Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 300 of 349
Found at i:100508374 original size:20 final size:20
Alignment explanation
Indices: 100508318--100508375 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
100508308 ATCTTGACTC
* * *
100508318 TATTTGCACTCTGGTACCTT
1 TATTTGCACTATAGTGCCTT
* * *
100508338 TAGTTGCACAATTGTGCCTT
1 TATTTGCACTATAGTGCCTT
100508358 TATTTGCACTATAGTGCC
1 TATTTGCACTATAGTGCC
100508376 CCTGTTTGCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (20 bp):
TATTTGCACTATAGTGCCTT
Found at i:100514387 original size:27 final size:26
Alignment explanation
Indices: 100514343--100514394 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
100514333 CTCGCTACAA
*
100514343 TCTGGTGGCCTCGCCACAGATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
100514370 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
100514395 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:100521080 original size:49 final size:49
Alignment explanation
Indices: 100521008--100521182 Score: 251
Period size: 49 Copynumber: 3.5 Consensus size: 49
100520998 CTAGTACGCA
*
100521008 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * * * *
100521057 TAGTAGCCTGCACTCAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
*
100521108 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
100521157 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
100521183 CGTGATCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 63 0.58
50 6 0.06
51 39 0.36
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:100521135 original size:100 final size:100
Alignment explanation
Indices: 100521001--100521189 Score: 351
Period size: 100 Copynumber: 1.9 Consensus size: 100
100520991 AGGCTATCTA
*
100521001 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGATACACGTAGTAGCCT
100521066 GCACTCAGTACTACACACGTGATCGAAGTTATCGG
66 GCACTCAGTACTACACACGTGATCGAAGTTATCGG
*
100521101 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACGTAGTAGCCT
1 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGATACACGTAGTAGCCT
*
100521166 GCACTTAGTACTACACACGTGATC
66 GCACTCAGTACTACACACGTGATC
100521190 TCACAATAGA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (100 bp):
GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGATACACGTAGTAGCCT
GCACTCAGTACTACACACGTGATCGAAGTTATCGG
Found at i:100524855 original size:24 final size:24
Alignment explanation
Indices: 100524823--100524872 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
100524813 TATTAGCAAG
100524823 TTAATTTTTGGGTTAAGGGCTAAA
1 TTAATTTTTGGGTTAAGGGCTAAA
100524847 TTAATTTTTGGGTTAAGGGCTAAA
1 TTAATTTTTGGGTTAAGGGCTAAA
100524871 TT
1 TT
100524873 GAAAAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.44
Consensus pattern (24 bp):
TTAATTTTTGGGTTAAGGGCTAAA
Found at i:100527037 original size:42 final size:42
Alignment explanation
Indices: 100526976--100527139 Score: 186
Period size: 42 Copynumber: 3.9 Consensus size: 42
100526966 TTAGGGTTAC
* *
100526976 TGAGATTACGTATAAGACCATATCTAGGATATGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
* * * *
100527018 TAAGATTTCGTCTAAGACCATATC-AGGGATATGGAATCGATA
1 TGAGATTACGTGTAAGACCATATCTA-GGATATGGCATCGATA
* * * *
100527060 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATA-TGGCATCGATA
* * *
100527103 CGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCAT
100527140 TGGTATGGTA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 66 0.64
43 36 0.35
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:100527119 original size:85 final size:84
Alignment explanation
Indices: 100526976--100527136 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 84
100526966 TTAGGGTTAC
* * * * *
100526976 TGAGATTACGTATAAGACCATATCTAGGATATGGCATCTATATAAGATTTCGTCTAAGACCATAT
1 TGAGATTACGTATAAGACCATAGCTAGGATATGGCATCGATACAAGATTACATCTAAGACCATAT
100527041 CAGGGATATGGAATCGATA
66 CAGGGATATGGAATCGATA
* * * * * *
100527060 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTACATGTAAGACCATA
1 TGAGATTACGTATAAGACCATAGCTAGGATA-TGGCATCGATACAAGATTACATCTAAGACCATA
*
100527125 TCTGGGATATGG
65 TCAGGGATATGG
100527137 CATTGGTATG
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
84 26 0.41
85 38 0.59
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (84 bp):
TGAGATTACGTATAAGACCATAGCTAGGATATGGCATCGATACAAGATTACATCTAAGACCATAT
CAGGGATATGGAATCGATA
Found at i:100534257 original size:24 final size:24
Alignment explanation
Indices: 100534229--100534274 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
100534219 TAATATTTAA
* *
100534229 ATTGGGTTATTTTCTATTTTAGAC
1 ATTGGGTTAATTACTATTTTAGAC
*
100534253 ATTGGTTTAATTACTATTTTAG
1 ATTGGGTTAATTACTATTTTAG
100534275 TCCTTTAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (24 bp):
ATTGGGTTAATTACTATTTTAGAC
Found at i:100534524 original size:169 final size:169
Alignment explanation
Indices: 100534245--100534582 Score: 631
Period size: 169 Copynumber: 2.0 Consensus size: 169
100534235 TTATTTTCTA
* *
100534245 TTTTAGACATTGGTTTAATTACTATTTTAGTCCTTTAGTAATTAAAAATTTATAGTAACTAATTT
1 TTTTAGACAATGGTTTAATTACTATTTTAGTCCTTTAGTAATTAAAAATTTATAGCAACTAATTT
*
100534310 TTACTATTTTTACAATTTAGTCTTTATACCACAATTAATCACTGATTTGATAAAATTTCCTATCC
66 TTACCATTTTTACAATTTAGTCTTTATACCACAATTAATCACTGATTTGATAAAATTTCCTATCC
100534375 AAAATTTAATTCATCTATATAATAATACCATAATTATTT
131 AAAATTTAATTCATCTATATAATAATACCATAATTATTT
* *
100534414 TTTTAGACAATGGTTTAATTACTATTTTAGTCCTTTAGTAATTAAAATTTTATAGCAATTAATTT
1 TTTTAGACAATGGTTTAATTACTATTTTAGTCCTTTAGTAATTAAAAATTTATAGCAACTAATTT
100534479 TTACCATTTTTACAATTTAGTCTTTATACCACAATTAATCACTGATTTGATAAAATTTCCTATCC
66 TTACCATTTTTACAATTTAGTCTTTATACCACAATTAATCACTGATTTGATAAAATTTCCTATCC
100534544 AAAATTTAATTCATCTATATAATAATACCATAATTATTT
131 AAAATTTAATTCATCTATATAATAATACCATAATTATTT
100534583 AATAAAGATA
Statistics
Matches: 164, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
169 164 1.00
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (169 bp):
TTTTAGACAATGGTTTAATTACTATTTTAGTCCTTTAGTAATTAAAAATTTATAGCAACTAATTT
TTACCATTTTTACAATTTAGTCTTTATACCACAATTAATCACTGATTTGATAAAATTTCCTATCC
AAAATTTAATTCATCTATATAATAATACCATAATTATTT
Found at i:100535456 original size:31 final size:31
Alignment explanation
Indices: 100535388--100535468 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 31
100535378 TTTAATAGTT
* * *
100535388 TATATTTTTTATAAGTTTTAAAGGATTAAAT
1 TATAATTTTTATAATTTTTAAAGGATTAAAG
* * *
100535419 TA-AATTTTTATTATTTTTAGAGGGTTAAAG
1 TATAATTTTTATAATTTTTAAAGGATTAAAG
*
100535449 TATAA-TTTTATCATTTTTAA
1 TATAATTTTTATAATTTTTAA
100535469 TATAAAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 37 0.90
31 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.53
Consensus pattern (31 bp):
TATAATTTTTATAATTTTTAAAGGATTAAAG
Found at i:100549554 original size:19 final size:21
Alignment explanation
Indices: 100549527--100549577 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
100549517 GATTTTTTTA
100549527 ATTTAACTCGA-ACAAATTT-
1 ATTTAACTCGAGACAAATTTC
* *
100549546 ATTTGACTCGAGTCAAATTTC
1 ATTTAACTCGAGACAAATTTC
*
100549567 ATTTCACTCGA
1 ATTTAACTCGA
100549578 CTCGATTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 10 0.37
20 7 0.26
21 10 0.37
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (21 bp):
ATTTAACTCGAGACAAATTTC
Found at i:100549562 original size:20 final size:21
Alignment explanation
Indices: 100549539--100549577 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
100549529 TTAACTCGAA
*
100549539 CAAATTT-ATTTGACTCGAGT
1 CAAATTTCATTTCACTCGAGT
100549559 CAAATTTCATTTCACTCGA
1 CAAATTTCATTTCACTCGA
100549578 CTCGATTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (21 bp):
CAAATTTCATTTCACTCGAGT
Found at i:100556628 original size:37 final size:37
Alignment explanation
Indices: 100556571--100556641 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
100556561 AAAAATAATA
*
100556571 TTATTTTAATAGTTTATTATTAAATTTAAT-TTAATGT
1 TTATCTTAATAGTTTATTATT-AATTTAATATTAATGT
100556608 TTATCTTAATAGTATT-TTATTAATTTAATATTAA
1 TTATCTTAATAGT-TTATTATTAATTTAATATTAA
100556642 AGTGATTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 8 0.26
37 21 0.68
38 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (37 bp):
TTATCTTAATAGTTTATTATTAATTTAATATTAATGT
Found at i:100556720 original size:7 final size:7
Alignment explanation
Indices: 100556708--100556745 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
100556698 ATTATTTTAA
100556708 TAATATT
1 TAATATT
100556715 TAATATT
1 TAATATT
*
100556722 TAA-ATC
1 TAATATT
100556728 TAATATT
1 TAATATT
100556735 TAATA-T
1 TAATATT
100556741 TAATA
1 TAATA
100556746 AATATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 11 0.39
7 17 0.61
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (7 bp):
TAATATT
Found at i:100556744 original size:13 final size:13
Alignment explanation
Indices: 100556708--100556767 Score: 53
Period size: 13 Copynumber: 5.0 Consensus size: 13
100556698 ATTATTTTAA
100556708 TAATATTTAATATT
1 TAATA-TTAATATT
100556722 TAA-ATCTAATATT
1 TAATAT-TAATATT
100556735 TAATATTAATA--
1 TAATATTAATATT
100556746 -AATATT-ATA-T
1 TAATATTAATATT
100556756 TAAT-TTAATATT
1 TAATATTAATATT
100556768 AAAGTGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
9 3 0.08
10 8 0.20
11 6 0.15
12 2 0.05
13 16 0.40
14 5 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATATTAATATT
Found at i:100556763 original size:5 final size:6
Alignment explanation
Indices: 100556708--100556769 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
100556698 ATTATTTTAA
100556708 TAATATT TAATATT TAA-AT CTAATATT TAATAT TAATA- -AATAT T-ATAT
1 TAATA-T TAATA-T TAATAT -TAATA-T TAATAT TAATAT TAATAT TAATAT
100556756 TAAT-T TAATAT TAA
1 TAATAT TAATAT TAA
100556770 AGTGATTAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
4 4 0.08
5 11 0.23
6 16 0.33
7 16 0.33
8 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:100558687 original size:9 final size:9
Alignment explanation
Indices: 100558670--100558700 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
100558660 TTACATATTA
100558670 AATTCGGTT
1 AATTCGGTT
*
100558679 AATTTGGTT
1 AATTCGGTT
100558688 AATTCGGTT
1 AATTCGGTT
100558697 AATT
1 AATT
100558701 TTTTTATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.48
Consensus pattern (9 bp):
AATTCGGTT
Found at i:100558837 original size:95 final size:98
Alignment explanation
Indices: 100558677--100558855 Score: 274
Period size: 95 Copynumber: 1.8 Consensus size: 98
100558667 TTAAATTCGG
* * *
100558677 TTAATTTGGTTAATTCGGTTAATTTTTTTATATGTTTTATACTTGTTTTAACCAAAAAGCAAAAA
1 TTAATTTGGTTAATTCAGTTAA-TTTTTTATATGTGTTATACTTGTTTTAACCAAAAAACAAAAA
*
100558742 A-AAAACCATATAAATTTCGGTTATTTTGTTCAA
65 ATAAAAACATATAAATTTCGGTTATTTTGTTCAA
* *
100558775 TTAATTTGGTTAATTCAGTTAA-TTTTT-TATGTGTTATACTTGTTTTAGCCAAAAAATAAAAAA
1 TTAATTTGGTTAATTCAGTTAATTTTTTATATGTGTTATACTTGTTTTAACCAAAAAACAAAAAA
100558838 TAAAAACATATAAATTTC
66 TAAAAACATATAAATTTC
100558856 AGTTGTTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
95 32 0.43
96 21 0.28
98 21 0.28
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.44
Consensus pattern (98 bp):
TTAATTTGGTTAATTCAGTTAATTTTTTATATGTGTTATACTTGTTTTAACCAAAAAACAAAAAA
TAAAAACATATAAATTTCGGTTATTTTGTTCAA
Found at i:100564005 original size:17 final size:18
Alignment explanation
Indices: 100563975--100564024 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
100563965 TGTATTATAA
100563975 TATTAATTAATAAAA-AT
1 TATTAATTAATAAAATAT
* *
100563992 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
100564010 TATT-ATCTAATAAAA
1 TATTAAT-TAATAAAA
100564025 ATATCATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:100582070 original size:22 final size:22
Alignment explanation
Indices: 100582045--100582088 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
100582035 ATTCATTAGT
100582045 TACCTTACAATTGTAATGCAAG
1 TACCTTACAATTGTAATGCAAG
100582067 TACCTTACAATTGTAATGCAAG
1 TACCTTACAATTGTAATGCAAG
100582089 AATAACTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (22 bp):
TACCTTACAATTGTAATGCAAG
Found at i:100584033 original size:43 final size:43
Alignment explanation
Indices: 100583966--100584087 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
100583956 ACATAGCTCG
* ** *
100583966 TACAATGCC-ATATCTCAGATATGGTCTTACTTGTTATCAC-A
1 TACAATGCCAATATCTCAGACATGGTCTTACACGTAATCACAA
* * *
100584007 TATCGATGCCAATGTCTCAGACATGGTCTTACACGTAATCTCAA
1 TA-CAATGCCAATATCTCAGACATGGTCTTACACGTAATCACAA
* * *
100584051 TACAATGCCAATATCCCAGACATGGTCTCACATGTAA
1 TACAATGCCAATATCTCAGACATGGTCTTACACGTAA
100584088 ATACATCTCG
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.03
42 6 0.09
43 55 0.83
44 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (43 bp):
TACAATGCCAATATCTCAGACATGGTCTTACACGTAATCACAA
Found at i:100585759 original size:10 final size:10
Alignment explanation
Indices: 100585744--100585786 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
100585734 TCGAAAATAA
*
100585744 AAAATTAATC
1 AAAATTAATT
100585754 AAAATTAATTAT
1 AAAATTAA-T-T
100585766 AAAATTAATT
1 AAAATTAATT
*
100585776 AAAATTCATT
1 AAAATTAATT
100585786 A
1 A
100585787 TGTTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.66
11 2 0.07
12 8 0.28
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATTAATT
Found at i:100585769 original size:22 final size:22
Alignment explanation
Indices: 100585744--100585787 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
100585734 TCGAAAATAA
100585744 AAAATTAATCAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
* *
100585766 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTAATTAT
100585788 GTTAATAATT
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:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:100588137 original size:50 final size:51
Alignment explanation
Indices: 100588060--100588188 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
100588050 GACCATGGCA
100588060 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
100588111 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
100588161 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
100588189 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:100588202 original size:31 final size:31
Alignment explanation
Indices: 100588164--100588341 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
100588154 ACAAATGACA
*
100588164 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
100588195 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
100588226 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
100588257 --TGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
100588286 AGTGAAAAATGGTAGCTTCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
100588317 AGTGAATAGTGGTAGCTTTGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
100588342 AAGTGACAAG
Statistics
Matches: 134, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
29 25 0.19
30 3 0.02
31 106 0.79
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:100588287 original size:60 final size:61
Alignment explanation
Indices: 100588164--100588333 Score: 236
Period size: 60 Copynumber: 2.8 Consensus size: 61
100588154 ACAAATGACA
* * * *
100588164 AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCA-TGAAAAGTGGTAGCTCCGGCTACCTAATC
100588226 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC-TGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATCATGAAAAGTGGTAGCTCCGGCTACCTAATC
* * *
100588286 AGTGAAAAATGGTAGCTTCGGCTACCTAATCAGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCA-TGAAAAGTGGTAGCT
100588334 TTGGCTACAA
Statistics
Matches: 97, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
60 52 0.54
61 4 0.04
62 41 0.42
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (61 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATCATGAAAAGTGGTAGCTCCGGCTACCTAATC
Found at i:100588341 original size:91 final size:91
Alignment explanation
Indices: 100588166--100588331 Score: 269
Period size: 91 Copynumber: 1.8 Consensus size: 91
100588156 AAATGACAAG
* * * * *
100588166 TGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGTGA
1 TGAAAAGTGGTAGCTCCAGCTACCTAATCAGTGAAAAATGGTAGCTTCGGCTACCTAATCAGTGA
100588231 AAAGTGGTAGTTCCGGCTACCTGATC
66 AAAGTGGTAGTTCCGGCTACCTGATC
*
100588257 TGAAAAGTGGTAGCTCCGGCTACCTAATCAGTGAAAAATGGTAGCTTCGGCTACCTAATCAGTGA
1 TGAAAAGTGGTAGCTCCAGCTACCTAATCAGTGAAAAATGGTAGCTTCGGCTACCTAATCAGTGA
*
100588322 ATAGTGGTAG
66 AAAGTGGTAG
100588332 CTTTGGCTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 68 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (91 bp):
TGAAAAGTGGTAGCTCCAGCTACCTAATCAGTGAAAAATGGTAGCTTCGGCTACCTAATCAGTGA
AAAGTGGTAGTTCCGGCTACCTGATC
Found at i:100588352 original size:7 final size:7
Alignment explanation
Indices: 100588340--100588368 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
100588330 AGCTTTGGCT
100588340 ACAAGTG
1 ACAAGTG
100588347 ACAAGTG
1 ACAAGTG
100588354 ACAAGTG
1 ACAAGTG
100588361 ACAAGTG
1 ACAAGTG
100588368 A
1 A
100588369 TTTCCGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:100588443 original size:47 final size:46
Alignment explanation
Indices: 100588373--100588537 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 46
100588363 AAGTGATTTC
* * *
100588373 CGTATAATACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
100588419 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
100588466 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
100588508 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
100588538 ATTATGTAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.30
46 27 0.26
47 40 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:100588525 original size:42 final size:42
Alignment explanation
Indices: 100588467--100588581 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 42
100588457 TATGTGATTC
*
100588467 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATG-AATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGAT-TATGAAAGAT
100588509 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTAAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATG-AAAGAT
* **
100588551 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
100588582 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
40 4 0.06
41 2 0.03
42 59 0.89
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATGAAAGAT
Found at i:100589801 original size:34 final size:34
Alignment explanation
Indices: 100589758--100589826 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
100589748 CACCTTGACA
*
100589758 TACACGTTGGGGTTGATCGCTGATTTCATCTCAT
1 TACACGTTGGGGTTGATCGCTGACTTCATCTCAT
*
100589792 TACACGTTGGGGTTGATCGCTGGCTTCATCTCAT
1 TACACGTTGGGGTTGATCGCTGACTTCATCTCAT
100589826 T
1 T
100589827 CCTCCATGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (34 bp):
TACACGTTGGGGTTGATCGCTGACTTCATCTCAT
Found at i:100591933 original size:7 final size:7
Alignment explanation
Indices: 100591923--100591963 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
100591913 TTTAAAATAT
100591923 AATTGAA
1 AATTGAA
100591930 AATTGAA
1 AATTGAA
100591937 AATTCG-A
1 AATT-GAA
100591944 AATTGAA
1 AATTGAA
100591951 AATTGAA
1 AATTGAA
*
100591958 TATTGA
1 AATTGA
100591964 GGATTGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 1 0.03
7 29 0.94
8 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.15, T:0.32
Consensus pattern (7 bp):
AATTGAA
Found at i:100610871 original size:20 final size:20
Alignment explanation
Indices: 100610848--100610895 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
100610838 TAAATTCTAA
*
100610848 AAAGATAAATATAA-TTAATT
1 AAAGATAAATA-AAGATAATT
100610868 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
100610888 AAA-ATAAA
1 AAAGATAAA
100610896 ATCCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:100619375 original size:42 final size:42
Alignment explanation
Indices: 100619316--100619403 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
100619306 TGTCTTTCTC
100619316 GAGTTGCAACAACAGATTCGTTTTCAGTCTCTTCAAGTTTTG
1 GAGTTGCAACAACAGATTCGTTTTCAGTCTCTTCAAGTTTTG
100619358 GAGTTGCAACAACAGATTCGTTTTCAGTCTCTTCAAGTTTTG
1 GAGTTGCAACAACAGATTCGTTTTCAGTCTCTTCAAGTTTTG
100619400 GAGT
1 GAGT
100619404 ATCCAAAACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (42 bp):
GAGTTGCAACAACAGATTCGTTTTCAGTCTCTTCAAGTTTTG
Found at i:100620197 original size:35 final size:35
Alignment explanation
Indices: 100620157--100620229 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
100620147 TTATAATTAT
100620157 TTTGACTAAAAATGTTTTGTATCCACCTCTAATTC
1 TTTGACTAAAAATGTTTTGTATCCACCTCTAATTC
100620192 TTTGACTAAAAATGTTTTGTATCCACCTCTAATTC
1 TTTGACTAAAAATGTTTTGTATCCACCTCTAATTC
100620227 TTT
1 TTT
100620230 CAGTTTTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.45
Consensus pattern (35 bp):
TTTGACTAAAAATGTTTTGTATCCACCTCTAATTC
Found at i:100627633 original size:19 final size:19
Alignment explanation
Indices: 100627587--100627634 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
100627577 GTATATATTT
100627587 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
100627605 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
100627624 TAAGTTTTATT
1 TAAATTTTATT
100627635 CATATTTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:100627711 original size:42 final size:43
Alignment explanation
Indices: 100627644--100627739 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 43
100627634 TCATATTTTA
*
100627644 GGAA-TATTTTTATTTTATCTTTTAGTAGTTTATTAGAATAAG
1 GGAACTATTTTTATTTTATATTTTAGTAGTTTATTAGAATAAG
100627686 GGAACTATTTTT-TTTTATATTTTAGTAGTTTATTAGAATAAG
1 GGAACTATTTTTATTTTATATTTTAGTAGTTTATTAGAATAAG
100627728 GGAACTATTTTT
1 GGAACTATTTTT
100627740 CCAATTAGGA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
42 45 0.87
43 7 0.13
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (43 bp):
GGAACTATTTTTATTTTATATTTTAGTAGTTTATTAGAATAAG
Found at i:100629482 original size:15 final size:15
Alignment explanation
Indices: 100629462--100629493 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
100629452 TTATGTCGAT
100629462 GATATCATTCTTACA
1 GATATCATTCTTACA
100629477 GATATCATTCTTACA
1 GATATCATTCTTACA
100629492 GA
1 GA
100629494 AGATGATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (15 bp):
GATATCATTCTTACA
Found at i:100630497 original size:19 final size:19
Alignment explanation
Indices: 100630451--100630498 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
100630441 GTATATATTT
100630451 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
100630469 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
100630488 TAAGTTTTATT
1 TAAATTTTATT
100630499 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:100630603 original size:42 final size:42
Alignment explanation
Indices: 100630515--100630603 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
100630505 CTAGGAACAT
* *
100630515 TTTTATTTTATCTTTTAATAGTTTATTAGAATAATGGAACTA
1 TTTTCTTTTATATTTTAATAGTTTATTAGAATAATGGAACTA
*
100630557 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAA-GAGAACTA
1 TTTTCTTTTATATTTTAATAGTTTATTAGAATAATG-GAACTA
100630599 TTTTC
1 TTTTC
100630604 CCAATTAGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 42 0.98
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAATAGTTTATTAGAATAATGGAACTA
Found at i:100631816 original size:119 final size:112
Alignment explanation
Indices: 100631591--100631804 Score: 266
Period size: 119 Copynumber: 1.8 Consensus size: 112
100631581 AAACTTCATG
* * * * * *
100631591 ATACATACTTTAACATTTCATGCAAATATAATATAGAAAATGATAAATAACGACATAAATTTCAT
1 ATACATACATTAACATTTCATGCAAATACAACATAGAAAATAATAAATAACAACATAAATTTAAT
* * *
100631656 AATATACATTAACATTTCATGTAGATATAATCATAAATAACATAAAT
66 AATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
*
100631703 ATACATACATTAACATTTCATGCGAAATACAACATAGAAAATAATGAATATAACAATATAAATTA
1 ATACATACATTAACATTTCATGC-AAATACAACATAGAAAATAAT-AA-ATAACAACATAAATT-
*
100631768 CATAATATATATACAATAATATTTCATGCAAATATAA
62 --TAATA-ATATACAATAACATTTCATGCAAATATAA
100631805 CTTAGAATAA
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
112 22 0.26
113 18 0.21
114 2 0.02
115 13 0.15
118 4 0.05
119 25 0.30
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (112 bp):
ATACATACATTAACATTTCATGCAAATACAACATAGAAAATAATAAATAACAACATAAATTTAAT
AATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
Found at i:100631825 original size:71 final size:73
Alignment explanation
Indices: 100631688--100631831 Score: 170
Period size: 71 Copynumber: 2.0 Consensus size: 73
100631678 AGATATAATC
* * *
100631688 ATAAATAACATAAATATACATACATTAACATTTCATGCGAAATACAACATAGAAAATAATGAATA
1 ATAAATAACATAAATATACATACAATAACATTTCATGCGAAATACAACATAGAAAACAATCAATA
100631753 TAA-CAAT
66 TAATCAAT
* * * * *
100631760 ATAAATTACAT-AATATATATACAATAATATTTCATGC-AAATATAACTTAGAATAACAA-CATA
1 ATAAATAACATAAATATACATACAATAACATTTCATGCGAAATACAACATAGAA-AACAATCA-A
100631822 TATAATCAAT
64 TATAATCAAT
100631832 TTTCATGCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
70 14 0.23
71 33 0.54
72 14 0.23
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (73 bp):
ATAAATAACATAAATATACATACAATAACATTTCATGCGAAATACAACATAGAAAACAATCAATA
TAATCAAT
Found at i:100631869 original size:18 final size:18
Alignment explanation
Indices: 100631846--100631880 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100631836 ATGCAAATAT
*
100631846 ATAAAAACAATAAATAAC
1 ATAAAAACAACAAATAAC
*
100631864 ATAAAAATAACAAATAA
1 ATAAAAACAACAAATAA
100631881 TTTATGAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAAACAACAAATAAC
Found at i:100631929 original size:21 final size:19
Alignment explanation
Indices: 100631905--100631943 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
100631895 TTAACTTACT
*
100631905 AAAATAATACTAAATAAATAC
1 AAAAAAATAC-AAA-AAATAC
100631926 AAAAAAATACAAAAAATA
1 AAAAAAATACAAAAAATA
100631944 AATAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAAAATACAAAAAATAC
Found at i:100632273 original size:12 final size:12
Alignment explanation
Indices: 100632256--100632309 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
100632246 AAAATTATAC
100632256 ATAATATAATAA
1 ATAATATAATAA
*
100632268 ATAATATAGTAA
1 ATAATATAATAA
*
100632280 ATAATACATACAAAA
1 ATAAT--ATA-ATAA
*
100632295 ATAATAAAATAA
1 ATAATATAATAA
100632307 ATA
1 ATA
100632310 CTTTTTTACA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 22 0.65
13 2 0.06
14 3 0.09
15 7 0.21
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (12 bp):
ATAATATAATAA
Found at i:100633914 original size:90 final size:90
Alignment explanation
Indices: 100633781--100634450 Score: 1038
Period size: 90 Copynumber: 7.5 Consensus size: 90
100633771 TGTAACTCAG
* * ** *
100633781 GAATGTCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGAAAAATCTATCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
* * *
100633846 TCGATCTGCTTTGATGTAAACACAT
66 TTGATCTGCTTCGATGTAAACACAC
* * * * *
100633871 GAATGTCAGATCTGTTATCTTCGATCTGCTCCCGGTCTAATACAAAGATGACAAATCTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
* **
100633936 TTGATCTACTTTAATGTAAACACAC
66 TTGATCTGCTTCGATGTAAACACAC
* *
100633961 GAATGCCAGATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
* * *
100634026 TCGATCTACTTCGATGTAAACAAAC
66 TTGATCTGCTTCGATGTAAACACAC
* * *
100634051 GAATGTCAGATCTGCTATCTTCGGTCTGCTCCCTGTCTAATACAGAGACGCCAAATTTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
*
100634116 TTGATCTGCTTCGATGTAAACACAT
66 TTGATCTGCTTCGATGTAAACACAC
100634141 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
*
100634206 TTGATCTGCTTCGATGTAAACACAT
66 TTGATCTGCTTCGATGTAAACACAC
* *
100634231 GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATTTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
*
100634296 TCGATCTGCTTCGATGTAAACACAC
66 TTGATCTGCTTCGATGTAAACACAC
* *
100634321 GAATGTTAGATCTTCTATCTTCGATCTGCTCCCCGTCTAATAC--AGACGCCAAATCTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
*
100634384 TTGATCTGCTTTGATGTAAACACAC
66 TTGATCTGCTTCGATGTAAACACAC
100634409 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATA
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATA
100634451 TAGAAATGTC
Statistics
Matches: 536, Mismatches: 44, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
88 82 0.15
90 454 0.85
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (90 bp):
GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
TTGATCTGCTTCGATGTAAACACAC
Found at i:100634459 original size:45 final size:45
Alignment explanation
Indices: 100633782--100634472 Score: 272
Period size: 45 Copynumber: 15.4 Consensus size: 45
100633772 GTAACTCAGG
*
100633782 AATGTCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
1 AATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
* ** * ** * *
100633827 GATGAAAAATCT-ATCATCTTCGATCTGCT--TTGATGTAA-ACACA
1 AATGCCAAATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA
* * * *
100633870 TGAATGTCAGATCTGTTATCTTCGATCTGCTCCCGGTCTAATACA-A
1 --AATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
* * * **** * *
100633916 AGATGACAAATCTG-TCATCTTTGATCTACT-TTAATGTAA-ACACA
1 A-ATGCCAAATCTGCT-ATCTTCGATCTGCTCCCCGTCTAATACAGA
* *
100633960 CGAATGCCAGATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGA
1 --AATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
* * * * * *
100634007 GACGCCAAATCTG-TCATCTTCGATCTACT--TCGATGTAA-ACAAA
1 AATGCCAAATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA
* * * *
100634050 CGAATGTCAGATCTGCTATCTTCGGTCTGCTCCCTGTCTAATACAGA
1 --AATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
* * * * * * *
100634097 GACGCCAAATTTG-TCATCTTTGATCTGCT--TCGATGTAA-ACACA
1 AATGCCAAATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA
* *
100634140 TGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
1 --AATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
* * * * * *
100634187 GACGCCAAATCTG-TCATCTTTGATCTGCT--TCGATGTAA-ACACA
1 AATGCCAAATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA
* * *
100634230 TGAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGA
1 --AATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
* * * * * *
100634277 GACGCCAAATTTG-TCATCTTCGATCTGCT--TCGATGTAA-ACACA
1 AATGCCAAATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA
** * *
100634320 CGAATGTTAGATCTTCTATCTTCGATCTGCTCCCCGTCTAATACAG-
1 --AATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
* * ** * *
100634366 -ACGCCAAATCTG-TCATCTTTGATCTGCT--TTGATGTAA-ACACA
1 AATGCCAAATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA
* * *
100634408 CGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATATAGA
1 --AATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
*
100634455 AATGTCAAATCTGCTATC
1 AATGCCAAATCTGCTATC
100634473 GGTGATCTAC
Statistics
Matches: 460, Mismatches: 128, Indels: 116
0.65 0.18 0.16
Matches are distributed among these distances:
41 4 0.01
42 5 0.01
43 51 0.11
44 32 0.07
45 297 0.65
46 37 0.08
47 34 0.07
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (45 bp):
AATGCCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGA
Found at i:100643015 original size:39 final size:40
Alignment explanation
Indices: 100642898--100643082 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
100642888 GCTACTCATT
*
100642898 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
100642938 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
100642978 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * ** *
100643017 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCAGTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
*
100643058 -AAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
100643083 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 79 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:100643066 original size:79 final size:81
Alignment explanation
Indices: 100642898--100643082 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
100642888 GCTACTCATT
* * *
100642898 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
100642962 GATTTAGTAACTCGCA
66 GATATAGTAACTAGCA
* * **
100642978 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* **
100643040 GGATATGGTCAGTTAGCA
65 GGATATAGT-AACTAGCA
100643058 -AAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAAGCCTTCGGGACTTAGCCCGGA
100643083 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTAGCA
Found at i:100648300 original size:23 final size:23
Alignment explanation
Indices: 100648274--100648318 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
100648264 TGGGTATGTG
* * *
100648274 ATGACGTTATTTTATAAATATGC
1 ATGAAGTTATCTTAAAAATATGC
*
100648297 ATGAATTTATCTTAAAAATATG
1 ATGAAGTTATCTTAAAAATATG
100648319 TTGAATTGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAAGTTATCTTAAAAATATGC
Found at i:100648441 original size:12 final size:13
Alignment explanation
Indices: 100648419--100648447 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
100648409 TCCTTAAAAA
100648419 AAATAAAATAAAT
1 AAATAAAATAAAT
100648432 AAAT-AAATAAAT
1 AAATAAAATAAAT
100648444 AAAT
1 AAAT
100648448 TCGTAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:100652501 original size:47 final size:47
Alignment explanation
Indices: 100652447--100653090 Score: 1072
Period size: 47 Copynumber: 13.6 Consensus size: 47
100652437 TATTTGAATA
100652447 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
100652494 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
100652543 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
100652590 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
100652637 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
100652684 AATGTGAAAGTGTATATATATGTAATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
100652733 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
100652780 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
100652827 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
100652876 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
100652923 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
100652970 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
100653017 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
100653064 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
100653091 TCCCGAAGGG
Statistics
Matches: 565, Mismatches: 26, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
47 431 0.76
49 134 0.24
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:100652705 original size:143 final size:141
Alignment explanation
Indices: 100652447--100653090 Score: 1072
Period size: 143 Copynumber: 4.5 Consensus size: 141
100652437 TATTTGAATA
100652447 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
* *
100652512 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
100652577 AGCCAATGTGATG
129 AGCCGATGTGATG
*
100652590 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
100652655 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
100652720 AGCCGATGTGATG
129 AGCCGATGTGATG
100652733 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
100652798 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
* *
100652863 GGCTGATGTGATG
129 AGCCGATGTGATG
*
100652876 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
100652941 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
100653006 CCGATGTGATG
131 CCGATGTGATG
* * * * * * *
100653017 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
100653082 TGTGATAAG
66 TGTGATAAG
100653091 TCCCGAAGGG
Statistics
Matches: 478, Mismatches: 21, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
141 145 0.30
143 333 0.70
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
CCGATGTGATG
Found at i:100652778 original size:190 final size:189
Alignment explanation
Indices: 100652447--100653090 Score: 1089
Period size: 190 Copynumber: 3.4 Consensus size: 189
100652437 TATTTGAATA
* *
100652447 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
100652512 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* *
100652577 AGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
130 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
100652637 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
100652702 TATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
100652767 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
130 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* **
100652827 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
100652890 TATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
64 TATATGTGATAAGGCCTAATG-CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
100652955 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
128 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
100653017 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
100653081 -ATGTGATAAG
66 TATGTGATAAG
100653091 TCCCGAAGGG
Statistics
Matches: 429, Mismatches: 20, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
188 50 0.12
189 2 0.00
190 333 0.78
192 44 0.10
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (189 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:100660409 original size:23 final size:23
Alignment explanation
Indices: 100660383--100660427 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
100660373 TGGGTATGTG
* * *
100660383 ATGACGTTATTTTATAAATATGC
1 ATGAAGTTATCTTAAAAATATGC
*
100660406 ATGAATTTATCTTAAAAATATG
1 ATGAAGTTATCTTAAAAATATG
100660428 TTGAATTGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAAGTTATCTTAAAAATATGC
Found at i:100660450 original size:14 final size:14
Alignment explanation
Indices: 100660427--100660456 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
100660417 TTAAAAATAT
100660427 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
100660441 GTTGATTTGGATTG
1 GTTGAATTGGATTG
100660455 GT
1 GT
100660457 CTTGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:100664476 original size:119 final size:112
Alignment explanation
Indices: 100664251--100664464 Score: 275
Period size: 119 Copynumber: 1.8 Consensus size: 112
100664241 AAACTTCATG
* * * * *
100664251 ATACATACTTTAACATTTCATGCAAATATAATATAGAAAATGATAAATAACGACATAAATTACAT
1 ATACATACATTAACATTTCATGCAAATACAACATAGAAAATAATAAATAACAACATAAATTACAT
* * *
100664316 AATATACATTAACATTTCATGTAGATATAATCATAAATAACATAAAT
66 AATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
*
100664363 ATACATACATTAACATTTCATGCGAAATACAACATAGAAAATAATGAATATAACAATATAAATTA
1 ATACATACATTAACATTTCATGC-AAATACAACATAGAAAATAAT-AA-ATAACAACATAAATTA
*
100664428 CATAATATATATACAATAATATTTCATGCAAATATAA
63 C---ATA-ATATACAATAACATTTCATGCAAATATAA
100664465 CTTAGAATAA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
112 22 0.26
113 18 0.21
114 2 0.02
115 15 0.18
118 3 0.04
119 25 0.29
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (112 bp):
ATACATACATTAACATTTCATGCAAATACAACATAGAAAATAATAAATAACAACATAAATTACAT
AATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
Found at i:100664485 original size:71 final size:73
Alignment explanation
Indices: 100664348--100664491 Score: 170
Period size: 71 Copynumber: 2.0 Consensus size: 73
100664338 AGATATAATC
* * *
100664348 ATAAATAACATAAATATACATACATTAACATTTCATGCGAAATACAACATAGAAAATAATGAATA
1 ATAAATAACATAAATATACATACAATAACATTTCATGCGAAATACAACATAGAAAACAATCAATA
100664413 TAA-CAAT
66 TAATCAAT
* * * * *
100664420 ATAAATTACAT-AATATATATACAATAATATTTCATGC-AAATATAACTTAGAATAACAA-CATA
1 ATAAATAACATAAATATACATACAATAACATTTCATGCGAAATACAACATAGAA-AACAATCA-A
100664482 TATAATCAAT
64 TATAATCAAT
100664492 TTTCATGCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
70 14 0.23
71 33 0.54
72 14 0.23
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (73 bp):
ATAAATAACATAAATATACATACAATAACATTTCATGCGAAATACAACATAGAAAACAATCAATA
TAATCAAT
Found at i:100664529 original size:18 final size:18
Alignment explanation
Indices: 100664506--100664540 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100664496 ATGCAAATGT
*
100664506 ATAAAAACAATAAATAAC
1 ATAAAAACAAGAAATAAC
*
100664524 ATAAAAATAAGAAATAA
1 ATAAAAACAAGAAATAA
100664541 TTTATGAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (18 bp):
ATAAAAACAAGAAATAAC
Found at i:100664589 original size:21 final size:19
Alignment explanation
Indices: 100664565--100664603 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
100664555 TTAACTTACT
*
100664565 AAAATAATACTAAATAAATAC
1 AAAAAAATAC-AAA-AAATAC
100664586 AAAAAAATACAAAAAATA
1 AAAAAAATACAAAAAATA
100664604 AATAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAAAATACAAAAAATAC
Found at i:100664934 original size:12 final size:12
Alignment explanation
Indices: 100664917--100664988 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
100664907 AAAATTATAC
100664917 ATAATATAATAA
1 ATAATATAATAA
*
100664929 ATAATAT-A-CA
1 ATAATATAATAA
* *
100664939 ATAAAAT-ATAT
1 ATAATATAATAA
100664950 ATAATATAATAA
1 ATAATATAATAA
100664962 ATAATACATAA-AA
1 ATAAT--ATAATAA
*
100664975 A-AATAAAATAA
1 ATAATATAATAA
100664986 ATA
1 ATA
100664989 TTTTTTTACA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
10 11 0.23
11 10 0.21
12 19 0.40
13 3 0.06
14 4 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (12 bp):
ATAATATAATAA
Found at i:100664941 original size:19 final size:19
Alignment explanation
Indices: 100664919--100664967 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 19
100664909 AATTATACAT
100664919 AATATAATAAATAATATAC
1 AATATAATAAATAATATAC
*
100664938 -A-AT-A-AAAT-ATATAT
1 AATATAATAAATAATATAC
100664952 AATATAATAAATAATA
1 AATATAATAAATAATA
100664968 CATAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 10
0.69 0.03 0.29
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 3 0.12
17 3 0.12
18 5 0.21
19 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAATAAATAATATAC
Found at i:100664972 original size:19 final size:19
Alignment explanation
Indices: 100664908--100664972 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
100664898 ACAAATTTTA
*
100664908 AAATTATACATAATATAAT
1 AAATAATACATAATATAAT
100664927 AAATAAT--ATACA-AT-A-
1 AAATAATACATA-ATATAAT
*
100664942 AAAT-ATATATAATATAAT
1 AAATAATACATAATATAAT
100664960 AAATAATACATAA
1 AAATAATACATAA
100664973 AAAAATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
14 2 0.05
15 5 0.14
16 6 0.16
17 6 0.16
18 5 0.14
19 13 0.35
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATAATACATAATATAAT
Found at i:100664978 original size:33 final size:33
Alignment explanation
Indices: 100664907--100664979 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
100664897 TACAAATTTT
* *
100664907 AAAATTATACATAATATAATAAATAATATACAA
1 AAAAATATACATAATATAATAAATAATACACAA
* * *
100664940 TAAAATATATATAATATAATAAATAATACATAA
1 AAAAATATACATAATATAATAAATAATACACAA
100664973 AAAAATA
1 AAAAATA
100664980 AAATAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (33 bp):
AAAAATATACATAATATAATAAATAATACACAA
Found at i:100666154 original size:15 final size:17
Alignment explanation
Indices: 100666123--100666155 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
100666113 GGAGGTTTAA
100666123 TGGGTGTAATCGGGTAT
1 TGGGTGTAATCGGGTAT
100666140 TGGGT-TAAT-GGGTAT
1 TGGGTGTAATCGGGTAT
100666155 T
1 T
100666156 TTCGTTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.18, C:0.03, G:0.39, T:0.39
Consensus pattern (17 bp):
TGGGTGTAATCGGGTAT
Found at i:100668024 original size:19 final size:19
Alignment explanation
Indices: 100668002--100668038 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
100667992 GACTTTATCA
100668002 ATACAAGTCCACTTCTACT
1 ATACAAGTCCACTTCTACT
* *
100668021 ATACAGGTCTACTTCTAC
1 ATACAAGTCCACTTCTAC
100668039 CCATACATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (19 bp):
ATACAAGTCCACTTCTACT
Found at i:100668465 original size:28 final size:29
Alignment explanation
Indices: 100668422--100668477 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
100668412 GATTGTAAAA
100668422 GGTTTCTAGTTGAGCCACAAAAACTAGAT
1 GGTTTCTAGTTGAGCCACAAAAACTAGAT
* *
100668451 GGTTT-TAGTTTAGCCATAAAAACTAGA
1 GGTTTCTAGTTGAGCCACAAAAACTAGA
100668478 GGAGAAGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (29 bp):
GGTTTCTAGTTGAGCCACAAAAACTAGAT
Found at i:100675416 original size:26 final size:26
Alignment explanation
Indices: 100675387--100675439 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
100675377 TCAAACATGC
*
100675387 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
100675413 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
100675439 A
1 A
100675440 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:100676998 original size:27 final size:26
Alignment explanation
Indices: 100676914--100676998 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
100676904 CATGAAATTC
* *
100676914 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
100676940 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
100676966 TTATCATGGAACATTTACCTAAACCTA
1 TTATCATGGAACATTTACCT-AACCTA
100676993 TTATCA
1 TTATCA
100676999 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
26 44 0.79
27 12 0.21
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:100682447 original size:26 final size:26
Alignment explanation
Indices: 100682418--100682470 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
100682408 TCAAACATGC
*
100682418 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
100682444 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
100682470 A
1 A
100682471 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:100683991 original size:26 final size:26
Alignment explanation
Indices: 100683953--100684036 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
100683943 CATGGAATTC
* *
100683953 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
100683979 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
100684005 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
100684031 TTATCA
1 TTATCA
100684037 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:100684432 original size:33 final size:33
Alignment explanation
Indices: 100684377--100684455 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
100684367 CTAAGATTTT
*
100684377 ATTATTATTAATTATTAGTATGGTTTTATATTAA
1 ATTATTATT-ATTATTAGTATGGTTTCATATTAA
*
100684411 ATTATTATTATTATTATTATGGTTTCATATTAA
1 ATTATTATTATTATTAGTATGGTTTCATATTAA
* *
100684444 GTTATAATTATT
1 ATTATTATTATT
100684456 TAATTGGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 32 0.78
34 9 0.22
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.57
Consensus pattern (33 bp):
ATTATTATTATTATTAGTATGGTTTCATATTAA
Found at i:100685458 original size:23 final size:23
Alignment explanation
Indices: 100685443--100685519 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 23
100685433 CAGACACTTT
100685443 ATGTGTCGTATTTCAGGCACCTC
1 ATGTGTCGTATTTCAGGCACCTC
*
100685466 GTGTGTCGTA--TCAGGCACCTC
1 ATGTGTCGTATTTCAGGCACCTC
* * * *
100685487 GTGTGTC--ATTTTAGGCACTTT
1 ATGTGTCGTATTTCAGGCACCTC
100685508 ATGTGTCGTATT
1 ATGTGTCGTATT
100685520 CTGATCAGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
19 1 0.02
21 32 0.71
23 12 0.27
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.39
Consensus pattern (23 bp):
ATGTGTCGTATTTCAGGCACCTC
Found at i:100688292 original size:14 final size:14
Alignment explanation
Indices: 100688273--100688299 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100688263 TAGGTCATGT
100688273 ATGTAACACCCCTA
1 ATGTAACACCCCTA
100688287 ATGTAACACCCCT
1 ATGTAACACCCCT
100688300 TACCCATGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.22
Consensus pattern (14 bp):
ATGTAACACCCCTA
Found at i:100690572 original size:48 final size:49
Alignment explanation
Indices: 100690459--100690582 Score: 151
Period size: 49 Copynumber: 2.6 Consensus size: 49
100690449 AAGTCGATGT
* * *
100690459 CATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGTCGATGC
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGATAC
** * * * *
100690508 TGTGTCCCAGACAGGTCTTATACTGGCTCTCATCTATCG-TGTCGATAC
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGATAC
*
100690556 CATGTCCCAGATAGGTCTTACACTGAC
1 CATGTCCCAGACAGGTCTTACACTGAC
100690583 ACACAACAAG
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
48 29 0.48
49 32 0.52
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGATAC
Found at i:100690707 original size:46 final size:45
Alignment explanation
Indices: 100690595--100690765 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 45
100690585 ACAACAAGCT
* * * * *
100690595 GATGCCATGTCCCAGACAGGTCTTAAACTAGCTTTATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTCT-T-TCTCAATGCC
* ** *
100690643 AATGCATGTCGTAAACATGTCTTACACTAGCTCTTGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTT-TCTCAATGCC
* *
100690689 GATGCATGTCTCAGACATGTCTTACACTGGCTC--TCAT-AATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTTTC-TCAA--T-GCC
100690735 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
100690766 ACACATATCA
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 1 0.01
46 69 0.68
47 24 0.24
48 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTTTCTCAATGCC
Found at i:100692139 original size:3 final size:3
Alignment explanation
Indices: 100692131--100692163 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
100692121 CAAATATATA
100692131 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100692164 GGTAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:100692437 original size:8 final size:8
Alignment explanation
Indices: 100692426--100692464 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
100692416 AGGAAATACA
100692426 ATAATAAT
1 ATAATAAT
100692434 ATAA-AAT
1 ATAATAAT
*
100692441 -TAATGAT
1 ATAATAAT
100692448 ATAATAAT
1 ATAATAAT
100692456 ATAATAAT
1 ATAATAAT
100692464 A
1 A
100692465 ATAAGCATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 3 0.11
7 5 0.19
8 19 0.70
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (8 bp):
ATAATAAT
Found at i:100694157 original size:44 final size:44
Alignment explanation
Indices: 100693930--100694207 Score: 129
Period size: 45 Copynumber: 6.2 Consensus size: 44
100693920 CCAGTATAGT
* *
100693930 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAAC
1 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCTACTGCAAC
* * ** * * *
100693974 TTAAAGGAGATA-AGAATTGGTAATTTCAACCTACTCCACTGCAAC
1 TTCAAGGAGA-AGAG-ATTTGTAGCTTCGATCTACTCTACTGCAAC
* * ** *
100694019 TTTAGGGAGATATG-G-TTTGTCTAG-TTTTATCCTGCTCTACTGCAAC
1 TTCAAGGAGA-A-GAGATTTG--TAGCTTCGAT-CTACTCTACTGCAAC
* * * * * * *
100694065 TTTATAGAGATAAG-GA-TTGTGGCTTCGATCTGCTCTAATGTAAT
1 TTCA-AG-GAGAAGAGATTTGTAGCTTCGATCTACTCTACTGCAAC
** *
100694109 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCTACTGCAAC
* ** * * *
100694153 TTCAAGGAGGTAAGA-ATTGGTAATTTCAACCTGCTCTACTGCAAC
1 TTCAAGGA-G-AAGAGATTTGTAGCTTCGATCTACTCTACTGCAAC
*
100694198 TTCAGGGAGA
1 TTCAAGGAGA
100694208 TAAGGCTGGT
Statistics
Matches: 174, Mismatches: 45, Indels: 31
0.70 0.18 0.12
Matches are distributed among these distances:
42 5 0.03
43 5 0.03
44 61 0.35
45 69 0.40
46 29 0.17
47 2 0.01
48 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCTACTGCAAC
Found at i:100694375 original size:143 final size:143
Alignment explanation
Indices: 100694191--100694836 Score: 907
Period size: 143 Copynumber: 4.5 Consensus size: 143
100694181 ACCTGCTCTA
* * *
100694191 CTGCAACTTCAGGGAGATAAGGCTGGTGGCCTCAATTTGCTTCACTGCAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * *
100694256 ATCCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAACTCCAGGGAAATAATATTCACTTTTT
66 ATTCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAACTCCAGGGAAATAAGATTCACTTTCT
*
100694321 TTAGTCTGCTCCG
131 TCAGTCTGCTCCG
* * * *
100694334 CTGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGCTTCACTGCAACTTTAGAAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * * *
100694399 ATTCGCCATAATTAGTAGCTTTAATCTGTTCCACTGCAACTGCAGGGAAATAAGATTCGCTTTCT
66 ATTCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAACTCCAGGGAAATAAGATTCACTTTCT
*
100694464 TCGGTCTGCTCCG
131 TCAGTCTGCTCCG
* * * * *
100694477 TTGCAACTTCAGGGAGATAAGGTTGGTGGCTTCAATTTGCTCCGCTGCAACTTCAGGAAGATAGG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * **
100694542 ATTCGCCATAATTTGTAGCTTCAATC-AGTTCCACTACAACTCTAGGGAAATAAGATTTGCTTTC
66 ATTCGCCATAATTTGTAGCTTCAATCTA-TTCCACTGCAACTCCAGGGAAATAAGATTCACTTTC
*
100694606 TTCAGTCTGCTTCG
130 TTCAGTCTGCTCCG
** * *
100694620 CTGCAACTTCAGGGAGATAATACTGGTGGCTTCAATCTGCTCCACTGCAATTTCAAGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
** * *
100694685 ATTCGCCATAATTCATAGCTTCAATCTGTTCCACTGCAACTCTAGGGAAATAAGATTCACTTTCT
66 ATTCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAACTCCAGGGAAATAAGATTCACTTTCT
**
100694750 TCAGTCTGCTCTA
131 TCAGTCTGCTCCG
* * *
100694763 CTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
*
100694828 ATCCGCCAT
66 ATTCGCCAT
100694837 CTTCGATCTA
Statistics
Matches: 444, Mismatches: 57, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
143 444 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (143 bp):
CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
ATTCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAACTCCAGGGAAATAAGATTCACTTTCT
TCAGTCTGCTCCG
Found at i:100694783 original size:45 final size:44
Alignment explanation
Indices: 100694702--100694829 Score: 134
Period size: 44 Copynumber: 2.9 Consensus size: 44
100694692 ATAATTCATA
* *
100694702 GCTTCAATCTGTTCCACTGCAAC-TCTAGGGAA-ATAAGATTCACTT
1 GCTTCAATCTGCTCCACTGCAACTTC-A-GGAAGATAAGATT-ACTG
* * * * **
100694747 TCTTCAGTCTGCTCTACTGCAACTTCAGGAAGATAAGACTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTACTG
*
100694791 GCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
100694830 CCGCCATCTT
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
44 39 0.57
45 27 0.40
46 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTACTG
Found at i:100695327 original size:46 final size:46
Alignment explanation
Indices: 100695266--100695458 Score: 248
Period size: 46 Copynumber: 4.2 Consensus size: 46
100695256 AAATTTGGTT
* *
100695266 TCTTCCATCTATCCCACTGCAACTCAA-GGGTATAGGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACT-AAGGGGTATAGGATTTGTATCA
* * *
100695312 TCTACAATCCATCCCATTACAACTCAA-GGGTAT-GAGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACT-AAGGGGTATAG-GATTTGTATCA
*
100695358 TCTTCAATCCATCCCACTGCAACTAAGGGGTATAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTAAGGGGTATAGGATTTGTATCA
* * * *
100695404 TCTTCAATCTATCCTACTGCAACTAAGGGGTATAGGATTTGTAACT
1 TCTTCAATCCATCCCACTGCAACTAAGGGGTATAGGATTTGTATCA
100695450 TCTTCAATC
1 TCTTCAATC
100695459 AATTTGATTT
Statistics
Matches: 132, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
45 3 0.02
46 128 0.97
47 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTAAGGGGTATAGGATTTGTATCA
Found at i:100695922 original size:27 final size:26
Alignment explanation
Indices: 100695886--100695975 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 26
100695876 GCATAGCTCG
100695886 AAATGAATAAATTAATCAAAGATAGC
1 AAATGAATAAATTAATCAAAGATAGC
** * * *
100695912 AAATGCAATAAA--AAGGAAATAAACTC
1 AAATG-AATAAATTAATCAAAGATA-GC
*
100695938 AAAATGAATAAGTTAATCAAAGATAGC
1 -AAATGAATAAATTAATCAAAGATAGC
100695965 AAATGTAATAA
1 AAATG-AATAA
100695976 GAAGGAAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 11
0.68 0.16 0.16
Matches are distributed among these distances:
25 7 0.15
26 16 0.34
27 17 0.36
28 7 0.15
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.21
Consensus pattern (26 bp):
AAATGAATAAATTAATCAAAGATAGC
Found at i:100699397 original size:46 final size:46
Alignment explanation
Indices: 100699345--100699756 Score: 605
Period size: 46 Copynumber: 9.0 Consensus size: 46
100699335 AGTGTGCTCT
*
100699345 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100699391 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100699437 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100699483 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
100699529 CTGATATGAAAGGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
100699575 ATGACA-GAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
100699621 ATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
100699667 ATGACA-GAATATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAA-ATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
100699713 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
100699757 TCATGTCAAA
Statistics
Matches: 348, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
45 4 0.01
46 341 0.98
47 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100700927 original size:17 final size:17
Alignment explanation
Indices: 100700880--100700927 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
100700870 CCCCACGATC
*
100700880 TTTTTTATTATTTGTGT
1 TTTTTTTTTATTTGTGT
* *
100700897 TTTTTGTTTGTTTGT-T
1 TTTTTTTTTATTTGTGT
100700913 TGTTTTTTTTATTTG
1 T-TTTTTTTTATTTG
100700928 GTTGCCTCCG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.06, C:0.00, G:0.15, T:0.79
Consensus pattern (17 bp):
TTTTTTTTTATTTGTGT
Found at i:100701873 original size:3 final size:3
Alignment explanation
Indices: 100701865--100702106 Score: 156
Period size: 3 Copynumber: 79.7 Consensus size: 3
100701855 TAATTTTAAC
* * * *
100701865 ATT ATT ATT ATCT -TT ATT TTT ATT ACT ATT ATT ATT ACT ACT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
100701910 GTT ATT TTT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT CATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * *
100701958 ACT ATT A-C ATT ATT -TCT -TT ATTT ATTT ATTT ATTT ACCT ATT CTT
1 ATT ATT ATT ATT ATT AT-T ATT A-TT A-TT A-TT A-TT A-TT ATT ATT
* ** * * * * * * *
100702003 TTT A-T ATT CACGC ATT -TT ATT TTT TTT ATC ATG ACT CTC ATT ATT
1 ATT ATT ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
100702048 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
100702096 ATT ATT ATT AT
1 ATT ATT ATT AT
100702107 ATCCTTTTAT
Statistics
Matches: 190, Mismatches: 37, Indels: 24
0.76 0.15 0.10
Matches are distributed among these distances:
2 10 0.05
3 158 0.83
4 22 0.12
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:100702133 original size:18 final size:18
Alignment explanation
Indices: 100702110--100702144 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
100702100 TTATTATATC
*
100702110 CTTTTATATCATTCCAAA
1 CTTTTATATCATGCCAAA
100702128 CTTTTATATCATGCCAA
1 CTTTTATATCATGCCAA
100702145 CAATTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.43
Consensus pattern (18 bp):
CTTTTATATCATGCCAAA
Found at i:100704916 original size:43 final size:43
Alignment explanation
Indices: 100704836--100704948 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
100704826 TGTGATTACA
* **
100704836 TGTAAGACCATGTCTGGGGCATTGGCATTGTATTATGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCACCGTATTATGATTATG
*
100704879 TGTAAGACCATGTCTGGGACATTGGCACCGT-TATATGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCACCGTAT-TATGATTATG
* * * *
100704922 TATAAGACCCTGTCTAGGACAGTGGCA
1 TGTAAGACCATGTCTGGGACATTGGCA
100704949 TCGATATGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 60 0.98
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCACCGTATTATGATTATG
Found at i:100711908 original size:23 final size:23
Alignment explanation
Indices: 100711871--100711963 Score: 98
Period size: 24 Copynumber: 3.9 Consensus size: 23
100711861 TTCCCATTAA
100711871 ATGGCTCTTATTGAGCTTCCTGAT
1 ATGGCTCTTA-TGAGCTTCCTGAT
*
100711895 A-GGCTCTTCCTGAGCTTCCTGAT
1 ATGGCTCTT-ATGAGCTTCCTGAT
* * * *
100711918 ATGGTTCTTTGTGAACTTCCCGATT
1 ATGGCTC-TTATGAGCTTCCTGA-T
100711943 ATGGCTCTTATGAGCTTCCTG
1 ATGGCTCTTATGAGCTTCCTG
100711964 TTATATAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
23 21 0.38
24 26 0.46
25 9 0.16
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.40
Consensus pattern (23 bp):
ATGGCTCTTATGAGCTTCCTGAT
Found at i:100711936 original size:24 final size:24
Alignment explanation
Indices: 100711871--100711951 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 24
100711861 TTCCCATTAA
** *
100711871 ATGGCTCTTATTGAGCTTCCTGAT
1 ATGGCTCTTCCTGAACTTCCTGAT
*
100711895 A-GGCTCTTCCTGAGCTTCCTGAT
1 ATGGCTCTTCCTGAACTTCCTGAT
* ** *
100711918 ATGGTTCTTTGTGAACTTCCCGATT
1 ATGGCTCTTCCTGAACTTCCTGA-T
100711943 ATGGCTCTT
1 ATGGCTCTT
100711952 ATGAGCTTCC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
23 21 0.45
24 17 0.36
25 9 0.19
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (24 bp):
ATGGCTCTTCCTGAACTTCCTGAT
Found at i:100721615 original size:19 final size:19
Alignment explanation
Indices: 100721591--100721678 Score: 128
Period size: 19 Copynumber: 4.8 Consensus size: 19
100721581 AATCATATCT
*
100721591 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
100721610 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
100721628 TCTAATATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
100721645 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
100721664 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
100721679 AATTGAAGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
17 15 0.24
18 15 0.24
19 32 0.52
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:100721649 original size:35 final size:36
Alignment explanation
Indices: 100721591--100721673 Score: 123
Period size: 35 Copynumber: 2.3 Consensus size: 36
100721581 AATCATATCT
*
100721591 TCTAAGATTGTATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCATATCACA
*
100721628 TCTAATATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
100721664 TCTAAGATTG
1 TCTAAGATTG
100721674 CATATAATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 19 0.45
36 14 0.33
37 9 0.21
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAGATTGCATATCACA
Found at i:100722427 original size:88 final size:85
Alignment explanation
Indices: 100722279--100722451 Score: 195
Period size: 88 Copynumber: 2.0 Consensus size: 85
100722269 AGACGCCAAA
* * * * *
100722279 CTTCGATTTGTTCTTGAAATACAGAGATATCAAATCATCTTAGACTTGCTTCAATGTAAACA-CG
1 CTTCGATTTGTTCTTGAAATACAAAAATACCAAACCATCTTAGACTTGCTTCAATATAAACATC-
100722343 TGAAAGCCAAATCAGCTATGT
65 TGAAAGCCAAATCAGCTATGT
* * * *
100722364 CTTCGATTTGTTCCTTGTAAGTACAAAAATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACA
1 CTTCGATTTGTT-CTTG-AAATACAAAAATACCAAACCATCTTAGA-CTTGCTTCAATATAAACA
* * *
100722429 TCTGAAGGCCAGATCTGCTATGT
63 TCTGAAAGCCAAATCAGCTATGT
100722452 GTCTGCCCTC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 12 0.17
86 4 0.06
87 21 0.29
88 34 0.47
89 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (85 bp):
CTTCGATTTGTTCTTGAAATACAAAAATACCAAACCATCTTAGACTTGCTTCAATATAAACATCT
GAAAGCCAAATCAGCTATGT
Found at i:100722573 original size:207 final size:206
Alignment explanation
Indices: 100722073--100722657 Score: 904
Period size: 207 Copynumber: 2.8 Consensus size: 206
100722063 AAATCTGCTT
* * * * *
100722073 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAT
1 CTTCGATTTGTT-CTTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
100722138 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * * * * *
100722203 AGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATAT
130 GGATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCATCGAATAT
100722267 GGAGACGCCAAA
195 GGAGACGCCAAA
** *
100722279 CTTCGATTTGTTCTTGA-AATACAGAGATATCAAATCATCTTAGACTTGCTTCAATGTAAACACG
1 CTTCGATTTGTTCTTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACG
* **
100722343 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAAAATGCCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
*
100722408 GATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATG
131 GATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCATCGAATATG
100722473 GAGACGCCAAA
196 GAGACGCCAAA
* *
100722484 GTTCGATTTGTTCTTTGACAATACAGATATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTC-TTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
100722549 GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
100722614 GGATCTTACTTCAGTATAAACATCTGAAGGTCAGATCTGCTATG
130 GGATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATG
100722658 CTTTAACCTG
Statistics
Matches: 343, Mismatches: 33, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
204 103 0.30
205 80 0.23
206 15 0.04
207 145 0.42
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (206 bp):
CTTCGATTTGTTCTTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACG
TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
GATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCATCGAATATG
GAGACGCCAAA
Found at i:100722919 original size:84 final size:84
Alignment explanation
Indices: 100722778--100722937 Score: 239
Period size: 84 Copynumber: 1.9 Consensus size: 84
100722768 AGTCGTCGTT
* * * *
100722778 GATCTGTTCCACTACTACTTAGGGAGATAAGATCTATAATTTTAGCCCATTACCCTACTGCTTAG
1 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAATTTAACCCATTACCCTACTGCTTAG
*
100722843 GGGGTTAAGGCAAGTCTTC
66 GGGATTAAGGCAAGTCTTC
* * **
100722862 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAG
1 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAATTTAACCCATTACCCTACTGCTTAG
100722927 GGGATTAAGGC
66 GGGATTAAGGC
100722938 GCTGAATTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (84 bp):
GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAATTTAACCCATTACCCTACTGCTTAG
GGGATTAAGGCAAGTCTTC
Found at i:100723895 original size:8 final size:8
Alignment explanation
Indices: 100723878--100723935 Score: 59
Period size: 8 Copynumber: 7.6 Consensus size: 8
100723868 GGCCTCTCCA
100723878 TTTTTCTT
1 TTTTTCTT
*
100723886 TTTTT-AT
1 TTTTTCTT
*
100723893 TTTTT-AT
1 TTTTTCTT
100723900 TTTTTCTT
1 TTTTTCTT
**
100723908 TTTTTCGC
1 TTTTTCTT
100723916 TTTTTCTT
1 TTTTTCTT
100723924 TTTTT-TT
1 TTTTTCTT
100723931 TTTTT
1 TTTTT
100723936 TTGAAATAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
7 20 0.47
8 23 0.53
ACGTcount: A:0.03, C:0.09, G:0.02, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:100723926 original size:7 final size:7
Alignment explanation
Indices: 100723878--100723937 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
100723868 GGCCTCTCCA
100723878 TTTTTCTT
1 TTTTTC-T
*
100723886 TTTTTAT
1 TTTTTCT
*
100723893 TTTTTAT
1 TTTTTCT
100723900 TTTTTCTT
1 TTTTTC-T
*
100723908 TTTTTCGC
1 TTTTTC-T
100723916 TTTTTCT
1 TTTTTCT
100723923 TTTTT-T
1 TTTTTCT
100723929 TTTTT-T
1 TTTTTCT
100723935 TTT
1 TTT
100723938 GAAATAGAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
6 10 0.22
7 18 0.39
8 18 0.39
ACGTcount: A:0.03, C:0.08, G:0.02, T:0.87
Consensus pattern (7 bp):
TTTTTCT
Found at i:100729753 original size:17 final size:18
Alignment explanation
Indices: 100729700--100729825 Score: 175
Period size: 19 Copynumber: 6.9 Consensus size: 18
100729690 AATCATATCT
*
100729700 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
100729719 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
100729737 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
100729754 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
100729772 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
100729789 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
100729808 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
100729826 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 33 0.34
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:100729758 original size:35 final size:35
Alignment explanation
Indices: 100729700--100729817 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
100729690 AATCATATCT
100729700 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
100729737 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
100729772 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
100729808 TCTAAGATTG
1 TCTAAGATTG
100729818 CATATCATTG
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 54 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:100729833 original size:17 final size:18
Alignment explanation
Indices: 100729700--100729822 Score: 96
Period size: 17 Copynumber: 6.8 Consensus size: 18
100729690 AATCATATCT
* *
100729700 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATAT-ACA
*
100729719 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
100729737 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
100729754 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
100729772 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
100729789 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATAT-ACA
100729808 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
100729823 CATTGAAGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 32 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCATATACA
Found at i:100730793 original size:17 final size:18
Alignment explanation
Indices: 100730771--100730808 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100730761 ACTATATAAG
100730771 ATATTA-ATTATTACAAA
1 ATATTATATTATTACAAA
* *
100730788 ATATTATTTTATTATAAA
1 ATATTATATTATTACAAA
100730806 ATA
1 ATA
100730809 AATTTTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTATTACAAA
Found at i:100730815 original size:17 final size:18
Alignment explanation
Indices: 100730778--100730815 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100730768 AAGATATTAA
*
100730778 TTATTACAAAATATTATT
1 TTATTACAAAATATAATT
*
100730796 TTATTATAAAATA-AATT
1 TTATTACAAAATATAATT
100730813 TTA
1 TTA
100730816 GTTCTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATTACAAAATATAATT
Found at i:100735065 original size:41 final size:41
Alignment explanation
Indices: 100734998--100735248 Score: 274
Period size: 41 Copynumber: 6.1 Consensus size: 41
100734988 ATACAAATTA
* * * *
100734998 CCTGACACAATACACCGCCACAAAGCCTGCTAAGCTCAAGG
1 CCTGATACAATACACTGACACAAAGCCTGCTAGGCTCAAGG
* * *
100735039 CCTGATACAATACACTGACACGAAGCCTACTAGGCTTACA-G
1 CCTGATACAATACACTGACACAAAGCCTGCTAGGCTCA-AGG
* * ** * *
100735080 CCTAATACAATACAC-CAGCATGAAGCTTGCTAGGCTCAAAG
1 CCTGATACAATACACTGA-CACAAAGCCTGCTAGGCTCAAGG
100735121 CCTGATACAATACACT-AGCACAAAGCCTGCTAGGCTCAAGG
1 CCTGATACAATACACTGA-CACAAAGCCTGCTAGGCTCAAGG
* *
100735162 CCTGATACAATACACTGGCACAAAGCCTGCTAGGCTCAAGT
1 CCTGATACAATACACTGACACAAAGCCTGCTAGGCTCAAGG
* * * * *
100735203 CCTGATACAATACTCCGGCACGAAGCCTGTTAGGCTCAAGG
1 CCTGATACAATACACTGACACAAAGCCTGCTAGGCTCAAGG
100735244 CCTGA
1 CCTGA
100735249 CAGAATATCT
Statistics
Matches: 180, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
40 2 0.01
41 177 0.98
42 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (41 bp):
CCTGATACAATACACTGACACAAAGCCTGCTAGGCTCAAGG
Found at i:100735228 original size:123 final size:123
Alignment explanation
Indices: 100734998--100735255 Score: 349
Period size: 123 Copynumber: 2.1 Consensus size: 123
100734988 ATACAAATTA
* *
100734998 CCTGACACAATACACCGCCACAAAGCCTGCTAAGCTCAAGGCCTGATACAATACACTGACACGAA
1 CCTGACACAATACACAGCCACAAAGCCTGCTAAGCTCAAGGCCTGATACAATACACTGACACAAA
* * *
100735063 GCCTACTAGGCTTACAGCCTAATACAATACACCAGCATGAAGCTTGCTAGGCTCAAAG
66 GCCTACTAGGCTCACAGCCTAATACAATACACCAGCACGAAGCCTGCTAGGCTCAAAG
* * *
100735121 CCTGATACAATACACTAG-CACAAAGCCTGCTAGGCTCAAGGCCTGATACAATACACTGGCACAA
1 CCTGACACAATACAC-AGCCACAAAGCCTGCTAAGCTCAAGGCCTGATACAATACACTGACACAA
* * * * * *
100735185 AGCCTGCTAGGCTCA-AGTCCTGATACAATACTCCGGCACGAAGCCTGTTAGGCTCAAGG
65 AGCCTACTAGGCTCACAG-CCTAATACAATACACCAGCACGAAGCCTGCTAGGCTCAAAG
*
100735244 CCTGACAGAATA
1 CCTGACACAATA
100735256 TCTCATGTAT
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
122 2 0.02
123 114 0.97
124 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (123 bp):
CCTGACACAATACACAGCCACAAAGCCTGCTAAGCTCAAGGCCTGATACAATACACTGACACAAA
GCCTACTAGGCTCACAGCCTAATACAATACACCAGCACGAAGCCTGCTAGGCTCAAAG
Found at i:100735247 original size:82 final size:81
Alignment explanation
Indices: 100734998--100735248 Score: 306
Period size: 82 Copynumber: 3.1 Consensus size: 81
100734988 ATACAAATTA
* * * *
100734998 CCTGACACAATACACCGCCACAAAGCCTGCTAAGCTCAAGGCCTGATACAATACACTGACACGAA
1 CCTGATACAATACACCGGCACAAAGCCTGCTAGGCTCAA-GCCTGATACAATACACTGGCACGAA
* *
100735063 GCCTACTAGGCTTACA-G
65 GCCTGCTAGGCTCA-AGG
* * ** * * *
100735080 CCTAATACAATACACCAGCATGAAGCTTGCTAGGCTCAAAGCCTGATACAATACACTAGCACAAA
1 CCTGATACAATACACCGGCACAAAGCCTGCTAGGCTC-AAGCCTGATACAATACACTGGCACGAA
100735145 GCCTGCTAGGCTCAAGG
65 GCCTGCTAGGCTCAAGG
* * *
100735162 CCTGATACAATACACTGGCACAAAGCCTGCTAGGCTCAAGTCCTGATACAATACTCCGGCACGAA
1 CCTGATACAATACACCGGCACAAAGCCTGCTAGGCTCAAG-CCTGATACAATACACTGGCACGAA
*
100735227 GCCTGTTAGGCTCAAGG
65 GCCTGCTAGGCTCAAGG
100735244 CCTGA
1 CCTGA
100735249 CAGAATATCT
Statistics
Matches: 142, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
81 4 0.03
82 136 0.96
83 2 0.01
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (81 bp):
CCTGATACAATACACCGGCACAAAGCCTGCTAGGCTCAAGCCTGATACAATACACTGGCACGAAG
CCTGCTAGGCTCAAGG
Found at i:100743509 original size:20 final size:19
Alignment explanation
Indices: 100743480--100743518 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
100743470 ATTTTTTAAA
*
100743480 ATTTTAAAAATTCAAAAAAT
1 ATTTTAAAAAAT-AAAAAAT
*
100743500 ATTTTTAAAAATAAAAAAT
1 ATTTTAAAAAATAAAAAAT
100743519 CATTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTTTAAAAAATAAAAAAT
Found at i:100746500 original size:48 final size:47
Alignment explanation
Indices: 100746398--100746724 Score: 492
Period size: 48 Copynumber: 6.7 Consensus size: 47
100746388 AATCTATAAA
* * * * *
100746398 CCTCCACCAGTTCCAGTCTATAAACCTCCTCCAGTTCCAGTAAAACCACTT
1 CCTCCACCTGTTCCA-TCTACAAACCTCCACCAGTT---GAAAAACCACAT
100746449 CCTCCACCTGTTCCGATCTACAAACCTCCACCAGTTGAAAAACCACAT
1 CCTCCACCTGTTCC-ATCTACAAACCTCCACCAGTTGAAAAACCACAT
100746497 CCTCCACCTGTTCCAATCTACAAACCTCCACCAGTTGAAAAACCACAT
1 CCTCCACCTGTTCC-ATCTACAAACCTCCACCAGTTGAAAAACCACAT
100746545 CCTCCACCTGTTCCAATCTACAAACCTCCACCAGTTGAAAAACCACAT
1 CCTCCACCTGTTCC-ATCTACAAACCTCCACCAGTTGAAAAACCACAT
100746593 CCTCCACCTGTTCCAATCTACAAACCTCCACCAGTTGAAAAACCACAT
1 CCTCCACCTGTTCC-ATCTACAAACCTCCACCAGTTGAAAAACCACAT
* *
100746641 CCTCCACCTGTTCCAGTTTATAAACCTCCACCAGTTGAAAAACCACAT
1 CCTCCACCTGTTCCA-TCTACAAACCTCCACCAGTTGAAAAACCACAT
*
100746689 CCTCCACCTGTTCCAGTCTATAAACCTCCACCAGTT
1 CCTCCACCTGTTCCA-TCTACAAACCTCCACCAGTT
100746725 CCAGTATATA
Statistics
Matches: 265, Mismatches: 9, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
47 1 0.00
48 232 0.88
51 31 0.12
52 1 0.00
ACGTcount: A:0.31, C:0.39, G:0.07, T:0.23
Consensus pattern (47 bp):
CCTCCACCTGTTCCATCTACAAACCTCCACCAGTTGAAAAACCACAT
Found at i:100746728 original size:24 final size:24
Alignment explanation
Indices: 100746641--100746735 Score: 77
Period size: 24 Copynumber: 4.0 Consensus size: 24
100746631 AAAACCACAT
* *
100746641 CCTCCACCTGTTCCAGTTTATAAA
1 CCTCCACCAGTTCCAGTATATAAA
* * * * *
100746665 CCTCCACCAGTT-GA-AAAACCACAT
1 CCTCCACCAGTTCCAGTATA-TA-AA
* *
100746689 CCTCCACCTGTTCCAGTCTATAAA
1 CCTCCACCAGTTCCAGTATATAAA
100746713 CCTCCACCAGTTCCAGTATATAA
1 CCTCCACCAGTTCCAGTATATAA
100746736 GAAACCATGT
Statistics
Matches: 51, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
22 1 0.02
23 2 0.04
24 45 0.88
25 2 0.04
26 1 0.02
ACGTcount: A:0.29, C:0.36, G:0.08, T:0.26
Consensus pattern (24 bp):
CCTCCACCAGTTCCAGTATATAAA
Found at i:100746755 original size:33 final size:33
Alignment explanation
Indices: 100746713--100746891 Score: 160
Period size: 33 Copynumber: 5.7 Consensus size: 33
100746703 AGTCTATAAA
* **
100746713 CCTCCACCAGTTCCAGTATATAAGAAACCATGT
1 CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
* *
100746746 CCTCCACCAGTTCCAGTCTAT-----A--A-AT
1 CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
* * *
100746771 -CTCCTCCGGTTCCAGTATACAAGAAACCGCAT
1 CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
*
100746803 CCTCCTCCAGTTCCAGTCTATAAGAAACCACAT
1 CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
* * **
100746836 CCACCTCCAGTTCCAGTATACAAGAAACCATGT
1 CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
* *
100746869 CCTCCCCCAGTTCCAGTCTATAA
1 CCTCCTCCAGTTCCAGTATATAA
100746892 ATCTCCTCCA
Statistics
Matches: 117, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
24 16 0.14
25 1 0.01
26 1 0.01
28 1 0.01
29 1 0.01
32 2 0.02
33 95 0.81
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.24
Consensus pattern (33 bp):
CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
Found at i:100746768 original size:57 final size:57
Alignment explanation
Indices: 100746688--100747027 Score: 259
Period size: 57 Copynumber: 6.0 Consensus size: 57
100746678 AAAAACCACA
* *
100746688 TCCTCCACCTGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATATAAGAAACCATG
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATG
* * * ***
100746745 TCCTCCACCAGTTCCAGTCTATAAATCTCCTCCGGTTCCAGTATACAAGAAACCGCA
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATG
*
100746802 TCCTCCTCCAGTTCCAGTCTATAAGAAACCACATCCACCTCCAGTTCCAGTATACAAGAAACCAT
1 TCCTCCACCAGTTCCAGTCTAT---AAA-C-C-TCCA---CCAGTTCCAGTATACAAGAAACCAT
100746867 G
57 G
* * * **
100746868 TCCTCCCCCAGTTCCAGTCTATAAATCTCCTCCAGTTCC-G-------G-AACCACA
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATG
* * * * * *
100746916 TCCTCCGCCAGTTCCAGTCCATAAGCCTCCTCCAGTTCCGGTATACAAGAAACGA-G
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATG
* * * * * * * * *
100746972 TCCCTCCTCCGGTTCCAATCTACAAGCCCCCTCCAGTTCCTGTATACAACAAACCA
1 T-CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCA
100747028 CTACCTCCCC
Statistics
Matches: 229, Mismatches: 35, Indels: 38
0.76 0.12 0.13
Matches are distributed among these distances:
48 40 0.17
49 2 0.01
56 3 0.01
57 127 0.55
60 6 0.03
61 1 0.00
62 1 0.00
63 6 0.03
66 43 0.19
ACGTcount: A:0.27, C:0.37, G:0.12, T:0.24
Consensus pattern (57 bp):
TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATG
Found at i:100746921 original size:24 final size:24
Alignment explanation
Indices: 100746894--100746956 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
100746884 GTCTATAAAT
* *
100746894 CTCCTCCAGTTCCGGAACCA-CATC
1 CTCCTCCAGTTCCGG-ACCATAAGC
* * *
100746918 CTCCGCCAGTTCCAGTCCATAAGC
1 CTCCTCCAGTTCCGGACCATAAGC
100746942 CTCCTCCAGTTCCGG
1 CTCCTCCAGTTCCGG
100746957 TATACAAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.17, C:0.44, G:0.16, T:0.22
Consensus pattern (24 bp):
CTCCTCCAGTTCCGGACCATAAGC
Found at i:100747035 original size:57 final size:57
Alignment explanation
Indices: 100746938--100747045 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 57
100746928 TCCAGTCCAT
* * * * *
100746938 AAGCCTCCTCCAGTTCCGGTATACAAGAAACGAGTCCCTCCTCC-GGTTCCAATCTAC
1 AAGCCCCCTCCAGTTCCGGTATACAACAAACCACTACCTCC-CCGGGTTCCAATCTAC
*
100746995 AAGCCCCCTCCAGTTCCTGTATACAACAAACCACTACCTCCCCGGGTTCCA
1 AAGCCCCCTCCAGTTCCGGTATACAACAAACCACTACCTCCCCGGGTTCCA
100747046 GTGTATACGA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
56 2 0.05
57 42 0.95
ACGTcount: A:0.25, C:0.40, G:0.14, T:0.21
Consensus pattern (57 bp):
AAGCCCCCTCCAGTTCCGGTATACAACAAACCACTACCTCCCCGGGTTCCAATCTAC
Found at i:100747047 original size:228 final size:228
Alignment explanation
Indices: 100746640--100747078 Score: 515
Period size: 228 Copynumber: 1.9 Consensus size: 228
100746630 AAAAACCACA
* * * *
100746640 TCCTCCACCTGTTCCAGTTTATAAACCTCCACCAGTTGAAAAACCACATCCTCCACCTGTTCCAG
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCAAAAACCACATCCTCCACCAGTTCCAG
* * * *
100746705 TCTATAAACCTCCACCAGTTCCAGTATATAAGAAACCATGTCCTCCACCAGTTCCAGTCTATAAA
66 TCCATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGTCCTCCACCAGTTCCAATCTACAAA
* * * * *
100746770 TCTCCTCCGGTTCCAGTATACAAGAAACCGCATCCTCCTCCAGTTCCAGTCTATAAGAAACCACA
131 CCCCCTCCAGTTCCAGTATACAACAAACCACATCCTCCTCCAGTTCCAGTCTATAAGAAACCACA
*
100746835 TCCACCTCCAGTTCCAGTATACAAGAAACCATG
196 TCCACCACCAGTTCCAGTATACAAGAAACCATG
* * * *** *
100746868 TCCTCCCCCAGTTCCAGTCTATAAATCTCCTCCAGTTCCGGAACCACATCCTCCGCCAGTTCCAG
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCAAAAACCACATCCTCCACCAGTTCCAG
* * * * * *
100746933 TCCATAAGCCTCCTCCAGTTCCGGTATACAAGAAACGA-GTCCCTCCTCCGGTTCCAATCTACAA
66 TCCATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGT-CCTCCACCAGTTCCAATCTACAA
* * * * * *
100746997 GCCCCCTCCAGTTCCTGTATACAACAAACCAC-TACCTCC-CCGGGTTCCAGTGTATACGAAGCC
130 ACCCCCTCCAGTTCCAGTATACAACAAACCACAT-CCTCCTCC-AGTTCCAGTCTATAAGAAACC
* *
100747060 ACTTCCACCACCTGTTCCA
193 ACATCCACCACCAGTTCCA
100747079 ACCTACAATC
Statistics
Matches: 173, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
227 5 0.03
228 168 0.97
ACGTcount: A:0.27, C:0.37, G:0.12, T:0.24
Consensus pattern (228 bp):
TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCAAAAACCACATCCTCCACCAGTTCCAG
TCCATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGTCCTCCACCAGTTCCAATCTACAAA
CCCCCTCCAGTTCCAGTATACAACAAACCACATCCTCCTCCAGTTCCAGTCTATAAGAAACCACA
TCCACCACCAGTTCCAGTATACAAGAAACCATG
Found at i:100747145 original size:18 final size:18
Alignment explanation
Indices: 100747122--100747157 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
100747112 TACAAGCCAC
100747122 TCCCTCCACTTCCC-AAGA
1 TCCCTCCA-TTCCCTAAGA
100747140 TCCCTCCATTCCCTAAGA
1 TCCCTCCATTCCCTAAGA
100747158 AGCCATGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.22, C:0.47, G:0.06, T:0.25
Consensus pattern (18 bp):
TCCCTCCATTCCCTAAGA
Found at i:100747229 original size:60 final size:60
Alignment explanation
Indices: 100747165--100747287 Score: 212
Period size: 60 Copynumber: 2.0 Consensus size: 60
100747155 AGAAGCCATG
100747165 CCCTCCCCTTCCTAAGCTACCTCCTCTTCCC-AAGATTCCTCCCAAGTATTTCCACCACCA
1 CCCTCCCCTTCCTAAGCTACCTCCTC-TCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
* *
100747225 CCCTCCTCTTCCTAAGCTGCCTCCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
1 CCCTCCCCTTCCTAAGCTACCTCCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
100747285 CCC
1 CCC
100747288 CAAGTTCGGA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
59 4 0.07
60 56 0.93
ACGTcount: A:0.19, C:0.49, G:0.06, T:0.27
Consensus pattern (60 bp):
CCCTCCCCTTCCTAAGCTACCTCCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
Found at i:100747265 original size:18 final size:18
Alignment explanation
Indices: 100747226--100747266 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
100747216 CCACCACCAC
* *
100747226 CCTCCTCTTCCTAAGCTG
1 CCTCCTCTCCCTAAGATG
*
100747244 CCTCCTCTCCCTAAGATT
1 CCTCCTCTCCCTAAGATG
100747262 CCTCC
1 CCTCC
100747267 CAAGTATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.49, G:0.07, T:0.32
Consensus pattern (18 bp):
CCTCCTCTCCCTAAGATG
Found at i:100747307 original size:60 final size:60
Alignment explanation
Indices: 100747184--100747309 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
100747174 TCCTAAGCTA
** * **
100747184 CCTCCTCTTCCCAAGATTCCTCCCAAGTATTTCCACCACCACCCTCCTCTTCCTAAGCTG
1 CCTCCTCTTCCCAAGATTCCTCCCAAGTATTTCCACCACCACCCTCAACTTCCGAAAATG
* *
100747244 CCTCCTC-TCCCTAAGATTCCTCCCAAGTATTTCCACCACCACCC-CAAGTTCGGAAAATGG
1 CCTCCTCTTCCC-AAGATTCCTCCCAAGTATTTCCACCACCACCCTCAACTTCCGAAAAT-G
100747304 CCTCCT
1 CCTCCT
100747310 TTGCCACCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 11 0.19
60 46 0.81
ACGTcount: A:0.21, C:0.44, G:0.09, T:0.26
Consensus pattern (60 bp):
CCTCCTCTTCCCAAGATTCCTCCCAAGTATTTCCACCACCACCCTCAACTTCCGAAAATG
Found at i:100754320 original size:6 final size:6
Alignment explanation
Indices: 100754309--100754349 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
100754299 TAACATGCAA
* *
100754309 AAAAAT AAAAAT AAAAAT AAAAAT AATATAT ATAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT AAAA
100754350 TTGTATTGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:100772379 original size:22 final size:23
Alignment explanation
Indices: 100772345--100772389 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
100772335 ATATGACAAA
*
100772345 AAATATATAAATATTA-AAGATT
1 AAATATATAAATAATAGAAGATT
* *
100772367 AAATTTATTAATAATAGAAGATT
1 AAATATATAAATAATAGAAGATT
100772390 GTAATTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (23 bp):
AAATATATAAATAATAGAAGATT
Found at i:100776550 original size:26 final size:26
Alignment explanation
Indices: 100776529--100776581 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
100776519 ATTTTTAGTC
100776529 TAAGATTTTTTTAAATTCTTTTACCA
1 TAAGATTTTTTTAAATTCTTTTACCA
100776555 TAAGATTTTTTTAAATTCTTTTACCA
1 TAAGATTTTTTTAAATTCTTTTACCA
100776581 T
1 T
100776582 TATTGTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (26 bp):
TAAGATTTTTTTAAATTCTTTTACCA
Done.