Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 81 of 228
Found at i:24096416 original size:242 final size:242
Alignment explanation
Indices: 24095990--24096447 Score: 643
Period size: 242 Copynumber: 1.9 Consensus size: 242
24095980 ATGTTGGTAG
* * * *
24095990 AAAGAAAATCAAGGTGAAAATCGAGGGATGATAGGAGATTTGGTATCGAAATTCAAGGGGTTGGA
1 AAAGAAAATAAAGGCGAAAATCGAGGGATGATAAGAGATTTGGTATCGAAATTCAAGGGGTTGAA
* * ** * * * *
24096055 TCTTCTGGATCCCGTTTCAATATCTTGGCTGATGGAAATAAGGGAAGGAATGATACTGTGGGGAT
66 TCTTCTAGATCCCATTTCAATATCTTGGCTGATAAAAATAAAGAAAGGAATGATAATGAGGGGAT
* * *
24096120 TGGGGAAATCGATAAAGGGCAGTCGAAGGGAGTTCTAAATGGTAATAAAAGTGAAGCTATTAATT
131 TGGGGAAATCGAGAAAGGGCAATCGAAGGGACTTCTAAATGGTAATAAAAGTGAAGCTATTAATT
*
24096185 TTAGTAAAAATTCAGGATTGGGTGAGAGGGCAATAGTTGTTTCCAAC
196 TGAGTAAAAATTCAGGATTGGGTGAGAGGGCAATAGTTGTTTCCAAC
*
24096232 AAAGAAAATAAAGGCGAAAATCGAGGGATGATAA-AGGATTTGG-AGTTGAAATTCAAGGGGTTG
1 AAAGAAAATAAAGGCGAAAATCGAGGGATGATAAGA-GATTTGGTA-TCGAAATTCAAGGGGTTG
* *
24096295 AATCTTTTAGATCTCATTTCAATATCTTGGCTGATAAAAATAAAGAAAGGAATGATAATGAGGGG
64 AATCTTCTAGATCCCATTTCAATATCTTGGCTGATAAAAATAAAGAAAGGAATGATAATGAGGGG
* * * * *
24096360 ATTGGGGAAAT-TAGGAAGGAGCAATTGAAGGGACTTTTAAATGGTAATAGAAGTGAAGCTATTA
129 ATTGGGGAAATCGAGAAAGG-GCAATCGAAGGGACTTCTAAATGGTAATAAAAGTGAAGCTATTA
*
24096424 ATTTGAGTAAAAATTCAGGGTTGG
193 ATTTGAGTAAAAATTCAGGATTGG
24096448 ATAAGATGGT
Statistics
Matches: 188, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
241 7 0.04
242 181 0.96
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.27
Consensus pattern (242 bp):
AAAGAAAATAAAGGCGAAAATCGAGGGATGATAAGAGATTTGGTATCGAAATTCAAGGGGTTGAA
TCTTCTAGATCCCATTTCAATATCTTGGCTGATAAAAATAAAGAAAGGAATGATAATGAGGGGAT
TGGGGAAATCGAGAAAGGGCAATCGAAGGGACTTCTAAATGGTAATAAAAGTGAAGCTATTAATT
TGAGTAAAAATTCAGGATTGGGTGAGAGGGCAATAGTTGTTTCCAAC
Found at i:24100074 original size:5 final size:5
Alignment explanation
Indices: 24100064--24100120 Score: 55
Period size: 5 Copynumber: 11.2 Consensus size: 5
24100054 CATTTTCCTA
* *
24100064 TTTAT TTTA- TTTAT TATTAT TTTAT TTCT-T TATTAA TTCAT TTTAT
1 TTTAT TTTAT TTTAT T-TTAT TTTAT TT-TAT T-TTAT TTTAT TTTAT
24100110 TTTAT TTTAT T
1 TTTAT TTTAT T
24100121 CCTTTACTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.09
5 31 0.72
6 8 0.19
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:24101801 original size:12 final size:12
Alignment explanation
Indices: 24101768--24101801 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24101758 ATTTTATTTG
24101768 TTTTCTTTTTAA
1 TTTTCTTTTTAA
**
24101780 TTTTAATTTTAA
1 TTTTCTTTTTAA
24101792 TTTTCTTTTT
1 TTTTCTTTTT
24101802 TTATGTTTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTTAA
Found at i:24107796 original size:12 final size:12
Alignment explanation
Indices: 24107779--24107803 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24107769 GGTGTTCATT
24107779 CGGTTAACTGAC
1 CGGTTAACTGAC
24107791 CGGTTAACTGAC
1 CGGTTAACTGAC
24107803 C
1 C
24107804 TGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (12 bp):
CGGTTAACTGAC
Found at i:24107991 original size:9 final size:9
Alignment explanation
Indices: 24107963--24108019 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
24107953 TTTGGTTAAA
24107963 AATTAACCG
1 AATTAACCG
24107972 AA-TAACCG
1 AATTAACCG
*
24107980 AATTACCCG
1 AATTAACCG
* *
24107989 AATTACCCT
1 AATTAACCG
24107998 AATTAACCG
1 AATTAACCG
* *
24108007 AATCAACCA
1 AATTAACCG
24108016 AATT
1 AATT
24108020 GAATCACTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
8 8 0.20
9 32 0.80
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:24108145 original size:18 final size:18
Alignment explanation
Indices: 24108122--24108170 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
24108112 AATTTTTATG
*
24108122 ATTGGGTTGGGATGGATA
1 ATTGGGTTGGGATGAATA
*
24108140 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGATGAATA
* *
24108158 CTTGGGTTTGGAT
1 ATTGGGTTGGGAT
24108171 TGGGTTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.18, C:0.02, G:0.41, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGGGATGAATA
Found at i:24109464 original size:14 final size:14
Alignment explanation
Indices: 24109445--24109478 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24109435 TTGTTTCACT
*
24109445 GAAAATGGTTTCCG
1 GAAAATGATTTCCG
*
24109459 GAAAATGATTTCTG
1 GAAAATGATTTCCG
24109473 GAAAAT
1 GAAAAT
24109479 AACTTACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:24110096 original size:18 final size:18
Alignment explanation
Indices: 24110058--24110093 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24110048 TTATTATTTT
*
24110058 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
24110076 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
24110094 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:24117521 original size:14 final size:13
Alignment explanation
Indices: 24117497--24117534 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
24117487 CAAAATGTAC
24117497 AATATAATTAAAT
1 AATATAATTAAAT
24117510 AATATAAATTAAAT
1 AATAT-AATTAAAT
*
24117524 AATTTAATTAA
1 AATATAATTAA
24117535 CTATTTACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATAATTAAAT
Found at i:24119992 original size:3 final size:3
Alignment explanation
Indices: 24119984--24120013 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24119974 AATTGTTTAA
24119984 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
24120014 CCACTATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:24120930 original size:125 final size:126
Alignment explanation
Indices: 24120708--24120962 Score: 377
Period size: 125 Copynumber: 2.0 Consensus size: 126
24120698 GGAGTTGGAT
* * **
24120708 TTTTTTAATTTTACTGTAAGAGAACAATAACGGGAATAGCTGCCCATCATTGCCACAATTGGTCG
1 TTTTTTAATTTTACTGTAACAGAACAATAACAGGAATAGAGGCCCATCATTGCCACAATTGGTCG
*
24120773 TTACCTGTTAAATTGCAACCGCGATCCACCGCTATTGGTGTGGTTCCGCTTC-CATCGCTA
66 TTACCCGTTAAATTGCAACCGCGATCCACCGCTATTGGTGTGGTTCCGCTTCACATCGCTA
** * ***
24120833 TTTTTTAATTTTACTGTAACAGAACAATAACAGGAATAGAGGCCTGTTATTGCTGTAATTGGTCG
1 TTTTTTAATTTTACTGTAACAGAACAATAACAGGAATAGAGGCCCATCATTGCCACAATTGGTCG
* * *
24120898 TTACCCGTTAAATTGCGACCGTGATCCACCGCTATTGGTGTGGTTCTGCTTCACATCGCTA
66 TTACCCGTTAAATTGCAACCGCGATCCACCGCTATTGGTGTGGTTCCGCTTCACATCGCTA
24120959 TTTT
1 TTTT
24120963 CAGCAATAAC
Statistics
Matches: 115, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 103 0.90
126 12 0.10
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (126 bp):
TTTTTTAATTTTACTGTAACAGAACAATAACAGGAATAGAGGCCCATCATTGCCACAATTGGTCG
TTACCCGTTAAATTGCAACCGCGATCCACCGCTATTGGTGTGGTTCCGCTTCACATCGCTA
Found at i:24122207 original size:47 final size:47
Alignment explanation
Indices: 24122131--24122526 Score: 620
Period size: 47 Copynumber: 8.5 Consensus size: 47
24122121 ATTTTCACAC
* * * * *
24122131 CAAAATTTGGACAGCATAT--ATACAAAATTGGGCTGCATTTGTACAT
1 CAAAAATT-GACAGCATATACATATATAATTGGACTGCATTTATACAT
24122177 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACAT
24122224 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATA-AGT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACA-T
* *
24122271 TAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACGT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACAT
* * *
24122318 CAAAAATTGACAGCATATACATATGTATTTGGACTGCATTTGTACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACAT
*
24122365 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACGT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACAT
*
24122412 CAAAAATTGACAGCATATACATATATAATTGGACTGC-CTTATACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACAT
*
24122458 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACAT
*
24122505 CAAAATTTGACAGCATATACAT
1 CAAAAATTGACAGCATATACAT
24122527 TCATTTACTC
Statistics
Matches: 324, Mismatches: 21, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
45 10 0.03
46 52 0.16
47 262 0.81
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (47 bp):
CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACAT
Found at i:24122804 original size:14 final size:15
Alignment explanation
Indices: 24122780--24122814 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
24122770 TATATACATT
24122780 ACCATATAAATACTA
1 ACCATATAAATACTA
24122795 ACCATA-AAATACTA
1 ACCATATAAATACTA
24122809 ATCCAT
1 A-CCAT
24122815 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:24125382 original size:30 final size:30
Alignment explanation
Indices: 24125337--24125458 Score: 176
Period size: 30 Copynumber: 4.1 Consensus size: 30
24125327 ATAGAAACTA
*
24125337 ATATCAGTTAACTGATTCTTAGGAAATTAGG
1 ATATCAATT-ACTGATTCTTAGGAAATTAGG
*
24125368 ATATCAATTACTGATTCTTAGGAAAACTA--
1 ATATCAATTACTGATTCTTAGG-AAATTAGG
*
24125397 ATATCAGTTACTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
*
24125427 ATATCAATTATTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
24125457 AT
1 AT
24125459 TTATTCCTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
28 5 0.06
29 21 0.26
30 43 0.52
31 13 0.16
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (30 bp):
ATATCAATTACTGATTCTTAGGAAATTAGG
Found at i:24125424 original size:59 final size:60
Alignment explanation
Indices: 24125331--24125451 Score: 226
Period size: 59 Copynumber: 2.0 Consensus size: 60
24125321 TTGTAAATAG
24125331 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
1 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
*
24125391 AAACTAATATCAGTT-ACTGATTCTTAGGAAATTAGGATATCAATTATTGATTCTTAGGA
1 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
24125450 AA
1 AA
24125452 TTAGGATTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 45 0.75
60 15 0.25
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (60 bp):
AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
Found at i:24130099 original size:30 final size:30
Alignment explanation
Indices: 24130049--24130170 Score: 176
Period size: 30 Copynumber: 4.1 Consensus size: 30
24130039 ATAGAAACTA
* *
24130049 ATATCAGTTAACTGTTTCTTAGGAAATTAGG
1 ATATCAATT-ACTGATTCTTAGGAAATTAGG
*
24130080 ATATCAATTACTGATTCTTAGGAAAACTA--
1 ATATCAATTACTGATTCTTAGG-AAATTAGG
*
24130109 ATATCAGTTACTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
24130139 ATATCAATTACTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
24130169 AT
1 AT
24130171 TTATTTCCTT
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
28 5 0.06
29 21 0.26
30 43 0.52
31 13 0.16
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (30 bp):
ATATCAATTACTGATTCTTAGGAAATTAGG
Found at i:24130138 original size:59 final size:60
Alignment explanation
Indices: 24130043--24130163 Score: 226
Period size: 59 Copynumber: 2.0 Consensus size: 60
24130033 TTGTAAATAG
*
24130043 AAACTAATATCAGTTAACTGTTTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
1 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
24130103 AAACTAATATCAGTT-ACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
1 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
24130162 AA
1 AA
24130164 TTAGGATTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 45 0.75
60 15 0.25
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (60 bp):
AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
Found at i:24131310 original size:24 final size:24
Alignment explanation
Indices: 24131236--24131347 Score: 131
Period size: 24 Copynumber: 4.6 Consensus size: 24
24131226 GTACATGTAT
*
24131236 GCTCATACGAGCT-ATGAATCGGTAT
1 GCTCATACGAGCTGA--AATCGGTAA
24131261 GCTC-TCACGAGCTGTAAATCGGTAA
1 GCTCAT-ACGAGCTG-AAATCGGTAA
* *
24131286 GCTCATACGAGCTGAAATTGATAA
1 GCTCATACGAGCTGAAATCGGTAA
24131310 GCTC-TCACGAGCTGAAATCGGTAA
1 GCTCAT-ACGAGCTGAAATCGGTAA
24131334 GCTCATACGAGCTG
1 GCTCATACGAGCTG
24131348 TGGTGTGTCC
Statistics
Matches: 76, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
23 1 0.01
24 41 0.54
25 32 0.42
26 1 0.01
27 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (24 bp):
GCTCATACGAGCTGAAATCGGTAA
Found at i:24140786 original size:22 final size:23
Alignment explanation
Indices: 24140755--24140800 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
24140745 GTTTAGTGCC
24140755 TAGGGTTTGTGAGT-TTAGGGTTT
1 TAGGGTTTGT-AGTGTTAGGGTTT
*
24140778 TAGGG-TTGTAGTGTTAGTGTTT
1 TAGGGTTTGTAGTGTTAGGGTTT
24140800 T
1 T
24140801 GTTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 13 0.62
23 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (23 bp):
TAGGGTTTGTAGTGTTAGGGTTT
Found at i:24140890 original size:34 final size:34
Alignment explanation
Indices: 24140852--24140985 Score: 135
Period size: 34 Copynumber: 3.9 Consensus size: 34
24140842 TTTTAGAAAA
* *
24140852 TAAATTAGGGTGTAGAGTTTTTAAAAAAACTAAT
1 TAAATTAGGGTTTAGAGTTTTTAAAAAAATTAAT
* * *
24140886 TAAATTAGGTTTTA-AGGGTTTTAAATAAATTAAT
1 TAAATTAGGGTTTAGA-GTTTTTAAAAAAATTAAT
* * * * *
24140920 TAAATTAAGTTTTAGGGATTTTAAATAAATTAAT
1 TAAATTAGGGTTTAGAGTTTTTAAAAAAATTAAT
**
24140954 TAAATTAGGGTTTAGTTTTTTTAAAAATAATT
1 TAAATTAGGGTTTAGAGTTTTTAAAAA-AATT
24140986 TTTGTGTTTA
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
33 1 0.01
34 78 0.94
35 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (34 bp):
TAAATTAGGGTTTAGAGTTTTTAAAAAAATTAAT
Found at i:24144576 original size:18 final size:18
Alignment explanation
Indices: 24144550--24144592 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
24144540 CACTGAGAAA
* *
24144550 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
24144568 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
24144586 AGGATAC
1 AGGATAC
24144593 TCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:24146388 original size:17 final size:17
Alignment explanation
Indices: 24146366--24146426 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
24146356 ATTGAATCAC
24146366 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
24146383 TACATAAGACTTTGAATCAC
1 TACAT-A-A-TTAAAAACAT
24146403 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
24146420 TACATAA
1 TACATAA
24146427 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 18 0.55
18 2 0.06
19 2 0.06
20 11 0.33
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:24146404 original size:37 final size:37
Alignment explanation
Indices: 24146357--24146427 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
24146347 ATTACCCGAA
24146357 TTGAATCACTACATAATTAAAAACATTACATAAGACT
1 TTGAATCACTACATAATTAAAAACATTACATAAGACT
24146394 TTGAATCACTACATAATTAAAAACATTACATAAG
1 TTGAATCACTACATAATTAAAAACATTACATAAG
24146428 TCTTGAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGACT
Found at i:24146445 original size:37 final size:37
Alignment explanation
Indices: 24146357--24146448 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
24146347 ATTACCCGAA
*
24146357 TTGAATCACTACATAATTAAAAACATTACATAAGACT
1 TTGAATAACTACATAATTAAAAACATTACATAAGACT
* *
24146394 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGACT
24146430 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
24146449 GAAATGTAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 3 0.06
37 45 0.88
38 3 0.06
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGACT
Found at i:24146605 original size:38 final size:38
Alignment explanation
Indices: 24146561--24146667 Score: 178
Period size: 39 Copynumber: 2.8 Consensus size: 38
24146551 GACTTAGAGT
*
24146561 TAGACTTTAGTTTTATTTTTATTGGGTTGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
* *
24146599 TAGACTTTAGTTTTAGTTTTATTGGGTTAAGTAATTTGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTT-GGTAATTGGG
24146638 TAGACTTTAGTTTTAGTTTTATTGGGTTGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGG
24146668 GTTGGATAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 28 0.44
39 36 0.56
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.52
Consensus pattern (38 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
Found at i:24146678 original size:44 final size:43
Alignment explanation
Indices: 24146582--24146679 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 43
24146572 TTTATTTTTA
*
24146582 TTGGGTTGGTAATTGGGTAGACTTTAGTTTTAGTTTTATTGGG
1 TTGGGTTGGTAATTTGGTAGACTTTAGTTTTAGTTTTATTGGG
**
24146625 -T---TAAGTAATTTGGTAGACTTTAGTTTTAGTTTTATTGGG
1 TTGGGTTGGTAATTTGGTAGACTTTAGTTTTAGTTTTATTGGG
24146664 TTGGGTTGGATAATTT
1 TTGGGTTGG-TAATTT
24146680 TATTTATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
39 35 0.78
40 1 0.02
42 1 0.02
43 2 0.04
44 6 0.13
ACGTcount: A:0.19, C:0.02, G:0.29, T:0.50
Consensus pattern (43 bp):
TTGGGTTGGTAATTTGGTAGACTTTAGTTTTAGTTTTATTGGG
Found at i:24148335 original size:23 final size:19
Alignment explanation
Indices: 24148291--24148341 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 19
24148281 ATTTAATAGT
24148291 ATAAAAATATATAAATTTA
1 ATAAAAATATATAAATTTA
24148310 ATAAAATATATAATTAATATTTA
1 ATAAAA-ATAT-A-TAA-ATTTA
24148333 ATAAAAATA
1 ATAAAAATA
24148342 ATTATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 4 0.14
21 1 0.04
22 6 0.21
23 11 0.39
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAAAATATATAAATTTA
Found at i:24148344 original size:20 final size:20
Alignment explanation
Indices: 24148291--24148350 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
24148281 ATTTAATAGT
24148291 ATAAAAAT-ATATAA-ATTTA
1 ATAAAAATAAT-TAATATTTA
24148310 ATAAAATATATAATTAATATTTA
1 AT-AAA-A-ATAATTAATATTTA
24148333 ATAAAAATAATT-ATATTT
1 ATAAAAATAATTAATATTT
24148351 TAAAATATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
19 8 0.22
20 9 0.25
21 2 0.06
22 8 0.22
23 9 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAAATAATTAATATTTA
Found at i:24153554 original size:179 final size:179
Alignment explanation
Indices: 24153197--24153714 Score: 550
Period size: 179 Copynumber: 2.9 Consensus size: 179
24153187 ATGAACCAAT
* * * * * * *
24153197 ATCGATGATAAGGAATCAAATGCCTCAACTACAACCATCCC-CACCCACTTCCTCTTTTCCAATT
1 ATCGATAATAAGCAATCGAATGTCTCAACTACAATCA-CCCTCCCCCACTTCCTCTTTTCCATTT
* **
24153261 TGGAGATATTGCTAGACATAATATTCGGGTAAAACACAGTCGACACCC-T-AGTAAAGGTTAAAA
65 TGGAGATATTGCTAGACATAATGTTCGGGTAAAACACAGTCGACACCCTTGAAAAAAGG-TAAAA
* *
24153324 CAGTAAGAC-TTAGAGCCACCACTTAGATGATACAAATCACATAACTAACAAAC
129 CAGTAAGACATT-GAGCCACCACTCAGATAATACAAATCAC--AACTAACAAAC
* * * * * * *
24153377 AT-TATCAATGAGGAATTGAATGTCTCAACTATAATCATCCT-GCCCACTTCCTCTTTTCCATTT
1 ATCGAT-AATAAGCAATCGAATGTCTCAACTACAATCACCCTCCCCCACTTCCTCTTTTCCATTT
* *
24153440 TGGAGGTATTGCTAGACATAATGTT-TGGTAAAACAACAGTCGACACCCTTGCAAAAAAAAGGTA
65 TGGAGATATTGCTAGACATAATGTTCGGGTAAAAC-ACAGTCGACACCCTTG---AAAAAAGGTA
* * *
24153504 AAACGGTAAGGCATTGAGCCACCGCTCAGATAATACAAATCAC-A-TAACAAAC
126 AAACAGTAAGACATTGAGCCACCACTCAGATAATACAAATCACAACTAACAAAC
* * * *
24153556 ATCGATGATAAGCAGTCGAATGTCTCACCTACAATCACCCTCCCCCACTTCCTCCTTTTTCATTT
1 ATCGATAATAAGCAATCGAATGTCTCAACTACAATCACCCTCCCCCACTTCCT-CTTTTCCATTT
* * * *
24153621 TGGAGATATTGCTATACATAATGTTCGGGTAAAACACAGTCAGACGCTCTTGTAAAAAAGTTAAA
65 TGGAGATATTGCTAGACATAATGTTCGGGTAAAACACAGTC-GACACCCTTG-AAAAAAGGTAAA
* *
24153686 ACAGTAAGACATAGAGCCACCATTCAGAT
128 ACAGTAAGACATTGAGCCACCACTCAGAT
24153715 TTCAGATGAT
Statistics
Matches: 280, Mismatches: 44, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
178 8 0.03
179 97 0.35
180 75 0.27
181 39 0.14
182 16 0.06
183 37 0.13
184 8 0.03
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (179 bp):
ATCGATAATAAGCAATCGAATGTCTCAACTACAATCACCCTCCCCCACTTCCTCTTTTCCATTTT
GGAGATATTGCTAGACATAATGTTCGGGTAAAACACAGTCGACACCCTTGAAAAAAGGTAAAACA
GTAAGACATTGAGCCACCACTCAGATAATACAAATCACAACTAACAAAC
Found at i:24156025 original size:23 final size:22
Alignment explanation
Indices: 24155999--24156041 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24155989 TTTTAAATAT
*
24155999 TTTATCTTATTCTAAAATTTTCA
1 TTTAT-TTATTATAAAATTTTCA
*
24156022 TTTATTTCTTATAAAATTTT
1 TTTATTTATTATAAAATTTT
24156042 AAATTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATTTATTATAAAATTTTCA
Found at i:24157493 original size:12 final size:12
Alignment explanation
Indices: 24157472--24157509 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
24157462 TATTATTATC
24157472 ATATTTAATTTT
1 ATATTTAATTTT
24157484 AT-TATTAATTATT
1 ATAT-TTAATT-TT
24157497 ATATTTAATTTT
1 ATATTTAATTTT
24157509 A
1 A
24157510 GAAAAATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.04
12 11 0.48
13 10 0.43
14 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTTAATTTT
Found at i:24157500 original size:25 final size:24
Alignment explanation
Indices: 24157456--24157509 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
24157446 GTTGAAGATG
24157456 ATTTT-TTATTATTATCATATTTA
1 ATTTTATTATTATTATCATATTTA
*
24157479 ATTTTATTATTAATTATTATATTTA
1 ATTTTATTATT-ATTATCATATTTA
24157504 ATTTTA
1 ATTTTA
24157510 GAAAAATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 5 0.18
24 5 0.18
25 18 0.64
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTTTATTATTATTATCATATTTA
Found at i:24157504 original size:13 final size:13
Alignment explanation
Indices: 24157466--24157506 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
24157456 ATTTTTTATT
*
24157466 ATTATCATATTTA
1 ATTATTATATTTA
24157479 ATT-TTAT-TATTA
1 ATTATTATAT-TTA
24157491 ATTATTATATTTA
1 ATTATTATATTTA
24157504 ATT
1 ATT
24157507 TTAGAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 1 0.04
12 9 0.38
13 13 0.54
14 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTATTATATTTA
Found at i:24160176 original size:5 final size:5
Alignment explanation
Indices: 24160166--24160211 Score: 60
Period size: 5 Copynumber: 9.2 Consensus size: 5
24160156 GATTATGTTT
24160166 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TATATA T
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA T-TATA T
24160212 ATCAAAAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 23 0.62
6 10 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:24160191 original size:19 final size:17
Alignment explanation
Indices: 24160167--24160213 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 17
24160157 ATTATGTTTT
24160167 TATATTATATTATTATTAA
1 TATATTATATTA-TATT-A
24160186 TATATTATATTATATTA
1 TATATTATATTATATTA
24160203 TATATATATAT
1 TATAT-TATAT
24160214 CAAAAGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.22
18 9 0.33
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTATATTATATTA
Found at i:24161770 original size:45 final size:45
Alignment explanation
Indices: 24161705--24161809 Score: 158
Period size: 45 Copynumber: 2.3 Consensus size: 45
24161695 ATGTGCCGAC
* * *
24161705 TACTGTTACTGTTACTGATTC-GATACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAATACTGT
*
24161750 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
24161795 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
24161810 TGCTACCGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
Found at i:24161800 original size:6 final size:6
Alignment explanation
Indices: 24161789--24161830 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
24161779 GTGTGTTGAA
* *
24161789 TACTGT TACTGT TACTGT TACTGC TACCGT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG
24161831 ATCAGGTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:24167534 original size:27 final size:27
Alignment explanation
Indices: 24167501--24167556 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
24167491 GATTATGTGT
*
24167501 TAGGCTTTGGGCCAAATGGATTTAATC
1 TAGGCTTTGGGCCAAATAGATTTAATC
24167528 TAGGCTTTGGGCCAAATAGATTTAATC
1 TAGGCTTTGGGCCAAATAGATTTAATC
24167555 TA
1 TA
24167557 TGTCTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (27 bp):
TAGGCTTTGGGCCAAATAGATTTAATC
Found at i:24172498 original size:56 final size:56
Alignment explanation
Indices: 24172412--24172523 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 56
24172402 TACTGGTGTG
* *
24172412 GAAAAAGATACAAGGGATTGATTTGATCAGACCA-ACTGAAGAGAAAGTGAAAGTGA
1 GAAAAAAATACAAGGGATTGATTTGATCAGA-CAGACTGAAGAAAAAGTGAAAGTGA
* * *
24172468 GAAAAAAATACACGGGGTTGATTTGATCAGAGAGACTGAAGAAAAAGTGAAAGTGA
1 GAAAAAAATACAAGGGATTGATTTGATCAGACAGACTGAAGAAAAAGTGAAAGTGA
24172524 TTCGTGACAG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
55 1 0.02
56 49 0.98
ACGTcount: A:0.46, C:0.08, G:0.28, T:0.18
Consensus pattern (56 bp):
GAAAAAAATACAAGGGATTGATTTGATCAGACAGACTGAAGAAAAAGTGAAAGTGA
Found at i:24173778 original size:28 final size:30
Alignment explanation
Indices: 24173747--24173804 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
24173737 GAAAATATAG
*
24173747 ATTAGGGGTTAAAT-TGAGAAAT-GTGAAA
1 ATTAGGGGTCAAATGTGAGAAATGGTGAAA
* *
24173775 ATTATGGGTCAAATGTGGGAAATGGTGAAA
1 ATTAGGGGTCAAATGTGAGAAATGGTGAAA
24173805 TATATGGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.48
29 7 0.28
30 6 0.24
ACGTcount: A:0.40, C:0.02, G:0.31, T:0.28
Consensus pattern (30 bp):
ATTAGGGGTCAAATGTGAGAAATGGTGAAA
Found at i:24177110 original size:23 final size:25
Alignment explanation
Indices: 24177049--24177115 Score: 79
Period size: 23 Copynumber: 2.8 Consensus size: 25
24177039 TTTCTTTGTT
* *
24177049 TTTAAGTTTTTATTTATTT-ACTTTA
1 TTTAAG-TTTTATTTATTTGTCCTTA
24177074 TTTAAGTTTT-TTTATTTGTCCTTA
1 TTTAAGTTTTATTTATTTGTCCTTA
24177098 TTT-A-TTTTATTTATTTGT
1 TTTAAGTTTTATTTATTTGT
24177116 TTATTATTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.11
23 17 0.45
24 11 0.29
25 6 0.16
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.70
Consensus pattern (25 bp):
TTTAAGTTTTATTTATTTGTCCTTA
Found at i:24177188 original size:21 final size:21
Alignment explanation
Indices: 24177159--24177239 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
24177149 TTTGAAATTT
*
24177159 TTTATAATATTATTTTTTAAA
1 TTTAAAATATTATTTTTTAAA
24177180 TTTAAAATA-TATTTTTTAAAA
1 TTTAAAATATTATTTTTT-AAA
* * *
24177201 TTTTAAATATTATTTGTAAAA
1 TTTAAAATATTATTTTTTAAA
*
24177222 TTTTAAATATATATTTTT
1 TTTAAAATAT-TATTTTT
24177240 AATAATATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.15
21 32 0.62
22 12 0.23
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
TTTAAAATATTATTTTTTAAA
Found at i:24177192 original size:42 final size:40
Alignment explanation
Indices: 24177145--24177233 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 40
24177135 ATTTGAAATG
* * *
24177145 TATATTTGAAATTTTTTATAATATTATTTTTTAAATTTAAAA
1 TATATTTGAAA-ATTTTA-AATATTATTTGTAAAATTTAAAA
* *
24177187 TATATTTTTTAAAATTTTAAATATTATTTGTAAAATTTTAAA
1 TATA--TTTGAAAATTTTAAATATTATTTGTAAAATTTAAAA
24177229 TATAT
1 TATAT
24177234 ATTTTTAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
40 1 0.03
42 28 0.70
43 5 0.12
44 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (40 bp):
TATATTTGAAAATTTTAAATATTATTTGTAAAATTTAAAA
Found at i:24177696 original size:21 final size:21
Alignment explanation
Indices: 24177638--24177696 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
24177628 ATGACTTTAT
24177638 TTAAAATATATATATTAAAAAA
1 TTAAAA-ATATATATTAAAAAA
* * * *
24177660 GTAAAAATTTAAATTAGAAAA
1 TTAAAAATATATATTAAAAAA
24177681 TTAAAAATATATATTA
1 TTAAAAATATATATTA
24177697 TAACTGGTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
TTAAAAATATATATTAAAAAA
Found at i:24181569 original size:43 final size:43
Alignment explanation
Indices: 24181414--24181570 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
24181404 TGAGTTATCT
* * * *
24181414 TGTAAGACCACATCTGGGACGTTGGCGTCGAT-TTGAGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATT-AGA-TTACA
* * * *
24181458 TGTAGGACCATGTCTGGGACATCGGCATCG-TA-TACGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTA-GATTACA
** * *
24181500 TGTAAGACCTTGTCTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTAGATTACA
*
24181543 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
24181571 TCTAAGAGCT
Statistics
Matches: 91, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 30 0.33
43 36 0.40
44 25 0.27
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTAGATTACA
Found at i:24184068 original size:30 final size:29
Alignment explanation
Indices: 24183959--24184095 Score: 132
Period size: 30 Copynumber: 4.6 Consensus size: 29
24183949 GTCACAGAGC
* *
24183959 AGTTCATATCACTC-GTACATGGGCGGCTTG
1 AGTTCATATCACCCAG-ACATGGGC-GATTG
24183989 AGTTCATATCACCCAGACATGGGCGACTTG
1 AGTTCATATCACCCAGACATGGGCGA-TTG
***
24184019 AGTTCATATCACTTGGACATGGGCGATTCG
1 AGTTCATATCACCCAGACATGGGCGATT-G
* ** *
24184049 AGTTCACATCACCCAGACATAAGCGGTTCG
1 AGTTCATATCACCCAGACATGGGCGATT-G
*
24184079 AGTTCATTTCACCCAGA
1 AGTTCATATCACCCAGA
24184096 GCAACCACCG
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
29 3 0.03
30 86 0.96
31 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (29 bp):
AGTTCATATCACCCAGACATGGGCGATTG
Found at i:24184082 original size:60 final size:60
Alignment explanation
Indices: 24183959--24184090 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
24183949 GTCACAGAGC
* * * **
24183959 AGTTCATATCACTCGTACATGGGCGGCTTGAGTTCATATCACCCAGACATGGGCGACTTG
1 AGTTCATATCACTCGGACATGGGCGGATTGAGTTCACATCACCCAGACATAAGCGACTTG
* *
24184019 AGTTCATATCACTTGGACATGGGC-GATTCGAGTTCACATCACCCAGACATAAGCG-GTTCG
1 AGTTCATATCACTCGGACATGGGCGGATT-GAGTTCACATCACCCAGACATAAGCGACTT-G
*
24184079 AGTTCATTTCAC
1 AGTTCATATCAC
24184091 CCAGAGCAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 5 0.08
60 57 0.92
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (60 bp):
AGTTCATATCACTCGGACATGGGCGGATTGAGTTCACATCACCCAGACATAAGCGACTTG
Found at i:24186969 original size:363 final size:363
Alignment explanation
Indices: 24186304--24187031 Score: 1384
Period size: 363 Copynumber: 2.0 Consensus size: 363
24186294 CAATCGACAA
24186304 CTTTATGATGTATTGTTTGATGGCAGACACACAGTCCACCTTGTTCTCGAACTGTTACCTAACGA
1 CTTTATGATGTATTGTTTGATGGCAGACACACAGTCCACCTTGTTCTCGAACTGTTACCTAACGA
* *
24186369 ACAACTCCTCGAACTGCGAATTTGACTCCAATCTGTAATTAGGTACTATATCGGTGTACTTAGGG
66 ACAACTCCTCGAACTGCGAATTTGACGCCAATCTATAATTAGGTACTATATCGGTGTACTTAGGG
*
24186434 AACCCGGATGCATGCGTTACATCTGGATCTACGTACAACATGTCGCCCCCAGGTTCATTTCGTAA
131 AACCCGGATGCATGCGCTACATCTGGATCTACGTACAACATGTCGCCCCCAGGTTCATTTCGTAA
* * *
24186499 AATAGTGCCATGACTCGGGTTTCTGATTGAAGAGCCGTAAACATCTTCATCCTCCTCCAGGCCTT
196 AATAGTGCCACGACTCGGGTTACTGAATGAAGAGCCGTAAACATCTTCATCCTCCTCCAGGCCTT
*
24186564 CATCATCGATATCGTCCGGAACCTCATCAATATCGGGGTCACTAAAATCTTCAACGTCCTGATCA
261 CATCATCGATATCGTCCGGAACCTCATCAACATCGGGGTCACTAAAATCTTCAACGTCCTGATCA
24186629 GAATCTTCACCATTATTGATCATTTCTCTGACATTTGC
326 GAATCTTCACCATTATTGATCATTTCTCTGACATTTGC
24186667 CTTTATGATGTATTGTTTGATGGCAGACACACAGTCCACCTTGTTCTCGAACTGTTACCTAACGA
1 CTTTATGATGTATTGTTTGATGGCAGACACACAGTCCACCTTGTTCTCGAACTGTTACCTAACGA
24186732 ACAACTCCTCGAACTGCGAATTTGACGCCAATCTATAATTAGGTACTATATCGGTGTACTTAGGG
66 ACAACTCCTCGAACTGCGAATTTGACGCCAATCTATAATTAGGTACTATATCGGTGTACTTAGGG
*
24186797 AACTCGGATGCATGCGCTACATCTGGATCTACGTACAACATGTCGCCCCCAGGTTCATTTCGTAA
131 AACCCGGATGCATGCGCTACATCTGGATCTACGTACAACATGTCGCCCCCAGGTTCATTTCGTAA
24186862 AATAGTGCCACGACTCGGGTTACTGAATGAAGAGCCGTAAACATCTTCATCCTCCTCCAGGCCTT
196 AATAGTGCCACGACTCGGGTTACTGAATGAAGAGCCGTAAACATCTTCATCCTCCTCCAGGCCTT
24186927 CATCATCGATATCGTCCGGAACCTCATCAACATCGGGGTCACTAAAATCTTCAACGTCCTGATCA
261 CATCATCGATATCGTCCGGAACCTCATCAACATCGGGGTCACTAAAATCTTCAACGTCCTGATCA
24186992 GAATCTTCACCATTATTGATCATTTCTCTGACATTTGC
326 GAATCTTCACCATTATTGATCATTTCTCTGACATTTGC
24187030 CT
1 CT
24187032 CTGTGCTTAT
Statistics
Matches: 357, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
363 357 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (363 bp):
CTTTATGATGTATTGTTTGATGGCAGACACACAGTCCACCTTGTTCTCGAACTGTTACCTAACGA
ACAACTCCTCGAACTGCGAATTTGACGCCAATCTATAATTAGGTACTATATCGGTGTACTTAGGG
AACCCGGATGCATGCGCTACATCTGGATCTACGTACAACATGTCGCCCCCAGGTTCATTTCGTAA
AATAGTGCCACGACTCGGGTTACTGAATGAAGAGCCGTAAACATCTTCATCCTCCTCCAGGCCTT
CATCATCGATATCGTCCGGAACCTCATCAACATCGGGGTCACTAAAATCTTCAACGTCCTGATCA
GAATCTTCACCATTATTGATCATTTCTCTGACATTTGC
Found at i:24188112 original size:21 final size:21
Alignment explanation
Indices: 24188077--24188133 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
24188067 AAATTTTTTT
*
24188077 AAAA-AATATTTAAATTTAAA
1 AAAATAATATTTAAAATTAAA
*
24188097 AATAT-ATATTTAAAATTAAA
1 AAAATAATATTTAAAATTAAA
24188117 AAAATAATATTATAAAA
1 AAAATAATATT-TAAAA
24188134 CAATTCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 21 0.68
21 5 0.16
22 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATAATATTTAAAATTAAA
Found at i:24189690 original size:41 final size:41
Alignment explanation
Indices: 24189615--24189780 Score: 255
Period size: 41 Copynumber: 4.1 Consensus size: 41
24189605 AATATATTTA
* * * *
24189615 TTTTTTAATTTTAAAATATTTTTTACAT-ACTTTTTAAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATT
24189655 TTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATT
24189696 TTTTTTAATTTTAAAATATTTTTAAAAT-ATATTTTTTAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATAAT-TTTTTTAATT
* *
24189737 TTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATT
24189778 TTT
1 TTT
24189781 AAAAATTTTT
Statistics
Matches: 117, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
40 28 0.24
41 88 0.75
42 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (41 bp):
TTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATT
Found at i:24189707 original size:31 final size:32
Alignment explanation
Indices: 24189672--24189759 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 32
24189662 ATTTTAAAAT
**
24189672 ATTTTTAAAATAATTTTTTTAAT-T-TTTTTTA
1 ATTTTTAAAAT-ATTTTTAAAATATATTTTTTA
24189703 A-TTTTAAAATATTTTTAAAATATATTTTTTA
1 ATTTTTAAAATATTTTTAAAATATATTTTTTA
**
24189734 ATTTTTTTAA-A-TTTTAAAATAT-TTTT
1 ATTTTTAAAATATTTTTAAAATATATTTT
24189760 AAAATACTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
29 13 0.26
30 21 0.42
31 10 0.20
32 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (32 bp):
ATTTTTAAAATATTTTTAAAATATATTTTTTA
Found at i:24189741 original size:9 final size:10
Alignment explanation
Indices: 24189645--24189748 Score: 54
Period size: 10 Copynumber: 10.2 Consensus size: 10
24189635 TTTTACATAC
24189645 TTTTTAAATT
1 TTTTTAAATT
*
24189655 TTTTTTAA--
1 TTTTTAAATT
*
24189663 TTTTAAAATAT
1 TTTTTAAAT-T
*
24189674 TTTTAAAATAAT
1 TTTTTAAAT--T
*
24189686 TTTTTTAATT
1 TTTTTAAATT
*
24189696 TTTTTTAA--
1 TTTTTAAATT
*
24189704 TTTTAAAATAT
1 TTTTTAAAT-T
*
24189715 TTTTAAAATAT
1 TTTTTAAAT-T
*
24189726 ATTTTTTAATT
1 -TTTTTAAATT
24189737 TTTTTAAATT
1 TTTTTAAATT
24189747 TT
1 TT
24189749 AAAATATTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
8 12 0.16
10 27 0.36
11 21 0.28
12 16 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:24189781 original size:32 final size:31
Alignment explanation
Indices: 24189735--24189796 Score: 106
Period size: 32 Copynumber: 2.0 Consensus size: 31
24189725 TATTTTTTAA
24189735 TTTTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAAATTTTAAAA-ATTTTTAAAATAC
*
24189767 TTTTTTTAATTTTTAAAAATTTTTAAAATA
1 TTTTTTTAAATTTTAAAAATTTTTAAAATA
24189797 AAAATGGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (31 bp):
TTTTTTTAAATTTTAAAAATTTTTAAAATAC
Found at i:24189928 original size:10 final size:11
Alignment explanation
Indices: 24189903--24189931 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
24189893 TTTTTATGGG
24189903 CCCGGCCCGAA
1 CCCGGCCCGAA
24189914 CCCGGCCCG-A
1 CCCGGCCCGAA
24189924 CCCGGCCC
1 CCCGGCCC
24189932 ATGAGCACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.10, C:0.62, G:0.28, T:0.00
Consensus pattern (11 bp):
CCCGGCCCGAA
Found at i:24191049 original size:27 final size:27
Alignment explanation
Indices: 24190985--24191049 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
24190975 GGTCGAGGGT
*
24190985 CTGCCACAGGCGGCACCAAAGATGCCA
1 CTGCCACAGGCAGCACCAAAGATGCCA
* * * *
24191012 GTGGCAGAGGCAGCACCAAAGGTGCCA
1 CTGCCACAGGCAGCACCAAAGATGCCA
24191039 CTGCCACAGGC
1 CTGCCACAGGC
24191050 GACACTTGTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.34, G:0.31, T:0.08
Consensus pattern (27 bp):
CTGCCACAGGCAGCACCAAAGATGCCA
Found at i:24191133 original size:3 final size:3
Alignment explanation
Indices: 24191125--24191186 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
24191115 TCAGCTGCAT
* * *
24191125 GAA GAA GAA GAAA GAA -AA GGA -AA GGA GAA GAA AAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
24191169 G-A GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA G
24191187 GAGGAGGAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 5 0.10
3 41 0.84
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:24191172 original size:20 final size:20
Alignment explanation
Indices: 24191125--24191186 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
24191115 TCAGCTGCAT
24191125 GAAGAAGAAGA-AAG-AAAA
1 GAAGAAGAAGAGAAGAAAAA
*
24191143 G--GAA-AGGAGAAGAAAAA
1 GAAGAAGAAGAGAAGAAAAA
*
24191160 GAAGAAGAAGAGAAGAAGAA
1 GAAGAAGAAGAGAAGAAAAA
24191180 GAAGAAG
1 GAAGAAG
24191187 GAGGAGGAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 3 0.08
16 6 0.17
17 5 0.14
18 1 0.03
19 3 0.08
20 18 0.50
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
GAAGAAGAAGAGAAGAAAAA
Found at i:24191243 original size:21 final size:20
Alignment explanation
Indices: 24191213--24191260 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
24191203 GGGCGGTGCC
*
24191213 AGAAAAAGAAAAGAAAAAGAG
1 AGAAAGAGAAAAGAAAAAG-G
* *
24191234 AGAAAGAGAATAGAGAAAGG
1 AGAAAGAGAAAAGAAAAAGG
24191254 AGAAAGA
1 AGAAAGA
24191261 AATAGAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (20 bp):
AGAAAGAGAAAAGAAAAAGG
Found at i:24191663 original size:76 final size:75
Alignment explanation
Indices: 24191474--24191681 Score: 222
Period size: 76 Copynumber: 2.7 Consensus size: 75
24191464 TTATTAGTAC
**
24191474 TTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTTAGTTATTAGGATTAGTAAAAAC
1 TTAGTATTATTGTTAGTAAAAAAC---TATTATTA-T-T-GTTA-TTATTATTATTAGTAAAAAC
24191539 CCTAATTATTATTTTAG
59 CCTAATTATTATTTTAG
* *** * *
24191556 TTAGTATGATTGTTAGTTTTTACACTA-TATTATTGTTACTTATTATTTTTAGT-AAAACCCTAA
1 TTAGTATTATTGTTAG-TAAAAAACTATTATTATTGTTA-TTATTATTATTAGTAAAAACCCTAA
24191619 TTATTATTGTTAG
64 TTATTATT-TTAG
* *
24191632 TTAGTATTATTTTTAGTAAAAAACTATTATTATTATTATTATTATTATTA
1 TTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTATTATTATTATTA
24191682 TTATTATTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
75 35 0.33
76 43 0.41
77 1 0.01
78 1 0.01
79 5 0.05
80 2 0.02
82 15 0.14
83 4 0.04
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (75 bp):
TTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTATTATTATTATTAGTAAAAACCCTAATT
ATTATTTTAG
Found at i:24191667 original size:6 final size:6
Alignment explanation
Indices: 24191656--24191785 Score: 170
Period size: 6 Copynumber: 21.7 Consensus size: 6
24191646 AGTAAAAAAC
24191656 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* * * * * * * *
24191704 TATCAT CATTAT CATTAT CATTAT CATTAT CATTAT CATTAT CATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* *
24191752 CATTAT CATTAT TATTAT TATTAT TATTAT TATT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATT
24191786 GTGTTAGTTA
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 120 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (6 bp):
TATTAT
Found at i:24195479 original size:25 final size:25
Alignment explanation
Indices: 24195429--24195487 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
24195419 TAATCAAATT
**
24195429 TATACAAAAAAGTACAAACTTTGTAA
1 TATA-AAAAAAGTACAAACTGAGTAA
24195455 TATAAAAAAA-TACAAACTAGAGTAA
1 TATAAAAAAAGTACAAACT-GAGTAA
*
24195480 TATCAAAA
1 TATAAAAA
24195488 CCGCAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 8 0.28
25 17 0.59
26 4 0.14
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (25 bp):
TATAAAAAAAGTACAAACTGAGTAA
Found at i:24197817 original size:160 final size:160
Alignment explanation
Indices: 24197517--24198335 Score: 1407
Period size: 160 Copynumber: 5.1 Consensus size: 160
24197507 AAAAATATAC
24197517 TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTG-TTTTT
1 TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
*
24197581 TATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGAATT
66 TATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATT
*
24197646 TTATTACTTTCAAAAAATATACTATTTTCT
131 TTATTACTTTCAAAAAATATACTATTTTCG
*
24197676 TATTTTATTAATTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
1 TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
*
24197741 TATATAAATTTAGTAAAAAACCCCTTATTTTGGCCCTTTGTTCGTATTTTTCTT-TTTCTCGGAT
66 TATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTT-TCGGAT
24197805 TTTATTACTTTCAAAAAAGTAT--TATTTTCG
130 TTTATTACTTTCAAAAAA-TATACTATTTTCG
24197835 TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
1 TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
*
24197900 TATATAAATTTAGTAAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCAGAT
66 TATATAAATTTAGT-AAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGAT
24197965 TTTATTACTTTCAAAAAAATATACTATTTTCG
130 TTTATTACTTTC-AAAAAATATACTATTTTCG
*
24197997 TATTTTATTATTTTATATTATTTTAGTTCATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
1 TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
* * *
24198062 TATATAAATTTAGTAAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGAATT
66 TATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATT
24198127 TTATTACTTTCAAAAAATATACTATTTTCG
131 TTATTACTTTCAAAAAATATACTATTTTCG
24198157 TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
1 TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
*
24198222 T-TATAAATTTAGT-AAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTTCGGATT
66 TATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATT
** *
24198285 TTATTACTTTCAGTAAATATACTATTTTTG
131 TTATTACTTTCAAAAAATATACTATTTTCG
* *
24198315 TTTTTTAATTCTTTTCATATT
1 TATTTT-ATTATTTT-ATATT
24198336 TTATTTTTTC
Statistics
Matches: 628, Mismatches: 22, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
158 78 0.12
159 165 0.26
160 229 0.36
161 70 0.11
162 86 0.14
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (160 bp):
TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
TATATAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATT
TTATTACTTTCAAAAAATATACTATTTTCG
Found at i:24198063 original size:321 final size:317
Alignment explanation
Indices: 24197491--24198335 Score: 1404
Period size: 321 Copynumber: 2.7 Consensus size: 317
24197481 AGTCGCGTCA
24197491 GATTTTATTACTTTCAAAAAATA-TA----C-TATTTTATTATTTTATATTATTTTAGTACATAA
1 GATTTTATTACTTTCAAAAAATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAA
24197550 TGTTTGAAATGTATTATTTTAGTGTG-TTTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGG
66 TGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGG
*
24197614 CCCTTTGTTCGTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCTTAT
131 CCCTTTGTTCGTATTTTTCTTATTTTCG-ATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
*
24197679 TTTATTAATTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTAT
195 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTAT
* *
24197744 ATAAATTTAGTAAAAAACCCCTTATTTTGGCCCTTTGTTCGTATTTTTCTT-TTTCTCG
260 ATAAATTTAGTAAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTT-TCG
24197802 GATTTTATTACTTTCAAAAAAGTATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
1 GATTTTATTACTTTCAAAAAA-TATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
24197867 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAAACCCTTATTTT
65 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGT-AAAAAAACCCTTATTTT
24197932 GGCCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAAATATACTATTTTCG
129 GGCCCTTTGTTCGTATTTTTCTTATTTTC-GATTTTATTACTTTC-AAAAAATATACTATTTTCG
*
24197997 TATTTTATTATTTTATATTATTTTAGTTCATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
192 TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT
*
24198062 TATATAAATTTAGTAAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTG
257 TATATAAATTTAGTAAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCG
*
24198123 AATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACAT
1 GATTTTATTACTTTCAAAAAATAT--TATTTTCGTATTTTATTATTTTATATTATTTTAGTACAT
24198188 AATGTTTGAAATGTATTATTTTAGTGTGTTTTTTT-TATAAATTTAGT-AAAAAACCCTTATTTT
64 AATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAACCCTTATTTT
* ** *
24198251 GGCCCTTTGTTCGTATTTTTCTTTTTTTCGGATTTTATTACTTTCAGTAAATATACTATTTTTGT
129 GGCCCTTTGTTCGTATTTTTCTTATTTTC-GATTTTATTACTTTCAAAAAATATACTATTTTCGT
* *
24198316 TTTTTAATTCTTTTCATATT
193 ATTTT-ATTATTTT-ATATT
24198336 TTATTTTTTC
Statistics
Matches: 504, Mismatches: 14, Indels: 23
0.93 0.03 0.04
Matches are distributed among these distances:
311 21 0.04
312 2 0.00
313 2 0.00
317 1 0.00
318 80 0.16
319 85 0.17
320 68 0.13
321 168 0.33
322 77 0.15
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (317 bp):
GATTTTATTACTTTCAAAAAATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAA
TGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGG
CCCTTTGTTCGTATTTTTCTTATTTTCGATTTTATTACTTTCAAAAAATATACTATTTTCGTATT
TTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTATA
TAAATTTAGTAAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCG
Found at i:24198512 original size:30 final size:30
Alignment explanation
Indices: 24198478--24198605 Score: 133
Period size: 30 Copynumber: 4.4 Consensus size: 30
24198468 AAATAAAATA
24198478 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
* *
24198508 AAATAATAAATA-ATA-ACA--TAAATAATA-
1 AAATAATAAA-ACATAGA-ATGTACATAACAT
* *
24198535 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
* *
24198565 AAATAATAAAACATAGAATGTGCATAAAAT
1 AAATAATAAAACATAGAATGTACATAACAT
24198595 AAA-AATTAAAA
1 AAATAA-TAAAA
24198606 TTAAATTATG
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
26 1 0.01
27 13 0.16
28 7 0.09
29 10 0.12
30 48 0.60
31 1 0.01
ACGTcount: A:0.62, C:0.07, G:0.06, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:24198525 original size:19 final size:20
Alignment explanation
Indices: 24198501--24198543 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
24198491 TAGAATGTAC
24198501 ATAACATAAATAAT-AAATA
1 ATAACATAAATAATAAAATA
24198520 ATAACATAAATAATAAAATA
1 ATAACATAAATAATAAAATA
24198540 ATAA
1 ATAA
24198544 GACATAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAACATAAATAATAAAATA
Found at i:24198679 original size:39 final size:39
Alignment explanation
Indices: 24198597--24198671 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
24198587 CATAAAATAA
* * *
24198597 AAAT-TAAAATTAAATTATGAATGAATGAAAATATAGAT
1 AAATATAAAATTAAATTATGAATAAATGAAAACATACAT
24198635 AAATATAAAATTAAATTATGAATAAAT-ATAAACATAC
1 AAATATAAAATTAAATTATGAATAAATGA-AAACATAC
24198672 CTTAATATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.31
Consensus pattern (39 bp):
AAATATAAAATTAAATTATGAATAAATGAAAACATACAT
Found at i:24198873 original size:3 final size:3
Alignment explanation
Indices: 24198865--24198973 Score: 55
Period size: 3 Copynumber: 36.3 Consensus size: 3
24198855 CTTCCCTCCC
* * * *
24198865 TCT TCT TCT TCT CCT TC- TCT TTT TCT TTT TCCT TTT TCT TCCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT T-CT TCT
* * * * * * *
24198911 GCG CCT CCT TCC CCT TCT TCA TCT TC- TCT TC- TCT TCT TCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
24198956 TCT TCT CTCAT TCT TCT T
1 TCT TCT -TC-T TCT TCT T
24198974 TCCTGTAGCT
Statistics
Matches: 79, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
2 8 0.10
3 61 0.77
4 9 0.11
5 1 0.01
ACGTcount: A:0.02, C:0.37, G:0.02, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:24198951 original size:11 final size:11
Alignment explanation
Indices: 24198924--24198973 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
24198914 CCTCCTTCCC
24198924 CTTCTTCATCTT
1 CTTCTTC-TCTT
24198936 C-TCTTCTCTT
1 CTTCTTCTCTT
*
24198946 CTTCTTTTCTT
1 CTTCTTCTCTT
24198957 CTTC-TCTCATT
1 CTTCTTCTC-TT
24198968 CTTCTT
1 CTTCTT
24198974 TCCTGTAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 8 0.24
11 23 0.70
12 2 0.06
ACGTcount: A:0.04, C:0.34, G:0.00, T:0.62
Consensus pattern (11 bp):
CTTCTTCTCTT
Found at i:24199518 original size:12 final size:12
Alignment explanation
Indices: 24199497--24199530 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24199487 TATATATATT
*
24199497 AAAATTATATAA
1 AAAATAATATAA
24199509 AAAATAATATAA
1 AAAATAATATAA
*
24199521 AAATTAATAT
1 AAAATAATAT
24199531 GGACGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:24200301 original size:31 final size:29
Alignment explanation
Indices: 24200226--24200302 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
24200216 GGATTGGATC
24200226 AAAATTTCATGTATAAAATTATACAAAACT
1 AAAA-TTCATGTATAAAATTATACAAAACT
* * * *
24200256 AAAATTTATATATAAAATTATACTTTAAATT
1 AAAATTCATGTATAAAATTATAC--AAAACT
24200287 AAAATTCATGTATAAA
1 AAAATTCATGTATAAA
24200303 TTTGAGATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 17 0.44
30 4 0.10
31 18 0.46
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTCATGTATAAAATTATACAAAACT
Found at i:24202284 original size:7 final size:7
Alignment explanation
Indices: 24202272--24202308 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
24202262 GCTAAGCTAC
24202272 CACTTAT
1 CACTTAT
24202279 CACTTAT
1 CACTTAT
24202286 CACTTAT
1 CACTTAT
*
24202293 CACTTGT
1 CACTTAT
*
24202300 CACTGAT
1 CACTTAT
24202307 CA
1 CA
24202309 AATAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (7 bp):
CACTTAT
Found at i:24202398 original size:51 final size:50
Alignment explanation
Indices: 24202222--24202448 Score: 292
Period size: 51 Copynumber: 4.4 Consensus size: 50
24202212 TACACGGAAT
*
24202222 CACTTATCAATTATCTCTTGTCACTGATCAAATAAGTGTAGCTAAGCTAC
1 CACTTATCAATTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTAC
24202272 CACTTATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTAC
1 CACTTAT--C--A--A-TTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTAC
* *
24202329 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAATTATCACTTGTCACTGATCAAATAAGTGTAGCT-AAGCTAC
* * * *
24202380 CACTTATAAATTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTAC
1 CACTTATCAATTATCACTTGTCACTGATCAAATAAGTGTAGCT-AAGCTAC
* *
24202431 CACTTATCACTTGTCACT
1 CACTTATCAATTATCACT
24202449 GATTAGAAGT
Statistics
Matches: 160, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
50 39 0.24
51 70 0.44
52 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
56 1 0.01
57 46 0.29
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (50 bp):
CACTTATCAATTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTAC
Found at i:24203568 original size:30 final size:30
Alignment explanation
Indices: 24203503--24203590 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
24203493 GGTGCAAGGG
* * *
24203503 TGAGTGCATATTGATAGTAATACATTTTCTA
1 TGAGTGCACATTGATAGTAAAAC-CTTTCTA
** *
24203534 TGAGTGTGCATTGATAGTAAAACCTTTGTA
1 TGAGTGCACATTGATAGTAAAACCTTTCTA
*
24203564 TGAGTGCATATTGATAGTAAAACCTTT
1 TGAGTGCACATTGATAGTAAAACCTTT
24203591 TGTGTTGTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
30 29 0.60
31 19 0.40
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (30 bp):
TGAGTGCACATTGATAGTAAAACCTTTCTA
Found at i:24203754 original size:105 final size:105
Alignment explanation
Indices: 24203564--24203777 Score: 338
Period size: 105 Copynumber: 2.0 Consensus size: 105
24203554 AACCTTTGTA
*
24203564 TGAGTGCATATTGATAGTAAAACCTTTTGTGTTGTGGTTTTACTTGCTAAATTCATAGGAGAGAA
1 TGAGTGCATATTGATAGTAAAACCTTTTGTGTTGTGATTTTACTTGCTAAATTCATAGGAGAGAA
*
24203629 CTTAGTAGTGAGAGTATTAATGATCTTCAAGGTGCAAGGG
66 CTTAGTAGTGAAAGTATTAATGATCTTCAAGGTGCAAGGG
* * * *
24203669 TGAGTGCATATTGATAGTAAAACCTTTTGTGTTGTGATTTTACTTGTTGAATTCATAGGGGTGAA
1 TGAGTGCATATTGATAGTAAAACCTTTTGTGTTGTGATTTTACTTGCTAAATTCATAGGAGAGAA
* * * *
24203734 TTTAGTGGTGAAAGTTTTAATGATTTTCAAGGTGCAAGGG
66 CTTAGTAGTGAAAGTATTAATGATCTTCAAGGTGCAAGGG
24203774 TGAG
1 TGAG
24203778 GAAAATTATC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.28, C:0.08, G:0.27, T:0.37
Consensus pattern (105 bp):
TGAGTGCATATTGATAGTAAAACCTTTTGTGTTGTGATTTTACTTGCTAAATTCATAGGAGAGAA
CTTAGTAGTGAAAGTATTAATGATCTTCAAGGTGCAAGGG
Found at i:24214650 original size:33 final size:33
Alignment explanation
Indices: 24214609--24214690 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
24214599 TGCAAAACAA
24214609 AATG-TAAGCAAATATTGGCTCACTGATTATCT
1 AATGTTAAGCAAATATTGGCTCACTGATTATCT
24214641 AATGTTAAGCAAATATTGGCTCACTGATTATCT
1 AATGTTAAGCAAATATTGGCTCACTGATTATCT
24214674 AATGTTTAA-CAAATATT
1 AATG-TTAAGCAAATATT
24214691 AAGTTGCATT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
32 4 0.08
33 40 0.83
34 4 0.08
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (33 bp):
AATGTTAAGCAAATATTGGCTCACTGATTATCT
Found at i:24217638 original size:21 final size:23
Alignment explanation
Indices: 24217588--24217632 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24217578 ATATAAATAA
*
24217588 TAAATATGTATATACAAAATATG
1 TAAATATATATATACAAAATATG
*
24217611 TAAATATATATATA-AAATTATG
1 TAAATATATATATACAAAATATG
24217633 GAATATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
TAAATATATATATACAAAATATG
Found at i:24217843 original size:3 final size:3
Alignment explanation
Indices: 24217813--24217882 Score: 70
Period size: 3 Copynumber: 23.3 Consensus size: 3
24217803 AAATAAAAAC
* ** * * *
24217813 ATA ACA ATA ATA ACC ATA ATA TTG ATA ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24217861 A-A GATA ATA ATA ATA ATA ATA A
1 ATA -ATA ATA ATA ATA ATA ATA A
24217883 AAGATGATAA
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
2 1 0.02
3 51 0.96
4 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:24217908 original size:19 final size:17
Alignment explanation
Indices: 24217830--24217908 Score: 54
Period size: 18 Copynumber: 4.5 Consensus size: 17
24217820 TAATAACCAT
*
24217830 AATATTGATAATAATAA
1 AATAATGATAATAATAA
* *
24217847 TAATAATAATAGTAA-AGA
1 -AATAATGATAATAATA-A
*
24217865 TAATAATAATAATAATAA
1 -AATAATGATAATAATAA
*
24217883 AA-GATGATAATACATTAA
1 AATAATGATAATA-A-TAA
24217901 AATAATGA
1 AATAATGA
24217909 AGAAAATATT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
16 8 0.16
17 4 0.08
18 32 0.65
19 5 0.10
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (17 bp):
AATAATGATAATAATAA
Found at i:24224408 original size:41 final size:41
Alignment explanation
Indices: 24224363--24224584 Score: 309
Period size: 41 Copynumber: 5.4 Consensus size: 41
24224353 GCGCTTTACC
*
24224363 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGTGCTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
* * * *
24224404 AAAAAACGCCGCTAGAGGTCTGCACATTAGCGGCGTTTCTTT
1 -AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
* * * *
24224446 AAAAACGCCGCTAAAGGTCTGCGCATAAGCGACGCTTATTT
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
* * *
24224487 AAAAACGCCACTAAAGGTCTGCACATTAGCGGCACTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
* *
24224528 AAAAACGCCGCTAAAGGTCTACGCATTAGCGGTGCTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
24224569 AAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
24224585 ACCCACAAGG
Statistics
Matches: 157, Mismatches: 23, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
41 121 0.77
42 36 0.23
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
Found at i:24224752 original size:40 final size:38
Alignment explanation
Indices: 24224622--24224756 Score: 103
Period size: 40 Copynumber: 3.4 Consensus size: 38
24224612 TGGGCTTAGG
* * *
24224622 TTTTTTGCGGCGTTTCCTCAAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTT--TCAGAAAGCGCCGCTAATGCTCA
* * * * * *
24224662 TTTTTAGTGGCGCTTCTCAGAAATCGCCGCGATTGATCGA
1 TTTTTAGCGGCG-TTTTCAGAAAGCGCCGCTAATGCTC-A
24224702 TCTTTT-GCGGCGTTTT-ACGTAAAGCGCCGCTAATGCTCAA
1 T-TTTTAGCGGCGTTTTCA-G-AAAGCGCCGCTAATGCTC-A
24224742 TTTTTAGCGGCGTTT
1 TTTTTAGCGGCGTTT
24224757 GTCTAACAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
38 1 0.01
39 25 0.34
40 42 0.57
41 6 0.08
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCAGAAAGCGCCGCTAATGCTCA
Found at i:24227998 original size:2 final size:2
Alignment explanation
Indices: 24227991--24228019 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24227981 CCAATGTTAC
24227991 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
24228020 ATGTCCACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:24245700 original size:38 final size:40
Alignment explanation
Indices: 24245615--24245700 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 40
24245605 TTTAATTTAA
24245615 AATTATTAGTTAAAAAATTGATGTAAAATAGAAGTTGTGAT
1 AATTA-TAGTTAAAAAATTGATGTAAAATAGAAGTTGTGAT
*
24245656 AATTATATTTAAAAAATT-ATTAGTAAAA-A-AA-TTGTGAT
1 AATTATAGTTAAAAAATTGA-T-GTAAAATAGAAGTTGTGAT
24245694 AATTATA
1 AATTATA
24245701 ATTATAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
38 14 0.33
39 3 0.07
40 14 0.33
41 11 0.26
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (40 bp):
AATTATAGTTAAAAAATTGATGTAAAATAGAAGTTGTGAT
Found at i:24245751 original size:15 final size:16
Alignment explanation
Indices: 24245726--24245755 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24245716 GCAATAATCA
24245726 ATTGTATGTAAAATTT
1 ATTGTATGTAAAATTT
24245742 ATTG-ATGTAAAATT
1 ATTGTATGTAAAATT
24245756 AAGATATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (16 bp):
ATTGTATGTAAAATTT
Found at i:24252252 original size:18 final size:18
Alignment explanation
Indices: 24252229--24252263 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24252219 TTACATATAA
24252229 AAATAATAATTATATTTG
1 AAATAATAATTATATTTG
* *
24252247 AAATAATTATTTTATTT
1 AAATAATAATTATATTT
24252264 TATAATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATAATAATTATATTTG
Found at i:24270394 original size:6 final size:6
Alignment explanation
Indices: 24270385--24270410 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24270375 ATAGAAGCAA
24270385 ATGAAT ATGAAT ATGAAT ATGAAT AT
1 ATGAAT ATGAAT ATGAAT ATGAAT AT
24270411 TGGAAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
ATGAAT
Found at i:24277656 original size:38 final size:38
Alignment explanation
Indices: 24277613--24277690 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
24277603 TTCTAGGTAA
24277613 TATCATCATCATCATCGTCAAACCAAAGCCATGGGTTT
1 TATCATCATCATCATCGTCAAACCAAAGCCATGGGTTT
*
24277651 TATCATCATCATCGTCGTCAAACCAAAGCCATGGGTTT
1 TATCATCATCATCATCGTCAAACCAAAGCCATGGGTTT
24277689 TA
1 TA
24277691 GTTTGTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (38 bp):
TATCATCATCATCATCGTCAAACCAAAGCCATGGGTTT
Found at i:24293154 original size:39 final size:39
Alignment explanation
Indices: 24293100--24293180 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
24293090 ATGCAATCGA
24293100 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
24293139 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
24293178 TTT
1 TTT
24293181 TCACTGTAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (39 bp):
TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
Found at i:24293547 original size:29 final size:29
Alignment explanation
Indices: 24293493--24293834 Score: 513
Period size: 29 Copynumber: 11.2 Consensus size: 29
24293483 GAATAAACCG
24293493 AATACACTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATA--TTTTTTATTTTTAA
24293524 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
24293553 AATACACTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATA--TTTTTTATTTTTAA
*
24293584 AATACACTATATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
24293613 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
24293642 AATACACTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATA--TTTTTTATTTTTAA
*
24293673 AGTACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
24293702 AATACACTACATATATATATATTTATTTTTAA
1 AATACACTACATATAT-T-T-TTTATTTTTAA
24293734 AATACACTACATATATATATATTTATTTTTAA
1 AATACACTACATATAT-T-T-TTTATTTTTAA
*
24293766 AATGCACTACATATATATATTTTTATTTTTAA
1 AATACACTAC--ATATAT-TTTTTATTTTTAA
24293798 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
24293828 AATACAC
1 AATACAC
24293835 AAATACAATG
Statistics
Matches: 295, Mismatches: 6, Indels: 21
0.92 0.02 0.07
Matches are distributed among these distances:
29 115 0.39
30 26 0.09
31 73 0.25
32 72 0.24
33 1 0.00
34 8 0.03
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (29 bp):
AATACACTACATATATTTTTTATTTTTAA
Found at i:24293586 original size:60 final size:59
Alignment explanation
Indices: 24293493--24293834 Score: 526
Period size: 60 Copynumber: 5.6 Consensus size: 59
24293483 GAATAAACCG
24293493 AATACACTACATATATTTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
*
24293553 AATACACTACATATATTTTTTTTATTTTTAAAATACACTATATATATTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
24293613 AATACACTACATATA-TTTTTTATTTTTAAAATACACTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATA--TTTTTTATTTTTAA
*
24293673 AGTACACTACATATA-TTTTTTATTTTTAAAATACACTACATATATATATATTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATAT-T-T-TTTATTTTTAA
* *
24293734 AATACACTACATATATATATATTTATTTTTAAAATGCACTACATATATATATTTTTATTTTTAA
1 AATACACTACATATAT-T-TTTTTATTTTTAAAATACACTAC--ATATAT-TTTTTATTTTTAA
24293798 AATACACTACATATATTTTTTTATTTTTAAAATACAC
1 AATACACTACATATATTTTTTTATTTTTAAAATACAC
24293835 AAATACAATG
Statistics
Matches: 264, Mismatches: 8, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
58 29 0.11
59 1 0.00
60 132 0.50
61 25 0.09
62 18 0.07
63 2 0.01
64 48 0.18
65 1 0.00
66 8 0.03
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (59 bp):
AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
Found at i:24293646 original size:89 final size:90
Alignment explanation
Indices: 24293493--24293834 Score: 544
Period size: 89 Copynumber: 3.7 Consensus size: 90
24293483 GAATAAACCG
*
24293493 AATACACTACATATATTTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATAC
1 AATACACTA-ATATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATAC
24293558 ACTACATATATTTTTTTTATTTTTAA
65 ACTACATATATTTTTTTTATTTTTAA
24293584 AATACACT-ATATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACA
1 AATACACTAATATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACA
24293648 CTACATATATTTTTTTTATTTTTAA
66 CTACATATATTTTTTTTATTTTTAA
* *
24293673 AGTACACT-ACATATATTTTTTATTTTTAAAATACACTACATATATATATATTTATTTTTAAAAT
1 AATACACTAATATATATTTTTTATTTTTAAAATACACTACATATAT-T-T-TTTATTTTTAAAAT
* *
24293737 ACACTACATATATATATATTTATTTTTAA
63 ACACTACATATAT-TTTTTTTATTTTTAA
*
24293766 AATGCACTACATATATATATTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAAT
1 AATACACTA-ATATATAT-TTTTTATTTTTAAAATACACTACATATA-TTTTTTATTTTTAAAAT
24293831 ACAC
63 ACAC
24293835 AAATACAATG
Statistics
Matches: 235, Mismatches: 8, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
89 123 0.52
90 1 0.00
91 9 0.04
92 27 0.11
93 19 0.08
94 18 0.08
95 8 0.03
96 29 0.12
97 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (90 bp):
AATACACTAATATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACA
CTACATATATTTTTTTTATTTTTAA
Found at i:24297019 original size:21 final size:22
Alignment explanation
Indices: 24296983--24297067 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 22
24296973 CCAAGAATAA
*
24296983 AGCAAAAAAGAGGGGAGAAACC
1 AGCAAAAACGAGGGGAGAAACC
*
24297005 AGCAAAAACGA-GGGACAAACC
1 AGCAAAAACGAGGGGAGAAACC
* * *
24297026 AGTAAGAAC-AAGGGAGAAACC
1 AGCAAAAACGAGGGGAGAAACC
* *
24297047 AACAAGAACGAGGGGAGAAAC
1 AGCAAAAACGAGGGGAGAAAC
24297068 TACTGTTTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
20 1 0.02
21 32 0.60
22 20 0.38
ACGTcount: A:0.53, C:0.16, G:0.29, T:0.01
Consensus pattern (22 bp):
AGCAAAAACGAGGGGAGAAACC
Found at i:24298230 original size:17 final size:17
Alignment explanation
Indices: 24298204--24298390 Score: 167
Period size: 17 Copynumber: 10.4 Consensus size: 17
24298194 ACACTATTTT
* *
24298204 TTTTTAAAACACGGAAA
1 TTTTTGAAACACGAAAA
* *
24298221 TTTTTGAAACATGAGAAT
1 TTTTTGAAACACGA-AAA
24298239 TTTTTGCAAAACACGAAAA
1 TTTTTG--AAACACGAAAA
*
24298258 TGTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
24298275 TTTTTGAGAACAAGAATT
1 TTTTTGA-AACACGAAAA
*
24298293 TTTTTGAAACACGAAATT
1 TTTTTGAAACACGAAA-A
24298311 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* *
24298329 CTTTTGAAACACGGGAAATT
1 TTTTTGAAACAC--GAAA-A
*
24298349 TTTTTGAAAAAACGAAAA
1 TTTTTG-AAACACGAAAA
*
24298367 ATTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
24298384 TTTTTGA
1 TTTTTGA
24298391 TAAATTACAT
Statistics
Matches: 138, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
17 57 0.41
18 39 0.28
19 25 0.18
20 12 0.09
21 5 0.04
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:24298942 original size:11 final size:11
Alignment explanation
Indices: 24298928--24298972 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
24298918 ACTTTTGGGC
24298928 TTTTTTTCTCT
1 TTTTTTTCTCT
*
24298939 TTTTTTTTTCCTT
1 TTTTTTTCT-C-T
24298952 TTTTTTTCTCT
1 TTTTTTTCTCT
24298963 TCTTTTTTCT
1 T-TTTTTTCT
24298973 GTTGGGCCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 10 0.34
12 10 0.34
13 9 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:24298953 original size:10 final size:12
Alignment explanation
Indices: 24298928--24298972 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
24298918 ACTTTTGGGC
24298928 TTTTTTTCTCTT
1 TTTTTTTCTCTT
24298940 TTTTTTT-TCCTT
1 TTTTTTTCT-CTT
24298952 TTTTTTTCTCTT
1 TTTTTTTCTCTT
*
24298964 CTTTTTTCT
1 TTTTTTTCT
24298973 GTTGGGCCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 1 0.03
12 28 0.93
13 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:24299215 original size:20 final size:20
Alignment explanation
Indices: 24299185--24299237 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
24299175 CCGTCTTCTC
24299185 CTCCTTCTCTTCTTCTCCTTT
1 CTCC-TCTCTTCTTCTCCTTT
*
24299206 CTCCTCTCTT-TCTCTCTTTT
1 CTCCTCTCTTCT-TCTCCTTT
*
24299226 TTCCTCT-TTCTT
1 CTCCTCTCTTCTT
24299238 TTTGCTGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 4 0.14
20 20 0.71
21 4 0.14
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (20 bp):
CTCCTCTCTTCTTCTCCTTT
Found at i:24299552 original size:30 final size:30
Alignment explanation
Indices: 24299469--24299633 Score: 194
Period size: 30 Copynumber: 5.6 Consensus size: 30
24299459 CAAAACTTAT
*
24299469 GGGGTCAAAATGTAATTTTAAGAAAA-TTTA
1 GGGGTCAAAATGTAATTTCAA-AAAAGTTTA
24299499 -GGGTCAAAATGTAATTT-AAAAAAGTTTA
1 GGGGTCAAAATGTAATTTCAAAAAAGTTTA
*
24299527 GGGGTCAAAATATAATTTCAAAAAAGTTTA
1 GGGGTCAAAATGTAATTTCAAAAAAGTTTA
* * * * *
24299557 AGGGTTAAAATATAATTTCAAGAAATTTTA
1 GGGGTCAAAATGTAATTTCAAAAAAGTTTA
* * *
24299587 GGGGTTAAAATGCAATTCCAAAAAAG-TTA
1 GGGGTCAAAATGTAATTTCAAAAAAGTTTA
*
24299616 AGGGTCAAAATGTAATTT
1 GGGGTCAAAATGTAATTT
24299634 TTTTAAAAAC
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
27 4 0.03
28 6 0.05
29 50 0.43
30 57 0.49
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTCAAAAAAGTTTA
Found at i:24299610 original size:59 final size:60
Alignment explanation
Indices: 24299469--24299633 Score: 178
Period size: 59 Copynumber: 2.8 Consensus size: 60
24299459 CAAAACTTAT
** * *
24299469 GGGGTCAAAATGTAATTTTAAGAAAA-TTT-AGGGTCAAAATGTAATTTAAAAAAGTTTA
1 GGGGTCAAAATACAATTTCAAAAAAAGTTTAAGGGTCAAAATGTAATTTAAAAAAGTTTA
* * * * *
24299527 GGGGTCAAAATATAATTTC-AAAAAAGTTTAAGGGTTAAAATATAATTTCAAGAAATTTTA
1 GGGGTCAAAATACAATTTCAAAAAAAGTTTAAGGGTCAAAATGTAATTT-AAAAAAGTTTA
* * *
24299587 GGGGTTAAAATGCAA-TTCCAAAAAAG-TTAAGGGTCAAAATGTAATTT
1 GGGGTCAAAATACAATTTCAAAAAAAGTTTAAGGGTCAAAATGTAATTT
24299634 TTTTAAAAAC
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
57 5 0.05
58 20 0.22
59 38 0.42
60 28 0.31
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (60 bp):
GGGGTCAAAATACAATTTCAAAAAAAGTTTAAGGGTCAAAATGTAATTTAAAAAAGTTTA
Found at i:24300404 original size:79 final size:78
Alignment explanation
Indices: 24299816--24301448 Score: 1831
Period size: 78 Copynumber: 20.9 Consensus size: 78
24299806 TCCTTTTTCT
* * * * * * *
24299816 TTTTTGAAAAACAGAAA-TTGAAAAAATACCTCGGCGTGCGACCTGAAGCTTAACTCACCTCTCG
1 TTTTTGAAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
24299880 CAATATGAGTTGA
66 CAATATGAGTTGA
** * * ** *
24299893 TTTTTGAAAAATA-ATTTTTTTAAAAAATACCTCGGCATAT-AGCCCGAACCTTAACTCACCTCT
1 TTTTTGAAAAATAGA-AATTTAAAAAAATACCTCGGCATGTGA-CCCGAGGCTCAACTCACCTCT
24299956 CGCAATA-GAGTTGA
64 CGCAATATGAGTTGA
* *
24299970 TTTTTGAAAAACAGAAATTTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCGCCTCTC
1 TTTTTGAAAAATAGAAA-TTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
24300035 GCAATATGAGTTGA
65 GCAATATGAGTTGA
* * * * *
24300049 TTTTT-AAAAA-ATAAA-TT-GAAAAATACCTCTGCGTGTGACCCGAGGCTCAATTCACCTCTCG
1 TTTTTGAAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
24300110 CAATATGAGTTGA
66 CAATATGAGTTGA
* * * * *
24300123 TTTTTTGAAAAACA-AAAATTAAAAAAATACCTTGGCATGTGACCCGAGGCTCAACTCACATCTT
1 -TTTTTGAAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
24300187 GC--TATGAGTTGA
65 GCAATATGAGTTGA
*
24300199 TTTTTGAAAAATAGAAATTTAAAAGAAATACCTCGGCATGT--CTCCGAGGCTCAATTCACCTCT
1 TTTTTGAAAAATAGAAATTTAAAA-AAATACCTCGGCATGTGAC-CCGAGGCTCAACTCACCTCT
*
24300262 CACAATATGAGTTGA
64 CGCAATATGAGTTGA
** * * ** * * *
24300277 TTTTTGAAAACCATAAA-TT-GAAAAATACCTCGGCGGGTGACTCGAGGCTTAACTCACCTCTTG
1 TTTTTGAAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
24300340 CAATATGAGTTGA
66 CAATATGAGTTGA
* *
24300353 TTTTTTTGAAAAATAGAAA-TTAAAAAAATATCTCGGCGTGTGACCCGAGGCTCAACTCACCTCT
1 --TTTTTGAAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCT
24300417 CGCAATATGAGTTGA
64 CGCAATATGAGTTGA
*
24300432 TTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTC
1 TTTTTGAAAAATAGAAATTTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
24300497 GCAATATGAGTTGA
65 GCAATATGAGTTGA
* * * * * *
24300511 TTTTTG-AAAA-ACAAA-TT-GAAAAATTCCTCGGCGTGCGACCCGAGGCTTAACTCACCTCTCG
1 TTTTTGAAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
24300572 CAATATGAGTTGA
66 CAATATGAGTTGA
* * * *
24300585 TATTTTGAAAAATAGAAATTAAAAAAAATACCTTGGCGTGTGACCCGAGGCTCAACTCACCTCTT
1 T-TTTTGAAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
*
24300650 ACAATATGAGTTGA
65 GCAATATGAGTTGA
* * **
24300664 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCATGT-ATTCGAGGCTCAACTCACCTCTC
1 TTTTTGAAAAATAGAAATTTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
24300728 GCAATATGAGTTGA
65 GCAATATGAGTTGA
* ** * *
24300742 TTTTTGAAAAATAAAAATTTAAAAGAAATACCTCGGCATGTG-TTCGGGGCTCAACTCACCTATC
1 TTTTTGAAAAATAGAAATTTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
*
24300806 GCAATGTGAGTTGA
65 GCAATATGAGTTGA
* * **
24300820 TTTTTTGAAAAAAAAATAGAAA-TTAAAAAAATACATCGGTATGTGAGTCGAGGCTCAACTCACC
1 -TTTTTG----AAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACC
24300884 TCTCGCAATATGAGTTGA
61 TCTCGCAATATGAGTTGA
* * * *
24300902 TTTTTGAAAAATAGAAATTTAAAAAAATACTTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCG
1 TTTTTGAAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
*
24300967 CAATATAAGTTGA
66 CAATATGAGTTGA
* * *
24300980 TTTTTTTTGAAAAACAGAAATTTAAAAGAAATATCTCGGCATGTG-TCCGAGGCTCAACTCACCT
1 ---TTTTTGAAAAATAGAAATTTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCT
24301044 CTCGCAATATGAGTTGA
62 CTCGCAATATGAGTTGA
* * * * * *
24301061 TTTTTTTTTTAAAAATAGAAATTAAAAAAAAATACATCGGTATGTGAGCCGAGGCTGAACTCACC
1 ----TTTTTGAAAAATAGAAATT-TAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACC
*
24301126 TCTCGCAATATAAGTTGA
61 TCTCGCAATATGAGTTGA
* * *
24301144 TTTTTGAAAAATAGAAATTTAAAAAAATACCTCAGCGTGTGACCCGAGGCTCAATTCACCTCTCG
1 TTTTTGAAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
24301209 CAATATGAGTT-A
66 CAATATGAGTTGA
* *
24301221 TTTTTTTAAAAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACC
1 --TTTTT--GAAAAATAGAAATTTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACC
* *
24301285 TCTCGCAATATAAATTGA
61 TCTCGCAATATGAGTTGA
* *
24301303 TTTTTGAAAAA-A-AAATTTAAAAGAAATACATCGGCATGTG-TCCGAGGCTCAACTCACCTCTC
1 TTTTTGAAAAATAGAAATTTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
*
24301365 GC-A-ATGAGTTTA
65 GCAATATGAGTTGA
* * ** *
24301377 TTTTTTTTGAAAAAAACAGAAA--T-AAAAAATACCTCGGTATGTGACTTGAGACTCAACTCACC
1 ---TTTTTG--AAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACC
*
24301439 TCTCGTAATA
61 TCTCGCAATA
24301449 ACCCGAGGCT
Statistics
Matches: 1344, Mismatches: 151, Indels: 119
0.83 0.09 0.07
Matches are distributed among these distances:
74 108 0.08
75 42 0.03
76 136 0.10
77 116 0.09
78 437 0.33
79 222 0.17
80 7 0.01
81 128 0.10
82 101 0.08
83 47 0.03
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (78 bp):
TTTTTGAAAAATAGAAATTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
CAATATGAGTTGA
Found at i:24302244 original size:35 final size:35
Alignment explanation
Indices: 24302198--24302273 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
24302188 TTCTGAGAAT
* *
24302198 GCTTCAAATATTGCAATCTTGCCATTCGACTCCAC
1 GCTTCAAATATTGCAATCTCGCCAATCGACTCCAC
* *
24302233 GCTTCAAATATTGTAATCTCGCCAATCGACTCCCC
1 GCTTCAAATATTGCAATCTCGCCAATCGACTCCAC
24302268 G-TTCAA
1 GCTTCAA
24302274 GTCGTCTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 5 0.14
35 32 0.86
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (35 bp):
GCTTCAAATATTGCAATCTCGCCAATCGACTCCAC
Found at i:24308005 original size:11 final size:11
Alignment explanation
Indices: 24307989--24308013 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24307979 CTTTTTACTG
24307989 TTTCTTTTCTT
1 TTTCTTTTCTT
24308000 TTTCTTTTCTT
1 TTTCTTTTCTT
24308011 TTT
1 TTT
24308014 TCCTTGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:24308529 original size:3 final size:3
Alignment explanation
Indices: 24308523--24308565 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
24308513 ATTTCTTTTA
24308523 TAT TAT TAAT T-T TAT TA- TAT TAAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT T
24308566 TTAATACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.11
3 26 0.72
4 6 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:24308548 original size:9 final size:10
Alignment explanation
Indices: 24308523--24308570 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 10
24308513 ATTTCTTTTA
24308523 TATTATTAAT
1 TATTATTAAT
24308533 T-TTATTATAT
1 TATTATTA-AT
24308543 TAATTATT-AT
1 T-ATTATTAAT
24308553 TATTATT-AT
1 TATTATTAAT
24308562 TATT-TTAAT
1 TATTATTAAT
24308571 ACATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 2 0.06
9 20 0.59
10 7 0.21
12 5 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTATTAAT
Found at i:24308550 original size:24 final size:24
Alignment explanation
Indices: 24308523--24308570 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24308513 ATTTCTTTTA
24308523 TATTATTAATT-TTATTATATTAAT
1 TATTATT-ATTATTATTATATTAAT
*
24308547 TATTATTATTATTATTATTTTAAT
1 TATTATTATTATTATTATATTAAT
24308571 ACATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTATTATTATTATTATATTAAT
Found at i:24308838 original size:10 final size:10
Alignment explanation
Indices: 24308819--24308851 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
24308809 TATTAGTATA
*
24308819 TTTTTCTTAT
1 TTTTTATTAT
24308829 TTTTTATTAT
1 TTTTTATTAT
24308839 TTTTTATT-T
1 TTTTTATTAT
24308848 TTTT
1 TTTT
24308852 AGATACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:24310671 original size:35 final size:34
Alignment explanation
Indices: 24310632--24310882 Score: 227
Period size: 35 Copynumber: 7.1 Consensus size: 34
24310622 CATGATCCGA
*
24310632 TTGAAACACGAGAATTTTTTTAAAACACGAAAATT
1 TTGAAACACGA-AATTTTTTGAAAACACGAAAATT
* * *
24310667 TTGAAACACTAATTTTTTTTAAAACACGAAAATTT
1 TTGAAACACGAAATTTTTTGAAAACACGAAAA-TT
* *
24310702 TTGAAACACGAGAATTTTGTGCAAAACATGAAAATGT
1 TTGAAACACGA-AATTTTTTG-AAAACACGAAAAT-T
* * * * **
24310739 TTGAAACAGGAAAATTTTAGAAAACAAGAATTTTT
1 TTGAAACACGAAATTTTTTGAAAACACGAA-AATT
24310774 TTGAAACACGAAATTTTTTGAAAACACGAAAATTTT
1 TTGAAACACGAAATTTTTTGAAAACACGAAAA--TT
* * *
24310810 TTAAAACACGAAAATTTTTG-AAACACGGGAAATTTTT
1 TTGAAACACGAAATTTTTTGAAAACAC--GAAA--ATT
*
24310847 TTGAAAACACGAAAATTTTTG-AAACACGAAAATT
1 TTG-AAACACGAAATTTTTTGAAAACACGAAAATT
24310881 TT
1 TT
24310883 TGATAAATTA
Statistics
Matches: 179, Mismatches: 25, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
34 24 0.13
35 64 0.36
36 38 0.21
37 30 0.17
38 23 0.13
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (34 bp):
TTGAAACACGAAATTTTTTGAAAACACGAAAATT
Found at i:24310702 original size:18 final size:18
Alignment explanation
Indices: 24310635--24310883 Score: 199
Period size: 17 Copynumber: 13.9 Consensus size: 18
24310625 GATCCGATTG
*
24310635 AAACACGAGAATTTTTTTA
1 AAACACGA-AAATTTTTTA
*
24310654 AAACACGAAAA--TTTTG
1 AAACACGAAAATTTTTTA
* **
24310670 AAACACTAATTTTTTTTA
1 AAACACGAAAATTTTTTA
*
24310688 AAACACGAAAA-TTTTTG
1 AAACACGAAAATTTTTTA
* *
24310705 AAACACGAGAATTTTGTGCA
1 AAACACGAAAATTTT-T-TA
* * *
24310725 AAACATGAAAA-TGTTTG
1 AAACACGAAAATTTTTTA
* **
24310742 AAACAGGAAAATTTTAGA
1 AAACACGAAAATTTTTTA
* * *
24310760 AAACAAG-AATTTTTTTG
1 AAACACGAAAATTTTTTA
24310777 AAACACG-AAATTTTTTGA
1 AAACACGAAAATTTTTT-A
24310795 AAACACGAAAATTTTTTA
1 AAACACGAAAATTTTTTA
*
24310813 AAACACGAAAA-TTTTTG
1 AAACACGAAAATTTTTTA
*
24310830 AAACACGGGAAATTTTTTTGA
1 AAACAC--GAAAATTTTTT-A
*
24310851 AAACACGAAAA-TTTTTG
1 AAACACGAAAATTTTTTA
24310868 AAACACGAAAATTTTT
1 AAACACGAAAATTTTT
24310884 GATAAATTAC
Statistics
Matches: 181, Mismatches: 36, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
16 12 0.07
17 67 0.37
18 54 0.30
19 28 0.15
20 14 0.08
21 6 0.03
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (18 bp):
AAACACGAAAATTTTTTA
Found at i:24311254 original size:10 final size:9
Alignment explanation
Indices: 24311235--24311277 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
24311225 ACGAGCTTGA
24311235 TTTTTTCTT
1 TTTTTTCTT
24311244 TTTTCTTCTTT
1 TTTT-TTC-TT
*
24311255 TTTTTTCCT
1 TTTTTTCTT
24311264 TTTTTTCTT
1 TTTTTTCTT
24311273 TTTTT
1 TTTTT
24311278 CCTTCCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 18 0.60
10 6 0.20
11 6 0.20
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:24311291 original size:21 final size:19
Alignment explanation
Indices: 24311235--24311291 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 19
24311225 ACGAGCTTGA
*
24311235 TTTTTTCTTTTTTCTTCTTT
1 TTTTTTCCTTTTT-TTCTTT
24311255 TTTTTTCCTTTTTTTCTTT
1 TTTTTTCCTTTTTTTCTTT
24311274 TTTTCCTTCCTTTTTTTC
1 TTTT--TTCCTTTTTTTC
24311292 CTGGACTGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 10 0.29
20 12 0.35
21 12 0.35
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTCCTTTTTTTCTTT
Found at i:24311473 original size:13 final size:13
Alignment explanation
Indices: 24311450--24311503 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
24311440 TATTAAAATT
*
24311450 TTTTTATTTTTTTA
1 TTTTTA-TTTTTTC
24311464 TTTTTA-TTTTTC
1 TTTTTATTTTTTC
*
24311476 TTTTTCTTTTTTC
1 TTTTTATTTTTTC
24311489 TTTTT-TTTTCTTC
1 TTTTTATTTT-TTC
24311502 TT
1 TT
24311504 CTGCCTTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
12 14 0.39
13 16 0.44
14 6 0.17
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTC
Found at i:24311943 original size:30 final size:30
Alignment explanation
Indices: 24311872--24312037 Score: 144
Period size: 29 Copynumber: 5.6 Consensus size: 30
24311862 CAAAACTTCT
* * *
24311872 GGGGTCAAAATGTAATTTTATGAAAATTTA
1 GGGGTCAAAATGTAATTTAAAGAAAGTTTA
*
24311902 -GGGTCAAAATGTAATTTAAATAAAGTTTA
1 GGGGTCAAAATGTAATTTAAAGAAAGTTTA
* * *
24311931 GGGGTTAAAATGTAATTTCAAGAAATTTTA
1 GGGGTCAAAATGTAATTTAAAGAAAGTTTA
* **
24311961 AGGGT-TGAATGTAA-TTACAAGAAAGTTTA
1 GGGGTCAAAATGTAATTTA-AAGAAAGTTTA
* * * *
24311990 AGGGTTAAAATGCAATTCCAAA-AAAG-TTA
1 GGGGTCAAAATGTAATT-TAAAGAAAGTTTA
*
24312019 GGGGTCAAAATGCAATTTA
1 GGGGTCAAAATGTAATTTA
24312038 TTTTTTTAAA
Statistics
Matches: 111, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
28 3 0.03
29 65 0.59
30 39 0.35
31 3 0.03
32 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.32
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTAAAGAAAGTTTA
Found at i:24311972 original size:59 final size:59
Alignment explanation
Indices: 24311872--24312035 Score: 172
Period size: 59 Copynumber: 2.8 Consensus size: 59
24311862 CAAAACTTCT
* * * *
24311872 GGGGTCAAAATGTAATTTTATGAAAATTTAGGGTCAAAATGTAATTTA-AATAAAGTTTA
1 GGGGTTAAAATGTAATTTCAAGAAAATTTAGGGTCAAAATGTAA-TTACAAGAAAGTTTA
* **
24311931 GGGGTTAAAATGTAATTTCAAGAAATTTTAAGGGT-TGAATGTAATTACAAGAAAGTTTA
1 GGGGTTAAAATGTAATTTCAAGAAAATTT-AGGGTCAAAATGTAATTACAAGAAAGTTTA
* * * * *
24311990 AGGGTTAAAATGCAATTCCAA-AAAAGTTAGGGGTCAAAATGCAATT
1 GGGGTTAAAATGTAATTTCAAGAAAATTTA-GGGTCAAAATGTAATT
24312036 TATTTTTTTA
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
57 1 0.01
58 12 0.14
59 68 0.79
60 5 0.06
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (59 bp):
GGGGTTAAAATGTAATTTCAAGAAAATTTAGGGTCAAAATGTAATTACAAGAAAGTTTA
Found at i:24316618 original size:21 final size:21
Alignment explanation
Indices: 24316592--24316647 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
24316582 AACAGTGATG
*
24316592 GTGGTGAGATTAGTTACTGTA
1 GTGGTGAGATTAGATACTGTA
* *
24316613 GTGGTGAAATTGGATACTGTA
1 GTGGTGAGATTAGATACTGTA
*
24316634 GCGGTGAGATTAGA
1 GTGGTGAGATTAGA
24316648 AATAGCGGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.36, T:0.32
Consensus pattern (21 bp):
GTGGTGAGATTAGATACTGTA
Found at i:24316916 original size:33 final size:34
Alignment explanation
Indices: 24316853--24316920 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 34
24316843 AATAAAATTT
24316853 AAATATTTTAAACTTATATTAATAATAAATAATA
1 AAATATTTTAAACTTATATTAATAATAAATAATA
* *
24316887 AAATATATTTAAA-TTAT-TTTATATTAAATAATA
1 AAATAT-TTTAAACTTATATTAATAATAAATAATA
24316920 A
1 A
24316921 TTAAACTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 15 0.48
34 10 0.32
35 6 0.19
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (34 bp):
AAATATTTTAAACTTATATTAATAATAAATAATA
Found at i:24317590 original size:14 final size:14
Alignment explanation
Indices: 24317571--24317599 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24317561 TACTTATGAC
24317571 AACAAGTATTAAAT
1 AACAAGTATTAAAT
24317585 AACAAGTATTAAAT
1 AACAAGTATTAAAT
24317599 A
1 A
24317600 TGGTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (14 bp):
AACAAGTATTAAAT
Found at i:24319728 original size:17 final size:17
Alignment explanation
Indices: 24319696--24319729 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24319686 TGGTATTTTT
* *
24319696 AAAATGAAGAATTTTAC
1 AAAATGAACAACTTTAC
24319713 AAAATGAACAACTTTAC
1 AAAATGAACAACTTTAC
24319730 TTACACTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAATGAACAACTTTAC
Found at i:24326200 original size:25 final size:25
Alignment explanation
Indices: 24326127--24326210 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 25
24326117 CCACAACTCT
* *
24326127 CATGAGTTTCCCGATTA-ATAGCTCT
1 CATGAGCTTCCCG-TTATATAGCTCA
* * * * *
24326152 CTTGAGCTTCCCGATATTTGGCTCG
1 CATGAGCTTCCCGTTATATAGCTCA
*
24326177 CATGAGCTTCCCGTTATACAGCTCA
1 CATGAGCTTCCCGTTATATAGCTCA
24326202 CATGAGCTT
1 CATGAGCTT
24326211 TTTTGTTATA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 2 0.04
25 44 0.96
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.33
Consensus pattern (25 bp):
CATGAGCTTCCCGTTATATAGCTCA
Found at i:24328680 original size:17 final size:16
Alignment explanation
Indices: 24328658--24328691 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
24328648 CAATTTTTAA
*
24328658 TTTGTTACTTAATTACT
1 TTTGTTAATTAA-TACT
24328675 TTTGTTAATTAATACT
1 TTTGTTAATTAATACT
24328691 T
1 T
24328692 ATTACTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTGTTAATTAATACT
Found at i:24328732 original size:13 final size:13
Alignment explanation
Indices: 24328707--24328738 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24328697 TAATTATGAA
24328707 TAAATTT-ATTTT
1 TAAATTTAATTTT
24328719 TAAATTTAATTTT
1 TAAATTTAATTTT
24328732 T-AATTTA
1 TAAATTTA
24328739 TATTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TAAATTTAATTTT
Found at i:24329495 original size:20 final size:18
Alignment explanation
Indices: 24329458--24329497 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
24329448 GAGATTTTTT
24329458 TATTTATTTTTAATTTAA
1 TATTTATTTTTAATTTAA
*
24329476 TATTTATTGCTTTTATTTAA
1 TATTTATT--TTTAATTTAA
24329496 TA
1 TA
24329498 AAAAAATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
TATTTATTTTTAATTTAA
Found at i:24329610 original size:15 final size:17
Alignment explanation
Indices: 24329578--24329612 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
24329568 AAAGGTACCC
24329578 TATTTTTCTTATAAATA
1 TATTTTTCTTATAAATA
24329595 TATTTTT-TTA-AAATA
1 TATTTTTCTTATAAATA
24329610 TAT
1 TAT
24329613 GATTTCTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 3 0.17
17 7 0.39
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTTCTTATAAATA
Done.