATATTTTTATTAATTAAA
Found at i:1385812 original size:14 final size:14
Alignment explanation
Indices: 1385790--1385832 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1385780 ATTTTTTAAA
1385790 AAATTTTAAGTTTT
1 AAATTTTAAGTTTT
* *
1385804 AAGTTTTAAATTTT
1 AAATTTTAAGTTTT
*
1385818 AAATATTAATGTTTT
1 AAATTTTAA-GTTTT
1385833 TTAATTTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (14 bp):
AAATTTTAAGTTTT
Found at i:1386063 original size:3 final size:3
Alignment explanation
Indices: 1386057--1386082 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1386047 TTTTTAAGTA
1386057 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
1386083 ATGAGTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1386340 original size:46 final size:46
Alignment explanation
Indices: 1386299--1386386 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 46
1386289 TATTAATTCA
*
1386299 CATCCATTTACGTTCTTGCAATTAACTAAAA-TAATCAATTAAGTT
1 CATCCAATTACGTTCTTGCAATTAACTAAAACTAATCAATTAAGTT
** ** *
1386344 TTTTTAATTACGTTCTTTCAATTAACTAAAACTAATCAATTAA
1 CATCCAATTACGTTCTTGCAATTAACTAAAACTAATCAATTAA
1386387 ACCTTTCCGT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 25 0.69
46 11 0.31
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.41
Consensus pattern (46 bp):
CATCCAATTACGTTCTTGCAATTAACTAAAACTAATCAATTAAGTT
Found at i:1386591 original size:9 final size:9
Alignment explanation
Indices: 1386574--1386645 Score: 60
Period size: 9 Copynumber: 8.0 Consensus size: 9
1386564 TGATATGAAC
*
1386574 TTATGAAAA
1 TTATAAAAA
1386583 TTATAAAAA
1 TTATAAAAA
1386592 -TATAAAATA
1 TTATAAAA-A
*
1386601 TTATAAATA
1 TTATAAAAA
1386610 TTATAAAAA
1 TTATAAAAA
*
1386619 TCTA-ATAAA
1 T-TATAAAAA
*
1386628 TCTA-ATAAA
1 T-TATAAAAA
1386637 TTATAAAAA
1 TTATAAAAA
1386646 AAATAAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
8 9 0.17
9 37 0.69
10 8 0.15
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:1386639 original size:27 final size:26
Alignment explanation
Indices: 1386574--1386645 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
1386564 TGATATGAAC
1386574 TTATGAAAATTATAAAAATATAAAATA
1 TTAT-AAAATTATAAAAATATAAAATA
*
1386601 TTATAAATATTATAAAAATCTAATAA-A
1 TTATAAA-ATTATAAAAATATAA-AATA
1386628 TCTA-ATAAATTATAAAAA
1 T-TATA-AAATTATAAAAA
1386646 AAATAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
26 3 0.08
27 31 0.77
28 6 0.15
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (26 bp):
TTATAAAATTATAAAAATATAAAATA
Found at i:1386739 original size:69 final size:63
Alignment explanation
Indices: 1386585--1386750 Score: 158
Period size: 69 Copynumber: 2.5 Consensus size: 63
1386575 TATGAAAATT
* * * *
1386585 ATAAAAATATAAAATATTATAAATATTAT-AAAAATCTAATAAATCTAATAAATTATAAAAAAA
1 ATAAAAATATAAAATATTA-AAATTTTATAAAAAACCTAATAAATCTAAAAAATCATAAAAAAA
* *
1386648 ATAAAAA-ATAGAACATATTTAAAATTTTATAAAAAACCGTATTAATATTTTATAAAAATCATAA
1 ATAAAAATATA-AA-ATA-TTAAAATTTTATAAAAAACC-TAATAA-A-TCTA-AAAAATCATAA
1386712 AAAAA
59 AAAAA
*
1386717 CATAAAAATATAAAATTATTAAAA-TTGATAAAAA
1 -ATAAAAATATAAAA-TATTAAAATTTTATAAAAA
1386751 CTTGTAAAAC
Statistics
Matches: 85, Mismatches: 7, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
62 3 0.04
63 9 0.11
64 11 0.13
65 9 0.11
66 5 0.06
67 1 0.01
68 12 0.14
69 21 0.25
70 11 0.13
71 3 0.04
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (63 bp):
ATAAAAATATAAAATATTAAAATTTTATAAAAAACCTAATAAATCTAAAAAATCATAAAAAAA
Found at i:1391916 original size:59 final size:59
Alignment explanation
Indices: 1391822--1392038 Score: 377
Period size: 59 Copynumber: 3.7 Consensus size: 59
1391812 TATATACCTA
*
1391822 TTATATA-CTATGCACTTTCACATAACAAATT--AACAAATTAACAAATACGAACCATT
1 TTATATACCTATGCACTTTCACATAACAAGTTAAAACAAATTAACAAATACGAACCATT
* * *
1391878 TTATATACATGTGTACTTTCACATAACAAGTTAAAACAAATTAACAAATACGAACCATT
1 TTATATACCTATGCACTTTCACATAACAAGTTAAAACAAATTAACAAATACGAACCATT
1391937 TTATATACCTATGCACTTTCACATAACAAGTTAAAACAAATTAACAAATACGAACCATT
1 TTATATACCTATGCACTTTCACATAACAAGTTAAAACAAATTAACAAATACGAACCATT
1391996 TTATATACCTATGCACTTTCACATAACAAGTTAAAACAAATTA
1 TTATATACCTATGCACTTTCACATAACAAGTTAAAACAAATTA
1392039 TATTATACCA
Statistics
Matches: 151, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
56 7 0.05
57 20 0.13
59 124 0.82
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (59 bp):
TTATATACCTATGCACTTTCACATAACAAGTTAAAACAAATTAACAAATACGAACCATT
Found at i:1393636 original size:43 final size:41
Alignment explanation
Indices: 1393566--1393684 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 41
1393556 TACTCGGATA
* * * * ** *
1393566 GATGCCATATCCCAGATATGGTATTACATGTTATAATATATT
1 GATGCCATGTCCCAGACATGGTCTTACACGAAATAATATA-C
* *
1393608 GATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATAC
1 GATGCCA-TGTCCCAGACATGGTCTTACACGAAATAATATAC
1393650 GATGCCAATGTCCCAGACATGGTCTTACACGAAAT
1 GATGCC-ATGTCCCAGACATGGTCTTACACGAAAT
1393685 CATACCTCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 39 0.60
43 26 0.40
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (41 bp):
GATGCCATGTCCCAGACATGGTCTTACACGAAATAATATAC
Found at i:1393654 original size:42 final size:42
Alignment explanation
Indices: 1393608--1393688 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
1393598 ATAATATATT
*
1393608 GATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATAC
1 GATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATATAC
*
1393650 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCATA
1 GATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATA
1393689 CCTCAAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
GATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATATAC
Found at i:1399870 original size:22 final size:23
Alignment explanation
Indices: 1399796--1399876 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 23
1399786 CAGCTTGTAT
* * *
1399796 GAGCTTACCGTTTTAGCTCTTCT
1 GAGCTTACCGTTTCAGCTCTACA
*
1399819 GAGCTTACTGTTTCAGCTCTACA
1 GAGCTTACCGTTTCAGCTCTACA
* *
1399842 GACCTTACCG-TTCAGCT-TGATA
1 GAGCTTACCGTTTCAGCTCT-ACA
*
1399864 GAGCTTACTGTTT
1 GAGCTTACCGTTT
1399877 ACCGGCTCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 1 0.02
22 17 0.36
23 29 0.62
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCTACA
Found at i:1400961 original size:13 final size:13
Alignment explanation
Indices: 1400943--1400967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1400933 ACATGTTTGG
1400943 ATATGAAATTGAT
1 ATATGAAATTGAT
1400956 ATATGAAATTGA
1 ATATGAAATTGA
1400968 CATTGAATTT
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:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:1415100 original size:27 final size:27
Alignment explanation
Indices: 1415070--1415247 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
1415060 ATATTGAGCC
* *
1415070 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
1415097 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
1415124 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
1415152 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
1415179 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
1415206 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
1415233 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
1415248 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:1415209 original size:82 final size:81
Alignment explanation
Indices: 1415091--1415246 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
1415081 TGCTATATAA
* *
1415091 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
1415156 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
1415173 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
1415237 CACTTAGTGC
65 CACTTAGTGC
1415247 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:1419013 original size:17 final size:18
Alignment explanation
Indices: 1418993--1419026 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1418983 TCAAAAGAAC
1418993 AAAAAAAAGT-GAAAAAG
1 AAAAAAAAGTGGAAAAAG
*
1419010 AAAAGAAAGTGGAAAAA
1 AAAAAAAAGTGGAAAAA
1419027 AAGAGAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (18 bp):
AAAAAAAAGTGGAAAAAG
Found at i:1420422 original size:28 final size:28
Alignment explanation
Indices: 1420390--1420473 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
1420380 AACTTCGATC
1420390 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
1420418 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
1420440 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
1420468 ACGTGT
1 ACGTGT
1420474 ACCGAATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:1420496 original size:99 final size:100
Alignment explanation
Indices: 1420294--1420517 Score: 285
Period size: 99 Copynumber: 2.3 Consensus size: 100
1420284 TGAGGTCCCG
* * * *
1420294 TGTGTAGTACTAAGTGCA-GCTACTATGTGTACCAGATTATTGGTCGCATGTGTAGTACTAATTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTG
* *
1420358 CAAGATACTATGCGTACCCGATAACTTCGATCACG
66 CAAGATACTACGCGTACCCGATAACTTCGATCACA
* * *
1420393 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTACTAAGT
* * * *
1420458 GCAGGCTACTACGTGTA-CCGAATAA-TT-GGTCACA
65 GCAAGATACTACGCGTACCCG-ATAACTTCGATCACA
1420492 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
1420518 TGCGTTCCAG
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
99 49 0.45
100 24 0.22
101 36 0.33
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTG
CAAGATACTACGCGTACCCGATAACTTCGATCACA
Found at i:1420508 original size:49 final size:50
Alignment explanation
Indices: 1420294--1420517 Score: 258
Period size: 49 Copynumber: 4.5 Consensus size: 50
1420284 TGAGGTCCCG
* * *
1420294 TGTGTAGTACTAAGTGCA-GCTACTATGTGTACCAGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * * * * * * * *
1420342 TGTGTAGTACTAATTGCAAGATACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACA
* ** *
1420393 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
1420443 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATT-GGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATTAGGTCACA
1420492 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
1420518 TGCGTTCCAG
Statistics
Matches: 149, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
48 17 0.11
49 50 0.34
50 47 0.32
51 35 0.23
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:1439012 original size:27 final size:27
Alignment explanation
Indices: 1438982--1439159 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
1438972 ATATTGAGTC
* * * *
1438982 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
1439009 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
1439036 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
1439064 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
1439091 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
1439118 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
1439145 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
1439160 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:1439121 original size:82 final size:81
Alignment explanation
Indices: 1439003--1439158 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
1438993 TGCTATATAA
* *
1439003 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
1439068 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
1439085 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
1439149 CACTTAGTGC
65 CACTTAGTGC
1439159 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:1439723 original size:13 final size:13
Alignment explanation
Indices: 1439705--1439729 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1439695 TACTAAATTT
1439705 TCATGGATTCAAG
1 TCATGGATTCAAG
1439718 TCATGGATTCAA
1 TCATGGATTCAA
1439730 TATACCATTA
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:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:1460047 original size:34 final size:33
Alignment explanation
Indices: 1460000--1460066 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1459990 AATTCTACCC
*
1460000 GTGTATTTAATGAGCTCTTATGTACACCCGAGG
1 GTGTATTTAATGAGCTCTCATGTACACCCGAGG
*
1460033 NGTGTATTTGATGAGCTCTCATGTACACCCGAGG
1 -GTGTATTTAATGAGCTCTCATGTACACCCGAGG
1460067 AGTGCTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.31
Consensus pattern (33 bp):
GTGTATTTAATGAGCTCTCATGTACACCCGAGG
Found at i:1462541 original size:40 final size:40
Alignment explanation
Indices: 1462497--1462603 Score: 160
Period size: 40 Copynumber: 2.7 Consensus size: 40
1462487 CCAACCCAAT
* * *
1462497 TGCCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
* * *
1462537 TGCCTTCGGGACTTAACCCGGAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
1462577 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
1462604 TCCTCAATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACAAA
Found at i:1472702 original size:6 final size:6
Alignment explanation
Indices: 1472693--1472729 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
1472683 TATCTTTAGG
1472693 TTTATT TTTATT TTTATT TTTATT TTTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
1472730 CCTTTCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:1472708 original size:18 final size:18
Alignment explanation
Indices: 1472681--1472724 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1472671 CATTAGTCCA
*
1472681 TTTATCTTTAGGTTTATT
1 TTTATTTTTAGGTTTATT
**
1472699 TTTATTTTTATTTTTATT
1 TTTATTTTTAGGTTTATT
1472717 TTTATTTT
1 TTTATTTT
1472725 ATTTTCCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTATTTTTAGGTTTATT
Found at i:1491984 original size:39 final size:39
Alignment explanation
Indices: 1491940--1492024 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
1491930 CCTTCGGGGT
* *
1491940 TTAGCCGGATATAGCT-ACTGGCTCAAATGCCTTCGAAAC
1 TTAGCCGGATATAG-TAACTCGCACAAATGCCTTCGAAAC
* **
1491979 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAG-CCGGATATAGTAACTCGCACAAATGCCTTCGAAAC
1492019 TTAGCC
1 TTAGCC
1492025 CGGTTATCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
39 7 0.18
40 32 0.82
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
TTAGCCGGATATAGTAACTCGCACAAATGCCTTCGAAAC
Found at i:1492446 original size:41 final size:41
Alignment explanation
Indices: 1492320--1492446 Score: 117
Period size: 41 Copynumber: 3.2 Consensus size: 41
1492310 AGCTTAATAA
*
1492320 ACAAATAAATTTATCCAATTACTTATCCAACTTTACTAT-T
1 ACAAATAAATTTATTCAATTACTTATCCAACTTTACTATAT
* * *
1492360 ACAAA-AATCTATTTATTTAGATT-CATT-T-CAGC-TTA--ATAA
1 ACAAATAA---ATTTATTCA-ATTAC-TTATCCAACTTTACTATAT
1492399 ACAAATAAATTTATTCAATTACTTATCCAACTTTACTATAT
1 ACAAATAAATTTATTCAATTACTTATCCAACTTTACTATAT
1492440 ACAAATA
1 ACAAATA
1492447 TCTATTTATT
Statistics
Matches: 67, Mismatches: 7, Indels: 25
0.68 0.07 0.25
Matches are distributed among these distances:
36 5 0.07
37 10 0.15
38 5 0.07
39 10 0.15
40 10 0.15
41 13 0.19
42 9 0.13
43 5 0.07
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.39
Consensus pattern (41 bp):
ACAAATAAATTTATTCAATTACTTATCCAACTTTACTATAT
Found at i:1498719 original size:37 final size:37
Alignment explanation
Indices: 1498660--1498779 Score: 177
Period size: 37 Copynumber: 3.2 Consensus size: 37
1498650 AGCTCAGACG
* * *
1498660 AAATCTCCACACGAAGTTATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1498697 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* **
1498734 TAATCTCTGCACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
1498771 TAATCTCCA
1 AAATCTCCA
1498780 AGTTTCATGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:1506888 original size:21 final size:20
Alignment explanation
Indices: 1506858--1506897 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1506848 TATCTGATTC
*
1506858 TTGTTTGGATGCATTTGAAT
1 TTGTTTGGATGCATCTGAAT
1506878 TTGTTGTGGATGCATCTGAA
1 TTGTT-TGGATGCATCTGAA
1506898 GGTGCTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (20 bp):
TTGTTTGGATGCATCTGAAT
Found at i:1508902 original size:48 final size:48
Alignment explanation
Indices: 1508833--1509148 Score: 284
Period size: 48 Copynumber: 6.6 Consensus size: 48
1508823 GGGTGAGTTA
* * * * *
1508833 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGATG
* * * *
1508881 CCGATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGATG
* ** * *
1508929 CCGATGCGATGTCTTAGATATGGTCTTACGCTAGCTCTCATAAT-G-TGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCGAT-G
** * *
1508977 CCGATGCCATAACCCAGACATGAG-CTTACACTAGCGT-ACATATCAATG
1 CCGATGCCATGTCCCAGACATG-GTCTTACACTAGC-TCTCATATCGATG
* * * * *
1509025 ACGATGCCATGTCCCAGACATGGTCGTACACTGGCTCTCACAAC-ATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGA-TG
* * * *
1509073 CCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCG-TGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAT-G
*
1509121 CCGATGCCATGTCCCAGACGTGGTCTTA
1 CCGATGCCATGTCCCAGACATGGTCTTA
1509149 TATTGGCACA
Statistics
Matches: 213, Mismatches: 44, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
47 7 0.03
48 202 0.95
49 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGATG
Found at i:1509162 original size:144 final size:144
Alignment explanation
Indices: 1508833--1509165 Score: 359
Period size: 144 Copynumber: 2.3 Consensus size: 144
1508823 GGGTGAGTTA
* * * * * * *
1508833 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGATGCCGATGCTATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGACGATGCCATGTCCCAG
* * * * * * * * *
1508898 ACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCGATGTCTTAGATATGGTCTTACGCTAG
66 ACATGGTCGTACACTAGCTCTCGACACAATGCCAATGCCATGTCTCAAACATGGTCTTACACTAG
1508963 CTCTCATAATGTGG
131 CTCTCATAATGTGG
** * **
1508977 CCGATGCCATAACCCAGACATGAG-CTTACACTAGCGTACATATCAATGACGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATG-GTCTTACACTGGCACACATATCAATGACGATGCCATGTCCCA
* *
1509041 GACATGGTCGTACACTGGCTCTC-ACAACATTGCCAATGCCATGT-TCCAAACATGGTCTTACAC
65 GACATGGTCGTACACTAGCTCTCGAC-ACAATGCCAATGCCATGTCT-CAAACATGGTCTTACAC
*
1509104 TGGCTCTCAT-ATCGTGG
128 TAGCTCTCATAAT-GTGG
* * *
1509121 CCGATGCCATGTCCCAGACGTGGTCTTATATTGGCACACATATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
1509166 CCCAAATGTC
Statistics
Matches: 153, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
143 5 0.03
144 147 0.96
145 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (144 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGACGATGCCATGTCCCAG
ACATGGTCGTACACTAGCTCTCGACACAATGCCAATGCCATGTCTCAAACATGGTCTTACACTAG
CTCTCATAATGTGG
Found at i:1513678 original size:41 final size:40
Alignment explanation
Indices: 1513551--1513736 Score: 250
Period size: 41 Copynumber: 4.6 Consensus size: 40
1513541 CTTGCACAAG
* * * *
1513551 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
1513591 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
1513631 GCCTTCGGATCTTAGTCCGGATATAGTCGCTTAGCACCAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTCGC-TAGCACAAAT
* *
1513672 GCCTTCGGATCTTAGTCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGATCTTAGCCCGGATATAGTCGC-TAGCACAAAT
1513713 GCCTTCAGGA-CTTAGCCCGGATAT
1 GCCTTC-GGATCTTAGCCCGGATAT
1513737 CATTCGAGTA
Statistics
Matches: 133, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 58 0.44
41 69 0.52
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:1513692 original size:81 final size:81
Alignment explanation
Indices: 1513515--1513736 Score: 258
Period size: 81 Copynumber: 2.8 Consensus size: 81
1513505 AATCAAGCAT
* ** * * * *
1513515 CTTCGGGATTTAG-CCGGATATAACCACTT-GCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGG
1 CTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGATCTTAGCCCGGATATAG
*
1513577 TCACTAGCATAAATGC
66 TCACTAGCACAAATGC
* *
1513593 CTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAATGCCTTCGGATCTTAGTCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGATCTTAGCCCGGATATAG
* *
1513657 TCGCTTAGCACCAATGC
66 TCAC-TAGCACAAATGC
*
1513674 CTTC-GGATCTTAGTCCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGA-CTTAGCCCGGATAT
1 CTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTC-GGATCTTAGCCCGGATAT
1513737 CATTCGAGTA
Statistics
Matches: 123, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
78 13 0.11
79 15 0.12
80 31 0.25
81 33 0.27
82 28 0.23
83 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGATCTTAGCCCGGATATAG
TCACTAGCACAAATGC
Found at i:1523607 original size:62 final size:63
Alignment explanation
Indices: 1523503--1523685 Score: 228
Period size: 62 Copynumber: 2.9 Consensus size: 63
1523493 CCATACGAAT
* * * * *
1523503 GGCCGTGTAACTCATTGTTCATGG-AGTAAATCCATACAGCCAGGGACACGGGCGTGTGCT-TA
1 GGCCGTGTAACTCACTGTTCATGGTA-TAAAACCACACGGCCAGGGACACGGGCGTGTGCTCCA
* * * *
1523565 GGCCATGTAACTCACTATTCATGGTATAAAACCACACGGCCAGGGACACGAGCATGTG-TCCA
1 GGCCGTGTAACTCACTGTTCATGGTATAAAACCACACGGCCAGGGACACGGGCGTGTGCTCCA
* * *
1523627 GGCCGTGTAACTCACTGTTAATGGTATAAAACCACACGACCAAGGACACGGGCGTGTGC
1 GGCCGTGTAACTCACTGTTCATGGTATAAAACCACACGGCCAGGGACACGGGCGTGTGC
1523686 CCAAGTTGTG
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
61 1 0.01
62 100 0.98
63 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (63 bp):
GGCCGTGTAACTCACTGTTCATGGTATAAAACCACACGGCCAGGGACACGGGCGTGTGCTCCA
Found at i:1526061 original size:13 final size:12
Alignment explanation
Indices: 1526032--1526058 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1526022 ACTTCTTTCC
1526032 AAATAAAATAAA
1 AAATAAAATAAA
1526044 AAATAAAATAAA
1 AAATAAAATAAA
1526056 AAA
1 AAA
1526059 ATAGTCCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:1529306 original size:16 final size:16
Alignment explanation
Indices: 1529285--1529346 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
1529275 GGCAAATTCT
* *
1529285 GAAATGTCGAAAAGAC
1 GAAATGCCGAAAAGTC
*
1529301 GAAATGCTGAAAAGTC
1 GAAATGCCGAAAAGTC
* *
1529317 AAAATGCCGAAAAGTT
1 GAAATGCCGAAAAGTC
1529333 GAAATGCCGAAAAG
1 GAAATGCCGAAAAG
1529347 CCAAAAGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.48, C:0.13, G:0.24, T:0.15
Consensus pattern (16 bp):
GAAATGCCGAAAAGTC
Found at i:1529310 original size:24 final size:24
Alignment explanation
Indices: 1529278--1529346 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
1529268 GTAGATCGGC
*
1529278 AAATTCTGAAATGTCGAAAAGACG
1 AAATGCTGAAATGTCGAAAAGACG
* *
1529302 AAATGCTGAAAAGTC-AAAATGCCG
1 AAATGCTGAAATGTCGAAAA-GACG
* * *
1529326 AAAAGTTGAAATGCCGAAAAG
1 AAATGCTGAAATGTCGAAAAG
1529347 CCAAAAGTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 4 0.11
24 28 0.78
25 4 0.11
ACGTcount: A:0.48, C:0.13, G:0.22, T:0.17
Consensus pattern (24 bp):
AAATGCTGAAATGTCGAAAAGACG
Found at i:1529328 original size:32 final size:32
Alignment explanation
Indices: 1529286--1529352 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
1529276 GCAAATTCTG
* * *
1529286 AAATGTCGAAAAGACGAAATGCTGAAAAGTCA
1 AAATGCCGAAAAGACGAAATGCCGAAAAGCCA
**
1529318 AAATGCCGAAAAGTTGAAATGCCGAAAAGCCA
1 AAATGCCGAAAAGACGAAATGCCGAAAAGCCA
1529350 AAA
1 AAA
1529353 GTTTATCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (32 bp):
AAATGCCGAAAAGACGAAATGCCGAAAAGCCA
Found at i:1529607 original size:28 final size:28
Alignment explanation
Indices: 1529564--1529666 Score: 118
Period size: 28 Copynumber: 3.7 Consensus size: 28
1529554 ATTGCATAAC
* *
1529564 TATGAATGTGAATGGGCCTGACGGGCCA
1 TATGAAAGTGATTGGGCCTGACGGGCCA
* *
1529592 TGTGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAAAGTGATTGGGCCTGACGGGCCA
**
1529620 TATGAAAGTGATTGGG-CTCGGTGGGCCA
1 TATGAAAGTGATTGGGCCT-GACGGGCCA
* *
1529648 TATGAATGAGATTGGGCCT
1 TATGAAAGTGATTGGGCCT
1529667 AAAGAGGACA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
27 2 0.03
28 61 0.94
29 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.37, T:0.25
Consensus pattern (28 bp):
TATGAAAGTGATTGGGCCTGACGGGCCA
Found at i:1531910 original size:15 final size:15
Alignment explanation
Indices: 1531886--1531920 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1531876 TCAAGGGAAG
* *
1531886 TATGTGGGTGTGAGT
1 TATGTAGGTGCGAGT
1531901 TATGTAGGTGCGAGT
1 TATGTAGGTGCGAGT
1531916 TATGT
1 TATGT
1531921 GGATGCTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.03, G:0.40, T:0.40
Consensus pattern (15 bp):
TATGTAGGTGCGAGT
Found at i:1534058 original size:16 final size:16
Alignment explanation
Indices: 1534020--1534069 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
1534010 TCGGTAAATC
*
1534020 CCGAAATGCCGAAGAG
1 CCGAAATGCCGAAAAG
**
1534036 CAAAAATGCCGAAAAG
1 CCGAAATGCCGAAAAG
*
1534052 CCGAAATGCTGAAAAG
1 CCGAAATGCCGAAAAG
1534068 CC
1 CC
1534070 AGAAGTTTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.44, C:0.24, G:0.24, T:0.08
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:1534318 original size:28 final size:28
Alignment explanation
Indices: 1534286--1534416 Score: 181
Period size: 28 Copynumber: 4.7 Consensus size: 28
1534276 ATTGCATGAC
* * *
1534286 TATGAATGTGAGTGGGCCTGACGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
*
1534314 TATGAAAGTGATTGAGCCTGATGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
*
1534342 TATGAAAGTGATTGGGCCCGATGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* *
1534370 TATGAAAGTGATTGGTCCCGATGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* *
1534398 TATGAATGAGATTGGGCCT
1 TATGAAAGTGATTGGGCCT
1534417 AAAGGGGCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 92 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.24
Consensus pattern (28 bp):
TATGAAAGTGATTGGGCCTGATGGGCCA
Found at i:1535659 original size:17 final size:18
Alignment explanation
Indices: 1535626--1535659 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1535616 TTTAAAGAAG
1535626 GGTTTTCGATGAAAACAT
1 GGTTTTCGATGAAAACAT
1535644 GGTTTTCGAT-AAAACA
1 GGTTTTCGATGAAAACA
1535660 CTTCAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (18 bp):
GGTTTTCGATGAAAACAT
Found at i:1537143 original size:6 final size:6
Alignment explanation
Indices: 1537132--1537187 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
1537122 TAAATGAAGG
* *
1537132 AAAATA AAAATA AAAATGA AATAA-A AAAATA AAAATA AAAATG GAAAT-
1 AAAATA AAAATA AAAAT-A AA-AATA AAAATA AAAATA AAAATA AAAATA
1537180 AAAATA AA
1 AAAATA AA
1537188 TAGACTCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
5 6 0.14
6 32 0.74
7 3 0.07
8 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:1537146 original size:25 final size:25
Alignment explanation
Indices: 1537132--1537189 Score: 98
Period size: 25 Copynumber: 2.2 Consensus size: 25
1537122 TAAATGAAGG
1537132 AAAATAAAAATAAAAATGAAATAAA
1 AAAATAAAAATAAAAATGAAATAAA
1537157 AAAATAAAAATAAAAATGGAAATAAA
1 AAAATAAAAATAAAAAT-GAAATAAA
1537183 ATAAATA
1 A-AAATA
1537190 GACTCAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 17 0.55
26 9 0.29
27 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (25 bp):
AAAATAAAAATAAAAATGAAATAAA
Found at i:1537151 original size:22 final size:19
Alignment explanation
Indices: 1537132--1537172 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1537122 TAAATGAAGG
*
1537132 AAAATAAAAATAAAAATGA
1 AAAAAAAAAATAAAAATGA
*
1537151 AATAAAAAAATAAAAAT-A
1 AAAAAAAAAATAAAAATGA
1537169 AAAA
1 AAAA
1537173 TGGAAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (19 bp):
AAAAAAAAAATAAAAATGA
Found at i:1537309 original size:21 final size:21
Alignment explanation
Indices: 1537276--1537315 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1537266 CGTAAAGTCT
* *
1537276 CATCGATACTGTCAAACCTTG
1 CATCAATAATGTCAAACCTTG
*
1537297 CATCAATAATGTCGAACCT
1 CATCAATAATGTCAAACCT
1537316 CTGAGCACAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (21 bp):
CATCAATAATGTCAAACCTTG
Found at i:1545104 original size:25 final size:24
Alignment explanation
Indices: 1545062--1545109 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
1545052 AAAGTGAAAT
1545062 AGTATTAAATGAAAATAAAATAAAA
1 AGTATTAAATGAAAAT-AAATAAAA
*
1545087 AGTACTTAAA-GAAGATAAATAAA
1 AGTA-TTAAATGAAAATAAATAAA
1545110 GATAAAAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 9 0.43
26 5 0.24
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (24 bp):
AGTATTAAATGAAAATAAATAAAA
Found at i:1550517 original size:54 final size:53
Alignment explanation
Indices: 1550457--1550593 Score: 132
Period size: 54 Copynumber: 2.6 Consensus size: 53
1550447 GTAATTTTCG
*
1550457 TATAAGACCATAGCCGGGATATGGAATC-GATGTGATGTGATCATGTGATATCCA
1 TATAAGACCATAGCCGGGATATGGAATCAGA-GAGATGTGATCATGTGAT-TCCA
* * * * * * * *
1550511 TATAAGACAATAGCTGGGCTATGGCATCAGAGAGATGTGATTATGTGCTTTCG
1 TATAAGACCATAGCCGGGATATGGAATCAGAGAGATGTGATCATGTGATTCCA
* * * *
1550564 TATAAGACCATATCTGAGATATGGCATCAG
1 TATAAGACCATAGCCGGGATATGGAATCAG
1550594 TGTGATATGT
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
53 28 0.41
54 39 0.57
55 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (53 bp):
TATAAGACCATAGCCGGGATATGGAATCAGAGAGATGTGATCATGTGATTCCA
Found at i:1550687 original size:46 final size:46
Alignment explanation
Indices: 1550566--1550718 Score: 135
Period size: 47 Copynumber: 3.2 Consensus size: 46
1550556 TGCTTTCGTA
* * ** ** * *
1550566 TAAGACCATATCTGAGATATGGCATCAGTGTGATATGTTCTTCTATA
1 TAAGACCATAGCTGGGATATAACATCAGTGTGATATG-TGATCTGTG
* **
1550613 TAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGATCTGTG
1 TAAGACCATAGCTGGGATATAACATCAGTGTGATATGTGATCTGTG
* * *
1550659 TAAGACCATAGCTGGGCTATAACTTCAGTGTGTAATATGTGATTATGTG
1 TAAGACCATAGCTGGGATATAACATCAGTGTG--ATATGTGA-TCTGTG
*
1550708 CAAGACCATAG
1 TAAGACCATAG
1550719 TTTTACTATG
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
46 32 0.35
47 36 0.40
48 8 0.09
49 15 0.16
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (46 bp):
TAAGACCATAGCTGGGATATAACATCAGTGTGATATGTGATCTGTG
Found at i:1559023 original size:27 final size:27
Alignment explanation
Indices: 1558988--1559099 Score: 93
Period size: 27 Copynumber: 4.1 Consensus size: 27
1558978 AGCATGGCTG
*
1558988 CCAGAACAGATAAT-GTGACAGAGTCA
1 CCAGAACAGATAATCGTGACAGAGCCA
*
1559014 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATCGTGACAGAGCCA
* * * *
1559042 CCAAAATAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-CGTGACAGAGCCA
* * * * *
1559069 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATCGTGACAGAGCCA
1559096 CCAG
1 CCAG
1559100 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.11
27 46 0.65
28 17 0.24
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATCGTGACAGAGCCA
Found at i:1566865 original size:27 final size:26
Alignment explanation
Indices: 1566825--1566963 Score: 170
Period size: 27 Copynumber: 5.2 Consensus size: 26
1566815 AGCATGGCTG
* * *
1566825 CCAGAACATATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
1566851 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
1566879 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
1566906 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
1566933 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
1566960 CCAG
1 CCAG
1566964 GACGCTTCCC
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.06
27 79 0.77
28 17 0.17
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:1568885 original size:48 final size:48
Alignment explanation
Indices: 1568807--1568994 Score: 211
Period size: 48 Copynumber: 3.9 Consensus size: 48
1568797 TTACAATGTG
* *
1568807 GCCGATGCCATGTCCCAGACATGGTTTTACACTAGCGCACATATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC-ATC
* * *
1568855 ACCAATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCACA-A-CATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATCATC
* * * * *
1568903 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATC
* * *
1568951 GCCGATGCCATGTCCCAGACGTGGTCTTACACTGGCACACATAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAT
1568995 AACCCAAATG
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
46 5 0.04
47 3 0.03
48 102 0.88
49 1 0.01
50 5 0.04
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATC
Found at i:1568976 original size:96 final size:96
Alignment explanation
Indices: 1568807--1568985 Score: 261
Period size: 96 Copynumber: 1.9 Consensus size: 96
1568797 TTACAATGTG
* *
1568807 GCCGATGCCATGTCCCAGACATGGTTTTACACTAGCGCACATATCAATACCAATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATACCAATGCCATGTCCCA
1568872 GACATGGTCTTACACTGGTTCTCACAACATC
66 GACATGGTCTTACACTGGTTCTCACAACATC
* * * * * *
1568903 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATC-GTGGCCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAAT-ACCAATGCCATGTCCC
*
1568967 AGACGTGGTCTTACACTGG
65 AGACATGGTCTTACACTGG
1568986 CACACATATA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 72 0.99
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATACCAATGCCATGTCCCA
GACATGGTCTTACACTGGTTCTCACAACATC
Found at i:1579716 original size:341 final size:341
Alignment explanation
Indices: 1579093--1579774 Score: 1364
Period size: 341 Copynumber: 2.0 Consensus size: 341
1579083 CAGTATCGTC
1579093 TCGCCCAATCTACCGAGGAGGAGGCCTATGAGGACATTCCTGATGATGTCCCCCCACAGCACGAG
1 TCGCCCAATCTACCGAGGAGGAGGCCTATGAGGACATTCCTGATGATGTCCCCCCACAGCACGAG
1579158 GACCCACTGACTTAGCCACCACCACCGTCTCGTCCAGTTCATGCGGCGACTTCATATGCTGACAT
66 GACCCACTGACTTAGCCACCACCACCGTCTCGTCCAGTTCATGCGGCGACTTCATATGCTGACAT
1579223 CTCTGAGTACCTCACTCGATTTGAGCAACAGTGTTTTCAACGATTTGACAACATTGATGCTACTC
131 CTCTGAGTACCTCACTCGATTTGAGCAACAGTGTTTTCAACGATTTGACAACATTGATGCTACTC
1579288 TACAGCAGATTTTTCAGCACCTTCATATCTCATCGCCAGTCCCACCTCATGAACCATCTAGCGAT
196 TACAGCAGATTTTTCAGCACCTTCATATCTCATCGCCAGTCCCACCTCATGAACCATCTAGCGAT
1579353 GAAGATGTTTAAAAATATTTATTTATTATTTTATGCTTTTAATTTTTATTGAAACTAATTTTTAT
261 GAAGATGTTTAAAAATATTTATTTATTATTTTATGCTTTTAATTTTTATTGAAACTAATTTTTAT
1579418 TTTTATTATAATTTAT
326 TTTTATTATAATTTAT
1579434 TCGCCCAATCTACCGAGGAGGAGGCCTATGAGGACATTCCTGATGATGTCCCCCCACAGCACGAG
1 TCGCCCAATCTACCGAGGAGGAGGCCTATGAGGACATTCCTGATGATGTCCCCCCACAGCACGAG
1579499 GACCCACTGACTTAGCCACCACCACCGTCTCGTCCAGTTCATGCGGCGACTTCATATGCTGACAT
66 GACCCACTGACTTAGCCACCACCACCGTCTCGTCCAGTTCATGCGGCGACTTCATATGCTGACAT
1579564 CTCTGAGTACCTCACTCGATTTGAGCAACAGTGTTTTCAACGATTTGACAACATTGATGCTACTC
131 CTCTGAGTACCTCACTCGATTTGAGCAACAGTGTTTTCAACGATTTGACAACATTGATGCTACTC
1579629 TACAGCAGATTTTTCAGCACCTTCATATCTCATCGCCAGTCCCACCTCATGAACCATCTAGCGAT
196 TACAGCAGATTTTTCAGCACCTTCATATCTCATCGCCAGTCCCACCTCATGAACCATCTAGCGAT
1579694 GAAGATGTTTAAAAATATTTATTTATTATTTTATGCTTTTAATTTTTATTGAAACTAATTTTTAT
261 GAAGATGTTTAAAAATATTTATTTATTATTTTATGCTTTTAATTTTTATTGAAACTAATTTTTAT
1579759 TTTTATTATAATTTAT
326 TTTTATTATAATTTAT
1579775 AAATTTTATT
Statistics
Matches: 341, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
341 341 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (341 bp):
TCGCCCAATCTACCGAGGAGGAGGCCTATGAGGACATTCCTGATGATGTCCCCCCACAGCACGAG
GACCCACTGACTTAGCCACCACCACCGTCTCGTCCAGTTCATGCGGCGACTTCATATGCTGACAT
CTCTGAGTACCTCACTCGATTTGAGCAACAGTGTTTTCAACGATTTGACAACATTGATGCTACTC
TACAGCAGATTTTTCAGCACCTTCATATCTCATCGCCAGTCCCACCTCATGAACCATCTAGCGAT
GAAGATGTTTAAAAATATTTATTTATTATTTTATGCTTTTAATTTTTATTGAAACTAATTTTTAT
TTTTATTATAATTTAT
Found at i:1584385 original size:31 final size:31
Alignment explanation
Indices: 1584347--1584405 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
1584337 TATGCATCCA
*
1584347 TGTAGACTTATTTAAGTAGATTTAAAAAATT
1 TGTAGACTTACTTAAGTAGATTTAAAAAATT
1584378 TGTAGACTTACTTAAGTAGATTTAAAAA
1 TGTAGACTTACTTAAGTAGATTTAAAAA
1584406 CTTAGTCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (31 bp):
TGTAGACTTACTTAAGTAGATTTAAAAAATT
Found at i:1586701 original size:17 final size:16
Alignment explanation
Indices: 1586670--1586703 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1586660 AAATATTATG
1586670 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
1586686 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
1586703 A
1 A
1586704 TGCGATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:1593578 original size:21 final size:21
Alignment explanation
Indices: 1593554--1593617 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
1593544 TGCACACAAG
1593554 CATGTATCTCAGCCACATGGT
1 CATGTATCTCAGCCACATGGT
** * * * *
1593575 CATGTGCCTCAACTACACGGG
1 CATGTATCTCAGCCACATGGT
* *
1593596 CATGTCTTTCAGCCACATGGT
1 CATGTATCTCAGCCACATGGT
1593617 C
1 C
1593618 GTGTCTTCCC
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (21 bp):
CATGTATCTCAGCCACATGGT
Found at i:1595627 original size:48 final size:48
Alignment explanation
Indices: 1595550--1595783 Score: 193
Period size: 48 Copynumber: 4.9 Consensus size: 48
1595540 AGGTACATGT
* * * **
1595550 GAGCCAGTGTAAGATCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTAATATGA
* * * * *
1595598 GAGCTAGTGTTAGACCATGTCTGGGACATGGCATCGGCCTCAATATGT
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTAATATGA
* * * **
1595646 GAGCCAGTGTAAGACCATGT-TTGAAGCATGGCATCGACATTGTTATGA
1 GAGCTAGTGTAAGACCATGTCTGGAA-CATGGCATCGGCATTAATATGA
* * * * ** * *
1595694 TAGCTAGTGTAACACCATGTCTAGCACATGGCATC-AAACTCAATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCA-TTAATATGA
* * * *
1595742 GAGCTAGTATAAAACCATGTCTGGGACATGACATCGGCATTA
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTA
1595784 TACCCTTTTG
Statistics
Matches: 143, Mismatches: 39, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
47 5 0.03
48 134 0.94
49 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTAATATGA
Found at i:1595711 original size:96 final size:96
Alignment explanation
Indices: 1595546--1595782 Score: 287
Period size: 96 Copynumber: 2.5 Consensus size: 96
1595536 ATTAAGGTAC
* * * *
1595546 ATGTGAGCCAGTGTAAGATCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTTAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCTAGTGTAAC
* *
1595611 ACCATGTCTGGGACATGGCATCGGCCTCAAT
66 ACCATGTCTAGCACATGGCATCGGCCTCAAT
*
1595642 ATGTGAGCCAGTGTAAGACCATGTTT-GAAGCATGGCATCGACATTGTTATGATAGCTAGTGTAA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAA-CATGGCATCGACATTGTTATGAGAGCTAGTGTAA
***
1595706 CACCATGTCTAGCACATGGCATCAAACTCAAT
65 CACCATGTCTAGCACATGGCATCGGCCTCAAT
* * * * * * * * *
1595738 GTGAGAGCTAGTATAAAACCATGTCTGGGACATGACATCGGCATT
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATT
1595783 ATACCCTTTT
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
95 3 0.03
96 115 0.96
97 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (96 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCTAGTGTAAC
ACCATGTCTAGCACATGGCATCGGCCTCAAT
Found at i:1605332 original size:22 final size:21
Alignment explanation
Indices: 1605279--1605335 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
1605269 TTTACGGCCT
* * *
1605279 TTAGTCATTCTGTCTACAGCG
1 TTAGTCGTTCTGTCTACGGCA
*
1605300 TTAGGCTGTTCTGTCTACGGCA
1 TTAGTC-GTTCTGTCTACGGCA
1605322 TTGAGTCGTTCTGT
1 TT-AGTCGTTCTGT
1605336 TGACTTAGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.17
22 21 0.72
23 3 0.10
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.40
Consensus pattern (21 bp):
TTAGTCGTTCTGTCTACGGCA
Found at i:1608209 original size:22 final size:22
Alignment explanation
Indices: 1608160--1608202 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1608150 GGCCTTTAGT
* *
1608160 CGTTCTGTCTACGGTGTTGAGC
1 CGTTCTATCTACGATGTTGAGC
*
1608182 CATTCTATCTACGATGTTGAG
1 CGTTCTATCTACGATGTTGAG
1608203 TTGTTCTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (22 bp):
CGTTCTATCTACGATGTTGAGC
Found at i:1612310 original size:26 final size:26
Alignment explanation
Indices: 1612281--1612332 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1612271 CATATTCGGC
1612281 CATAACA-AATATAAATTCTAACATTT
1 CATAACAGAATATAAATT-TAACATTT
* *
1612307 CATAACAGCATATATATTTAACATTT
1 CATAACAGAATATAAATTTAACATTT
1612333 AAATACTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (26 bp):
CATAACAGAATATAAATTTAACATTT
Found at i:1620205 original size:96 final size:97
Alignment explanation
Indices: 1620032--1620309 Score: 420
Period size: 96 Copynumber: 2.9 Consensus size: 97
1620022 GTTAGGGTAC
* * *
1620032 ATGTGAGCCAATGTAAGACCATGTTTGGAACATGACATCGTCATTGTTATGAGAGCTAGTGTAAG
1 ATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATAAGAGCTAGTGTAAG
*
1620097 ACCATGTCTGGGACATGGCATTGA-CCTCAAT
66 ACCATGTTTGGGACATGGCATTGAGCCTCAAT
* *
1620128 ATTTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATAAGAGCTAGTGTAAG
1 ATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATAAGAGCTAGTGTAAG
*
1620193 ACTATGTTTGGGACATGGCA-TGAGCCTCAAT
66 ACCATGTTTGGGACATGGCATTGAGCCTCAAT
* * *
1620224 ATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATC-AGCATTTTTATATGTG-TCAGTGTA
1 ATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGA-CATTGTTATAAGAGCT-AGTGTA
1620287 AGACCATGTTTGGGACATGGCAT
64 AGACCATGTTTGGGACATGGCAT
1620310 CGGTATCGAT
Statistics
Matches: 165, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
95 5 0.03
96 160 0.97
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (97 bp):
ATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATAAGAGCTAGTGTAAG
ACCATGTTTGGGACATGGCATTGAGCCTCAAT
Found at i:1620310 original size:48 final size:47
Alignment explanation
Indices: 1620043--1620311 Score: 247
Period size: 48 Copynumber: 5.6 Consensus size: 47
1620033 TGTGAGCCAA
* * *
1620043 TGTAAGACCATGTTTGGAACATGACATCGTCATTGTTATGA-GAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACATTATTAT-ATGAGC-AG
* * * * * * *
1620091 TGTAAGACCATGTCTGGGACATGGCATTGACCTCAATATTTGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACATTATTATATGAG-CAG
* *
1620139 TGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATAAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGACATTATTATATGAGC-AG
* * * * * * *
1620187 TGTAAGACTATGTTTGGGACATGGCAT-GAGCCTCAATATGTGAGCCAA
1 TGTAAGACCATGTTTGGAACATGGCATCGA-CATTATTATATGAG-CAG
* *
1620235 TGTAAGACCATGTTTGGAACATGGCATC-AGCATTTTTATATGTGTCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGA-CATTATTATATGAG-CAG
*
1620283 TGTAAGACCATGTTTGGGACATGGCATCG
1 TGTAAGACCATGTTTGGAACATGGCATCG
1620312 GTATCGATGT
Statistics
Matches: 175, Mismatches: 39, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
47 3 0.02
48 170 0.97
49 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (47 bp):
TGTAAGACCATGTTTGGAACATGGCATCGACATTATTATATGAGCAG
Found at i:1628029 original size:9 final size:9
Alignment explanation
Indices: 1628015--1628039 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1628005 TGCATAAATA
1628015 TAATATAGT
1 TAATATAGT
1628024 TAATATAGT
1 TAATATAGT
1628033 TAATATA
1 TAATATA
1628040 TAATATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (9 bp):
TAATATAGT
Found at i:1630628 original size:47 final size:44
Alignment explanation
Indices: 1630553--1630874 Score: 159
Period size: 46 Copynumber: 6.8 Consensus size: 44
1630543 TCATTTGTGT
*
1630553 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCATATTATGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGA-CAT-TGA-GAC
* *
1630599 GAGCTAGTGTAAGACCATGTCTGGGACATGGTATTGACATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATTGAGAC
* * *
1630645 GAATGCTAGTGTAAGACATGTTTGGGACATGCATCGTC-TTCGAGAA
1 G-A-GCTAGTGTAAGACATGTCTGGGACATGCATCGACATT-GAGAC
* * * * * * *
1630691 GTTAGCCAGTGTAAGACGTGTTTGGGACATGCATTGGC-TACGAGAT
1 G--AGCTAGTGTAAGACATGTCTGGGACATGCATCGACAT-TGAGAC
* * * *
1630737 GTG-TCAGTGTAAGACAATGTTTGGGACATGGCATCGACACGGACATGTGA-
1 GAGCT-AGTGTAAGAC-ATGTCTGGGACAT-GCATCG--AC--A-TTGAGAC
* * * * *
1630787 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAT
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATTGA-GAC
* *
1630834 GATCCTCAGTGTAAGACCATGTCTAGGACATGGCATCGACA
1 GA-GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGACA
1630875 CCTCACCTAC
Statistics
Matches: 217, Mismatches: 36, Indels: 43
0.73 0.12 0.15
Matches are distributed among these distances:
44 11 0.05
45 17 0.08
46 70 0.32
47 34 0.16
48 20 0.09
49 31 0.14
50 30 0.14
51 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
Done.