Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 46 of 51
Found at i:8892789 original size:41 final size:41
Alignment explanation
Indices: 8892712--8892790 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
8892702 GATGATTATA
* * *
8892712 TCCTTCGGGTCATCTATAAGCCTTTTGAGTAAGATGTTAAG
1 TCCTTCGGGCCATCCATAAGCCTTTCGAGTAAGATGTTAAG
* *
8892753 TCCTTCGGGCCATCCATAAGACC-TTCGGGTAGGATGTT
1 TCCTTCGGGCCATCCATAAG-CCTTTCGAGTAAGATGTT
8892791 TTCACACCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 30 0.94
42 2 0.06
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (41 bp):
TCCTTCGGGCCATCCATAAGCCTTTCGAGTAAGATGTTAAG
Found at i:8893089 original size:17 final size:18
Alignment explanation
Indices: 8893067--8893132 Score: 75
Period size: 17 Copynumber: 3.8 Consensus size: 18
8893057 ATAAATATTA
8893067 TATAATAATTATT-GTAT
1 TATAATAATTATTAGTAT
*
8893084 TATAATAATTATTATTAT
1 TATAATAATTATTAGTAT
* *
8893102 TATAA-AATTATAATTAT
1 TATAATAATTATTAGTAT
8893119 TATTAAT-ATTATTA
1 TA-TAATAATTATTA
8893133 TTTTACAACG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
17 26 0.60
18 17 0.40
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TATAATAATTATTAGTAT
Found at i:8895616 original size:23 final size:22
Alignment explanation
Indices: 8895571--8895621 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
8895561 GAGGTTTTCT
8895571 AAAATCATATTATTTTTAATTA
1 AAAATCATATTATTTTTAATTA
* *
8895593 AAAATCATATTGTTTTTAATTT
1 AAAATCATATTATTTTTAATTA
8895615 AAAATCA
1 AAAATCA
8895622 AACCTGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (22 bp):
AAAATCATATTATTTTTAATTA
Found at i:8896813 original size:17 final size:17
Alignment explanation
Indices: 8896791--8896825 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8896781 AACAAACATC
8896791 AAATTATATTTT-ATTTA
1 AAATTA-ATTTTGATTTA
8896808 AAATTAATTTTGATTTA
1 AAATTAATTTTGATTTA
8896825 A
1 A
8896826 TTTTAGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
AAATTAATTTTGATTTA
Found at i:8908686 original size:2 final size:2
Alignment explanation
Indices: 8908681--8908719 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
8908671 TTTAGGGTGG
8908681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8908720 TAATAACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8913352 original size:2 final size:2
Alignment explanation
Indices: 8913345--8913374 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8913335 TTTTATTTGA
*
8913345 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8913375 CATAATAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:8914511 original size:22 final size:22
Alignment explanation
Indices: 8914485--8914527 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8914475 ATTAAAAAAT
8914485 ATATTTTTAAACATTGATATTA
1 ATATTTTTAAACATTGATATTA
*
8914507 ATATTTTTAAATATTGATATT
1 ATATTTTTAAACATTGATATT
8914528 TTATTAATTA
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:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (22 bp):
ATATTTTTAAACATTGATATTA
Found at i:8914711 original size:2 final size:2
Alignment explanation
Indices: 8914704--8914729 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8914694 ACATACATAC
8914704 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8914730 TTCACCTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8923324 original size:26 final size:26
Alignment explanation
Indices: 8923295--8923344 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8923285 TTCTAACTAA
* *
8923295 TATTTATTTTTTAATTA-AAATAAAAG
1 TATTT-TTTATTAATGATAAATAAAAG
8923321 TATTTTTTATTAATGATAAATAAA
1 TATTTTTTATTAATGATAAATAAA
8923345 TTTATAACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
TATTTTTTATTAATGATAAATAAAAG
Found at i:8923457 original size:20 final size:19
Alignment explanation
Indices: 8923432--8923477 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8923422 TAAAAAGGTT
* *
8923432 TTAAACTTATAAATAATTTA
1 TTAAACATAT-AATAATATA
*
8923452 TTAAACATATAATTATATA
1 TTAAACATATAATAATATA
8923471 TTAAACA
1 TTAAACA
8923478 AAATTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAACATATAATAATATA
Found at i:8923484 original size:17 final size:19
Alignment explanation
Indices: 8923450--8923485 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8923440 ATAAATAATT
8923450 TATTAAACATATAATTATA
1 TATTAAACATATAATTATA
8923469 TATTAAACA-A-AATTATA
1 TATTAAACATATAATTATA
8923486 AAATAAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAAACATATAATTATA
Found at i:8923492 original size:17 final size:17
Alignment explanation
Indices: 8923462--8923513 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 17
8923452 TTAAACATAT
* *
8923462 AATTATATATTAAACAA
1 AATTATAAAATAAACAA
8923479 AATTATAAAATAAAC-A
1 AATTATAAAATAAACAA
*
8923495 CATTATAAAAT-AACAA
1 AATTATAAAATAAACAA
8923511 AAT
1 AAT
8923514 GAGGATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 3 0.10
16 14 0.47
17 13 0.43
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (17 bp):
AATTATAAAATAAACAA
Found at i:8928014 original size:31 final size:31
Alignment explanation
Indices: 8927977--8928067 Score: 89
Period size: 31 Copynumber: 2.9 Consensus size: 31
8927967 AATTATATTT
8927977 TTTATTTTATTTATTATTATGT-TTTCATTAG
1 TTTATTTTATTTATTATTATGTATTT-ATTAG
* * *
8928008 TTTA-TTTATTATATAATTATGTATTTTTTAT
1 TTTATTTTATT-TATTATTATGTATTTATTAG
* *
8928039 TTTATTTT-TTTCTTATTTATCTATTTATT
1 TTTATTTTATTTATTA-TTATGTATTTATT
8928068 TATTATGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
30 9 0.18
31 34 0.69
32 6 0.12
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (31 bp):
TTTATTTTATTTATTATTATGTATTTATTAG
Found at i:8928139 original size:2 final size:2
Alignment explanation
Indices: 8928121--8928160 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
8928111 TTTTTACCTA
*
8928121 AT AT AC AT AT A- AT AT AT AT AT AT -T AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8928160 A
1 A
8928161 CATTACTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8928149 original size:16 final size:16
Alignment explanation
Indices: 8928128--8928159 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8928118 CTAATATACA
8928128 TATAATATATATATAT
1 TATAATATATATATAT
8928144 TATAATATATATATAT
1 TATAATATATATATAT
8928160 ACATTACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATAATATATATATAT
Found at i:8928365 original size:16 final size:16
Alignment explanation
Indices: 8928344--8928398 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
8928334 CATTTAATAA
*
8928344 ATAAACGAACATGAAC
1 ATAAACGAACACGAAC
*
8928360 ATAAACAAACACGAAC
1 ATAAACGAACACGAAC
* *
8928376 ATAAATGAACACAAAC
1 ATAAACGAACACGAAC
8928392 ATAAACG
1 ATAAACG
8928399 TTGGAGACCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.60, C:0.20, G:0.09, T:0.11
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:8929508 original size:14 final size:14
Alignment explanation
Indices: 8929491--8929522 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8929481 AATGAACATA
8929491 AACGAACATAACCG
1 AACGAACATAACCG
*
8929505 AACGAACATAACTG
1 AACGAACATAACCG
8929519 AACG
1 AACG
8929523 TTCACGAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:8931595 original size:19 final size:19
Alignment explanation
Indices: 8931573--8931616 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8931563 TAAACAAGAC
* *
8931573 AATATAATATTATCATAAT
1 AATATAACATTATAATAAT
*
8931592 AATATTACATTATAATAAT
1 AATATAACATTATAATAAT
*
8931611 ATTATA
1 AATATA
8931617 TCTAAAGGTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
AATATAACATTATAATAAT
Found at i:8940338 original size:21 final size:21
Alignment explanation
Indices: 8940312--8940357 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
8940302 TGAAATGTGG
8940312 GGTGGGTTGTGCATGCATCTA
1 GGTGGGTTGTGCATGCATCTA
8940333 GGTGGGTTGTGCATGCATCTA
1 GGTGGGTTGTGCATGCATCTA
8940354 GGTG
1 GGTG
8940358 TCTTGCTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.41, T:0.33
Consensus pattern (21 bp):
GGTGGGTTGTGCATGCATCTA
Found at i:8943926 original size:59 final size:60
Alignment explanation
Indices: 8943857--8943996 Score: 221
Period size: 59 Copynumber: 2.4 Consensus size: 60
8943847 CAAAAATTTT
8943857 GGACCAATTTAGAATGAGGGTCATAGTTTAGGGATGAAATCAAAATATTC-AAAGTATAA
1 GGACCAATTTAGAATGAGGGTCATAGTTTAGGGATGAAATCAAAATATTCAAAAGTATAA
* * * *
8943916 GGACTAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATTAAAATATTCAAAAGTTTAA
1 GGACCAATTTAGAATGAGGGTCATAGTTTAGGGATGAAATCAAAATATTCAAAAGTATAA
8943976 GGACCAATTTTA-AATGAGGGT
1 GGACCAA-TTTAGAATGAGGGT
8943997 TATAATTTGG
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
59 47 0.64
60 22 0.30
61 4 0.05
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (60 bp):
GGACCAATTTAGAATGAGGGTCATAGTTTAGGGATGAAATCAAAATATTCAAAAGTATAA
Found at i:8946853 original size:28 final size:28
Alignment explanation
Indices: 8946781--8946859 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
8946771 ACCCTTTATT
* *
8946781 CAATGTATGTCTTTTTTTCTACAATTTCC
1 CAATGTATGTGTATTTTT-TACAATTTCC
* *
8946810 TAATGTAAT-TGCATTTTTTACAATTTCC
1 CAATGT-ATGTGTATTTTTTACAATTTCC
*
8946838 CAATGTATGTGTATTTTCTACA
1 CAATGTATGTGTATTTTTTACA
8946860 TAAATTTCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
27 2 0.05
28 26 0.63
29 11 0.27
30 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.49
Consensus pattern (28 bp):
CAATGTATGTGTATTTTTTACAATTTCC
Found at i:8946948 original size:25 final size:26
Alignment explanation
Indices: 8946919--8947038 Score: 102
Period size: 25 Copynumber: 4.7 Consensus size: 26
8946909 ATCGAACCTT
*
8946919 ACCCTAAACCACTTTAACC-TACACA
1 ACCCTAAACCACTTTAACCTTACAAA
** * * *
8946944 ACCCTTGACCACTCTCACCTTAAAAA
1 ACCCTAAACCACTTTAACCTTACAAA
8946970 ACCCTAAACCACTTTAACC-TACAAA
1 ACCCTAAACCACTTTAACCTTACAAA
* ** * *
8946995 ATCCTTCACCACTTTTACCTTA-ACGA
1 ACCCTAAACCACTTTAACCTTACA-AA
*
8947021 ACCCTATACCACTTTAAC
1 ACCCTAAACCACTTTAAC
8947039 TAAAATCACT
Statistics
Matches: 72, Mismatches: 20, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
25 36 0.50
26 36 0.50
ACGTcount: A:0.36, C:0.38, G:0.02, T:0.25
Consensus pattern (26 bp):
ACCCTAAACCACTTTAACCTTACAAA
Found at i:8946985 original size:51 final size:51
Alignment explanation
Indices: 8946919--8947038 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
8946909 ATCGAACCTT
* *
8946919 ACCCTAAACCACTTTAACCTACACAACCCTTGACCACTCTCACCTTAAAAA
1 ACCCTAAACCACTTTAACCTACAAAACCCTTCACCACTCTCACCTTAAAAA
* * * **
8946970 ACCCTAAACCACTTTAACCTACAAAATCCTTCACCACTTTTACCTTAACGA
1 ACCCTAAACCACTTTAACCTACAAAACCCTTCACCACTCTCACCTTAAAAA
*
8947021 ACCCTATACCACTTTAAC
1 ACCCTAAACCACTTTAAC
8947039 TAAAATCACT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.36, C:0.38, G:0.02, T:0.25
Consensus pattern (51 bp):
ACCCTAAACCACTTTAACCTACAAAACCCTTCACCACTCTCACCTTAAAAA
Found at i:8947486 original size:18 final size:19
Alignment explanation
Indices: 8947450--8947486 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
8947440 CACGGAATGT
8947450 AAGATTACCAGTAGGAATAA
1 AAGATTACCAG-AGGAATAA
8947470 AAGATTACCAG-GGAATA
1 AAGATTACCAGAGGAATA
8947487 GGATTACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGAGGAATAA
Found at i:8947709 original size:37 final size:36
Alignment explanation
Indices: 8947637--8947710 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
8947627 GTTGGAAAAT
* *
8947637 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
*
8947673 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTGAAAATCATAAA
8947710 A
1 A
8947711 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:8963791 original size:5 final size:5
Alignment explanation
Indices: 8963783--8963883 Score: 78
Period size: 5 Copynumber: 19.8 Consensus size: 5
8963773 ATAAGTACCT
** * * * *
8963783 AATAA AATAA AATTT ACTAAA AATTA AATGA AATAA AATAA AATATA AATGA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AATA-A AATAA
** * *
8963835 AAT-A AATAA AATAA AATAA AATTT ACTAAA AATAA AATAA AATGA AATA
1 AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AATA
8963884 GGTTGCCTCC
Statistics
Matches: 74, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
4 4 0.05
5 62 0.84
6 8 0.11
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (5 bp):
AATAA
Found at i:8963811 original size:21 final size:20
Alignment explanation
Indices: 8963783--8963883 Score: 87
Period size: 21 Copynumber: 5.0 Consensus size: 20
8963773 ATAAGTACCT
* *
8963783 AATAAAATAAAATTTACTAAA
1 AATAAAATAAAATTAAAT-AA
* * *
8963804 AATTAAATGAAATAAAATAA
1 AATAAAATAAAATTAAATAA
*
8963824 AATATAAATGAAA-TAAATAA
1 AATA-AAATAAAATTAAATAA
* *
8963844 AATAAAATAAAATTTACTAAA
1 AATAAAATAAAATTAAAT-AA
*
8963865 AATAAAATAAAATGAAATA
1 AATAAAATAAAATTAAATA
8963884 GGTTGCCTCC
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
19 7 0.11
20 19 0.30
21 38 0.59
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (20 bp):
AATAAAATAAAATTAAATAA
Found at i:8967163 original size:13 final size:13
Alignment explanation
Indices: 8967145--8967171 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8967135 TGAGGACTAA
8967145 CTACGACTATCGT
1 CTACGACTATCGT
8967158 CTACGACTATCGT
1 CTACGACTATCGT
8967171 C
1 C
8967172 GTCAACACCA
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:0.33, G:0.15, T:0.30
Consensus pattern (13 bp):
CTACGACTATCGT
Found at i:8974928 original size:7 final size:7
Alignment explanation
Indices: 8974916--8974940 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8974906 ATATGCAACC
8974916 TTTTCTA
1 TTTTCTA
8974923 TTTTCTA
1 TTTTCTA
8974930 TTTTCTA
1 TTTTCTA
8974937 TTTT
1 TTTT
8974941 AATTTACTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCTA
Found at i:8980948 original size:22 final size:22
Alignment explanation
Indices: 8980910--8980954 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
8980900 AATGAGTATT
*
8980910 ACATGATAAATTTTTTAAGTGA
1 ACATGATAAATTTTTTAAATGA
8980932 ACATGATAACA-TTTTTAAATGA
1 ACATGATAA-ATTTTTTAAATGA
8980954 A
1 A
8980955 ATTGTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (22 bp):
ACATGATAAATTTTTTAAATGA
Found at i:8982570 original size:29 final size:28
Alignment explanation
Indices: 8982533--8982592 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
8982523 TTTATATTTT
* * * *
8982533 AAAGTTAAATAATTTCTTAATTTTTCTA
1 AAAGTTAAATAAGTTCTCAAATTTTATA
8982561 AAAGATTAAATAAGTTCTCAAATTTTATA
1 AAAG-TTAAATAAGTTCTCAAATTTTATA
8982590 AAA
1 AAA
8982593 AAATCAACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (28 bp):
AAAGTTAAATAAGTTCTCAAATTTTATA
Found at i:8983138 original size:22 final size:20
Alignment explanation
Indices: 8983103--8983150 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
8983093 AGTTTAATTA
*
8983103 TTTATTAACTATTTGTTCATT
1 TTTATTAACAATTT-TTCATT
*
8983124 TTTATTTAACAATTTTTTA-T
1 TTTA-TTAACAATTTTTCATT
8983144 TTTATTA
1 TTTATTA
8983151 TTTTTATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 5 0.21
21 7 0.29
22 9 0.38
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTATTAACAATTTTTCATT
Found at i:8999935 original size:17 final size:17
Alignment explanation
Indices: 8999913--8999945 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8999903 AAATTTAAGA
*
8999913 AAATTCTATCTAACTTG
1 AAATTCGATCTAACTTG
8999930 AAATTCGATCTAACTT
1 AAATTCGATCTAACTT
8999946 TTGAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATTCGATCTAACTTG
Found at i:9000061 original size:34 final size:32
Alignment explanation
Indices: 9000023--9000095 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 32
9000013 CTTAATTTAA
9000023 AAATATATAAAAATAT-ATTATTATAATTATCTCT
1 AAATAT-TAAAAATATAATTA-TATAATTATC-CT
* * *
9000057 AAATATTTAAAATATAATTATATTATTATCGT
1 AAATATTAAAAATATAATTATATAATTATCCT
9000089 AAATATT
1 AAATATT
9000096 TTTCACCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 8 0.23
33 17 0.49
34 10 0.29
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (32 bp):
AAATATTAAAAATATAATTATATAATTATCCT
Found at i:9000069 original size:33 final size:32
Alignment explanation
Indices: 9000023--9000096 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 32
9000013 CTTAATTTAA
*
9000023 AAATATATAAAA-ATATATTATTATAATTATCTCT
1 AAATATTTAAAATATA-ATTA-TATAATTATC-CT
* *
9000057 AAATATTTAAAATATAATTATATTATTATCGT
1 AAATATTTAAAATATAATTATATAATTATCCT
9000089 AAATATTT
1 AAATATTT
9000097 TTCACCTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 9 0.25
33 9 0.25
34 15 0.42
35 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (32 bp):
AAATATTTAAAATATAATTATATAATTATCCT
Found at i:9007827 original size:200 final size:200
Alignment explanation
Indices: 9007484--9007883 Score: 746
Period size: 200 Copynumber: 2.0 Consensus size: 200
9007474 CCTTGACTCC
*
9007484 ATCAGCATACCCCAAGAATTTTCATTTCCTGGATTTTGGATCAAACTTTAAGTTTTCTTGAGAGT
1 ATCAGCATACCCCAAGAATTTACATTTCCTGGATTTTGGATCAAACTTTAAGTTTTCTTGAGAGT
9007549 TGTTTTCTCCTTTTTATCAAGAGAGAATTATATTGTTTTCTCCTTGGTAGATTGAGAGAAGTTGT
66 TGTTTTCTCCTTTTTATCAAGAGAGAATTATATTGTTTTCTCCTTGGTAGATTGAGAGAAGTTGT
* *
9007614 AATTCATATTTTCTCATAGTGAAATTCTTCTACCGTTGCCCGTGGTTTTTACCCTATATGTGTGC
131 AATTCATATTTTCTCATAGTAAAATTCTTCTACCGTTGCCCGTGGGTTTTACCCTATATGTGTGC
9007679 TACAT
196 TACAT
*
9007684 ATCAGCATACCCCAAGAATTTACATTTCCTGGATTTTGGATCCAACTTTAAGTTTTCTTGAGAGT
1 ATCAGCATACCCCAAGAATTTACATTTCCTGGATTTTGGATCAAACTTTAAGTTTTCTTGAGAGT
*
9007749 TGTTTTCTCCTTTTTATCAAGAGAGAATTATATTGTTTTCTCTTTGGTAGATTGAGAGAAGTTGT
66 TGTTTTCTCCTTTTTATCAAGAGAGAATTATATTGTTTTCTCCTTGGTAGATTGAGAGAAGTTGT
*
9007814 AATTCCTATTTTCTCATAGTAAAATTCTTCTACCGTTGCCCGTGGGTTTTACCCTATATGTGTGC
131 AATTCATATTTTCTCATAGTAAAATTCTTCTACCGTTGCCCGTGGGTTTTACCCTATATGTGTGC
9007879 TACAT
196 TACAT
9007884 TGAACTTACA
Statistics
Matches: 194, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 194 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (200 bp):
ATCAGCATACCCCAAGAATTTACATTTCCTGGATTTTGGATCAAACTTTAAGTTTTCTTGAGAGT
TGTTTTCTCCTTTTTATCAAGAGAGAATTATATTGTTTTCTCCTTGGTAGATTGAGAGAAGTTGT
AATTCATATTTTCTCATAGTAAAATTCTTCTACCGTTGCCCGTGGGTTTTACCCTATATGTGTGC
TACAT
Found at i:9011201 original size:24 final size:24
Alignment explanation
Indices: 9011174--9011224 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
9011164 CAGAAAGTCG
9011174 CGACCTATGCACCTTCCATCCCAC
1 CGACCTATGCACCTTCCATCCCAC
*
9011198 CGACCTATGCACCTTTCATCCCAC
1 CGACCTATGCACCTTCCATCCCAC
9011222 CGA
1 CGA
9011225 TCCAACTGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.47, G:0.10, T:0.22
Consensus pattern (24 bp):
CGACCTATGCACCTTCCATCCCAC
Found at i:9011312 original size:10 final size:10
Alignment explanation
Indices: 9011293--9011326 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
9011283 TTCATCACAC
9011293 CAAATCCTCT
1 CAAATCCTCT
*
9011303 CAAATTCTCT
1 CAAATCCTCT
9011313 CAAATCCTCT
1 CAAATCCTCT
9011323 CAAA
1 CAAA
9011327 AACCATACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (10 bp):
CAAATCCTCT
Found at i:9011380 original size:17 final size:18
Alignment explanation
Indices: 9011360--9011393 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9011350 TTTATAAGGT
9011360 ATATTTTGTTA-TATTTA
1 ATATTTTGTTAGTATTTA
9011377 ATATTTTGTTAGTATTT
1 ATATTTTGTTAGTATTT
9011394 TATTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (18 bp):
ATATTTTGTTAGTATTTA
Found at i:9013746 original size:15 final size:16
Alignment explanation
Indices: 9013726--9013758 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9013716 AACATTATAT
9013726 CCGGAA-ATAAGATTA
1 CCGGAATATAAGATTA
*
9013741 CCGGAATGTAAGATTA
1 CCGGAATATAAGATTA
9013757 CC
1 CC
9013759 TAACACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (16 bp):
CCGGAATATAAGATTA
Found at i:9018074 original size:20 final size:20
Alignment explanation
Indices: 9018049--9018087 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9018039 TGCACGTAAA
*
9018049 AGGGAATTCACGTGGTGAGC
1 AGGGAATTCACGGGGTGAGC
9018069 AGGGAATTCACGGGGTGAG
1 AGGGAATTCACGGGGTGAG
9018088 TTGATAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.44, T:0.18
Consensus pattern (20 bp):
AGGGAATTCACGGGGTGAGC
Found at i:9018163 original size:30 final size:32
Alignment explanation
Indices: 9018127--9018208 Score: 114
Period size: 33 Copynumber: 2.6 Consensus size: 32
9018117 TAGAGGATGT
* *
9018127 CTCGGCGTCTTCTTCAC-TTT-GGGTGGATTA
1 CTCGGCGTTTTCTTCACATTTGGGGTGGAATA
*
9018157 CTCGGCGTTTTCTTCACAATTTGGGGTGGAATG
1 CTCGGCGTTTTCTTCAC-ATTTGGGGTGGAATA
9018190 CTCGGCGTTTTCTTCACAT
1 CTCGGCGTTTTCTTCACAT
9018209 GGGAGGGGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
30 16 0.35
32 5 0.11
33 25 0.54
ACGTcount: A:0.12, C:0.23, G:0.26, T:0.39
Consensus pattern (32 bp):
CTCGGCGTTTTCTTCACATTTGGGGTGGAATA
Found at i:9018366 original size:26 final size:30
Alignment explanation
Indices: 9018316--9018371 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
9018306 GAGATAACAC
9018316 AAGCAAAGAGAGTGAGAGGAAGGAT-ATCAG
1 AAGCAAAGAGAGT-AGAGGAAGGATCATCAG
9018346 AAGCAAAGAGAGT-GA-G-AGGATCATCA
1 AAGCAAAGAGAGTAGAGGAAGGATCATCA
9018372 TCGTAGTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 5 0.20
27 5 0.20
28 2 0.08
30 13 0.52
ACGTcount: A:0.46, C:0.09, G:0.34, T:0.11
Consensus pattern (30 bp):
AAGCAAAGAGAGTAGAGGAAGGATCATCAG
Found at i:9018463 original size:13 final size:13
Alignment explanation
Indices: 9018445--9018470 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9018435 TTAAGGTTTA
9018445 GTGATTATATGTT
1 GTGATTATATGTT
9018458 GTGATTATATGTT
1 GTGATTATATGTT
9018471 ATTACATTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
GTGATTATATGTT
Found at i:9020593 original size:14 final size:14
Alignment explanation
Indices: 9020568--9020755 Score: 103
Period size: 14 Copynumber: 14.9 Consensus size: 14
9020558 ATCCCACCAG
*
9020568 AATCTTTAAAGTTA
1 AATCATTAAAGTTA
*
9020582 AATCATTGAAG-T-
1 AATCATTAAAGTTA
*
9020594 AATTATT--A-TTA
1 AATCATTAAAGTTA
*
9020605 AATCATTAAAATTA
1 AATCATTAAAGTTA
9020619 AATCATTAAAG-T-
1 AATCATTAAAGTTA
*
9020631 AATTATT--A-TTA
1 AATCATTAAAGTTA
9020642 AATCATTAAAGTTA
1 AATCATTAAAGTTA
* * *
9020656 AGTAATTATTA-TTA
1 AATCATTA-AAGTTA
9020670 AATCATTAAAG-T-
1 AATCATTAAAGTTA
*
9020682 AATTATT--A-TTA
1 AATCATTAAAGTTA
*
9020693 AATCATTAAAATTA
1 AATCATTAAAGTTA
*
9020707 AATCATTAGAG-T-
1 AATCATTAAAGTTA
*
9020719 AATTATT--A-TTA
1 AATCATTAAAGTTA
*
9020730 AATTATTAAAGTTA
1 AATCATTAAAGTTA
9020744 AATCATTAAAGT
1 AATCATTAAAGT
9020756 AATTGAAATA
Statistics
Matches: 133, Mismatches: 19, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
10 8 0.06
11 25 0.19
12 24 0.18
13 9 0.07
14 66 0.50
15 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (14 bp):
AATCATTAAAGTTA
Found at i:9020623 original size:37 final size:37
Alignment explanation
Indices: 9020568--9020656 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
9020558 ATCCCACCAG
* *
9020568 AATCTTTAAAGTTAAATCATTGAAGTAATTATTATTA
1 AATCATTAAAGTTAAATCATTAAAGTAATTATTATTA
*
9020605 AATCATTAAAATTAAATCATTAAAGTAATTATTATTA
1 AATCATTAAAGTTAAATCATTAAAGTAATTATTATTA
9020642 AATCATTAAAGTTAA
1 AATCATTAAAGTTAA
9020657 GTAATTATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (37 bp):
AATCATTAAAGTTAAATCATTAAAGTAATTATTATTA
Found at i:9020641 original size:23 final size:23
Alignment explanation
Indices: 9020615--9020702 Score: 131
Period size: 23 Copynumber: 3.6 Consensus size: 23
9020605 AATCATTAAA
9020615 ATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAAGTAATTATT
9020638 ATTAAATCATTAAAGTTAAGTAATTATT
1 ATTAAATCATT--A---AAGTAATTATT
9020666 ATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAAGTAATTATT
9020689 ATTAAATCATTAAA
1 ATTAAATCATTAAA
9020703 ATTAAATCAT
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
23 36 0.60
25 1 0.02
26 1 0.02
28 22 0.37
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (23 bp):
ATTAAATCATTAAAGTAATTATT
Found at i:9020708 original size:37 final size:37
Alignment explanation
Indices: 9020666--9020759 Score: 161
Period size: 37 Copynumber: 2.5 Consensus size: 37
9020656 AGTAATTATT
9020666 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
* *
9020703 ATTAAATCATTAGAGTAATTATTATTAAATTATTAAA
1 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
*
9020740 GTTAAATCATTAAAGTAATT
1 ATTAAATCATTAAAGTAATT
9020760 GAAATATAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.41
Consensus pattern (37 bp):
ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
Found at i:9020728 original size:88 final size:88
Alignment explanation
Indices: 9020579--9020744 Score: 305
Period size: 88 Copynumber: 1.9 Consensus size: 88
9020569 ATCTTTAAAG
*
9020579 TTAAATCATTGAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAA
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAA
9020644 TCATTAAAGTTAAGTAATTATTA
66 TCATTAAAGTTAAGTAATTATTA
*
9020667 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAGAGTAATTATTATTAAA
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAA
*
9020732 TTATTAAAGTTAA
66 TCATTAAAGTTAA
9020745 ATCATTAAAG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (88 bp):
TTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAA
TCATTAAAGTTAAGTAATTATTA
Found at i:9024307 original size:32 final size:32
Alignment explanation
Indices: 9024268--9024353 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 32
9024258 ATGATGCTGA
9024268 TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
1 TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
* * *
9024300 TGAAGAAGACGCCAAGAACTCTACCCCAAGGT
1 TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
*
9024332 TGAAGAAGACGCCGAGAGCTCC
1 TGAAGAAGACGCCGAGAACTCC
9024354 CATGAACATC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.35, C:0.30, G:0.26, T:0.09
Consensus pattern (32 bp):
TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
Found at i:9024393 original size:40 final size:40
Alignment explanation
Indices: 9024338--9024418 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
9024328 AGGTTGAAGA
9024338 AGACGCCGAGAGCTCCCATGAACATCTTTTGAACGAACAT
1 AGACGCCGAGAGCTCCCATGAACATCTTTTGAACGAACAT
*
9024378 AGACGCCGAGAGCTCCCATGAACATCTTTTGAACTAACAT
1 AGACGCCGAGAGCTCCCATGAACATCTTTTGAACGAACAT
9024418 A
1 A
9024419 TATAGAAGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (40 bp):
AGACGCCGAGAGCTCCCATGAACATCTTTTGAACGAACAT
Found at i:9025599 original size:31 final size:30
Alignment explanation
Indices: 9025564--9025625 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
9025554 CAACCGATAA
* *
9025564 TTTATATAAAGTTTATGAGTTAAAGTAATAT
1 TTTATATAAAGTTTAAG-GTCAAAGTAATAT
* *
9025595 TTTATCTAAATTTTAAGGTCAAAGTAATAT
1 TTTATATAAAGTTTAAGGTCAAAGTAATAT
9025625 T
1 T
9025626 ATAATAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.45
Consensus pattern (30 bp):
TTTATATAAAGTTTAAGGTCAAAGTAATAT
Found at i:9037862 original size:39 final size:39
Alignment explanation
Indices: 9037818--9037910 Score: 186
Period size: 39 Copynumber: 2.4 Consensus size: 39
9037808 TGCCTTATTT
9037818 TTTCGAAAATTGTTTAATGGATTTGAATCTTACTCATTC
1 TTTCGAAAATTGTTTAATGGATTTGAATCTTACTCATTC
9037857 TTTCGAAAATTGTTTAATGGATTTGAATCTTACTCATTC
1 TTTCGAAAATTGTTTAATGGATTTGAATCTTACTCATTC
9037896 TTTCGAAAATTGTTT
1 TTTCGAAAATTGTTT
9037911 TGTTATTGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (39 bp):
TTTCGAAAATTGTTTAATGGATTTGAATCTTACTCATTC
Found at i:9041293 original size:198 final size:198
Alignment explanation
Indices: 9040422--9041980 Score: 3031
Period size: 198 Copynumber: 7.9 Consensus size: 198
9040412 TATTTAAATT
9040422 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
9040487 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
9040552 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
9040617 AAA
196 AAA
9040620 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
9040685 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
9040749 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
9040814 AAA
196 AAA
9040817 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
9040882 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
9040947 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
9041011 AAA
196 AAA
9041014 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
9041079 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
9041144 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
9041209 AAA
196 AAA
9041212 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
9041277 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTCTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
9041342 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
9041406 AAA
196 AAA
9041409 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC--ATTCTCTCAT-AAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
9041471 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
9041536 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
9041601 AAA
196 AAA
9041604 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
9041669 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
9041734 ATCGACACTTTTTATATATGGATCGACCCTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
9041799 AAA
196 AAA
9041802 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
9041867 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
* *
9041932 ATTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
131 ATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
9041981 GGCCATATTG
Statistics
Matches: 1348, Mismatches: 6, Indels: 13
0.99 0.00 0.01
Matches are distributed among these distances:
194 81 0.06
195 112 0.08
197 506 0.38
198 611 0.45
199 38 0.03
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (198 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
AAA
Found at i:9042145 original size:19 final size:19
Alignment explanation
Indices: 9042099--9042147 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
9042089 TTATATTCAC
*
9042099 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
9042118 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
9042137 ATACAAAATTA
1 ATACAAAATTA
9042148 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:9043969 original size:33 final size:33
Alignment explanation
Indices: 9043932--9043997 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
9043922 CATCTTAATA
*
9043932 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
9043965 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
9043998 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:9044070 original size:21 final size:21
Alignment explanation
Indices: 9044030--9044094 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
9044020 CCCCTTATTC
* *
9044030 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
9044051 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
9044072 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
9044093 CT
1 CT
9044095 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:9046327 original size:17 final size:18
Alignment explanation
Indices: 9046305--9046347 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
9046295 ATATATCCGG
9046305 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
9046322 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
9046342 TATCAT
1 TATCAT
9046348 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:9046337 original size:20 final size:20
Alignment explanation
Indices: 9046310--9046356 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
9046300 TCCGGTATCA
9046310 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
9046329 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
9046350 TTTTACC
1 TTTTACC
9046357 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:9046504 original size:20 final size:20
Alignment explanation
Indices: 9046478--9046523 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
9046468 CACTTTTAAA
9046478 TTTACCGGTTTTAACAT-TT
1 TTTACCGGTTTTAACATATT
*
9046497 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTAACATATT
9046518 TTTACC
1 TTTACC
9046524 TGGTATATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (20 bp):
TTTACCGGTTTTAACATATT
Found at i:9047427 original size:6 final size:6
Alignment explanation
Indices: 9047416--9047454 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
9047406 TAACAACCAT
9047416 GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTG
1 GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTG
9047455 AGTGACGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.67, T:0.18
Consensus pattern (6 bp):
GTGGGA
Found at i:9051062 original size:34 final size:34
Alignment explanation
Indices: 9051019--9051088 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
9051009 CATAGTGATA
9051019 TTTGAATAATTGAAGCTACACCCCATCATCTTTT
1 TTTGAATAATTGAAGCTACACCCCATCATCTTTT
9051053 TTTGAATAATTGAAGCTACACCCCATCATCTTTT
1 TTTGAATAATTGAAGCTACACCCCATCATCTTTT
9051087 TT
1 TT
9051089 ATAGTTTGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (34 bp):
TTTGAATAATTGAAGCTACACCCCATCATCTTTT
Found at i:9053491 original size:19 final size:18
Alignment explanation
Indices: 9053455--9053499 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
9053445 AATGTCTAAC
9053455 AATAATAAAATTAATAAAA
1 AATAATAAAATTAAT-AAA
*
9053474 AATAATAAAA-TAGGTAAA
1 AATAATAAAATTA-ATAAA
9053492 AATAATAA
1 AATAATAA
9053500 TATTTTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (18 bp):
AATAATAAAATTAATAAA
Found at i:9060283 original size:223 final size:223
Alignment explanation
Indices: 9059801--9060388 Score: 732
Period size: 222 Copynumber: 2.6 Consensus size: 223
9059791 ATTACTATTA
* * *
9059801 CACATTGGATTTAAAACCTCAATTTTTTTTAAAGAATTATTACGTACCTCATTCTTATTTTGACA
1 CACATTGGATTTAAAACCTCAATTTTTTTTAAAGAATTATTACCT-CATTATTCTTATTTTGACA
* * *
9059866 CATCTAGCTATATGGAGGTAGAAAAAGGTTCCTATATTTTTTTACCATAATAAAACTATCCAAGG
65 CA-CTAGCTATATGGA-ATAGAAAGAGGTTCCTATATATTTTTACCATAATAAAACTATCCAAGG
** ** *
9059931 ATGAGATTACAAAATATAGGGAAGTCAAATTAACAACTTTAATTGGGACTCGTGATATAATGAGA
128 ATGAGATTAC-AAATATAGGGAAAACAAACCAACAACTTCAATTGGGACTCGTGATATAATGAGA
* *
9059996 CACTAAGTTTGTATTAGGGTCGAATCAAAAAT
192 CACTAAGTTTGGATTAGGGTCGAATAAAAAAT
* *
9060028 CACATTGGATTTAAAATCTCAATTTCTTTTAAAGAATTATTACCTCATTATTCTTATTTTGACAC
1 CACATTGGATTTAAAACCTCAATTTTTTTTAAAGAATTATTACCTCATTATTCTTATTTTGACAC
* *
9060093 A-T-GCTATATGGAATTAGAAAGAGTTTCCTATATCTTTTTACCATAATAAAACTATCCAAGGAT
66 ACTAGCTATATGGAA-TAGAAAGAGGTTCCTATATATTTTTACCATAATAAAACTATCCAAGGAT
* *
9060156 GAGATTAC-AATGATAGGGAAAACACACCAACAACTTCAATTGAGG-CTCGTGATATAATGAGAT
130 GAGATTACAAAT-ATAGGGAAAACAAACCAACAACTTCAATTG-GGACTCGTGATATAATGAGAC
*
9060219 ACTAAGTTTGGATTAGGGTCTAATAAAAAAT
193 ACTAAGTTTGGATTAGGGTCGAATAAAAAAT
* * *
9060250 CACATTGGATTCAAAACCTCAATTTTTTTT-TA-AA-TATTA-C-CACT-TTCTTATTTTGACAC
1 CACATTGGATTTAAAACCTCAATTTTTTTTAAAGAATTATTACCTCATTATTCTTATTTTGACAC
* *
9060309 ATCTAACTATATGGAGATA-AAAGGAGGTTCCTATATATATATTTTTGCCATAATAAAACTAT-C
66 A-CTAGCTATATGGA-ATAGAAA-GAGGTTCC----TATATATTTTTACCATAATAAAACTATCC
*
9060372 AAGGATGAGATTCCAAA
124 AAGGATGAGATTACAAA
9060389 CACAAGTTTG
Statistics
Matches: 319, Mismatches: 29, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
216 16 0.05
217 3 0.01
218 5 0.02
219 23 0.07
220 3 0.01
221 4 0.01
222 110 0.34
223 93 0.29
224 1 0.00
226 19 0.06
227 42 0.13
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (223 bp):
CACATTGGATTTAAAACCTCAATTTTTTTTAAAGAATTATTACCTCATTATTCTTATTTTGACAC
ACTAGCTATATGGAATAGAAAGAGGTTCCTATATATTTTTACCATAATAAAACTATCCAAGGATG
AGATTACAAATATAGGGAAAACAAACCAACAACTTCAATTGGGACTCGTGATATAATGAGACACT
AAGTTTGGATTAGGGTCGAATAAAAAAT
Found at i:9062329 original size:15 final size:15
Alignment explanation
Indices: 9062305--9062334 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9062295 ATGAGTTTAA
*
9062305 TTAGGTATATGAAAG
1 TTAGGAATATGAAAG
9062320 TTAGGAATATGAAAG
1 TTAGGAATATGAAAG
9062335 GGGTTGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (15 bp):
TTAGGAATATGAAAG
Found at i:9062540 original size:64 final size:63
Alignment explanation
Indices: 9062472--9062692 Score: 220
Period size: 64 Copynumber: 3.5 Consensus size: 63
9062462 TTGAAGGTGT
* * * *
9062472 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAAACTAA-ATACATCGAATGCAATTTGTG
1 ATCGATGCATAGGTAGTGCATCGATGCATC-CTATT-AA-TAAGAAACATCGAATGCAATTAGTG
9062535 C
63 C
9062536 ATCGATGCATCA-GTAGTGCATCGATGCATCCTATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCAT-AGGTAGTGCATCGATGCATCCTATTAATAA-GAAACATCGAATGCAATTAGTGC
* * * * * *
9062600 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTA-TG
1 ATCGATGCAT-AGGTAGTGCATCGATGCATCCTATTAATAAGA-AACATCGAATGCA-ATTAGTG
9062663 C
63 C
*
9062664 ACCGATGCATCA-GTAGTGCATCGATGCAT
1 ATCGATGCAT-AGGTAGTGCATCGATGCAT
9062693 ACATTCATTA
Statistics
Matches: 135, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
62 3 0.02
63 5 0.04
64 121 0.90
65 6 0.04
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (63 bp):
ATCGATGCATAGGTAGTGCATCGATGCATCCTATTAATAAGAAACATCGAATGCAATTAGTGC
Found at i:9063047 original size:18 final size:18
Alignment explanation
Indices: 9063012--9063047 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9063002 AAATTGGGTA
* *
9063012 CATATGTTATATGTATTG
1 CATATGTTACATGAATTG
9063030 CATATGTTACATGAATTG
1 CATATGTTACATGAATTG
9063048 AATGAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (18 bp):
CATATGTTACATGAATTG
Found at i:9067510 original size:15 final size:15
Alignment explanation
Indices: 9067486--9067515 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9067476 ATGAGTTTAA
*
9067486 TTAGGTATATGAAAG
1 TTAGGAATATGAAAG
9067501 TTAGGAATATGAAAG
1 TTAGGAATATGAAAG
9067516 GGGTTGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (15 bp):
TTAGGAATATGAAAG
Found at i:9067721 original size:64 final size:63
Alignment explanation
Indices: 9067653--9067873 Score: 211
Period size: 64 Copynumber: 3.5 Consensus size: 63
9067643 TTGAAGGTGT
* * * *
9067653 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAAACTAA-ATACATCGAATGCAATTTGTG
1 ATCGATGCATAGGTAGTGCATCGATGCATC-CTATT-AA-TAAGAAACATCGAATGCAATTAGTG
9067716 C
63 C
*
9067717 ATCGATGCATCA-ATAGTGCATCGATGCATCCTATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCAT-AGGTAGTGCATCGATGCATCCTATTAATAA-GAAACATCGAATGCAATTAGTGC
* * * * * *
9067781 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTA-TG
1 ATCGATGCAT-AGGTAGTGCATCGATGCATCCTATTAATAAGA-AACATCGAATGCA-ATTAGTG
9067844 C
63 C
*
9067845 ACCGATGCATCA-GTAGTGCATCGATGCAT
1 ATCGATGCAT-AGGTAGTGCATCGATGCAT
9067874 ACATTCATTA
Statistics
Matches: 133, Mismatches: 16, Indels: 16
0.81 0.10 0.10
Matches are distributed among these distances:
62 3 0.02
63 5 0.04
64 120 0.90
65 5 0.04
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (63 bp):
ATCGATGCATAGGTAGTGCATCGATGCATCCTATTAATAAGAAACATCGAATGCAATTAGTGC
Found at i:9069400 original size:22 final size:22
Alignment explanation
Indices: 9069372--9069415 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9069362 TTCGGGACAT
*
9069372 AGTGGTCCTACGAGACATATAC
1 AGTGGTCCTACGAGACAAATAC
*
9069394 AGTGGTCCTACGGGACAAATAC
1 AGTGGTCCTACGAGACAAATAC
9069416 TGAACTAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
AGTGGTCCTACGAGACAAATAC
Found at i:9077687 original size:16 final size:16
Alignment explanation
Indices: 9077658--9077688 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9077648 TGAATTTTTT
9077658 ATATTTTATATTTATC
1 ATATTTTATATTTATC
*
9077674 ATATTTTATTTTTAT
1 ATATTTTATATTTAT
9077689 AATTATATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
ATATTTTATATTTATC
Found at i:9084349 original size:31 final size:31
Alignment explanation
Indices: 9084313--9084371 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
9084303 AACTTAAAAG
* *
9084313 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
9084344 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
9084372 CCATACAAAT
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:9084447 original size:22 final size:22
Alignment explanation
Indices: 9084398--9084446 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9084388 ATAAATTATT
**
9084398 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
9084420 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
9084443 TAAA
1 TAAA
9084447 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:9084539 original size:32 final size:32
Alignment explanation
Indices: 9084498--9085077 Score: 332
Period size: 32 Copynumber: 19.4 Consensus size: 32
9084488 CAATCTACAT
*
9084498 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
9084530 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
9084562 TTTAAAATAAATC-A---ATAC--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
9084584 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
9084616 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
9084648 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
9084670 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
** * *
9084702 TTTAAAATAAATCAATCTTTACAACTACATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* * ** *
9084734 -AT-AAATCAATCTATAT-TTTA-AAATAAATCAA
1 TTTAAAATAAATC-A-ATCCATACAAATAAAT-TA
* * *
9084765 TCTATACAAATAAAT-TAT--TTA-AAATAAATCAA
1 T-T-TA-AAATAAATCAATCCATACAAATAAAT-TA
* * * * ** * * *
9084797 TCCATACTAATAAATTATTTAAAATAAATCAATCCATA
1 T--TTA-AAATAAATCAATCCATACAAATAAAT---TA
*
9084835 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACAAATAAATTA
* *
9084868 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
9084900 TTTAAAATAAATTAAT-C-T----AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
9084922 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* * *
9084954 TTTAAAATAAATCAATTCATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
9084984 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
9085002 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
9085034 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
9085066 TTTAAAATAAAT
1 TTTAAAATAAAT
9085078 TATTTTAAAA
Statistics
Matches: 443, Mismatches: 45, Indels: 120
0.73 0.07 0.20
Matches are distributed among these distances:
20 1 0.00
22 60 0.14
23 6 0.01
24 4 0.01
26 27 0.06
28 12 0.03
30 19 0.04
31 13 0.03
32 258 0.58
33 6 0.01
34 1 0.00
35 1 0.00
36 31 0.07
37 2 0.00
38 1 0.00
39 1 0.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:9084578 original size:22 final size:22
Alignment explanation
Indices: 9084553--9084599 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
9084543 AATCCATACT
9084553 AATAAAT-TATTTAAAATAAATC
1 AATAAATAT-TTTAAAATAAATC
*
9084575 AATACATATTTTAAAATAAATC
1 AATAAATATTTTAAAATAAATC
9084597 AAT
1 AAT
9084600 CCATACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAATATTTTAAAATAAATC
Found at i:9084604 original size:22 final size:22
Alignment explanation
Indices: 9084562--9084604 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9084552 TAATAAATTA
9084562 TTTAAAATAAATCAATACATAT
1 TTTAAAATAAATCAATACATAT
*
9084584 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATACATA
9084605 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:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:9084613 original size:22 final size:22
Alignment explanation
Indices: 9084564--9084612 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9084554 ATAAATTATT
**
9084564 TAAAATAAATCAATACATATTT
1 TAAAATAAATCAATACATATAA
*
9084586 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATACATA-TAA
9084609 TAAA
1 TAAA
9084613 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:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:9084626 original size:14 final size:14
Alignment explanation
Indices: 9084607--9084659 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
9084597 AATCCATACT
9084607 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
9084621 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
9084639 AATAAATTATTTAA
1 AATAAATTATTTAA
9084653 AATAAAT
1 AATAAAT
9084660 CAATCCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:9084674 original size:22 final size:22
Alignment explanation
Indices: 9084648--9084690 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9084638 TAATAAATTA
9084648 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
9084670 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
9084691 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:9084699 original size:22 final size:22
Alignment explanation
Indices: 9084650--9084698 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
9084640 ATAAATTATT
**
9084650 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
9084672 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
9084695 TAAA
1 TAAA
9084699 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:9084837 original size:252 final size:251
Alignment explanation
Indices: 9084387--9085159 Score: 1278
Period size: 252 Copynumber: 3.1 Consensus size: 251
9084377 CAAATACAAA
*
9084387 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
* *
9084452 TAAAATAAATCAATCCATACAACTACAATAATAAATCAATCTACATTTTAAAATAAATCAATCTA
66 TAAAATAAATCAATCTATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCTA
9084517 TACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACAT
131 TACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CAT
9084582 ATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACT
195 ATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACT
9084639 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
* *
9084704 TAAAATAAATCAATCTTTACAACTACATTAATAAATCAATCTATATTTTAAAATAAATCAATCTA
66 TAAAATAAATCAATCTATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCTA
9084769 TACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
131 TACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CAT
9084834 ATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACT
195 ATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACT
* *
9084891 AATAAATTATTTAAAATAAATTAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
* *
9084956 TAAAATAAATCAAT-TCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TAAAATAAATCAATCT-ATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCT
9085020 ATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT--A--AAT--T
130 ATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCAT
* * * *
9085079 ATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAATAAAT-TATT-TTA-T
195 ATTTTAAAATAAATCAATCCATA----CTAATAAATTA-TTTAAAATAAATCAATTCATACT
9085138 AATAAATTATTTTAAAATAAAT
1 AATAAATTA-TTTAAAATAAAT
9085160 TATTTTAAAA
Statistics
Matches: 498, Mismatches: 16, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
245 24 0.05
247 10 0.02
248 17 0.03
249 12 0.02
250 13 0.03
251 1 0.00
252 421 0.85
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (251 bp):
AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
TAAAATAAATCAATCTATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCTA
TACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATA
TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACT
Found at i:9084840 original size:22 final size:22
Alignment explanation
Indices: 9084814--9084856 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9084804 TAATAAATTA
9084814 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
9084836 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
9084857 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:9084865 original size:22 final size:22
Alignment explanation
Indices: 9084816--9084864 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
9084806 ATAAATTATT
**
9084816 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
9084838 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
9084861 TAAA
1 TAAA
9084865 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:9084878 original size:14 final size:14
Alignment explanation
Indices: 9084859--9084913 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
9084849 AATCCATACT
9084859 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
9084873 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
9084891 AATAAATTATTTAA
1 AATAAATTATTTAA
9084905 AATAAATTA
1 AATAAATTA
9084914 ATCTATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 16 0.48
15 5 0.15
17 5 0.15
18 7 0.21
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:9084915 original size:22 final size:22
Alignment explanation
Indices: 9084890--9084933 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9084880 CAATTCATAC
9084890 TAATAAAT-TATTTAAAATAAAT
1 TAATAAATAT-TTTAAAATAAAT
**
9084912 TAATCTATATTTTAAAATAAAT
1 TAATAAATATTTTAAAATAAAT
9084934 CAATCCATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATAAATATTTTAAAATAAAT
Found at i:9085027 original size:18 final size:18
Alignment explanation
Indices: 9085006--9085063 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
9084996 CCATATTTTA
9085006 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
9085024 AAATAAAT-TAT--TTA-
1 AAATAAATCAATCCATAC
9085038 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
*
9085056 TAATAAAT
1 AAATAAAT
9085064 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
17 4 0.13
18 15 0.48
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:9085079 original size:166 final size:169
Alignment explanation
Indices: 9084387--9085077 Score: 1018
Period size: 166 Copynumber: 4.1 Consensus size: 169
9084377 CAAATACAAA
* *
9084387 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATT
* * *
9084452 TAAAATAAATCAATCCATAC-AACTACA-A-T-AATAAATCAATCTACATTTTAAAATAAATCAA
66 TAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAA
*
9084513 TCTATACAAATAAATTATTTAAAATAAATCAATCCATACT
130 TCCATACAAATAAATTATTTAAAATAAATCAATCCATACT
9084553 AATAAATTATTTAAAATAAATCAATAC-ATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 AATAAATTATTTAAAATAAATCAAT-CTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
9084617 TTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT
65 TTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAAT
* **
9084682 CAATCCATACTAATAAATTATTTAAAATAAATCAATCTTTAC-
127 CAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACT
* * *
9084724 AACT--A-CA-TT--AATAAATCAATCTATATTTTAAAATAAATCAATCTATACAAATAAATTAT
1 AA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
9084783 TTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT
65 TTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAAT
* *
9084848 CAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACT
127 CAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACT
*
9084891 AATAAATTATTTAAAATAAATTAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATT
* *
9084956 TAAAATAAATCAATTCATAC-AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATCAA
66 TAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAA
9085017 TCCATACAAATAAATTATTTAAAATAAATCAATCCATACT
130 TCCATACAAATAAATTATTTAAAATAAATCAATCCATACT
9085057 AATAAATTATTTAAAATAAAT
1 AATAAATTATTTAAAATAAAT
9085078 TATTTTAAAA
Statistics
Matches: 483, Mismatches: 24, Indels: 36
0.89 0.04 0.07
Matches are distributed among these distances:
165 1 0.00
166 325 0.67
167 5 0.01
168 5 0.01
169 2 0.00
170 5 0.01
171 4 0.01
172 136 0.28
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (169 bp):
AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATT
TAAAATAAATCAATCCATACTAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAAT
CCATACAAATAAATTATTTAAAATAAATCAATCCATACT
Found at i:9085086 original size:15 final size:15
Alignment explanation
Indices: 9085057--9085174 Score: 139
Period size: 15 Copynumber: 7.5 Consensus size: 15
9085047 AATCCATACT
9085057 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
9085071 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
9085086 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
9085108 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
9085123 AATAAATTATTTTAT
1 AATAAATTATTTTAA
9085138 AATAAATTATTTTAA
1 AATAAATTATTTTAA
9085153 AATAAATTATTTTAA
1 AATAAATTATTTTAA
9085168 AATAAAT
1 AATAAAT
9085175 AACCTTATTA
Statistics
Matches: 90, Mismatches: 6, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
14 9 0.10
15 64 0.71
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:9085093 original size:47 final size:49
Alignment explanation
Indices: 9085024--9085174 Score: 172
Period size: 52 Copynumber: 3.2 Consensus size: 49
9085014 CAATCCATAC
*
9085024 AAATAAATTA-TTTAAAATAAATCAATCCATA-CTAATAAATTA-TTTA
1 AAATAAATTATTTTAAAATAAATCAATCCATATATAATAAATTATTTTA
*
9085070 AAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTA
1 AAATAAATTATTTTAAAATAAATCAATCCATA---TATAATAAATTATTTTA
* * * *
9085122 AAATAAATTATTTTATAATAAAT-TAT---TTTAAAATAAATTATTTTA
1 AAATAAATTATTTTAAAATAAATCAATCCATATATAATAAATTATTTTA
9085167 AAATAAAT
1 AAATAAAT
9085175 AACCTTATTA
Statistics
Matches: 92, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
45 23 0.25
46 10 0.11
47 21 0.23
48 1 0.01
51 11 0.12
52 26 0.28
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (49 bp):
AAATAAATTATTTTAAAATAAATCAATCCATATATAATAAATTATTTTA
Found at i:9089707 original size:27 final size:27
Alignment explanation
Indices: 9089677--9089728 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
9089667 TCATAAAACT
9089677 TAATATTATTAATT-TTAAAATATTAAA
1 TAAT-TTATTAATTATTAAAATATTAAA
*
9089704 TAATTTATTTATTATTAAAATATTA
1 TAATTTATTAATTATTAAAATATTA
9089729 TTTTTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TAATTTATTAATTATTAAAATATTAAA
Found at i:9089914 original size:27 final size:25
Alignment explanation
Indices: 9089881--9089968 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 25
9089871 AATATTATTA
9089881 TTTATTAAATAAATAAATAATATAT
1 TTTATTAAATAAATAAATAATATAT
* *
9089906 TCATTATT-AATAATTTAATAATATTAT
1 T--TTATTAAATAAATAAATAATA-TAT
* *
9089933 TTCTATGAAATTAATAAATAATATAAAT
1 TT-TATTAAATAAATAAATAATAT--AT
9089961 TTTATTAA
1 TTTATTAA
9089969 TAATTTATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
25 2 0.04
26 17 0.35
27 26 0.53
28 4 0.08
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (25 bp):
TTTATTAAATAAATAAATAATATAT
Found at i:9089953 original size:53 final size:53
Alignment explanation
Indices: 9089871--9089988 Score: 150
Period size: 53 Copynumber: 2.2 Consensus size: 53
9089861 ATCTTTATTA
* *
9089871 AATATTATTATTTATTAAATAAATAAATAATAT-ATTCATTATTAATAATTTAAT
1 AATATTATTATCTATGAAATAAATAAATAATATAATT--TTATTAATAATTTAAT
* *
9089925 AATATTATT-TCTATGAAATTAATAAATAATATAAATTTTATTAATAATTTATT
1 AATATTATTATCTATGAAATAAATAAATAATAT-AATTTTATTAATAATTTAAT
9089978 ATATATTATTA
1 A-ATATTATTA
9089989 ATAAAAATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
53 36 0.64
54 17 0.30
55 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (53 bp):
AATATTATTATCTATGAAATAAATAAATAATATAATTTTATTAATAATTTAAT
Found at i:9089970 original size:22 final size:22
Alignment explanation
Indices: 9089942--9090009 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
9089932 TTTCTATGAA
*
9089942 ATTAATAAATAATATAAATTTT
1 ATTAATAAATAATATAAATATT
* * *
9089964 ATTAATAATTTAT-TATATATT
1 ATTAATAAATAATATAAATATT
*
9089985 ATTAATAAA-AATATAATATCTT
1 ATTAATAAATAATATAA-ATATT
9090007 ATT
1 ATT
9090010 TATTATAATC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.06
21 16 0.44
22 18 0.50
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTAATAAATAATATAAATATT
Found at i:9090069 original size:22 final size:22
Alignment explanation
Indices: 9090031--9090076 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
9090021 TAGATTATTT
9090031 TATTATATATTAAAAATA-TAA
1 TATTATATATTAAAAATATTAA
*
9090052 TATTATATTATTAGAAATATTAA
1 TATTATA-TATTAAAAATATTAA
9090075 TA
1 TA
9090077 AACATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 10 0.45
23 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TATTATATATTAAAAATATTAA
Found at i:9090568 original size:2 final size:2
Alignment explanation
Indices: 9090561--9090599 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9090551 CCGTTAAAAT
9090561 TA TA 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 T
9090600 TTGAATCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9094743 original size:6 final size:6
Alignment explanation
Indices: 9094732--9094871 Score: 199
Period size: 6 Copynumber: 23.3 Consensus size: 6
9094722 TTTCAAATAA
*
9094732 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTAT
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT
* * *
9094780 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGC ATGTGC ATGTGC
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT
* * * * *
9094828 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGT ATGTGT AT
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT AT
9094872 TTGTTTTTTT
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 130 1.00
ACGTcount: A:0.18, C:0.06, G:0.32, T:0.44
Consensus pattern (6 bp):
ATGTGT
Found at i:9097426 original size:2 final size:2
Alignment explanation
Indices: 9097419--9097453 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
9097409 ACTCCTAACC
9097419 AT AT AT AT AT AT AT AT AT AT A- AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9097454 ATTTACTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9097438 original size:14 final size:14
Alignment explanation
Indices: 9097419--9097453 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
9097409 ACTCCTAACC
9097419 ATATATATATATAT
1 ATATATATATATAT
9097433 ATATATA-ATATAT
1 ATATATATATATAT
9097446 -TATATATA
1 ATATATATA
9097454 ATTTACTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 7 0.35
14 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:9099348 original size:89 final size:89
Alignment explanation
Indices: 9099197--9099374 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
9099187 ACTGGTCTCC
9099197 GCCTCCTTCGAATTTCTTTAAATTCAATGTTGATGGTGCGGTAAGAGGTGATGGGCTGCAGGGAG
1 GCCTCCTTCGAATTTCTTTAAATTCAATGTTGATGGTGCGGTAAGAGGTGATGGGCTGCAGGGAG
9099262 GTATTGGAGGAGTCTTGAAAGATT
66 GTATTGGAGGAGTCTTGAAAGATT
9099286 GCCTCCTTCGAATTTCTTTAAATTCAATGTTGATGGTGCGGTAAGAGGTGATGGGCTGCAGGGAG
1 GCCTCCTTCGAATTTCTTTAAATTCAATGTTGATGGTGCGGTAAGAGGTGATGGGCTGCAGGGAG
9099351 GTATTGGAGGAGTCTTGAAAGATT
66 GTATTGGAGGAGTCTTGAAAGATT
9099375 CGGATTGTTC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.24, C:0.12, G:0.33, T:0.31
Consensus pattern (89 bp):
GCCTCCTTCGAATTTCTTTAAATTCAATGTTGATGGTGCGGTAAGAGGTGATGGGCTGCAGGGAG
GTATTGGAGGAGTCTTGAAAGATT
Found at i:9099917 original size:35 final size:35
Alignment explanation
Indices: 9099854--9099952 Score: 117
Period size: 35 Copynumber: 2.7 Consensus size: 35
9099844 TTTCGTCCTA
*
9099854 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTC-CTAAAATAGGATAGAATTCTG
*
9099891 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
* * * *
9099926 CTATGTTTTAAATCCTAAAGATAGGAT
1 CTAGGATTCAACTCCTAAA-ATAGGAT
9099953 CCACAAGCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
35 34 0.62
36 12 0.22
37 9 0.16
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:9100104 original size:71 final size:70
Alignment explanation
Indices: 9099976--9100117 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 70
9099966 AAATAGCCAT
9099976 TGTAGCTCACTATTGTAACCACGATTGACAGACAGATTTACACACAAAACACAGAGG-AAGCACG
1 TGTAGCTCACTATTGTAACCACGATTGACAGACAGATTTACACACAAAACACAGAGGAAAGCACG
9100040 GAAAA
66 GAAAA
9100045 TGTAGCTCACTATTGTAACACACGATTGACAGACACGATTTACACACAAAACACAGAGGAAAGCA
1 TGTAGCTCACTATTGTAAC-CACGATTGACAGACA-GATTTACACACAAAACACAGAGGAAAGCA
9100110 CGGAAAA
64 CGGAAAA
9100117 T
1 T
9100118 ACAAAGACAA
Statistics
Matches: 70, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
69 19 0.27
70 15 0.21
71 23 0.33
72 13 0.19
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (70 bp):
TGTAGCTCACTATTGTAACCACGATTGACAGACAGATTTACACACAAAACACAGAGGAAAGCACG
GAAAA
Found at i:9100534 original size:20 final size:20
Alignment explanation
Indices: 9100509--9100584 Score: 54
Period size: 20 Copynumber: 3.9 Consensus size: 20
9100499 TGATTTTCTT
9100509 TTATATTATTATTATTTTAC
1 TTATATTATTATTATTTTAC
**
9100529 TTATA-TATATATGCTTTTAC
1 TTATATTAT-TATTATTTTAC
*
9100549 TT-TTTTA-TA-TATTTTAC
1 TTATATTATTATTATTTTAC
*
9100566 TCAT-TTATTTATCTATTTT
1 TTATATTA-TTAT-TATTTT
9100585 TATATTTATC
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
17 10 0.23
18 3 0.07
19 6 0.14
20 18 0.42
21 6 0.14
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.64
Consensus pattern (20 bp):
TTATATTATTATTATTTTAC
Found at i:9100535 original size:22 final size:22
Alignment explanation
Indices: 9100488--9100561 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
9100478 TGTATATACG
*
9100488 TATATTACTTTTGATTTTCTTT
1 TATATTACTTTTGATTTTCTTA
9100510 TATATTA-TTATT-ATTTTACTTA
1 TATATTACTT-TTGATTTT-CTTA
9100532 TATATATATGCTTTT-ACTTTT-TTA
1 TATAT-TA--CTTTTGA-TTTTCTTA
9100556 TATATT
1 TATATT
9100562 TTACTCATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
21 7 0.16
22 17 0.39
23 3 0.07
24 8 0.18
25 3 0.07
26 6 0.14
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.65
Consensus pattern (22 bp):
TATATTACTTTTGATTTTCTTA
Found at i:9103768 original size:16 final size:16
Alignment explanation
Indices: 9103742--9103792 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
9103732 AGATCCAATC
9103742 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
9103757 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
*
9103774 AA-AA-AAACAAAGAAA
1 AAGAACAAA-AAAGCAA
9103789 AAGA
1 AAGA
9103793 GAAACAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.10
15 13 0.42
16 11 0.35
17 4 0.13
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:9103789 original size:22 final size:21
Alignment explanation
Indices: 9103748--9103837 Score: 65
Period size: 23 Copynumber: 3.9 Consensus size: 21
9103738 AATCAAGAAC
9103748 AAAAAAGAAAAGAAGCAAAAAAG
1 AAAAAAGAAAA-AAG-AAAAAAG
9103771 CAAAAAA-AAACAAAGAAAAAGAG
1 -AAAAAAGAAA-AAAGAAAAA-AG
*
9103794 AAACAAGAACAAAAGGAAAAAAG
1 AAAAAAGAA-AAAA-GAAAAAAG
**
9103817 AGCAAAAATCAAAAAGAAAAA
1 A--AAAAAGAAAAAAGAAAAA
9103838 GGGACAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
22 10 0.18
23 22 0.40
24 18 0.33
25 5 0.09
ACGTcount: A:0.77, C:0.08, G:0.14, T:0.01
Consensus pattern (21 bp):
AAAAAAGAAAAAAGAAAAAAG
Found at i:9104481 original size:22 final size:22
Alignment explanation
Indices: 9104456--9104504 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
9104446 CCATCAATCT
* *
9104456 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGCCAAACC
9104478 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGCCAAACC
9104500 TTTGA
1 TTTGA
9104505 CCAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATGCCAAACC
Found at i:9104942 original size:18 final size:18
Alignment explanation
Indices: 9104919--9104954 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9104909 TCAACATCAA
*
9104919 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
9104937 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
9104955 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:9105423 original size:36 final size:36
Alignment explanation
Indices: 9105383--9105504 Score: 88
Period size: 36 Copynumber: 3.4 Consensus size: 36
9105373 ACTCATGATT
* *
9105383 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
1 GTTTTTCTTAAAACAAGATTTGTCTCCCTTGAGACA
* * * * *
9105419 G-TTTTCACTAGAA-GAGTTTTGTCTCTCTTGAGACA
1 GTTTTTC-TTAAAACAAGATTTGTCTCCCTTGAGACA
** *
9105454 GTTTCCCTTTAAACAA-ATTTTGTCTCCCTTGAGACA
1 GTTTTTCTTAAAACAAGA-TTTGTCTCCCTTGAGACA
* * *
9105490 GCTTCTCTTGAAACA
1 GTTTTTCTTAAAACA
9105505 TAAACATTGG
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
35 27 0.42
36 38 0.58
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (36 bp):
GTTTTTCTTAAAACAAGATTTGTCTCCCTTGAGACA
Found at i:9105662 original size:36 final size:36
Alignment explanation
Indices: 9105520--9105680 Score: 207
Period size: 37 Copynumber: 4.4 Consensus size: 36
9105510 ATTGGAAACA
* * *
9105520 TTTCTCTTGAAATAAATTTTCGTCTCTCTTGAGATAA
1 TTTCTCTTGAAACAAATTTT-GTCTCTCTTGAGACAG
*
9105557 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* * *
9105594 TTTCCCTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
9105631 TTTCTCTTGAAACAAATTTTGTCTC-CTTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTC-TTGAGACAG
*
9105667 TTACTCTTGAAACA
1 TTTCTCTTGAAACA
9105681 CAAAATCTTC
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
35 1 0.01
36 33 0.30
37 70 0.63
38 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:9106518 original size:105 final size:104
Alignment explanation
Indices: 9106345--9107620 Score: 1199
Period size: 105 Copynumber: 12.3 Consensus size: 104
9106335 GCCATCCGCG
* * *
9106345 ATTTCAACTCCAC-GACGGAGGATATTGTGGCACTCGAGACAACGC-AGTTCAACTTCACAACGA
1 ATTTCAACTTCACAG-CGAAGGATA-T-TGG-ACTCGAGACAACACAAGTTCAACTTCAC-ACGA
* *
9106408 AGGGACGGCTGGTTGTCAACAAACAACTTCTCATTTCAGAGCCA
61 AGGGACGGCTGGTTGTCAACAAACAATTTCCCATTTCAGAGCCA
* *
9106452 ATTTCAACTTCACAACGAAGGATATTGGACTTC-AGACAACGCAAGTTCAACTTCACGACGAAGG
1 ATTTCAACTTCACAGCGAAGGATATTGGAC-TCGAGACAACACAAGTTCAACTTCAC-ACGAAGG
* * * *
9106516 GACCGCTGCTTGTCAAC-AACAACTTCCCAATCTCAGAGCCA
64 GACGGCTGGTTGTCAACAAACAATTTCCC-ATTTCAGAGCCA
** * * **
9106557 ATTTCAACTTCACAATGAAGGATATTAGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCAC-ACGAAGGG
* * * *
9106622 ACCGCTGCTTGTCAAC-AACAACTTCCCAATCTCAGAGCCA
65 ACGGCTGGTTGTCAACAAACAATTTCCC-ATTTCAGAGCCA
* *
9106662 ATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGA
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCAC-ACGAAGGG
* * *
9106727 ACGACTGGTTGTCAAC-AATAATTTCCCAGTTTCAGGGCCA
65 ACGGCTGGTTGTCAACAAACAATTTCCCA-TTTCAGAGCCA
* * * * *
9106767 ATTTCAACTTCACAGCGAAGGATATTAGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACA-CGAAGGG
* ** * * *
9106832 GCGGCTGACTGTCGACAAGC-A------ATTTCGGAGCCA
65 ACGGCTGGTTGTCAACAAACAATTTCCCATTTCAGAGCCA
*
9106865 ATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACA-CGAAGGG
*
9106930 ACGGCTGGTTGTCAACAAACAATTTCCCAGTTTCAGGGCCA
65 ACGGCTGGTTGTCAACAAACAATTTCCCA-TTTCAGAGCCA
* * * *
9106971 ATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACA-CGAAGGG
* ** * * *
9107036 GCGGCTGACTGTCGACAAGC-A------ATTTCGGAGCCA
65 ACGGCTGGTTGTCAACAAACAATTTCCCATTTCAGAGCCA
*
9107069 ATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACA-CGAAGGG
* *
9107134 ACGGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAGCCG
65 ACGGCTGGTTGTCAACAAACAATTTCCC-ATTTCAGAGCCA
* * * *
9107175 ATTTCAACTCCAC-GACGGAGGATATCGTGCTACCCGAGAC-A-ACAAGTTCAACTTCACACGAA
1 ATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTCACACGAA
** * ** *
9107237 GGGACGGCTGGTTGTCAATGAACAACTTT-TCAGTTTCA-TCCGCG
62 GGGACGGCTGGTTGTCAACAAACAA-TTTCCCA-TTTCAGAGC-CA
* * * *
9107281 ATTTCAACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCATAACGA
1 ATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTCA-CACGA
* **
9107345 AGGGACGGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCA
61 AGGGACGGCTGGTTGTCAACAAACA-ATTTCCCATTTCAGAGCCA
**
9107390 ATTTCAACTTCGTAGCGAAGG--ATTGGACTCGAGACAACA-AAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCAC-ACGAAGGG
* * * *
9107452 ACGGCTGATTGTCAAC-AA-GATTT--C-GTTCAGAGTCA
65 ACGGCTGGTTGTCAACAAACAATTTCCCATTTCAGAGCCA
* * * * *
9107487 ATTTCATCTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCAGCA--AAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA-CACGAAGGG
* * ** * *
9107550 GCGACTGACTGTCAAC-AACAATTTCCCAGTTCCA-AACCA
65 ACGGCTGGTTGTCAACAAACAATTTCCCA-TTTCAGAGCCA
9107589 ATTTCAACTTCACAGCG-AGGATATTGGACTCG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCG
9107621 GAACAATATT
Statistics
Matches: 988, Mismatches: 133, Indels: 102
0.81 0.11 0.08
Matches are distributed among these distances:
97 26 0.03
98 187 0.19
99 24 0.02
100 16 0.02
101 16 0.02
102 20 0.02
103 39 0.04
104 38 0.04
105 312 0.32
106 187 0.19
107 43 0.04
108 18 0.02
109 59 0.06
110 3 0.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (104 bp):
ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACACGAAGGGA
CGGCTGGTTGTCAACAAACAATTTCCCATTTCAGAGCCA
Found at i:9106769 original size:210 final size:204
Alignment explanation
Indices: 9106381--9107619 Score: 1227
Period size: 204 Copynumber: 6.0 Consensus size: 204
9106371 GTGGCACTCG
*
9106381 AGACAACGC-AGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTCATTTC
1 AGACAAC-CAAGTTCAACTTCAC-ACGAAGGGACGGCTGCTTGTCAAC-AACAA-TT-TC--TTC
* * *
9106445 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTC-AGACAACGCAAGTTCAACTTCACG
59 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC-TCGAGACAACACAAGTTCAACTTCACA
* * * * **
9106509 ACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAATG
123 ACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
*
9106574 AAGGATATTAGACTCC-
188 AAGGATATTGGACTCCA
* * *
9106590 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTC
1 AGACAA-CCAAGTTCAACTTCAC-ACGAAGGGACGGCTGCTTGTCAACAACAA-TT-TC--T-TC
*
9106655 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAA
59 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * * * *
9106720 CGAAGGAACGACTGGTTGTCAACAATAATTTCCCAGTTTCAGGGCCAATTTCAACTTCACAGCGA
124 CGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGA
*
9106785 AGGATATTAGAC-CCA
189 AGGATATTGGACTCCA
* * * * *
9106800 AGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGAC-TGTCGACAAGCAA--T-TTCGGA
1 AGACAAC-CAAGTTCAACTTCACA-CGAAGGGACGGCTG-CTTGTCAACAA-CAATTTCTTCAGA
* *
9106861 GCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGA
62 GCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGA
* *
9106926 AGGGACGGCTGGTTGTCAACAAACAATTTCCCAGTTTCAGGGCCAATTTCAACTTCACAGCGAAG
127 AGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAG
9106991 GATATTGGAC-CCA
191 GATATTGGACTCCA
* * * * *
9107004 AGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGAC-TGTCGACAAGCAA--T-TTCGGA
1 AGACAAC-CAAGTTCAACTTCACA-CGAAGGGACGGCTG-CTTGTCAACAA-CAATTTCTTCAGA
* *
9107065 GCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGA
62 GCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGA
* * * *
9107130 AGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAGCCGATTTCAACTCCAC-GACGGA
127 AGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAA
* *
9107194 GGATATCGTG-CTACCCG
190 GGATATTG-GACT--CCA
* *
9107211 AGACAA-CAAGTTCAACTTCACACGAAGGGACGGCTGGTTGTCAATGAACAACTTTTCAGTTTCA
1 AGACAACCAAGTTCAACTTCACACGAAGGGACGGCTGCTTGTCAA-CAACAA--TTTC---TTCA
** * * * *
9107275 -TCCGCGATTTCAACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTC
60 GAGC-CAATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTC
* * * * **
9107338 ATAACGAAGGGACGGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCAATTTCAACTTCGT
120 ACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCAC
*
9107403 AGCGAAGG--ATTGGACT-CG
184 AGCGAAGGATATTGGACTCCA
* * * *
9107421 AGACAACAAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAA-GATTTCGTTCAGAGT
1 AGACAACCAAGTTCAACTTCAC-ACGAAGGGACGGCTGCTTGTCAACAACAATTTC-TTCAGAGC
* * * * *
9107485 CAATTTCATCTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCAGC-A--AA
64 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA-CAACGAA
* * ** * * *
9107547 GGGGCGACTGACTGTCAACAACAATTTCCCAGTTCCA-AACCAATTTCAACTTCACAGCG-AGGA
128 GGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
9107610 TATTGGACTC
193 TATTGGACTC
9107620 GGAACAATAT
Statistics
Matches: 890, Mismatches: 100, Indels: 88
0.83 0.09 0.08
Matches are distributed among these distances:
198 3 0.00
199 19 0.02
200 21 0.02
201 17 0.02
203 111 0.12
204 268 0.30
205 18 0.02
206 25 0.03
207 7 0.01
208 5 0.01
209 24 0.03
210 209 0.23
211 22 0.02
212 47 0.05
213 5 0.01
214 2 0.00
215 86 0.10
216 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (204 bp):
AGACAACCAAGTTCAACTTCACACGAAGGGACGGCTGCTTGTCAACAACAATTTCTTCAGAGCCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
ACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATAT
TGGACTCCA
Found at i:9108494 original size:2 final size:2
Alignment explanation
Indices: 9108489--9108524 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
9108479 TTAGTGTTAT
9108489 TA TA TA TA TA TA TA -A TA TA TA TA TA T- TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9108525 TTTCTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9108508 original size:13 final size:13
Alignment explanation
Indices: 9108490--9108524 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
9108480 TAGTGTTATT
9108490 ATATATATATATA
1 ATATATATATATA
*
9108503 ATATATATATATT
1 ATATATATATATA
9108516 ATAT-TATAT
1 ATATATATAT
9108525 TTTCTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATATATATATATA
Found at i:9108661 original size:26 final size:26
Alignment explanation
Indices: 9108615--9108676 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
9108605 ATGTTTTACT
*
9108615 TTTTTATA-TTACTCATTTATTATCTA
1 TTTTTATATTTACTCATATATT-TCTA
* * *
9108641 TTTTTATATTTA-TCCTATATTTTTG
1 TTTTTATATTTACTCATATATTTCTA
9108666 TTTTTATATTT
1 TTTTTATATTT
9108677 TTACTTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 13 0.42
26 15 0.48
27 3 0.10
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTTATATTTACTCATATATTTCTA
Found at i:9113582 original size:73 final size:73
Alignment explanation
Indices: 9113469--9113614 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
9113459 TAAAGAAATA
9113469 CAAAATAAGTATGTGCATGCATATCAGGGCATACCTTGCTGCAGCACCGAATCCATATGGTATGG
1 CAAAATAAGTATGTGCATGCATATCAGGGCATACCTTGCTGCAGCACCGAATCCATATGGTATGG
9113534 CATAAAGT
66 CATAAAGT
9113542 CAAAATAAGTATGTGCATGCATATCAGGGCATACCTTGCTGCAGCACCGAATCCATATGGTATGG
1 CAAAATAAGTATGTGCATGCATATCAGGGCATACCTTGCTGCAGCACCGAATCCATATGGTATGG
9113607 CATAAAGT
66 CATAAAGT
9113615 GTTGCAAGGG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (73 bp):
CAAAATAAGTATGTGCATGCATATCAGGGCATACCTTGCTGCAGCACCGAATCCATATGGTATGG
CATAAAGT
Found at i:9115887 original size:13 final size:13
Alignment explanation
Indices: 9115869--9115914 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
9115859 ATTCAAAAAT
9115869 AGATTATAATAAG
1 AGATTATAATAAG
* *
9115882 AGATTATTCAAAAAT
1 AGATTA-T-AATAAG
9115897 AGATTATAATAAG
1 AGATTATAATAAG
9115910 AGATT
1 AGATT
9115915 TTCATTAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 15 0.56
14 2 0.07
15 10 0.37
ACGTcount: A:0.52, C:0.02, G:0.13, T:0.33
Consensus pattern (13 bp):
AGATTATAATAAG
Found at i:9115898 original size:28 final size:28
Alignment explanation
Indices: 9115858--9115918 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
9115848 TTGTAAAAAA
9115858 TATTCAAAAATAGATTATAATAAGAGAT
1 TATTCAAAAATAGATTATAATAAGAGAT
9115886 TATTCAAAAATAGATTATAATAAGAGAT
1 TATTCAAAAATAGATTATAATAAGAGAT
9115914 T-TTCA
1 TATTCA
9115919 TTAGAATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (28 bp):
TATTCAAAAATAGATTATAATAAGAGAT
Found at i:9115902 original size:15 final size:15
Alignment explanation
Indices: 9115858--9115903 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
9115848 TTGTAAAAAA
9115858 TATTCAAAAATAGAT
1 TATTCAAAAATAGAT
* *
9115873 TA-T-AATAAGAGAT
1 TATTCAAAAATAGAT
9115886 TATTCAAAAATAGAT
1 TATTCAAAAATAGAT
9115901 TAT
1 TAT
9115904 AATAAGAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 13 0.52
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (15 bp):
TATTCAAAAATAGAT
Found at i:9141279 original size:6 final size:6
Alignment explanation
Indices: 9141268--9141324 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
9141258 ATAAGTCCCC
9141268 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT
1 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT
9141316 TGCTGT TGC
1 TGCTGT TGC
9141325 AAGTGTAGCG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.00, C:0.18, G:0.33, T:0.49
Consensus pattern (6 bp):
TGCTGT
Found at i:9147673 original size:15 final size:15
Alignment explanation
Indices: 9147653--9147687 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
9147643 TATGAAGTTA
9147653 TTGATAATCA-TTAAT
1 TTGATAA-CATTTAAT
9147668 TTGATAACATTTAAT
1 TTGATAACATTTAAT
9147683 TTGAT
1 TTGAT
9147688 GTTTTGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (15 bp):
TTGATAACATTTAAT
Done.