Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007894.1 Hibiscus syriacus cultivar Beakdansim tig00110279_pilon, whole genome shotgun sequence
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: 1425917
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:671827 original size:22 final size:22
Alignment explanation
Indices: 671801--671845 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
671791 CATAAAGAAA
671801 AAATTATAATTTAAGCATGGCT
1 AAATTATAATTTAAGCATGGCT
671823 AAATTATAATTTAAGCATGGCT
1 AAATTATAATTTAAGCATGGCT
671845 A
1 A
671846 CTGCTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (22 bp):
AAATTATAATTTAAGCATGGCT
Found at i:673850 original size:107 final size:107
Alignment explanation
Indices: 673664--673878 Score: 421
Period size: 107 Copynumber: 2.0 Consensus size: 107
673654 ACATGTAGAT
*
673664 AGATGCAGTAATATAGAGACATTCAAAGAGACATGGAAGGATCAAGACCAGGGATTCAAATTGTG
1 AGATGCAGTAATATAGAGACATTCAAAGAGACATGGAAGGATCAAGAACAGGGATTCAAATTGTG
673729 GTCGCGGTCGTGTTGCGTTTATCACGGTCGCGGACGTAACGG
66 GTCGCGGTCGTGTTGCGTTTATCACGGTCGCGGACGTAACGG
673771 AGATGCAGTAATATAGAGACATTCAAAGAGACATGGAAGGATCAAGAACAGGGATTCAAATTGTG
1 AGATGCAGTAATATAGAGACATTCAAAGAGACATGGAAGGATCAAGAACAGGGATTCAAATTGTG
673836 GTCGCGGTCGTGTTGCGTTTATCACGGTCGCGGACGTAACGG
66 GTCGCGGTCGTGTTGCGTTTATCACGGTCGCGGACGTAACGG
673878 A
1 A
673879 TGCTATCGCG
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (107 bp):
AGATGCAGTAATATAGAGACATTCAAAGAGACATGGAAGGATCAAGAACAGGGATTCAAATTGTG
GTCGCGGTCGTGTTGCGTTTATCACGGTCGCGGACGTAACGG
Found at i:673962 original size:6 final size:6
Alignment explanation
Indices: 673951--673977 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
673941 ATAAAATATA
673951 ATAATT ATAATT ATAATT ATAATT ATA
1 ATAATT ATAATT ATAATT ATAATT ATA
673978 GAAAATCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:682333 original size:4 final size:4
Alignment explanation
Indices: 682324--682353 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
682314 AAAATCCATA
682324 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
682354 TCAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:686037 original size:2 final size:2
Alignment explanation
Indices: 686025--686054 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
686015 TCATCTGTGA
686025 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
686055 AATAATTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:688665 original size:12 final size:13
Alignment explanation
Indices: 688648--688679 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
688638 TCATGCCCCC
688648 TTATTAATA-AAA
1 TTATTAATACAAA
688660 TTATT-ATACAAA
1 TTATTAATACAAA
688672 TTATTAAT
1 TTATTAAT
688680 TGTCATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TTATTAATACAAA
Found at i:703912 original size:37 final size:36
Alignment explanation
Indices: 703840--703913 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
703830 ATTGGAAAAT
* *
703840 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
*
703876 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTGAAAATCATAAA
703913 A
1 A
703914 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 8 0.24
37 15 0.45
38 10 0.30
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
Found at i:706195 original size:30 final size:30
Alignment explanation
Indices: 706140--706426 Score: 318
Period size: 30 Copynumber: 9.6 Consensus size: 30
706130 GACCCGACCT
*
706140 GGTGACAATT-TGGGAATTATTTTGAAAATA
1 GGTGAC-ATTCTGGGAATTATTTTGAAAAAA
* *
706170 -GTGATATTCTGAGAATTATTTTTG-AAAAA
1 GGTGACATTCTGGGAATTA-TTTTGAAAAAA
* * *
706199 GGTGACATTTTGAGAATTATTTTTAAAAAAA
1 GGTGACATTCTGGGAATTA-TTTTGAAAAAA
*
706230 AGTGACATT-TGGGAATTATTTTGAAAAAAA
1 GGTGACATTCTGGGAATTATTTTG-AAAAAA
*
706260 GGTGACATTCTTGGAATTATTTT-AAAAAA
1 GGTGACATTCTGGGAATTATTTTGAAAAAA
* * *
706289 TGTAACATT-TGGGGAATTATTTTAAAAAAA
1 GGTGACATTCT-GGGAATTATTTTGAAAAAA
*
706319 GGTGACATTCTTGGAATTATTTTGAAAAAA
1 GGTGACATTCTGGGAATTATTTTGAAAAAA
* *
706349 AGTGACATTTTGGGAATTATTTTG-AAAAA
1 GGTGACATTCTGGGAATTATTTTGAAAAAA
*
706378 TGTGACATTCTGGGAATTATTTTGAAAAAAA
1 GGTGACATTCTGGGAATTATTTTG-AAAAAA
* *
706409 GGTTACATTTTGGGAATT
1 GGTGACATTCTGGGAATT
706427 TTCGAATGTG
Statistics
Matches: 220, Mismatches: 26, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
28 4 0.02
29 71 0.32
30 99 0.45
31 46 0.21
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (30 bp):
GGTGACATTCTGGGAATTATTTTGAAAAAA
Found at i:706252 original size:59 final size:56
Alignment explanation
Indices: 706140--706426 Score: 313
Period size: 59 Copynumber: 4.8 Consensus size: 56
706130 GACCCGACCT
* * * * *
706140 GGTGACAATTTGGGAATTATTTTGAAAATAGTGATATTCTGAGAATTATTTTTGAAAAA
1 GGTGAC-ATTTTGGAATTATTTTAAAAAAAGTGACATT-TGGGAATTA-TTTTGAAAAA
706199 GGTGACATTTTGAGAATTATTTTTAAAAAAAAGTGACATTTGGGAATTATTTTGAAAAAAA
1 GGTGACATTTTG-GAATTA-TTTT-AAAAAAAGTGACATTTGGGAATTATTTTG--AAAAA
* * *
706260 GGTGACATTCTTGGAATTATTTTAAAAAATGTAACATTTGGGGAATTATTTTAAAAAAA
1 GGTGACATT-TTGGAATTATTTTAAAAAAAGTGACATTT-GGGAATTATTTT-GAAAAA
706319 GGTGACATTCTTGGAATTATTTTGAAAAAAAGTGACATTTTGGGAATTATTTTGAAAAA
1 GGTGACATT-TTGGAATTATTTT-AAAAAAAGTGACA-TTTGGGAATTATTTTGAAAAA
* * *
706378 TGTGACATTCTGGGAATTATTTTGAAAAAAAGGTTACATTTTGGGAATT
1 GGTGACATT-TTGGAATTATTTT-AAAAAAA-GTGACA-TTTGGGAATT
706427 TTCGAATGTG
Statistics
Matches: 203, Mismatches: 14, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
58 5 0.02
59 93 0.46
60 67 0.33
61 35 0.17
62 3 0.01
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (56 bp):
GGTGACATTTTGGAATTATTTTAAAAAAAGTGACATTTGGGAATTATTTTGAAAAA
Found at i:706312 original size:89 final size:87
Alignment explanation
Indices: 706140--706426 Score: 364
Period size: 89 Copynumber: 3.2 Consensus size: 87
706130 GACCCGACCT
* * *
706140 GGTGACAATTTGGGAATTATTTTG-AAAATAGTGATATTC-TGAGAATTATTTTTGAAAAAGGTG
1 GGTGAC-ATTTGGGAATTATTTTGAAAAAAAGTGACATTCTTG-GAATTA-TTTTGAAAAATGTG
*
706203 ACATTTTGAGAATTATTTTTAAAAAAA
63 ACA-TTTGGGAATTA-TTTTAAAAAAA
* * *
706230 AGTGACATTTGGGAATTATTTTGAAAAAAAGGTGACATTCTTGGAATTATTTTAAAAAATGTAAC
1 GGTGACATTTGGGAATTATTTTGAAAAAAA-GTGACATTCTTGGAATTATTTTGAAAAATGTGAC
706295 ATTTGGGGAATTATTTTAAAAAAA
65 ATTT-GGGAATTATTTTAAAAAAA
*
706319 GGTGACATTCTTGGAATTATTTTGAAAAAAAGTGACATT-TTGGGAATTATTTTGAAAAATGTGA
1 GGTGACATT-TGGGAATTATTTTGAAAAAAAGTGACATTCTT-GGAATTATTTTGAAAAATGTGA
706383 CATTCTGGGAATTATTTTGAAAAAAA
64 CATT-TGGGAATTATTTT-AAAAAAA
*
706409 GGTTACATTTTGGGAATT
1 GGTGACA-TTTGGGAATT
706427 TTCGAATGTG
Statistics
Matches: 175, Mismatches: 13, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
88 2 0.01
89 83 0.47
90 72 0.41
91 16 0.09
92 2 0.01
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (87 bp):
GGTGACATTTGGGAATTATTTTGAAAAAAAGTGACATTCTTGGAATTATTTTGAAAAATGTGACA
TTTGGGAATTATTTTAAAAAAA
Found at i:708406 original size:2 final size:2
Alignment explanation
Indices: 708389--708425 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
708379 ACGTTTATTT
* *
708389 TA TA AA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
708426 CGTATGCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:713102 original size:19 final size:19
Alignment explanation
Indices: 713078--713121 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
713068 TAAACACTCA
* * *
713078 AATATTATTTTATTTATTT
1 AATATTAATTTAATAATTT
713097 AATATTAATTTAATAATTT
1 AATATTAATTTAATAATTT
713116 AATATT
1 AATATT
713122 TTTAACAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATATTAATTTAATAATTT
Found at i:713253 original size:5 final size:5
Alignment explanation
Indices: 713245--713283 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
713235 GATATTATAT
713245 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
713284 GTATTATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:713317 original size:25 final size:27
Alignment explanation
Indices: 713289--713360 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 27
713279 ATTTAGTATT
713289 ATATAATAAATTATTAATAT-AAT-TA
1 ATATAATAAATTATTAATATAAATATA
* * **
713314 ATATTATATATTATTTTTATAAATATA
1 ATATAATAAATTATTAATATAAATATA
*
713341 ATATTATTAAATTATTAATA
1 ATA-TAATAAATTATTAATA
713361 ATGATTATAT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
25 16 0.46
26 3 0.09
27 5 0.14
28 11 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATAATAAATTATTAATATAAATATA
Found at i:713324 original size:16 final size:17
Alignment explanation
Indices: 713288--713324 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
713278 AATTTAGTAT
713288 TATATAATAAATTATTA
1 TATATAATAAATTATTA
*
713305 -ATATAATTAA-TATTA
1 TATATAATAAATTATTA
713320 TATAT
1 TATAT
713325 TATTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATAATAAATTATTA
Found at i:713357 original size:31 final size:31
Alignment explanation
Indices: 713299--713357 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
713289 ATATAATAAA
* *
713299 TTATTAATATAATTAATATTATATATTATTT
1 TTATAAATATAATTAATATTAAATATTATTT
*
713330 TTATAAATATAA-TATTATTAAATTATTA
1 TTATAAATATAATTAATATTAAA-TATTA
713358 ATAATGATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TTATAAATATAATTAATATTAAATATTATTT
Found at i:713923 original size:17 final size:17
Alignment explanation
Indices: 713901--713934 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
713891 CGTAAAACAA
*
713901 TTTTCAGATAATCAATT
1 TTTTCAGAAAATCAATT
713918 TTTTCAGAAAATCAATT
1 TTTTCAGAAAATCAATT
713935 ATAGTATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
TTTTCAGAAAATCAATT
Found at i:717116 original size:29 final size:29
Alignment explanation
Indices: 717078--717142 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
717068 CCGGTTCGAT
* *
717078 CGGTTCAACCAATGAACCGGTAGCATGAC
1 CGGTTCAACCAATGAACCGATAGCACGAC
* *
717107 CGGTTGAACCAATGAACCGATAGCACGAT
1 CGGTTCAACCAATGAACCGATAGCACGAC
717136 CGGTTCA
1 CGGTTCA
717143 CTGACCTGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (29 bp):
CGGTTCAACCAATGAACCGATAGCACGAC
Found at i:721781 original size:32 final size:32
Alignment explanation
Indices: 721740--721805 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
721730 CCTAAGATAA
* *
721740 CCCTTGGGTAGGCTCTTAGTCCCCAAGGTACT
1 CCCTTGGGTAGGCTCTAAGGCCCCAAGGTACT
*
721772 CCCTTGGGTAGGCTCTAAGGCCTCAAGGTACT
1 CCCTTGGGTAGGCTCTAAGGCCCCAAGGTACT
721804 CC
1 CC
721806 TTTAGATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.17, C:0.32, G:0.26, T:0.26
Consensus pattern (32 bp):
CCCTTGGGTAGGCTCTAAGGCCCCAAGGTACT
Found at i:722902 original size:35 final size:34
Alignment explanation
Indices: 722817--722903 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
722807 AAAATAATTT
*
722817 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
722851 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
722889 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
722904 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:726028 original size:18 final size:19
Alignment explanation
Indices: 725983--726028 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
725973 AATAATATAA
725983 AAAAATAAT-ATTAAAGAT
1 AAAAATAATAATTAAAGAT
*
726001 AAAAACAATAATT-AAGA-
1 AAAAATAATAATTAAAGAT
726018 ATAAAATAATA
1 A-AAAATAATA
726029 TATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 1 0.04
18 20 0.83
19 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (19 bp):
AAAAATAATAATTAAAGAT
Found at i:734521 original size:20 final size:21
Alignment explanation
Indices: 734496--734535 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
734486 ATTGTATAAT
734496 TTATTTAATTTTT-TATATTG
1 TTATTTAATTTTTATATATTG
**
734516 TTATTTGGTTTTTATATATT
1 TTATTTAATTTTTATATATT
734536 AAATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (21 bp):
TTATTTAATTTTTATATATTG
Found at i:735130 original size:31 final size:32
Alignment explanation
Indices: 735095--735160 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
735085 CTTTCAAAAG
* *
735095 TTATAAAATAATAACT-AATTTTATTAAATTA
1 TTATAAAATAATAACTAAATTTTATCAAAATA
* *
735126 TTATAAAATAATGATTAAATTTTATCAAAATA
1 TTATAAAATAATAACTAAATTTTATCAAAATA
735158 TTA
1 TTA
735161 GAAATTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 14 0.47
32 16 0.53
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (32 bp):
TTATAAAATAATAACTAAATTTTATCAAAATA
Found at i:735341 original size:16 final size:16
Alignment explanation
Indices: 735320--735352 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
735310 TAAAAAATAA
735320 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
735336 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
735352 A
1 A
735353 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:735445 original size:16 final size:16
Alignment explanation
Indices: 735421--735481 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
735411 TAATAAATAA
735421 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
735437 ACGAGCATAAACGAAC
1 ACGAACATAAACGAAC
*
735453 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
735469 ACGAACATAAACG
1 ACGAACATAAACG
735482 TTGGAGACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.54, C:0.23, G:0.15, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:736597 original size:24 final size:24
Alignment explanation
Indices: 736570--736625 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
736560 ATAAATGAAT
*
736570 GAACATAAACGAATATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
736594 GAACATAAATGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
736618 GAACATAA
1 GAACATAA
736626 CCAAACGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.12
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:736621 original size:14 final size:14
Alignment explanation
Indices: 736577--736632 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
736567 AATGAACATA
*
736577 AACGAATATAACCG
1 AACGAACATAACCG
736591 AACGAACAT-A---
1 AACGAACATAACCG
*
736601 AATGAACATAACCG
1 AACGAACATAACCG
*
736615 AACGAACATAACCA
1 AACGAACATAACCG
736629 AACG
1 AACG
736633 TTCACGAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
13 1 0.03
14 24 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:737755 original size:76 final size:76
Alignment explanation
Indices: 737571--737742 Score: 326
Period size: 76 Copynumber: 2.3 Consensus size: 76
737561 CAAATAGTAA
* *
737571 TAACATCATGGGAAAATTATGTATTTAGTCATCCAATTATTATTTTGATTTCAGTTTGATCATCT
1 TAACATCATGGGTAAATTATGTATTTAGTCATCCAATTATTATTTTGATTTCAGTTTGACCATCT
737636 AACTACATTTT
66 AACTACATTTT
737647 TAACATCATGGGTAAATTATGTATTTAGTCATCCAATTATTATTTTGATTTCAGTTTGACCATCT
1 TAACATCATGGGTAAATTATGTATTTAGTCATCCAATTATTATTTTGATTTCAGTTTGACCATCT
737712 AACTACATTTT
66 AACTACATTTT
737723 TAACATCATGGGTAAATTAT
1 TAACATCATGGGTAAATTAT
737743 TTTTAAAATC
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 94 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (76 bp):
TAACATCATGGGTAAATTATGTATTTAGTCATCCAATTATTATTTTGATTTCAGTTTGACCATCT
AACTACATTTT
Found at i:740008 original size:14 final size:14
Alignment explanation
Indices: 739989--740021 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
739979 CCGAGAGCAT
739989 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
740003 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
740017 ACGAG
1 CCGAG
740022 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:740039 original size:23 final size:23
Alignment explanation
Indices: 740004--740055 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
739994 GCCATCCGAC
* *
740004 CGAGGCCATCCGAACGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
*
740027 CGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
740050 CGAGGG
1 CGAGGG
740056 AATCCGGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.38, T:0.10
Consensus pattern (23 bp):
CGAGGGCAACCGAACGAGCTATG
Found at i:740120 original size:13 final size:13
Alignment explanation
Indices: 740102--740128 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
740092 TGCATGGCGA
740102 CCTACAAGGTCGC
1 CCTACAAGGTCGC
740115 CCTACAAGGTCGC
1 CCTACAAGGTCGC
740128 C
1 C
740129 ATGCACTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.41, G:0.22, T:0.15
Consensus pattern (13 bp):
CCTACAAGGTCGC
Found at i:740191 original size:33 final size:33
Alignment explanation
Indices: 740150--740239 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
740140 GCGACCTACC
* *
740150 CTCGCTCGGTTGCCCTCGGATTCTCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
740183 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * *
740216 CTCGTTCGGATGGCCTCGGATGCC
1 CTCGCTCGGTTGCCCTCGGATGCC
740240 TGGAAGGTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.09, C:0.37, G:0.28, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:742475 original size:13 final size:15
Alignment explanation
Indices: 742445--742481 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
742435 ATCTTGAAAA
742445 AATAATTTAGTATTT
1 AATAATTTAGTATTT
742460 AATAATTTA-T-TTT
1 AATAATTTAGTATTT
*
742473 AATTATTTA
1 AATAATTTA
742482 AAAATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.52
14 1 0.05
15 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
AATAATTTAGTATTT
Found at i:742944 original size:18 final size:18
Alignment explanation
Indices: 742906--742944 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
742896 CTGACCCTAA
*
742906 ATTAATTTAATTCATTCG
1 ATTAATTTAATTAATTCG
742924 ATTAATTTAATTTAATT-G
1 ATTAATTTAA-TTAATTCG
742942 ATT
1 ATT
742945 TTATCGACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
ATTAATTTAATTAATTCG
Found at i:748162 original size:2 final size:2
Alignment explanation
Indices: 748155--748189 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
748145 TATGAATTGT
*
748155 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
748190 TTAAGTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:748544 original size:58 final size:58
Alignment explanation
Indices: 748482--748600 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
748472 ATAACATTAT
748482 TTTTGTTATTAAGCTAATGTGATTATAAAATAGTATATATTTTAAATATTTTTAATCA
1 TTTTGTTATTAAGCTAATGTGATTATAAAATAGTATATATTTTAAATATTTTTAATCA
748540 TTTTGTTATTAAGCTAATGTGATTATAAAATAGTATATATTTTAAATATTTTTAATCA
1 TTTTGTTATTAAGCTAATGTGATTATAAAATAGTATATATTTTAAATATTTTTAATCA
748598 TTT
1 TTT
748601 GACAATGAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.51
Consensus pattern (58 bp):
TTTTGTTATTAAGCTAATGTGATTATAAAATAGTATATATTTTAAATATTTTTAATCA
Found at i:749406 original size:6 final size:6
Alignment explanation
Indices: 749395--749423 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
749385 TGCTTCTTGC
749395 AAACCT AAACCT AAACCT AAACCT AAACC
1 AAACCT AAACCT AAACCT AAACCT AAACC
749424 GAATGAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.34, G:0.00, T:0.14
Consensus pattern (6 bp):
AAACCT
Found at i:756693 original size:99 final size:98
Alignment explanation
Indices: 756534--756716 Score: 285
Period size: 99 Copynumber: 1.9 Consensus size: 98
756524 ATGGAGTGTC
* * *
756534 GACTTATTGTCATTAGAGATCCTGTTCGTTACCACCATTTCCAGAACGGAGTATGTTCTTGTGGC
1 GACTTATTGTCATTAGAGATCCTATTCGTTACCACCATTTCAAGAACGGAGTAAGTTCTTGTGGC
* *
756599 GACTATTGGTAGCAAAGTGAACAGATGGATTTTT
66 AACTATCGGTA-CAAAGTGAACAGATGGATTTTT
* *
756633 GACTTATTGTCATTAGAGATCCTATTCGTTACCACCTTTTCAAGAATGGAGTAAGTTCTTGTGGC
1 GACTTATTGTCATTAGAGATCCTATTCGTTACCACCATTTCAAGAACGGAGTAAGTTCTTGTGGC
*
756698 AACTATCGGTACCAAGTGA
66 AACTATCGGTACAAAGTGA
756717 TGCCGTAAGG
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
98 7 0.09
99 69 0.91
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (98 bp):
GACTTATTGTCATTAGAGATCCTATTCGTTACCACCATTTCAAGAACGGAGTAAGTTCTTGTGGC
AACTATCGGTACAAAGTGAACAGATGGATTTTT
Found at i:760184 original size:66 final size:65
Alignment explanation
Indices: 760080--760332 Score: 344
Period size: 66 Copynumber: 3.8 Consensus size: 65
760070 ATCCCTTACT
* * **
760080 ATATCAAAATTGTTTAGTTCTAATCCTTCGATCATTAACTGCGGTTATCTTTAATTAGGATGATC
1 ATATCTAAATCGTTTAGTTCTAATCC-TCGATCATTAACTGTAGTTATCTTTAATTAGGATGATC
*
760145 T
65 G
* *
760146 ATATCTAAATCGTTTAGTTCTAATTCCTCGATCATTAACTGAAGTTATCTTTAATTTGGATGATC
1 ATATCTAAATCGTTTAGTTCTAA-TCCTCGATCATTAACTGTAGTTATCTTTAATTAGGATGATC
760211 G
65 G
* * *
760212 ATATCTAAATCGTTTAGTTCTAATCTCTCGATTACTAACTGTAGTTATCTTTAATTAGGAGGATC
1 ATATCTAAATCGTTTAGTTCTAATC-CTCGATCATTAACTGTAGTTATCTTTAATTAGGATGATC
760277 G
65 G
* * * *
760278 ATATCTAAATCGTTCAGTTCTAATCCCTCAATTATTAACTGTGGTTATCTTTAAT
1 ATATCTAAATCGTTTAGTTCTAAT-CCTCGATCATTAACTGTAGTTATCTTTAAT
760333 GTGGTTTTCT
Statistics
Matches: 169, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
65 2 0.01
66 163 0.96
67 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (65 bp):
ATATCTAAATCGTTTAGTTCTAATCCTCGATCATTAACTGTAGTTATCTTTAATTAGGATGATCG
Found at i:761346 original size:214 final size:212
Alignment explanation
Indices: 761079--761897 Score: 1091
Period size: 214 Copynumber: 3.9 Consensus size: 212
761069 ATTTTATGAA
* *
761079 AAATACAAATTT-AAGAATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTA
1 AAATA-AAATTTGGAGAACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTA
761143 AACAACACACATTGATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACA
65 AACAACACACA-T-ATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACA
* * *
761208 AAAAAAACTAAATTATACACATTTAAAAAGTTATGGGCCAATTAAAAATATAATTAAGTAATAAG
128 AAAAATACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAATATAAATAAGTAATAAG
* *
761273 TATGGATCAATTTCATATGC
193 TATGGGTCAATTTCAGATGC
* *
761293 AAATAAATTTTGGAGAACTAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAA
1 AAATAAAATTTGGAGAACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
* * *
761358 ACAACACACAATGATGAGGGATCAAATCGAAATAATTTCAAATTGTGATGTTGAAATTAATACAA
66 ACAACACAC-AT-ATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
* * *
761423 AAAAGTACTAAATTATACCCATTTAAAACGTTATGGGCCAATTTAAAAAAAGAAATAAGTAATAA
129 AAAA-TACTAAATTATACCCATTTAAAAAGTTATGGGCCAA-TTAAAAATATAAATAAGTAATAA
761488 GTATGGGTCAATTTCAGATGC
192 GTATGGGTCAATTTCAGATGC
* * * *
761509 AAATAAAATTTGGAGGACTAAATTGAACAAATATG---TTACAGATAAAAATTTAAATATATGAA
1 AAATAAAATTTGGAGAACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
* * * * * *
761571 ACAACATA-A-A--AGGGATTAAATCGAAATAATTTTAAATTTTGAGTTTAAAATTAATACAAAA
66 ACAACACACATATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAA
* *
761632 AATACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAA-AT---T--GAAATAAGTAT
131 AATACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAATATAAATAAGTAATAAGTAT
*
761691 GGGTCAATTTCAGGTGC
196 GGGTCAATTTCAGATGC
* *
761708 AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATT-A
1 AAATAAAATTTGGAGAACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
** * *
761772 A-AA-A-ACATAAAAGGGATCAAATCAAAATAATTTTAAATTTTGATGTTGAAATT-ATACAAAA
66 ACAACACACATATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAA
* * *
761833 ATGTACTAAATTATACTCATTTAAAAAGTTATGGGCCAATTAATAAATATAAATAAATAATAAGT
131 A-ATACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAA-AAATATAAATAAGTAATAAGT
761898 TGAGAACAAA
Statistics
Matches: 541, Mismatches: 45, Indels: 43
0.86 0.07 0.07
Matches are distributed among these distances:
198 1 0.00
199 63 0.12
200 3 0.01
201 12 0.02
202 98 0.18
203 3 0.01
204 3 0.01
205 6 0.01
206 35 0.06
207 48 0.09
209 8 0.01
211 1 0.00
213 35 0.06
214 119 0.22
215 34 0.06
216 72 0.13
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (212 bp):
AAATAAAATTTGGAGAACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
ACAACACACATATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAA
AATACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAATATAAATAAGTAATAAGTAT
GGGTCAATTTCAGATGC
Found at i:761844 original size:202 final size:204
Alignment explanation
Indices: 761097--761873 Score: 1003
Period size: 202 Copynumber: 3.7 Consensus size: 204
761087 ATTTAAGAAT
**
761097 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATT-AA-AA-ACACA-T-AAAAG
* * *
761162 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAAACTAAATTATACA
61 GGATCAAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAATACTAAATTATACC
* * * *
761227 CATTTAAAAAGTTATGGGCCAATTAAAAATATAATTAAGTAATAAGTATGGATCAATTTCATATG
126 CATTTAAAAAGTTATGGGCCAATT--TAAGA-AATT--GTAATAAGTATGGGTCAATTTCAGATG
* *
761292 CAAATAAATTTTGGAGAAC
186 CAAATAAAATTTGGAGGAC
* *
761311 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACACAATGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAA-AACACATAA--A--AG
* *
761376 GGATCAAATCGAAATAATTTCAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
61 GGATCAAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAA-TACTAAATTATAC
* *
761441 CCATTTAAAACGTTATGGGCCAATTTAAAAAAAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
125 CCATTTAAAAAGTTATGGGCCAATTT-----AAGAAAT-TGTAATAAGTATGGGTCAATTTCAGA
761506 TGCAAATAAAATTTGGAGGAC
184 TGCAAATAAAATTTGGAGGAC
* * * * *
761527 TAAATTGAACAAATATG---TTACAGATAAAAATTTAAATATATGAAACA-ACATAAAAGGGATT
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAAAACACATAAAAGGGATC
* * *
761588 AAATCGAAATAATTTTAAATTTTGA-GTTTAAAATTAATACAAAAAATACTAAATTATACCCATT
66 AAATCAAAATAATTTTAAATTGTGATG-TTGAAATTAATACAAAAAATACTAAATTATACCCATT
* *
761652 TAAAAAGTTATGGGCCAATTTAA-AAATTGAAATAAGTATGGGTCAATTTCAGGTGCAAATAAAA
130 TAAAAAGTTATGGGCCAATTTAAGAAATTGTAATAAGTATGGGTCAATTTCAGATGCAAATAAAA
761716 TTTGGAGGAC
195 TTTGGAGGAC
*
761726 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAAAA-ACATAAAAGGGATC
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAAAACACATAAAAGGGATC
* * *
761790 AAATCAAAATAATTTTAAATTTTGATGTTGAAATT-ATACAAAAATGTACTAAATTATACTCATT
66 AAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAA-ATACTAAATTATACCCATT
761854 TAAAAAGTTATGGGCCAATT
130 TAAAAAGTTATGGGCCAATT
761874 AATAAATATA
Statistics
Matches: 506, Mismatches: 39, Indels: 48
0.85 0.07 0.08
Matches are distributed among these distances:
199 61 0.12
200 4 0.01
201 11 0.02
202 108 0.21
203 1 0.00
206 39 0.08
207 47 0.09
209 1 0.00
210 1 0.00
211 5 0.01
212 7 0.01
213 27 0.05
214 94 0.19
215 35 0.07
216 59 0.12
217 3 0.01
218 3 0.01
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (204 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAAAACACATAAAAGGGATC
AAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAATACTAAATTATACCCATTT
AAAAAGTTATGGGCCAATTTAAGAAATTGTAATAAGTATGGGTCAATTTCAGATGCAAATAAAAT
TTGGAGGAC
Found at i:761927 original size:2 final size:2
Alignment explanation
Indices: 761920--762019 Score: 82
Period size: 2 Copynumber: 50.0 Consensus size: 2
761910 AAAACAACGA
*
761920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AA ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * *
761962 AT -T AGT TT AT AT AT A- AT GT AT AT GT AT -T AT AT AT AT AA ACT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
762003 AT AT AGT TT AT AT AT AT
1 AT AT A-T AT AT AT AT AT
762020 TATGTATAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
1 4 0.05
2 70 0.90
3 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:761948 original size:22 final size:22
Alignment explanation
Indices: 761920--762045 Score: 82
Period size: 22 Copynumber: 5.7 Consensus size: 22
761910 AAAACAACGA
761920 ATATATATATATATATATATAT
1 ATATATATATATATATATATAT
*
761942 ATATATATATATA-ATAAACTAT
1 ATATATATATATATATATA-TAT
* *
761964 -TAGTTTATATATA-ATGTATAT
1 ATA-TATATATATATATATATAT
* *
761985 GTAT-TATATATATAAACTATAT
1 ATATATATATATATATA-TATAT
* * *
762007 AGTTTATATATAT-TATGTATAA
1 A-TATATATATATATATATATAT
*
762029 AGTATAAACTATATATA
1 A-TATATA-TATATATA
762046 CCATGTATAA
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
20 8 0.10
21 11 0.13
22 45 0.55
23 9 0.11
24 9 0.11
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (22 bp):
ATATATATATATATATATATAT
Found at i:762127 original size:11 final size:11
Alignment explanation
Indices: 762113--762150 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
762103 ACTACATAGT
762113 TTATATATAAA
1 TTATATATAAA
*
762124 TTATATATGAA
1 TTATATATAAA
762135 TTATATATAAA
1 TTATATATAAA
*
762146 CTATA
1 TTATA
762151 CAATTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (11 bp):
TTATATATAAA
Found at i:762158 original size:20 final size:20
Alignment explanation
Indices: 761929--762160 Score: 89
Period size: 20 Copynumber: 11.2 Consensus size: 20
761919 AATATATATA
* *
761929 TATATATATA-TATATATATA
1 TATATATAAACTATATA-ATT
*
761949 TATATAATAAACTAT-TAGTT
1 TATAT-ATAAACTATATAATT
** *
761969 TATATATAATGTATATGTATT
1 TATATATAAACTATAT-AATT
*
761990 ATATATATAAACTATATAGTT
1 -TATATATAAACTATATAATT
* * **
762011 TATATATATTA-TGTATAAAG
1 TATATATA-AACTATATAATT
* * **
762031 TATAAACTATA-TATACCATGT
1 TATATA-TAAACTATATAAT-T
* *
762052 ATAAACTATAATACTATATAGTT
1 -TATA-TATAA-ACTATATAATT
*
762075 TATATATAAACTAT-TGAA-C
1 TATATATAAACTATAT-AATT
* * *
762094 TATATAGAAACTACATAGTT
1 TATATATAAACTATATAATT
* *
762114 TATATATAAATTATATATGAAT
1 TATATATAAACTATATA--ATT
*
762136 TATATATAAACTATACAATT
1 TATATATAAACTATATAATT
762156 TATAT
1 TATAT
762161 TTATATACTA
Statistics
Matches: 152, Mismatches: 43, Indels: 34
0.66 0.19 0.15
Matches are distributed among these distances:
19 21 0.14
20 64 0.42
21 18 0.12
22 41 0.27
23 3 0.02
24 5 0.03
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (20 bp):
TATATATAAACTATATAATT
Found at i:762286 original size:13 final size:14
Alignment explanation
Indices: 762257--762287 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
762247 TATATTATGG
762257 TTTAGGGTTTAATA
1 TTTAGGGTTTAATA
762271 TTTAGGGTTT-ATA
1 TTTAGGGTTTAATA
762284 TTTA
1 TTTA
762288 TATAAACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (14 bp):
TTTAGGGTTTAATA
Found at i:762323 original size:20 final size:20
Alignment explanation
Indices: 762295--762370 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 20
762285 TTATATAAAC
*
762295 TATAAACTATAATTTATATT
1 TATATACTATAATTTATATT
*
762315 TATATACTATATTTTATACTATT
1 TATATACTATA-ATT-TA-TATT
* *
762338 TATATAAACTATAGTTTACATT
1 TATAT--ACTATAATTTATATT
762360 TATATACTATA
1 TATATACTATA
762371 TATATGAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
20 16 0.34
21 2 0.04
22 10 0.21
23 11 0.23
24 2 0.04
25 6 0.13
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.50
Consensus pattern (20 bp):
TATATACTATAATTTATATT
Found at i:762334 original size:12 final size:13
Alignment explanation
Indices: 762309--762355 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
762299 AACTATAATT
762309 TATATTTATATAC
1 TATATTTATATAC
762322 TATATTT-TATAC
1 TATATTTATATAC
*
762334 TAT-TTATATAAAC
1 TATATT-TATATAC
762347 TATAGTTTA
1 TATA-TTTA
762356 CATTTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 2 0.07
12 9 0.31
13 14 0.48
14 2 0.07
15 2 0.07
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (13 bp):
TATATTTATATAC
Found at i:762341 original size:23 final size:22
Alignment explanation
Indices: 762307--762371 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
762297 TAAACTATAA
*
762307 TTTA-TATTTATATACTATATT
1 TTTACTATTTATATACTATATG
762328 TTATACTATTTATATAAACTATA-G
1 TT-TACTATTTATAT--ACTATATG
762352 TTTAC-ATTTATATACTATAT
1 TTTACTATTTATATACTATAT
762372 ATATGAACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 6 0.16
21 2 0.05
22 10 0.26
23 12 0.32
24 2 0.05
25 6 0.16
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTACTATTTATATACTATATG
Found at i:762355 original size:25 final size:23
Alignment explanation
Indices: 762295--762365 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 23
762285 TTATATAAAC
*
762295 TATAAACTATAATT-TATATTTA
1 TATAAACTATATTTATATATTTA
762317 TAT--ACTATATTTTATACTATTTA
1 TATAAACTATA-TTTATA-TATTTA
* *
762340 TATAAACTATAGTT-TACATTTA
1 TATAAACTATATTTATATATTTA
762362 TATA
1 TATA
762366 CTATATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
20 6 0.15
21 2 0.05
22 14 0.34
23 11 0.27
24 2 0.05
25 6 0.15
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (23 bp):
TATAAACTATATTTATATATTTA
Found at i:762369 original size:33 final size:33
Alignment explanation
Indices: 762325--762471 Score: 146
Period size: 33 Copynumber: 4.5 Consensus size: 33
762315 TATATACTAT
*
762325 ATTT-TATACTATTTATATAAACTATAGTTTAC
1 ATTTATATACTATATATATAAACTATAGTTTAC
*
762357 ATTTATATACTATATATATGAACTATAGTTTAC
1 ATTTATATACTATATATATAAACTATAGTTTAC
762390 A--TATGA-ACTATATATATAAACTATATAGTTTAC
1 ATTTAT-ATACTATATATATAAAC--TATAGTTTAC
* * *
762423 A--TATA-ACCTATATATATATATACTATAATTGAT
1 ATTTATATA-CTATATATATA-A-ACTATAGTTTAC
762456 ATTTATATACTATATA
1 ATTTATATACTATATA
762472 ATTTACATAT
Statistics
Matches: 99, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
31 17 0.17
32 7 0.07
33 60 0.61
34 1 0.01
35 13 0.13
36 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (33 bp):
ATTTATATACTATATATATAAACTATAGTTTAC
Found at i:762381 original size:13 final size:13
Alignment explanation
Indices: 762365--762416 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 13
762355 ACATTTATAT
762365 ACTATATATATGA
1 ACTATATATATGA
762378 ACTATAGTTTACATATGA
1 ACTATA---T--ATATGA
*
762396 ACTATATATATAA
1 ACTATATATATGA
762409 ACTATATA
1 ACTATATA
762417 GTTTACATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
13 19 0.58
15 1 0.03
16 1 0.03
18 12 0.36
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (13 bp):
ACTATATATATGA
Found at i:762438 original size:2 final size:2
Alignment explanation
Indices: 762431--762546 Score: 51
Period size: 2 Copynumber: 56.0 Consensus size: 2
762421 ACATATAACC
*
762431 TA TA TA TA TA TA TA CTA TA -A T- TGA TA TT TA TA TA CTA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA T-A TA TA TA TA TA -TA TA TA
* * ** * * *
762472 -A TT TA CA TA TGA CC TA TA AA TA TA TA CTA TA GTT TA TA TT TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA
*
762514 TA TA CTA TA TA T- TA TA TA TA TA AA CTA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
762547 CTATGTAGTA
Statistics
Matches: 84, Mismatches: 18, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
1 4 0.05
2 68 0.81
3 12 0.14
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:762515 original size:20 final size:20
Alignment explanation
Indices: 762486--762545 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
762476 ACATATGACC
*
762486 TATAAATATATACTATAGT-T
1 TATATATATATACTATA-TAT
*
762506 TATATTTATATACTATATAT
1 TATATATATATACTATATAT
*
762526 TATATATATAAACTATATAT
1 TATATATATATACTATATAT
762546 ACTATGTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (20 bp):
TATATATATATACTATATAT
Found at i:762518 original size:53 final size:55
Alignment explanation
Indices: 762398--762563 Score: 203
Period size: 53 Copynumber: 3.0 Consensus size: 55
762388 ACATATGAAC
* * *
762398 TATATATATAAACTATATAGTTTACATATAACCTATATATATATATACTATAATT
1 TATATTTATATACTATATAATTTACATATAACCTATATATATATATACTATAATT
* * *
762453 GATATTTATATACTATATAATTTACATATGACCTATA-A-ATATATACTATAGTT
1 TATATTTATATACTATATAATTTACATATAACCTATATATATATATACTATAATT
* * * *
762506 TATATTTATATACTATAT-ATTATATATATAAACTATATATACTATGTAGTATAATT
1 TATATTTATATACTATATAATT-TACATATAACCTATATATA-TATATACTATAATT
762562 TA
1 TA
762564 CATATGAATT
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
52 3 0.03
53 43 0.46
54 2 0.02
55 33 0.35
56 13 0.14
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (55 bp):
TATATTTATATACTATATAATTTACATATAACCTATATATATATATACTATAATT
Found at i:762651 original size:18 final size:18
Alignment explanation
Indices: 762625--762842 Score: 157
Period size: 18 Copynumber: 12.1 Consensus size: 18
762615 TATAGTCTGT
762625 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
762643 TAATATATATAGACTATA
1 TAGTATATATAAACTATA
* *
762661 TGGTATATATAAATTATA
1 TAGTATATATAAACTATA
* * **
762679 CATTATATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
762696 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
762714 TAGTACATATAAACTATA
1 TAGTATATATAAACTATA
**
762732 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
762747 TAGTATATATAACCTATA
1 TAGTATATATAAACTATA
*
762765 TAGTATATGATATATAC-AAA
1 TAGTATAT-ATA-A-ACTATA
* *
762785 CTA-TATATTATATAGT-TCA
1 -TAGTATA-TATAAACTAT-A
762804 TTAGTATATATAAACTATA
1 -TAGTATATATAAACTATA
762823 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
762841 TA
1 TA
762843 TTAATTTATT
Statistics
Matches: 155, Mismatches: 28, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
15 4 0.03
16 7 0.05
17 21 0.14
18 91 0.59
19 13 0.08
20 15 0.10
21 4 0.03
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.41
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:762703 original size:51 final size:52
Alignment explanation
Indices: 762647--762845 Score: 224
Period size: 58 Copynumber: 3.7 Consensus size: 52
762637 ACTATATAAT
* * *
762647 ATATATAGACTATATGGTATATATAAATTATACATTATATATAGTTCATTAG
1 ATATATAAACTATATAGTATATATAAACTATACATTATATATAGTTCATTAG
* *
762699 TATATATAAACTATATAGTACATATAAACTATATA-T-TATATAGTTCATTAG
1 -ATATATAAACTATATAGTATATATAAACTATACATTATATATAGTTCATTAG
* *
762750 TATATATAACCTATATAGTATATGATATATAC-AAACTATATATTATATAGTTCATTAG
1 -ATATATAAACTATATAGTATAT-ATA-A-ACTATAC-AT-TA-TATATAGTTCATTAG
*
762808 TATATATAAACTATATAGTATATATAAACTATATATTA
1 -ATATATAAACTATATAGTATATATAAACTATACATTA
762846 ATTTATTAAT
Statistics
Matches: 125, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
51 36 0.29
52 4 0.03
53 32 0.26
54 5 0.04
55 4 0.03
56 4 0.03
57 3 0.02
58 37 0.30
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (52 bp):
ATATATAAACTATATAGTATATATAAACTATACATTATATATAGTTCATTAG
Found at i:762757 original size:33 final size:33
Alignment explanation
Indices: 762714--762831 Score: 135
Period size: 33 Copynumber: 3.8 Consensus size: 33
762704 ATAAACTATA
* *
762714 TAGTACATATAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATAGTATATAGTTCAT
*
762747 TAGTATATATAACCTATATAGTATAT-G-----
1 TAGTATATATAAACTATATAGTATATAGTTCAT
* *
762774 -A-TATATACAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATAGTATATAGTTCAT
762805 TAGTATATATAAACTATATAGTATATA
1 TAGTATATATAAACTATATAGTATATA
762832 TAAACTATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
25 20 0.29
26 2 0.03
32 2 0.03
33 45 0.65
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.42
Consensus pattern (33 bp):
TAGTATATATAAACTATATAGTATATAGTTCAT
Found at i:762819 original size:109 final size:112
Alignment explanation
Indices: 762639--762845 Score: 321
Period size: 109 Copynumber: 1.9 Consensus size: 112
762629 ATATATAAAC
* * * *
762639 TATATAATATATATAGACTATATGGTATATATAAATTATACATTATATATAGTTCATTAGTATAT
1 TATATAACATATATAGA-TATATGATATATACAAACTATACATTATATATAGTTCATTAGTATAT
762704 ATAAACTATATAGTACATATAAACTATATATTATATAGTTCATTAGTA
65 ATAAACTATATAGTACATATAAACTATATATTATATAGTTCATTAGTA
* *
762752 TATATAACCTATATAG-TATATGATATATACAAACTATATA-T-TATATAGTTCATTAGTATATA
1 TATATAACATATATAGATATATGATATATACAAACTATACATTATATATAGTTCATTAGTATATA
*
762814 TAAACTATATAGTATATATAAACTATATATTA
66 TAAACTATATAGTACATATAAACTATATATTA
762846 ATTTATTAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
109 52 0.60
110 1 0.01
111 20 0.23
113 14 0.16
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (112 bp):
TATATAACATATATAGATATATGATATATACAAACTATACATTATATATAGTTCATTAGTATATA
TAAACTATATAGTACATATAAACTATATATTATATAGTTCATTAGTA
Found at i:762866 original size:109 final size:112
Alignment explanation
Indices: 762631--762866 Score: 302
Period size: 109 Copynumber: 2.1 Consensus size: 112
762621 CTGTTAGTAT
* * * *
762631 ATATAAACTATATAATATATATAGACTATATGGTATATATAAATTATACATTATATATAGTTCAT
1 ATATAAAC-ATATAACATATATAGA-TATATGATATATACAAACTATACATTATATATAGTTCAT
*
762696 TAGTATATATAAACTATATAGTACATATAAACTATATATTATATAGTTC
64 TAGTATATATAAACTATATAGTACATATAAACTATATATTATATAGTTA
* * * *
762745 AT-TAGTATATATAACCTATATAG-TATATGATATATACAAACTATATA-T-TATATAGTTCATT
1 ATATA-AACATATAACATATATAGATATATGATATATACAAACTATACATTATATATAGTTCATT
* *
762806 AGTATATATAAACTATATAGTATATATAAACTATATATTAATTTA-TTA
65 AGTATATATAAACTATATAGTACATATAAACTATATATT-ATATAGTTA
762854 ATATAAACATATA
1 ATATAAACATATA
762867 TATATTAATT
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
109 61 0.58
110 7 0.07
111 20 0.19
113 15 0.14
114 3 0.03
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.42
Consensus pattern (112 bp):
ATATAAACATATAACATATATAGATATATGATATATACAAACTATACATTATATATAGTTCATTA
GTATATATAAACTATATAGTACATATAAACTATATATTATATAGTTA
Found at i:762874 original size:20 final size:21
Alignment explanation
Indices: 762811--762875 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 21
762801 TCATTAGTAT
*
762811 ATATAAAC-TATATAGTA-T-
1 ATATAAACATATATATTATTA
762829 ATATAAACTATATATTAATTTATTA
1 ATATAAAC-ATATA-T-A-TTATTA
762854 ATATAAACATATATA-TATTA
1 ATATAAACATATATATTATTA
762874 AT
1 AT
762876 TGAAAGAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
18 8 0.21
20 11 0.28
21 1 0.03
22 2 0.05
23 3 0.08
24 6 0.15
25 8 0.21
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATAAACATATATATTATTA
Found at i:763043 original size:61 final size:61
Alignment explanation
Indices: 762904--763044 Score: 194
Period size: 61 Copynumber: 2.3 Consensus size: 61
762894 TATAAGGATC
* * *
762904 AAATTGAAAACATTTTAAATATGAAACTTAAATTAATAAATTATAACATTAAATTTTGATT
1 AAATTGAAAACATTTAAAATATGAAACTTAAATTAATAAATTATAACATTAAATTTGGACT
* * * *
762965 AAATTGAAAAAAATTAAAATATGAAGCTTAAATTAATATATTA-AATCATTAAATTTGGACT
1 AAATTGAAAACATTTAAAATATGAAACTTAAATTAATAAATTATAA-CATTAAATTTGGACT
*
763026 AAATTGAATACATTTAAAA
1 AAATTGAAAACATTTAAAA
763045 CTAAGAGACA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
60 2 0.03
61 67 0.97
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.36
Consensus pattern (61 bp):
AAATTGAAAACATTTAAAATATGAAACTTAAATTAATAAATTATAACATTAAATTTGGACT
Found at i:765843 original size:23 final size:24
Alignment explanation
Indices: 765812--765872 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 24
765802 TTTTAAAATT
*
765812 TTAAGTTAATTTAT-AC-TTAAACTA
1 TTAA-TTAATTTATCACATTAAA-AA
765836 TTAATTAATTT-TCACATTAAAAA
1 TTAATTAATTTATCACATTAAAAA
765859 TTAATTAGATTTAT
1 TTAATTA-ATTTAT
765873 GAATATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 1 0.03
23 17 0.53
24 13 0.41
25 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (24 bp):
TTAATTAATTTATCACATTAAAAA
Found at i:765965 original size:13 final size:13
Alignment explanation
Indices: 765946--765983 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
765936 TAATTTAGTG
765946 ATTATAAATAA-A
1 ATTATAAATAAGA
765958 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
765973 ATTATAAATAA
1 ATTATAAATAA
765984 TATATGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:765983 original size:18 final size:18
Alignment explanation
Indices: 765962--766051 Score: 65
Period size: 18 Copynumber: 4.8 Consensus size: 18
765952 AATAAAATTT
*
765962 ATAATATAAGAATTATAA
1 ATAATATAAAAATTATAA
** *
765980 ATAATATATGGAATTAGAA
1 ATAATATA-AAAATTATAA
* *
765999 TTAATATAAAAATCA-AA
1 ATAATATAAAAATTATAA
*
766016 TTTATAATATACAAATTATAA
1 ---ATAATATAAAAATTATAA
*
766037 TTAATATAAAAATTA
1 ATAATATAAAAATTA
766052 AATTTCAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
17 2 0.04
18 25 0.45
19 15 0.27
20 12 0.21
21 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (18 bp):
ATAATATAAAAATTATAA
Found at i:765995 original size:19 final size:18
Alignment explanation
Indices: 765962--766007 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
765952 AATAAAATTT
*
765962 ATAATATAAGAATTATAA
1 ATAATATAAGAATTAGAA
*
765980 ATAATATATGGAATTAGAA
1 ATAATATA-AGAATTAGAA
*
765999 TTAATATAA
1 ATAATATAA
766008 AAATCAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (18 bp):
ATAATATAAGAATTAGAA
Found at i:766025 original size:20 final size:19
Alignment explanation
Indices: 765999--766056 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
765989 GGAATTAGAA
*
765999 TTAATATAAAAATCAAATT
1 TTAATATAAAAATTAAATT
*
766018 TATAATATACAAATTATAA--
1 T-TAATATAAAAATTA-AATT
766037 TTAATATAAAAATTAAATT
1 TTAATATAAAAATTAAATT
766056 T
1 T
766057 CAAAAAGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 2 0.06
18 13 0.41
19 3 0.09
20 12 0.38
21 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAATATAAAAATTAAATT
Found at i:775178 original size:50 final size:50
Alignment explanation
Indices: 775103--775203 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
775093 TCCAGAAGTC
*
775103 TTCCGATTTACTTATTAGAGCATAGCAAATCTTCATCAGTAGCGCTTGGT
1 TTCCGATTTACTTATTAGAGCATAGCAAATCTTCATCAGTAGCCCTTGGT
* *
775153 TTCCGGTTTACTTATTAGAGCATAGCAAATCTTCATTAGTAGCCCTTGGT
1 TTCCGATTTACTTATTAGAGCATAGCAAATCTTCATCAGTAGCCCTTGGT
775203 T
1 T
775204 GTACTCACAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (50 bp):
TTCCGATTTACTTATTAGAGCATAGCAAATCTTCATCAGTAGCCCTTGGT
Found at i:783700 original size:32 final size:31
Alignment explanation
Indices: 783621--783727 Score: 118
Period size: 32 Copynumber: 3.5 Consensus size: 31
783611 TTTACATGTA
*
783621 AGTACCTAAAGTATTTTTTGATCAAAATAAGT
1 AGTACCTAAAGTATTTTTTG-TCAAAATAGGT
783653 A-TA--TAAAGTTATATTTTTTGTCAAAATAGGT
1 AGTACCTAAAG---TATTTTTTGTCAAAATAGGT
783684 AGGTACCTAAAGTATTTTTTGTCAAAATA-G-
1 A-GTACCTAAAGTATTTTTTGTCAAAATAGGT
783714 -GTACCTAAAGTATT
1 AGTACCTAAAGTATT
783728 CAATTTTTTC
Statistics
Matches: 67, Mismatches: 1, Indels: 18
0.78 0.01 0.21
Matches are distributed among these distances:
28 14 0.21
29 5 0.07
31 14 0.21
32 27 0.40
33 2 0.03
35 5 0.07
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.39
Consensus pattern (31 bp):
AGTACCTAAAGTATTTTTTGTCAAAATAGGT
Found at i:783846 original size:28 final size:29
Alignment explanation
Indices: 783810--783914 Score: 122
Period size: 31 Copynumber: 3.6 Consensus size: 29
783800 AAAAATTTTG
* * *
783810 AATAGTTTAGGTACCTATTTTGA-CATAA
1 AATACTTTAGGTACTTATTTTGACCAAAA
* *
783838 AATACTTTAGGTATTTGTTTTGACCAAAA
1 AATACTTTAGGTACTTATTTTGACCAAAA
*
783867 AGATAACTTTAGGTACTTATTTTAACCAAAA
1 A-AT-ACTTTAGGTACTTATTTTGACCAAAA
*
783898 AATATTTTAGGTACTTA
1 AATACTTTAGGTACTTA
783915 AATGAAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
28 19 0.29
29 18 0.28
30 4 0.06
31 24 0.37
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.40
Consensus pattern (29 bp):
AATACTTTAGGTACTTATTTTGACCAAAA
Found at i:786279 original size:18 final size:19
Alignment explanation
Indices: 786232--786279 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
786222 TCTTAAAAAA
*
786232 ATAATT-ATTAAAATATGT
1 ATAATTGATTCAAATATGT
*
786250 AAAATTGA-TCAAATATGT
1 ATAATTGATTCAAATATGT
786268 -TAATTGATTCAA
1 ATAATTGATTCAA
786280 TTTTTCGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 6 0.24
18 18 0.72
19 1 0.04
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (19 bp):
ATAATTGATTCAAATATGT
Found at i:811982 original size:20 final size:20
Alignment explanation
Indices: 811957--811996 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
811947 TTTTGGTGCA
*
811957 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
811977 GAGGGAACCGATTCCCCCTT
1 GAGGGAACCGATCCCCCCTT
811997 TGAAGGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:818638 original size:31 final size:31
Alignment explanation
Indices: 818598--818701 Score: 86
Period size: 31 Copynumber: 3.3 Consensus size: 31
818588 TAAGGTGACC
* *
818598 CTTGGGTAGGCTATGCGACCTCGAGATCTTT
1 CTTGGGTAGGCCATGCGACCCCGAGATCTTT
* * * *
818629 CTTGTGTAGGCCCTGTGGCCCCGAGATCTTT
1 CTTGGGTAGGCCATGCGACCCCGAGATCTTT
* *
818660 CTTGGATAGGCCCTATG-G-CCCCGATAATCTTT
1 CTTGGGTAGG-CC-ATGCGACCCCGA-GATCTTT
*
818692 CTTGGATAGG
1 CTTGGGTAGG
818702 TTTTCAGGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
31 39 0.65
32 19 0.32
33 2 0.03
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.32
Consensus pattern (31 bp):
CTTGGGTAGGCCATGCGACCCCGAGATCTTT
Found at i:818713 original size:32 final size:31
Alignment explanation
Indices: 818623--818701 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
818613 CGACCTCGAG
* *
818623 ATCTTTCTTGTG-TAGGCCCTGTGGCCCCGAG
1 ATCTTTCTTG-GATAGGCCCTATGGCCCCGAA
818654 ATCTTTCTTGGATAGGCCCTATGGCCCCGATA
1 ATCTTTCTTGGATAGGCCCTATGGCCCCGA-A
818686 ATCTTTCTTGGATAGG
1 ATCTTTCTTGGATAGG
818702 TTTTCAGGCC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 1 0.02
31 27 0.61
32 16 0.36
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.34
Consensus pattern (31 bp):
ATCTTTCTTGGATAGGCCCTATGGCCCCGAA
Found at i:821762 original size:68 final size:68
Alignment explanation
Indices: 821649--821781 Score: 203
Period size: 68 Copynumber: 2.0 Consensus size: 68
821639 AGCCGAGTCT
* *
821649 ATTCGAGTCAAGTATTTATCAAGCGTTGACCGAGTTAATCCCGTGTAACTCACCATCTGTCTCGT
1 ATTCGAATCAAGTATTTATCAAGCGTTGACCGAATTAATCCCGTGTAACTCACCATCTGTCTCGT
821714 TCC
66 TCC
* * * * *
821717 ATTCGAATTAAGTATTTATCAAGCGTTGACCGAATTAGTCTCGTGTAACTCATCATCTGTTTCGT
1 ATTCGAATCAAGTATTTATCAAGCGTTGACCGAATTAATCCCGTGTAACTCACCATCTGTCTCGT
821782 CTCATTTACA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (68 bp):
ATTCGAATCAAGTATTTATCAAGCGTTGACCGAATTAATCCCGTGTAACTCACCATCTGTCTCGT
TCC
Found at i:824761 original size:29 final size:29
Alignment explanation
Indices: 824714--824770 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
824704 GAACATAACG
824714 AATAGTTGAATGACCA-TTTTATAACTTTT
1 AATAGTTGAATGACCATTTTTAT-ACTTTT
*
824743 AATAGTTG-ATGTACTATTTTTATACTTT
1 AATAGTTGAATG-ACCATTTTTATACTTT
824771 ACCCTATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 16 0.64
30 6 0.24
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (29 bp):
AATAGTTGAATGACCATTTTTATACTTTT
Found at i:833676 original size:18 final size:18
Alignment explanation
Indices: 833636--833679 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
833626 CAAAGGATTT
*
833636 AACTCTGATTCCATTCGG
1 AACTCTGATTCCATTCAG
*
833654 AACTCTGATTCCGTTCTAG
1 AACTCTGATTCCATTC-AG
833673 -ACTCTGA
1 AACTCTGA
833680 CCCCGTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (18 bp):
AACTCTGATTCCATTCAG
Found at i:837525 original size:27 final size:27
Alignment explanation
Indices: 837487--837555 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
837477 TATTTTTTTA
837487 ATATTATTTTAATAAAATTATAAAAAG
1 ATATTATTTTAATAAAATTATAAAAAG
837514 ATATTATTTTAATAAAATTATAAAAAG
1 ATATTATTTTAATAAAATTATAAAAAG
837541 ATATTATTTTAATAA
1 ATATTATTTTAATAA
837556 TTTAGTCCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (27 bp):
ATATTATTTTAATAAAATTATAAAAAG
Found at i:837808 original size:2 final size:2
Alignment explanation
Indices: 837801--837865 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
837791 CCTTACTTAC
837801 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
837843 TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
837866 TCGGTGTAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:841219 original size:18 final size:19
Alignment explanation
Indices: 841196--841233 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
841186 CTCAGTAATC
841196 TTATTCC-CTGGTAATCTT
1 TTATTCCACTGGTAATCTT
841214 TTATTCCAACTGGTAATCTT
1 TTATTCC-ACTGGTAATCTT
841234 ACATTTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (19 bp):
TTATTCCACTGGTAATCTT
Found at i:865514 original size:303 final size:302
Alignment explanation
Indices: 864581--866031 Score: 1302
Period size: 301 Copynumber: 4.9 Consensus size: 302
864571 CTTTCCCGAA
* * * * * *
864581 CCTTGGAATCGCCTAACCAGT-TCATATTTGGAATCCTTGATTTTTATTAGCTATTAGGAAGCTC
1 CCTTGGAATCGCATAACCTGTCTCGTATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTC
* * * * *
864645 TACGTGGCTTTGAAGTCAT-TAAGTGTGTG--AGTCCAATAAATGAATAACATATCCGGAAATGA
66 TACGTGGCTTTGAAGTCGTCGATGTGTGTGAAAGGCCAATAAATGAATAATATATCCGGAAATGA
* * * ** * **
864707 TGTGAAACAGCCGAAAAGAAAATTGAATTTTGACGTTACCATGTGGGAGAGAGATCTTTCTGGTG
131 TGTGAAACAACCGAAAAGAACATGGAATTTCAATGTTACCACATGGGAGAGAGATC-TTCTGGTG
* * * * *
864772 TTTGTCCATTTCAT-TTTTTCAGAAAACTCGTGCCCTAAAAGATAATAATTACTATCTTTAAACA
195 GTTGTCAATTTC-TCTTTTCCAGAAAACTCGTGCCCTAAAAGATCATAACTACTATCTTTAAACA
* * * *
864836 TCATTTGTATGAAACGTCTGCCC-TTAGTTGTATGTTTTGATTG
259 TCACTTGTATGACACGTGTGCCCTTTAGTCGTATGTTTTGATTG
* * * *
864879 CCTTGTAATCTCCTAACATG-CTCGTATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTC
1 CCTTGGAATCGCATAACCTGTCTCGTATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTC
* * ** * *
864943 TGCGTGACTTTGAAGTCGTTAATGTGTGTGAAAGGCCAATAATTGAGTAATATATCCGGAAATGA
66 TACGTGGCTTTGAAGTCGTCGATGTGTGTGAAAGGCCAATAAATGAATAATATATCCGGAAATGA
* * * *
865008 AGTGAAGCAACCGAAAAGAACATGGAATTTCAATGTTACTACATGGGAGAGATATCTTGCTGGTG
131 TGTGAAACAACCGAAAAGAACATGGAATTTCAATGTTACCACATGGGAGAGAGATCTT-CTGGTG
* * * * ** * * * *
865073 GTTGTTAATTCCTCTTTTCCAGAAAACTCATGCCCTGAAAGAAGATAATTACCATCTTTGAACGT
195 GTTGTCAATTTCTCTTTTCCAGAAAACTCGTGCCCTAAAAGATCATAACTACTATCTTTAAACAT
* * * ** * * *
865138 CATTTGTGTGGCATTTGTTCCCTTAAGTCATATGTTTTGATTG
260 CACTTGTATGACACGTGTGCCCTTTAGTCGTATGTTTTGATTG
* * * * * *
865181 CCTCGGAATCACCTAACCT-TTTCATATTTAGAATCCTTGACTTTTATTAGTTGTTAGGAAGCTC
1 CCTTGGAATCGCATAACCTGTCTCGTATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTC
* * * ** *
865245 TACATGGTTTTGAAGT-GTCGGTGTGTGTGATGGGCCATTATAAATGAATAATATATCCGG-ATT
66 TACGTGGCTTTGAAGTCGTCGATGTGTGTGAAAGGCCA--ATAAATGAATAATATATCCGGAAAT
* * * * * * *
865308 AGATGTGAAATAGCTGAAGAGAACATGAAATTTCAATGTTACCACGTGGGGGAGAGATCTCTCTG
129 -GATGTGAAACAACCGAAAAGAACATGGAATTTCAATGTTACCACATGGGAGAGAGATCT-TCTG
* * * * * *
865373 GTGGCTGGCAATTTCTCTTTTCCAGAAAACTCGTGTCTTAAAAGATCATAACTGCGATCTTTAAA
192 GTGGTTGTCAATTTCTCTTTTCCAGAAAACTCGTGCCCTAAAAGATCATAACTACTATCTTTAAA
* * * * *
865438 CGTTACTTGTATGGCATGTGTGCCCTTTTA-TCGTATTTTTTCGATTG
257 CATCACTTGTATGACACGTGTGCCC-TTTAGTCGTATGTTTT-GATTG
* * *
865485 CCTTGGAAT-GCATAACCTGTCT-GTATTTAGAATACTTGATTTTTAGTAGTTTTTAGGAAGCTC
1 CCTTGGAATCGCATAACCTGTCTCGTATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTC
* * * * * **
865548 TACGTGACTTTGAAGTCATTGGA-GTGTGTGAAAGGACAATAAATGAATAATATATGCAAAAATG
66 TACGTGGCTTTGAAGTC-GTCGATGTGTGTGAAAGGCCAATAAATGAATAATATATCCGGAAATG
* * ** *
865612 ATGTGAAATAACC-AAAGAGAACGTGGAATTTTGATGTTACCACAT-GG-GAGAGATCATTTTGG
130 ATGTGAAACAACCGAAA-AGAACATGGAATTTCAATGTTACCACATGGGAGAGAGATC-TTCTGG
* * * * * *
865674 TGGTTGTTCATTTTCTATTTTCCAGAAAACCCCTGTCCTAAAAGATCATAACTACTATCTTTGAA
193 TGGTTG-TCAATTTCTCTTTTCCAGAAAACTCGTGCCCTAAAAGATCATAACTACTATCTTTAAA
* * * ** * *
865739 CATTACTTGTATGATACATGTGCATTTTTGTTGTATGTTTTGATTG
257 CATCACTTGTATGACACGTGTGCCCTTTAGTCGTATGTTTTGATTG
**
865785 CCTTGGAATCGTTTAACCTGTC-CGTATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTC
1 CCTTGGAATCGCATAACCTGTCTCGTATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTC
* * * * * * *
865849 TTCTTGTCTTTGAAGTCGTCGATGTGTGTG--AGGCAAATGAATGGAT-A-A-ATCTGGAAATGA
66 TACGTGGCTTTGAAGTCGTCGATGTGTGTGAAAGGCCAATAAATGAATAATATATCCGGAAATGA
* * * * *
865909 TGTG-AATAACCGAAGAGAACATGGAATTTCAATGTTACCACATGTGA-ATGATAT-TGCTGGTG
131 TGTGAAACAACCGAAAAGAACATGGAATTTCAATGTTACCACATGGGAGA-GAGATCTTCTGGTG
* ** * * * * * * *
865971 G-T-TCATTTTCTCTTTTCTGGAAAAATTGTGGCCTAAAAGGTAATAATTACTATCCTTAAAC
195 GTTGTCAATTTCTCTTTTCCAGAAAACTCGTGCCCTAAAAGATCATAACTACTATCTTTAAAC
866032 GTCTCGTGTT
Statistics
Matches: 931, Mismatches: 193, Indels: 64
0.78 0.16 0.05
Matches are distributed among these distances:
292 46 0.05
294 1 0.00
295 39 0.04
296 16 0.02
297 5 0.01
298 72 0.08
299 20 0.02
300 40 0.04
301 311 0.33
302 140 0.15
303 208 0.22
304 31 0.03
305 2 0.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (302 bp):
CCTTGGAATCGCATAACCTGTCTCGTATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTC
TACGTGGCTTTGAAGTCGTCGATGTGTGTGAAAGGCCAATAAATGAATAATATATCCGGAAATGA
TGTGAAACAACCGAAAAGAACATGGAATTTCAATGTTACCACATGGGAGAGAGATCTTCTGGTGG
TTGTCAATTTCTCTTTTCCAGAAAACTCGTGCCCTAAAAGATCATAACTACTATCTTTAAACATC
ACTTGTATGACACGTGTGCCCTTTAGTCGTATGTTTTGATTG
Found at i:865736 original size:604 final size:598
Alignment explanation
Indices: 864585--865949 Score: 1439
Period size: 604 Copynumber: 2.3 Consensus size: 598
864575 CCCGAACCTT
* * * *
864585 GGAATCGCCTAACCAGTTCATATTTGGAATCCTTGATTTTTATTAGCTATTAGGAAGCTCTACGT
1 GGAATCGCCTAACCTGTTCATATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTCTAC-T
* * * * *
864650 GGCTTTGAAGTCAT-TAAGTGTGTGAGTCCAATAAATGAATAACATATCCGGAAATGATGTGAAA
65 GGTTTTGAAGT-GTCGATGTGTGTGAGGCCAATAAATGAATAACATATCCGGAAATGATGTGAAA
** * * ** * *
864714 CAGCCGAAAAGAAAATTGAATTTTGACGTTACCATGTGGGAGAGAGATCTTTCTGGTGTTTGTCC
129 CAGCCGAAAAGAAAATTGAATTTCAACGTTACCACGTGGGAGAGAGATCTCTCTGGTGGCTGGCA
* * * *
864779 ATTTCATTTTTTCAGAAAACTCGTGCCCTAAAAGATAATAATTACTATCTTTAAACATCATTTGT
194 ATTTCATTTTTCCAGAAAACTCGTGCCCTAAAAGATAATAACTACGATCTTTAAACATCACTTGT
* * * *
864844 ATGAAACGTCTGCCCTTAGTTGTATGTTTTGATTGCCTTGTAATCTCCTAACATGCTCGTATTTA
259 ATGAAACGTCTGCCCTTAGTCGTATGTTTTGATTGCCTTGGAATCGCATAACATGCTCGTATTTA
* * * *
864909 GAATCCTTGATTTTTATTAGTTGTTAGGAAGCTCTGCGTGACTTTGAAGTCGTTAATGTGTGTGA
324 GAATACTTGATTTTTAGTAGTTGTTAGGAAGCTCTACGTGACTTTGAAGTCATTAATGTGTGTGA
* * * ** *
864974 AAGGCCAATAATTGAGTAATATATCCGGAAATGAAGTGAAGCAACCGAAAAGAACATGGAATTTC
389 AAGGACAATAAATGAATAATATATCCAAAAATGAAGTGAAACAACCGAAAAGAACATGGAATTTC
* * *
865039 AATGTTACTACATGGGAGAGATATCTTGCTGGTGGTTGTTAATTCCTCTTTTCCAGAAAACTCAT
454 AATGTTACCACATGGGAGAGATATCTT-CTGGTGGTTGTTAATTCCTATTTTCCAGAAAACCCAT
* * * * * * * ** * *
865104 GCCCTGAAAGAAGATAATTACCATCTTTGAACGTCATTTGTGTGGCATTTGTTCCCTTAAGTCAT
518 GCCCTAAAAGAACATAACTACCATCTTTGAACATCACTTGTATGACACATGTGCACTTAAGTCAT
865169 ATGTTTTGATTGCCTC
583 ATGTTTTGATTGCCTC
* * *
865185 GGAATCACCTAACCTTTTCATATTTAGAATCCTTGACTTTTATTAGTTGTTAGGAAGCTCTACAT
1 GGAATCGCCTAACCTGTTCATATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTCTAC-T
* * *
865250 GGTTTTGAAGTGTCGGTGTGTGTGATGGGCCATTATAAATGAATAATATATCCGG-ATTAGATGT
65 GGTTTTGAAGTGTCGATGTGTGTGA--GGCCA--ATAAATGAATAACATATCCGGAAAT-GATGT
* * * * * *
865314 GAAATAGCTGAAGAGAACA-TGAAATTTCAATGTTACCACGTGGGGGAGAGATCTCTCTGGTGGC
125 GAAACAGCCGAAAAGAAAATTG-AATTTCAACGTTACCACGTGGGAGAGAGATCTCTCTGGTGGC
* * * * * *
865378 TGGCAATTTC-TCTTTTCCAGAAAACTCGTGTCTTAAAAGATCATAACTGCGATCTTTAAACGTT
189 TGGCAATTTCAT-TTTTCCAGAAAACTCGTGCCCTAAAAGATAATAACTACGATCTTTAAACATC
** * * * *
865442 ACTTGTATGGCATGTGTGCCCTTTTA-TCGTATTTTTTCGATTGCCTTGGAAT-GCATAACCTG-
253 ACTTGTATGAAACGTCTGCCC--TTAGTCGTATGTTTT-GATTGCCTTGGAATCGCATAACATGC
*
865504 TCTGTATTTAGAATACTTGATTTTTAGTAGTTTTTAGGAAGCTCTACGTGACTTTGAAGTCATTG
315 TC-GTATTTAGAATACTTGATTTTTAGTAGTTGTTAGGAAGCTCTACGTGACTTTGAAGTCATT-
* * * *
865569 GA-GTGTGTGAAAGGACAATAAATGAATAATATATGCAAAAATGATGTGAAATAACC-AAAGAGA
378 AATGTGTGTGAAAGGACAATAAATGAATAATATATCCAAAAATGAAGTGAAACAACCGAAA-AGA
* ** * *
865632 ACGTGGAATTTTGATGTTACCACATGGGAGAGATCAT-TT-TGGTGGTTGTTCATTTTCTATTTT
442 ACATGGAATTTCAATGTTACCACATGGGAGAGAT-ATCTTCTGGTGGTTGTT-AATTCCTATTTT
* * * * * *
865695 CCAGAAAACCCCTGTCCTAAAAGATCATAACTACTATCTTTGAACATTACTTGTATGATACATGT
505 CCAGAAAACCCATGCCCTAAAAGAACATAACTACCATCTTTGAACATCACTTGTATGACACATGT
* ** ** *
865760 GCATTTTTGTTGTATGTTTTGATTGCCTT
570 GCACTTAAGTCATATGTTTTGATTGCCTC
** * * * *
865789 GGAATCGTTTAACCTGTCCGTATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTCTTCTT
1 GGAATCGCCTAACCTGTTCATATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTCTACTG
* * * *
865854 GTCTTTGAAGTCGTCGATGTGTGTGAGGCAAATGAATGGAT-A-A-ATCTGGAAATGATGTGAAT
66 GT-TTTGAAGT-GTCGATGTGTGTGAGGCCAATAAATGAATAACATATCCGGAAATGATGTGAA-
* * * *
865916 A-A-CCGAAGAGAACATGGAATTTCAATGTTACCAC
128 ACAGCCGAAAAGAAAATTGAATTTCAACGTTACCAC
865950 ATGTGAATGA
Statistics
Matches: 631, Mismatches: 113, Indels: 45
0.80 0.14 0.06
Matches are distributed among these distances:
597 28 0.04
598 15 0.02
599 5 0.01
600 76 0.12
601 8 0.01
602 4 0.01
603 23 0.04
604 288 0.46
605 165 0.26
606 19 0.03
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (598 bp):
GGAATCGCCTAACCTGTTCATATTTAGAATCCTTGATTTTTATTAGTTGTTAGGAAGCTCTACTG
GTTTTGAAGTGTCGATGTGTGTGAGGCCAATAAATGAATAACATATCCGGAAATGATGTGAAACA
GCCGAAAAGAAAATTGAATTTCAACGTTACCACGTGGGAGAGAGATCTCTCTGGTGGCTGGCAAT
TTCATTTTTCCAGAAAACTCGTGCCCTAAAAGATAATAACTACGATCTTTAAACATCACTTGTAT
GAAACGTCTGCCCTTAGTCGTATGTTTTGATTGCCTTGGAATCGCATAACATGCTCGTATTTAGA
ATACTTGATTTTTAGTAGTTGTTAGGAAGCTCTACGTGACTTTGAAGTCATTAATGTGTGTGAAA
GGACAATAAATGAATAATATATCCAAAAATGAAGTGAAACAACCGAAAAGAACATGGAATTTCAA
TGTTACCACATGGGAGAGATATCTTCTGGTGGTTGTTAATTCCTATTTTCCAGAAAACCCATGCC
CTAAAAGAACATAACTACCATCTTTGAACATCACTTGTATGACACATGTGCACTTAAGTCATATG
TTTTGATTGCCTC
Found at i:878182 original size:280 final size:280
Alignment explanation
Indices: 877681--878264 Score: 812
Period size: 280 Copynumber: 2.1 Consensus size: 280
877671 CATTACCGAT
* * **
877681 TCGAAGTTTCAGACTCCAATTATGTATAAGTCGAGCACGAACGACAAGTTTTAAGATTCGCCCCA
1 TCGAAGTTTCAGACTCCAATTATGTATAAGTCGAGCACGAACAACAAGTTTTAAGATCCAACCCA
*
877746 ATCATCATTGCTAGATTTTCAATGCTAAAGCTACACCAGACAGCAGCAAAGAAACTAATCATCTT
66 ATCATCATTGCTAGATTTTCAATGCTAAAGCAACACCAGACAGCAGCAAAGAAACTAATCATCTT
* * * **
877811 CAAACACTATTAGCAGCTTAAAGTATCCAATCCAAGTTATGCACAAATCAAGCACATCCAGGAAG
131 CAAACACCATTAGCAGCTCAAAGTATCAAATCCAAGTTATGCACAAATCAAGCACATCCAACAAG
* * *
877876 TTTAAGATTCAACCCATCATTGCTAGATTTTCAATGCCTATGGTAGCAGGGAAGAAACTAATACT
196 TTTAAGATTCAACCCATCAGTGCTAGATTTTCAATGCCTATGGTAACAGAGAAGAAACTAATACT
*
877941 TCTCGAAAGTCACTAGCAGC
261 TCTCGAAAGCCACTAGCAGC
* * * *
877961 TCGAAGTTTCAGATTCCAATTATGTATAAGTTGAGCACGATCAACAAGTTTTAAGATCCAACTCA
1 TCGAAGTTTCAGACTCCAATTATGTATAAGTCGAGCACGAACAACAAGTTTTAAGATCCAACCCA
* * * * * *
878026 CTCGTCGTTGCTATATTTTCAATGCTAAAGCAACACCAGACAGTAGCAGAGAAACTAATCATCTT
66 ATCATCATTGCTAGATTTTCAATGCTAAAGCAACACCAGACAGCAGCAAAGAAACTAATCATCTT
* * * *
878091 CAAACACCATTGGCAGCTCAAAGTATCAAATTCC-AGTTATGCATAAATCAAGTACA-CTGAACA
131 CAAACACCATTAGCAGCTCAAAGTATCAAA-TCCAAGTTATGCACAAATCAAGCACATC-CAACA
* * *
878154 AGTTTAAGATTCAACTCATCAGTGCTAGATTTTCAATGCCTATGGTAATAGAGATGAAACTAATA
194 AGTTTAAGATTCAACCCATCAGTGCTAGATTTTCAATGCCTATGGTAACAGAGAAGAAACTAATA
* *
878219 CTTCTCGAACGCCATTAGCAGC
259 CTTCTCGAAAGCCACTAGCAGC
* * *
878241 TCGAAGTTTCGGACCCCGATTATG
1 TCGAAGTTTCAGACTCCAATTATG
878265 CAAAAAAAAA
Statistics
Matches: 265, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
279 1 0.00
280 261 0.98
281 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (280 bp):
TCGAAGTTTCAGACTCCAATTATGTATAAGTCGAGCACGAACAACAAGTTTTAAGATCCAACCCA
ATCATCATTGCTAGATTTTCAATGCTAAAGCAACACCAGACAGCAGCAAAGAAACTAATCATCTT
CAAACACCATTAGCAGCTCAAAGTATCAAATCCAAGTTATGCACAAATCAAGCACATCCAACAAG
TTTAAGATTCAACCCATCAGTGCTAGATTTTCAATGCCTATGGTAACAGAGAAGAAACTAATACT
TCTCGAAAGCCACTAGCAGC
Found at i:880015 original size:2 final size:2
Alignment explanation
Indices: 880003--880043 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
879993 GCAATGCATG
*
880003 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
880044 TAAACAGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:885016 original size:12 final size:12
Alignment explanation
Indices: 884999--885023 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
884989 GCGGAAGCAA
884999 GTCAGCGAACGG
1 GTCAGCGAACGG
885011 GTCAGCGAACGG
1 GTCAGCGAACGG
885023 G
1 G
885024 GCTGAATTCA
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:0.24, G:0.44, T:0.08
Consensus pattern (12 bp):
GTCAGCGAACGG
Found at i:887389 original size:19 final size:19
Alignment explanation
Indices: 887365--887495 Score: 88
Period size: 19 Copynumber: 6.9 Consensus size: 19
887355 CTAATCCTTC
*
887365 CTAAAATTTGATTTCCAAA
1 CTAAAACTTGATTTCCAAA
** *
887384 CTAAAA-TCAAGTTTCCAAC
1 CTAAAACTTGA-TTTCCAAA
*
887403 CTAAAACTTGTTTTCCAAA
1 CTAAAACTTGATTTCCAAA
* ** *
887422 GTAAAATCAGGA-TTCCAAC
1 CTAAAA-CTTGATTTCCAAA
* *
887441 CTAAAACATGTTTTCCAAA
1 CTAAAACTTGATTTCCAAA
* * *
887460 CTAAAA-TCAGGTTTCCAAC
1 CTAAAACT-TGATTTCCAAA
887479 CTAAAACTTGATTTCCA
1 CTAAAACTTGATTTCCA
887496 CGTTAATCAC
Statistics
Matches: 84, Mismatches: 22, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
18 5 0.06
19 75 0.89
20 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (19 bp):
CTAAAACTTGATTTCCAAA
Found at i:887418 original size:38 final size:38
Alignment explanation
Indices: 887364--887495 Score: 201
Period size: 38 Copynumber: 3.5 Consensus size: 38
887354 TCTAATCCTT
* *
887364 CCTAAAATTTGATTTCCAAACTAAAATCAAGTTTCCAA
1 CCTAAAACTTGATTTCCAAACTAAAATCAGGTTTCCAA
* * *
887402 CCTAAAACTTGTTTTCCAAAGTAAAATCAGGATTCCAA
1 CCTAAAACTTGATTTCCAAACTAAAATCAGGTTTCCAA
* *
887440 CCTAAAACATGTTTTCCAAACTAAAATCAGGTTTCCAA
1 CCTAAAACTTGATTTCCAAACTAAAATCAGGTTTCCAA
887478 CCTAAAACTTGATTTCCA
1 CCTAAAACTTGATTTCCA
887496 CGTTAATCAC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 84 1.00
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (38 bp):
CCTAAAACTTGATTTCCAAACTAAAATCAGGTTTCCAA
Found at i:894549 original size:157 final size:158
Alignment explanation
Indices: 894151--894773 Score: 649
Period size: 158 Copynumber: 3.9 Consensus size: 158
894141 CATCATATTC
*
894151 CTCTTTTTTATAACAAAGTTTTTTATTTTTCAATTTTA-TCCCTCAATTTTTTATAATTT-ACTT
1 CTCTTTTTGATAACAAA-TTTTTTATTTTTCAA-TTTAGTCCCTCAATTTTTTATAATTTCA-TT
* * * * * * * *
894214 ATTTCTTCAATTCATCATTTATTTTAAGTACGTTTTTTATCAAATTTGAATCACATACTCATAAA
63 ATTCCTTCAATTCATCCTTTATTTTAAGTTCGTTTTTTACCAAATTTAAACCACATGCTCCTAAA
*
894279 CCATCTTAGAATACATATGTACTTTCAAATT
128 CCATCTTAGAATACATATGTACTTTCAATTT
* * * ** * **
894310 ATCTTTCTGATAACAATTTTTTTTATTTTTTTTATTTAGTCCTTCAATTTTTTATAATTTTTTTA
1 CTCTTTTTGATAACAA-ATTTTTTA-TTTTTCAATTTAGTCCCTCAATTTTTTATAATTTCATTA
*
894375 TTCTTTCAATTCATCCTTTATTTTAAGTTCG-TTTTTACCAAATTTAAACCACATGCTCCT-AAC
64 TTCCTTCAATTCATCCTTTATTTTAAGTTCGTTTTTTACCAAATTTAAACCACATGCTCCTAAAC
*
894438 CATCTCAGAATACATATGTACTTTCAATTT
129 CATCTTAGAATACATATGTACTTTCAATTT
* * *
894468 CTCTTTTTTATGACAAATTTTCTATTTTTCAATTTAGTCCCTCAATTTTTTTATAATTTCATTAT
1 CTCTTTTTGATAACAAATTTTTTATTTTTCAATTTAGTCCCTCAA-TTTTTTATAATTTCATTAT
* * * * * *
894533 TCCTTCAATTTATCCTTTATTTTAAG-TCTTTTTTTACGAACTTTGAACCACATGTTCCTAAACC
65 TCCTTCAATTCATCCTTTATTTTAAGTTCGTTTTTTACCAAATTTAAACCACATGCTCCTAAACC
* * ** * *
894597 GT-TATAAAATATGTATGTGCTTTCAATTC
130 ATCT-TAGAATACATATGTACTTTCAATTT
* *
894626 CTCTTTTTGATAACAAATTTTATATTTTTCAATTTAGTCCCT-ATTTTTTTTTATAATTTTC-TT
1 CTCTTTTTGATAACAAATTTTTTATTTTTCAATTTAGTCCCTCA--ATTTTTTATAA-TTTCATT
* * * *
894689 ATTTCTTCAATTTATCC-TTA-TTTAAGTTTGTTTTTTAACCAAATTTGAAA-CACATGCTCATA
63 ATTCCTTCAATTCATCCTTTATTTTAAGTTCGTTTTTT-ACCAAATTT-AAACCACATGCTCCTA
* * *
894751 TACCA-CAATAGAATACCTATGTA
126 AACCATC-TTAGAATACATATGTA
894774 ACTTCGGTTC
Statistics
Matches: 385, Mismatches: 63, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
156 26 0.07
157 84 0.22
158 165 0.43
159 54 0.14
160 56 0.15
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.50
Consensus pattern (158 bp):
CTCTTTTTGATAACAAATTTTTTATTTTTCAATTTAGTCCCTCAATTTTTTATAATTTCATTATT
CCTTCAATTCATCCTTTATTTTAAGTTCGTTTTTTACCAAATTTAAACCACATGCTCCTAAACCA
TCTTAGAATACATATGTACTTTCAATTT
Found at i:894766 original size:316 final size:317
Alignment explanation
Indices: 894151--894755 Score: 743
Period size: 316 Copynumber: 1.9 Consensus size: 317
894141 CATCATATTC
*
894151 CTCTTTTTTATAACAAAGTTTTTTATTTTTCAATTTTATCCCTCAATTTTTTATAATTTACTTAT
1 CTCTTTTTTATAACAAAGTTTTCTATTTTTCAATTTTATCCCTCAATTTTTTATAATTTACTTAT
* *
894216 TTCTTCAATTCATCATTTATTTTAAGTACGTTTTTTATCAAATTTGAATCACATACTCATAAACC
66 TCCTTCAATTCATCATTTATTTTAAGTACGTTTTTTATCAAATTTGAACCACATACTCATAAACC
* * * **
894281 ATCTTAGAATACATATGTACTTTCAAATTATCTTTCTGATAACAATTTTTTTTATTTTTTTTATT
131 ATCTTAAAATACATATGTACTTTCAAATTATCTTTCTGATAACAATATTTTATATTTTTTCAATT
*
894346 TAGTCCTTCAATTTTTTATAATTTTTTTATTCTTTCAATTCATCCTTTATTTTAAGTTCGTTTTT
196 TAGTCCTTCAATTTTTTATAATTTTCTTATTCTTTCAATTCATCCTTTATTTTAAGTTCGTTTTT
*
894411 ACCAAATTTAAACCACATGCTCCTAACCATCTCAGAATACATATGTACTTTCAATTT
261 ACCAAATTTAAACCACATGCTCATAACCATCTCAGAATACATATGTACTTTCAATTT
*
894468 CTCTTTTTTATGACAAA-TTTTCTATTTTTCAA-TTTAGTCCCTCAATTTTTTTATAATTT-CAT
1 CTCTTTTTTATAACAAAGTTTTCTATTTTTCAATTTTA-TCCCTCAA-TTTTTTATAATTTAC-T
* * * * ** *
894530 TATTCCTTCAATTTATCCTTTATTTTAAGT-CTTTTTTTA-CGAACTTTGAACCACATGTTCCTA
63 TATTCCTTCAATTCATCATTTATTTTAAGTACGTTTTTTATC-AAATTTGAACCACATACTCATA
* ** * * *
894593 AACCGT-TATAAAATATGTATGTGCTTTC-AATTCCTCTTTTTGATAACAA-ATTTTATA-TTTT
127 AACCATCT-TAAAATACATATGTACTTTCAAATT-ATCTTTCTGATAACAATATTTTATATTTTT
** *
894654 TCAATTTAGTCCCTAT-TTTTTTTTATAATTTTCTTATT-TCTTCAATTTATCC-TTA-TTTAAG
190 TCAATTTAGT-CCT-TCAATTTTTTATAATTTTCTTATTCT-TTCAATTCATCCTTTATTTTAAG
*
894715 TTTGTTTTTTAACCAAATTTGAAA-CACATGCTCATATACCA
252 TTCG-TTTTT-ACCAAATTT-AAACCACATGCTCATA-ACCA
894756 CAATAGAATA
Statistics
Matches: 247, Mismatches: 28, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
313 9 0.04
314 21 0.09
315 69 0.28
316 91 0.37
317 57 0.23
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.51
Consensus pattern (317 bp):
CTCTTTTTTATAACAAAGTTTTCTATTTTTCAATTTTATCCCTCAATTTTTTATAATTTACTTAT
TCCTTCAATTCATCATTTATTTTAAGTACGTTTTTTATCAAATTTGAACCACATACTCATAAACC
ATCTTAAAATACATATGTACTTTCAAATTATCTTTCTGATAACAATATTTTATATTTTTTCAATT
TAGTCCTTCAATTTTTTATAATTTTCTTATTCTTTCAATTCATCCTTTATTTTAAGTTCGTTTTT
ACCAAATTTAAACCACATGCTCATAACCATCTCAGAATACATATGTACTTTCAATTT
Found at i:899525 original size:45 final size:45
Alignment explanation
Indices: 899425--899526 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 45
899415 TTGTTCATAT
899425 AGTATCGATACTGGTATCAATACTAATAACCTAAAAATGCAAAAA
1 AGTATCGATACTGGTATCAATACTAATAACCTAAAAATGCAAAAA
* * * * * *
899470 AATA-CTGATACTTGTATCGATACTAATAGCCTAAAAATGCATAGA
1 AGTATC-GATACTGGTATCAATACTAATAACCTAAAAATGCAAAAA
899515 AGTATCGATACT
1 AGTATCGATACT
899527 CCCTTAAGGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 1 0.02
45 46 0.96
46 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (45 bp):
AGTATCGATACTGGTATCAATACTAATAACCTAAAAATGCAAAAA
Found at i:901857 original size:26 final size:24
Alignment explanation
Indices: 901818--901865 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
901808 AAATATTAGT
901818 TATTAAAATATATTTATTAATAATTC
1 TATTAAAATATA-TTA-TAATAATTC
* *
901844 TATTAAATTGTATTATAATAAT
1 TATTAAAATATATTATAATAAT
901866 ATATATAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 3 0.15
26 10 0.50
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTAAAATATATTATAATAATTC
Found at i:902019 original size:26 final size:25
Alignment explanation
Indices: 901953--902031 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 25
901943 TAATATGGAC
* *
901953 ATAAATAATATTAAATAAATTGTTTTT
1 ATAAATAATATT--ATTAATTGTTTTA
* *
901980 A-AAATGATAATATTAATTGTTTCTA
1 ATAAATAATATTATTAATTGTTT-TA
*
902005 ATAAATAATATTATTTATTGTATTTA
1 ATAAATAATATTATTAATTGT-TTTA
902031 A
1 A
902032 CATTTACGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
24 10 0.24
25 2 0.05
26 27 0.64
27 3 0.07
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (25 bp):
ATAAATAATATTATTAATTGTTTTA
Found at i:902161 original size:14 final size:14
Alignment explanation
Indices: 902142--902181 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
902132 TAATAAATGT
902142 AATTTATTTTACGA
1 AATTTATTTTACGA
*
902156 AATTTATTTTCCGA
1 AATTTATTTTACGA
*
902170 AATCTATTTTAC
1 AATTTATTTTAC
902182 CGGAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (14 bp):
AATTTATTTTACGA
Found at i:904479 original size:3 final size:3
Alignment explanation
Indices: 904471--904503 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
904461 TGTACTGGAA
*
904471 ATG ATG ATG ATG ATG GTG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
904504 GAAGAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:944585 original size:18 final size:18
Alignment explanation
Indices: 944562--944602 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
944552 ATATTATCTT
944562 ATAAAGTACACATCGATA
1 ATAAAGTACACATCGATA
944580 ATAAAGTACACATCGATA
1 ATAAAGTACACATCGATA
944598 ATAAA
1 ATAAA
944603 AGGTGATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.22
Consensus pattern (18 bp):
ATAAAGTACACATCGATA
Found at i:947532 original size:248 final size:248
Alignment explanation
Indices: 947082--948264 Score: 1900
Period size: 248 Copynumber: 4.8 Consensus size: 248
947072 GCTATTTGCG
*
947082 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACGCTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * *
947147 CCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGA
66 CCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTCGA
* * * *
947212 GTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAAAAGGGTTATCT
131 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCT
* *
947277 ACCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACA
196 GCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
*
947330 GCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
947395 CCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTCGA
66 CCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTCGA
* * * *
947460 GTTCGACTACGCTCAGCTCCAAGACACATTATTTGCAGTATAACTTAAGTCGATAAGGGCTATCT
131 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCT
*
947525 GCCAAAGACCCTCGAGTTCGATTACACTCACCTTCGAGGGCACATCATTTACA
196 GCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
*
947578 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * * *
947643 CCAAGACATATCATTTGCAGCATAAATTAAGTCGAGAAAGGTTATCTGGCAACCAAATACCTTCG
66 CCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA-CAAAGACCTTCG
*
947708 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
130 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
* * *
947773 TGCCAAAGACCCTCAAGTTCGATTACACTCAACTTCGAGGGTACATCATTTACA
195 TGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
* * *
947827 ACATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCGACTACGCTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * *
947892 CCAAGGCATATCATTTGCAACATAACTTAAGTCAAGAAAGGTTATCTGCCAACCAAAGACCTTCG
66 CCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA-CAAAGACCTTCG
* * *
947957 AGTTCGATTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC
130 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
948022 TGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
195 TGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
* *
948076 GCATAACTCAAGGCTAGAAAGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACT-CGCTCATCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * * *
948140 CCAAGGCACATTATTTGCAGCATATCTTAAGTAGAAAAGGGTTATCTGCCAACAAAAGACCTTCG
66 CCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAAGACCTTCG
* * * * *
948205 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGG
130 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
948265 TTATATGTCA
Statistics
Matches: 865, Mismatches: 68, Indels: 4
0.92 0.07 0.00
Matches are distributed among these distances:
247 1 0.00
248 459 0.53
249 405 0.47
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (248 bp):
GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
CCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTCGA
GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCT
GCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
Found at i:948144 original size:497 final size:497
Alignment explanation
Indices: 947082--948264 Score: 1922
Period size: 497 Copynumber: 2.4 Consensus size: 497
947072 GCTATTTGCG
*
947082 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACGCTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * *
947147 CCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCG
66 CCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTCG
* * *
947211 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAAAAGGGTTATC
131 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
* * *
947276 TACCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACAGCATAACTCAA
196 TACCAAAGACCCTCAAGTTCGATTACACTCAACTTCGAGGGAACATCATTTACAACATAACTCAA
* *
947341 GGCTAGAAGGGTTATTTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
261 GGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATAT
* * *
947406 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
326 CATTTGCAACATAACTTAAGTCAAGAAAGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
* * *
947471 CTCAGCTCCAAGACACATTATTTGCAGTATAACTTAAGTCGATAAGGGCTATCTGCCAAAGACCC
391 CTCAGCTCCAAGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
947536 TCGAGTTCGATTACACTCACCTTCGAGGGCACATCATTTACA
456 TCGAGTTCGATTACACTCACCTTCGAGGGCACATCATTTACA
*
947578 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * * *
947643 CCAAGACATATCATTTGCAGCATAAATTAAGTCGAGAAAGGTTATCTGGCAACCAAATACCTTCG
66 CCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTCG
947708 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
131 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
* * *
947773 TGCCAAAGACCCTCAAGTTCGATTACACTCAACTTCGAGGGTACATCATTTACAACATAACTTAA
196 TACCAAAGACCCTCAAGTTCGATTACACTCAACTTCGAGGGAACATCATTTACAACATAACTCAA
947838 GGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATAT
261 GGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATAT
*
947903 CATTTGCAACATAACTTAAGTCAAGAAAGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
326 CATTTGCAACATAACTTAAGTCAAGAAAGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTAC
* * *
947968 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACC
390 GCTCAGCTCCAAGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
*
948033 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
455 CTCGAGTTCGATTACACTCACCTTCGAGGGCACATCATTTACA
* *
948076 GCATAACTCAAGGCTAGAAAGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACT-CGCTCATCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * *
948140 CCAAGGCACATTATTTGCAGCATATCTTAAGTAGA-AAAGGGTTATCTGCCAACAAAAGACCTTC
66 CCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAA-GGTTATCTGCCAACCAAAGACCTTC
* * * * * *
948204 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGG
130 GAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
948265 TTATATGTCA
Statistics
Matches: 633, Mismatches: 51, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
496 110 0.17
497 347 0.55
498 176 0.28
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (497 bp):
GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
CCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTCG
AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC
TACCAAAGACCCTCAAGTTCGATTACACTCAACTTCGAGGGAACATCATTTACAACATAACTCAA
GGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATAT
CATTTGCAACATAACTTAAGTCAAGAAAGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
TCGAGTTCGATTACACTCACCTTCGAGGGCACATCATTTACA
Found at i:948858 original size:22 final size:20
Alignment explanation
Indices: 948820--948864 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
948810 CATCTTATAA
* *
948820 TTATATAATGTATATATTAT
1 TTATATAATATATATATCAT
948840 TTATATATATATATTATATCAT
1 TTATATA-ATATA-TATATCAT
948862 TTA
1 TTA
948865 CATCTCATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 4 0.19
22 10 0.48
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATATAATATATATATCAT
Found at i:950037 original size:12 final size:12
Alignment explanation
Indices: 950020--950048 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
950010 TTAGTCATTT
950020 TTATTAATTTTA
1 TTATTAATTTTA
950032 TTATTAATTTTA
1 TTATTAATTTTA
950044 TTATT
1 TTATT
950049 TATTGTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTAATTTTA
Found at i:950050 original size:19 final size:19
Alignment explanation
Indices: 950018--950082 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
950008 TTTTAGTCAT
950018 TTTTATTAATTTTATTATTAA
1 TTTTATT-A-TTTATTATTAA
* *
950039 TTTTATTATTTATTGTTTA
1 TTTTATTATTTATTATTAA
* ***
950058 TTTTTTTATTCCCTATTAA
1 TTTTATTATTTATTATTAA
950077 TTTTAT
1 TTTTAT
950083 CTAATATTTT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 27 0.77
20 1 0.03
21 7 0.20
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTATTATTTATTATTAA
Found at i:950228 original size:25 final size:22
Alignment explanation
Indices: 950184--950229 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
950174 TTTGATATTA
950184 TCTTTTTTTGTTTTTATTTTTT
1 TCTTTTTTTGTTTTTATTTTTT
* *
950206 TCTTCTTTTTGTCTTTGTTTTTT
1 TCTT-TTTTTGTTTTTATTTTTT
950229 T
1 T
950230 ATTATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.02, C:0.09, G:0.07, T:0.83
Consensus pattern (22 bp):
TCTTTTTTTGTTTTTATTTTTT
Found at i:950390 original size:22 final size:21
Alignment explanation
Indices: 950332--950405 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
950322 GTTTTAGCTT
950332 TTTCAAC-CTTTTT-CAAAAA
1 TTTCAACTCTTTTTCCAAAAA
*
950351 TTTCAACTCTTTTTCCAAAAT
1 TTTCAACTCTTTTTCCAAAAA
950372 TTTCAACGT-TTTTTCCCAAAAA
1 TTTCAAC-TCTTTTT-CCAAAAA
*
950394 TTTCAAATCTTT
1 TTTCAACTCTTT
950406 CAACTTTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
19 7 0.15
20 6 0.13
21 18 0.38
22 16 0.34
ACGTcount: A:0.31, C:0.22, G:0.01, T:0.46
Consensus pattern (21 bp):
TTTCAACTCTTTTTCCAAAAA
Found at i:953189 original size:17 final size:17
Alignment explanation
Indices: 953167--953205 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
953157 TGAATCAAAT
953167 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
953184 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
953201 -AATTA
1 TAATTA
953206 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:953898 original size:31 final size:31
Alignment explanation
Indices: 953862--953922 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
953852 AACTTAAAAG
* *
953862 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
* *
953893 AGTTTTACGATATTGAAATTTAAATAATTT
1 AGTTTTACAATACTGAAATTTAAATAATTT
953923 ATATAACTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:954487 original size:14 final size:14
Alignment explanation
Indices: 954470--954582 Score: 68
Period size: 14 Copynumber: 8.8 Consensus size: 14
954460 ATCTATAATA
*
954470 TAATATTAAAAAAG
1 TAATATTAAAAAAT
*
954484 TAATATT---TAAT
1 TAATATTAAAAAAT
*
954495 TTAT-TTAAAAAAT
1 TAATATTAAAAAAT
954508 TAATATT--AAAAT
1 TAATATTAAAAAAT
* *
954520 TAATATCTATAATA-
1 TAATAT-TAAAAAAT
*
954534 TAATATTAAAAAAG
1 TAATATTAAAAAAT
*
954548 TAATATT---TAAT
1 TAATATTAAAAAAT
*
954559 TTAT-TTAAAAAAT
1 TAATATTAAAAAAT
954572 TAATATTAAAA
1 TAATATTAAAA
954583 TTAAAATCAA
Statistics
Matches: 74, Mismatches: 13, Indels: 24
0.67 0.12 0.22
Matches are distributed among these distances:
10 4 0.05
11 10 0.14
12 11 0.15
13 18 0.24
14 28 0.38
15 3 0.04
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.42
Consensus pattern (14 bp):
TAATATTAAAAAAT
Found at i:954520 original size:12 final size:12
Alignment explanation
Indices: 954503--954609 Score: 69
Period size: 12 Copynumber: 8.7 Consensus size: 12
954493 ATTTATTTAA
954503 AAAATTAATATT
1 AAAATTAATATT
954515 AAAATTAATATCT
1 AAAATTAATAT-T
*
954528 ATAATATAATATT
1 AAAAT-TAATATT
*
954541 AAAAAAGTAATATT
1 --AAAATTAATATT
* *
954555 -TAATTTAT-TT
1 AAAATTAATATT
954565 AAAAAATTAATATT
1 --AAAATTAATATT
*
954579 AAAATTAA-AAT
1 AAAATTAATATT
*
954590 CAAATATAATA-T
1 AAAAT-TAATATT
954602 AAAATTAA
1 AAAATTAA
954610 ATATATAACC
Statistics
Matches: 74, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
10 2 0.03
11 14 0.19
12 27 0.36
13 13 0.18
14 15 0.20
15 3 0.04
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (12 bp):
AAAATTAATATT
Found at i:954525 original size:64 final size:64
Alignment explanation
Indices: 954449--954605 Score: 275
Period size: 64 Copynumber: 2.5 Consensus size: 64
954439 TTATATGATA
954449 TAAAATTAAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
954514 TAAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
*
954578 TAAAATTAAAATC-A-AATATAATA-TAAAA
1 TAAAATTAATATCTATAATATAATATTAAAA
954606 TTAAATATAT
Statistics
Matches: 91, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
61 5 0.05
62 9 0.10
63 1 0.01
64 69 0.76
65 7 0.08
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.39
Consensus pattern (64 bp):
TAAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:954558 original size:26 final size:26
Alignment explanation
Indices: 954505--954586 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 26
954495 TTATTTAAAA
954505 AATTAATATT--AAAATTAATATCTAT
1 AATTAATATTAAAAAATTAATAT-TAT
*
954530 AATATAATATTAAAAAAGTAATATT-T
1 AAT-TAATATTAAAAAATTAATATTAT
* *
954556 AATTTAT-TTAAAAAATTAATATTAA
1 AATTAATATTAAAAAATTAATATTAT
954581 AATTAA
1 AATTAA
954587 AATCAAATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 15 0.31
25 11 0.23
26 11 0.23
27 1 0.02
28 10 0.21
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (26 bp):
AATTAATATTAAAAAATTAATATTAT
Found at i:958186 original size:26 final size:24
Alignment explanation
Indices: 958135--958182 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
958125 AATATAAACA
958135 AAAATGATTATATATTATGTTTTT
1 AAAATGATTATATATTATGTTTTT
958159 AAAATGATTATATATTATGTTTTT
1 AAAATGATTATATATTATGTTTTT
958183 TTAATAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (24 bp):
AAAATGATTATATATTATGTTTTT
Found at i:958346 original size:16 final size:19
Alignment explanation
Indices: 958306--958348 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 19
958296 ATTGATGATA
*
958306 AAATTATAAGAAATTTTGC
1 AAATTATTAGAAATTTTGC
958325 AAATTATTA-AAA-TTTG-
1 AAATTATTAGAAATTTTGC
958341 AAATTATT
1 AAATTATT
958349 TTTTAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
17 4 0.17
18 3 0.13
19 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (19 bp):
AAATTATTAGAAATTTTGC
Found at i:975483 original size:31 final size:31
Alignment explanation
Indices: 975441--975499 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
975431 AATTTAAAAG
* *
975441 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
975472 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
975500 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:975550 original size:22 final size:22
Alignment explanation
Indices: 975524--975566 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
975514 TAATAAATTA
975524 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
975546 TTTAAAATAAATCAGTCCATA
1 TTTAAAATAAATCAATCCATA
975567 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:975575 original size:22 final size:22
Alignment explanation
Indices: 975526--975574 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
975516 ATAAATTATT
**
975526 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
975548 TAAAATAAATCAGTCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
975571 TAAA
1 TAAA
975575 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:975578 original size:54 final size:54
Alignment explanation
Indices: 975514--975822 Score: 361
Period size: 54 Copynumber: 5.6 Consensus size: 54
975504 ACAACTACAA
*
975514 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAGTCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
975568 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * **
975622 TAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * * * * *
975679 TTTTAAAATAAAT-CAATCAATCCATACAAATAAATTATTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATAC
975738 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
975792 TAATAAATTATTTAAAATAAATCAATACATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
975823 CAACTACAAT
Statistics
Matches: 213, Mismatches: 32, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
54 132 0.62
55 1 0.00
56 10 0.05
57 15 0.07
58 34 0.16
59 12 0.06
60 9 0.04
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:975584 original size:32 final size:31
Alignment explanation
Indices: 975546--975978 Score: 306
Period size: 32 Copynumber: 15.4 Consensus size: 31
975536 CAATCCATAT
*
975546 TTTAAAATAAATCAGTCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
975578 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
975600 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
975632 TTTAAAATAAATCAATCTATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
**
975662 --T--AATAAATCAATCCATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
* *
975687 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
975716 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
975748 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
975770 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
975802 TTTAAAATAAATCAATACATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
975832 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
975850 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
975882 TTTAAAATAAATCAAT---T-C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
975904 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
975936 TTTAAAATAAATTAATCCATACTAATAAATA
1 TTTAAAATAAATCAATCCATACTAATAAATA
975967 TTTAAAATAAAT
1 TTTAAAATAAAT
975979 TATTTTAAAA
Statistics
Matches: 327, Mismatches: 19, Indels: 111
0.72 0.04 0.24
Matches are distributed among these distances:
20 1 0.00
22 62 0.19
23 6 0.02
24 5 0.02
25 7 0.02
26 53 0.16
27 4 0.01
28 11 0.03
29 2 0.01
30 5 0.02
31 24 0.07
32 147 0.45
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:975604 original size:22 final size:22
Alignment explanation
Indices: 975578--975620 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
975568 TAATAAATTA
975578 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
975600 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
975621 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:975629 original size:22 final size:22
Alignment explanation
Indices: 975580--975628 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
975570 ATAAATTATT
**
975580 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
975602 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
975625 TAAA
1 TAAA
975629 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:975678 original size:80 final size:80
Alignment explanation
Indices: 975583--975897 Score: 465
Period size: 80 Copynumber: 3.8 Consensus size: 80
975573 AATTATTTAA
*
975583 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
975648 CTATACAACTACAAT
66 CTATACAACTACAAT
*
975663 AATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAAT--A--AATCAATCCATACTAATAAATTATTTAAAATAAAT
*
975728 CAAT-TCATACTAA-TAAATTATTT
62 CAATCT-ATAC-AACTACA--A--T
975751 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
975816 ATAC-ATACAACTACAAT
64 AT-CTATACAACTACAAT
975833 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
975898 TCATATTTTA
Statistics
Matches: 215, Mismatches: 5, Indels: 30
0.86 0.02 0.12
Matches are distributed among these distances:
80 90 0.42
82 2 0.01
83 1 0.00
84 45 0.21
85 4 0.02
86 46 0.21
88 2 0.01
90 25 0.12
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CTATACAACTACAAT
Found at i:975713 original size:26 final size:26
Alignment explanation
Indices: 975636--975713 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
975626 AAATTATTTA
* *
975636 AAATAAATCAATCTATACAACTACAAT
1 AAATAAATCAATCCATACAAATA-AAT
***
975663 -AATAAATCAATCCATA-TTTTAAAAT
1 AAATAAATCAATCCATACAAAT-AAAT
*
975688 AAATCAATCAATCCATACAAATAAAT
1 AAATAAATCAATCCATACAAATAAAT
975714 TATTTAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
25 4 0.10
26 35 0.88
27 1 0.03
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (26 bp):
AAATAAATCAATCCATACAAATAAAT
Found at i:975725 original size:14 final size:14
Alignment explanation
Indices: 975706--975759 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
975696 CAATCCATAC
975706 AAATAAATTATTTA
1 AAATAAATTATTTA
*
975720 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
975737 CTAATAAATTATTTA
1 -AAATAAATTATTTA
975752 AAATAAAT
1 AAATAAAT
975760 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 5 0.16
17 5 0.16
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Done.