Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 43 of 208
Found at i:16493051 original size:2 final size:2
Alignment explanation
Indices: 16493044--16493068 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16493034 CATAAATCTC
16493044 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16493069 ACACTACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16494956 original size:31 final size:31
Alignment explanation
Indices: 16494866--16494962 Score: 108
Period size: 31 Copynumber: 3.1 Consensus size: 31
16494856 TTCAAATATT
16494866 TTTAAGTAATAAATATTAATTATTTATAAA-A
1 TTTAAGTAATAAATATTAATTATTT-TAAATA
* * *
16494897 TTTAATTAGA-ATATATAAACTATATTTTAAATA
1 TTTAAGTA-ATAAATATTAA-T-TATTTTAAATA
*
16494930 TTTAAGTAATAAATATTAATTATTTTAGATA
1 TTTAAGTAATAAATATTAATTATTTTAAATA
16494961 TT
1 TT
16494963 AACACATTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
31 26 0.48
32 8 0.15
33 20 0.37
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (31 bp):
TTTAAGTAATAAATATTAATTATTTTAAATA
Found at i:16500928 original size:15 final size:15
Alignment explanation
Indices: 16500908--16500961 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
16500898 TTTATGGAAA
16500908 ATCAAATATATGGGT
1 ATCAAATATATGGGT
**
16500923 ATCAAATA-ATGGAA
1 ATCAAATATATGGGT
*
16500937 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
16500953 ATCAAATAT
1 ATCAAATAT
16500962 TAGAAAGTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 5 0.16
15 21 0.68
16 5 0.16
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:16500937 original size:30 final size:30
Alignment explanation
Indices: 16500901--16500985 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
16500891 ATCCATATTT
* *
16500901 ATGGAAAATCAAATATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
16500931 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
16500961 TTAGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
16500986 GAGATATTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:16505592 original size:15 final size:15
Alignment explanation
Indices: 16505572--16505679 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
16505562 TTTATGGAAA
16505572 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
16505587 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
16505601 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
16505617 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
16505631 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
16505647 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
16505661 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
16505677 ATC
1 ATC
16505680 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:16505601 original size:30 final size:30
Alignment explanation
Indices: 16505565--16505679 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
16505555 ATCCATATTT
*
16505565 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
16505595 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
16505625 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
16505655 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
16505680 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:16512747 original size:30 final size:30
Alignment explanation
Indices: 16512706--16512777 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 30
16512696 AAAAAAATAG
* *
16512706 AAAATTAAAAAAAGTATTTTAAAATATTTT
1 AAAAATAAAAAAAGTATTTTAAAATAATTT
16512736 AAAAAT-AAAAAAGTATTTTAAAATAATTT
1 AAAAATAAAAAAAGTATTTTAAAATAATTT
16512765 AAAAA-AATAAAAA
1 AAAAATAA-AAAAA
16512778 TATATATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 28 0.74
30 10 0.26
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAATAAAAAAAGTATTTTAAAATAATTT
Found at i:16512776 original size:29 final size:29
Alignment explanation
Indices: 16512713--16512769 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
16512703 TAGAAAATTA
*
16512713 AAAAAAGTATTTTAAAATATTTTAAAAAT
1 AAAAAAGTATTTTAAAATAATTTAAAAAT
16512742 AAAAAAGTATTTTAAAATAATTTAAAAA
1 AAAAAAGTATTTTAAAATAATTTAAAAA
16512770 AATAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAAAAGTATTTTAAAATAATTTAAAAAT
Found at i:16513615 original size:16 final size:16
Alignment explanation
Indices: 16513594--16513627 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
16513584 TTGAAACAAC
16513594 ATAAA-TAAATAATTAA
1 ATAAATTAAA-AATTAA
16513610 ATAAATTAAAAATTAA
1 ATAAATTAAAAATTAA
16513626 AT
1 AT
16513628 TGGAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAATTAAAAATTAA
Found at i:16516555 original size:3 final size:3
Alignment explanation
Indices: 16516539--16516580 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
16516529 GGAAGAAGGT
* * *
16516539 GAA GGA GAA G-A GAA GAA GAA GAA GAA AAA GAA GGA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
16516581 GGGCTGAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16535638 original size:20 final size:20
Alignment explanation
Indices: 16535613--16535662 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
16535603 TGGCTTAAAA
16535613 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
16535633 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
16535650 GTGGTAGTGGATT
1 TTGGTAGTGGATT
16535663 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:16540278 original size:20 final size:20
Alignment explanation
Indices: 16540253--16540302 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
16540243 TGGCTTAAAA
16540253 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
16540273 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
16540290 GTGGTAGTGGATT
1 TTGGTAGTGGATT
16540303 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:16571098 original size:235 final size:235
Alignment explanation
Indices: 16570687--16571158 Score: 944
Period size: 235 Copynumber: 2.0 Consensus size: 235
16570677 TTTGGAAGCT
16570687 TGGAGGATATCACTCAAACTATCCATCAACCTATTTCGGTACAATTATGAAACTAATTTTGGTTA
1 TGGAGGATATCACTCAAACTATCCATCAACCTATTTCGGTACAATTATGAAACTAATTTTGGTTA
16570752 TAATGGCATGTATAGGTTAACTTGGCCATTGTTGGCATTTTAAATATTTTGGTTGTAACTAGCCA
66 TAATGGCATGTATAGGTTAACTTGGCCATTGTTGGCATTTTAAATATTTTGGTTGTAACTAGCCA
16570817 TTGGTATGGCTTGTGTTTGGTATATTTTGAAAAGTATTTATATATATGGTCTTACCATGTTTGAT
131 TTGGTATGGCTTGTGTTTGGTATATTTTGAAAAGTATTTATATATATGGTCTTACCATGTTTGAT
16570882 GTGTGAAATTCAAATGGTTTAATGATGGTAAGCATATGGA
196 GTGTGAAATTCAAATGGTTTAATGATGGTAAGCATATGGA
16570922 TGGAGGATATCACTCAAACTATCCATCAACCTATTTCGGTACAATTATGAAACTAATTTTGGTTA
1 TGGAGGATATCACTCAAACTATCCATCAACCTATTTCGGTACAATTATGAAACTAATTTTGGTTA
16570987 TAATGGCATGTATAGGTTAACTTGGCCATTGTTGGCATTTTAAATATTTTGGTTGTAACTAGCCA
66 TAATGGCATGTATAGGTTAACTTGGCCATTGTTGGCATTTTAAATATTTTGGTTGTAACTAGCCA
16571052 TTGGTATGGCTTGTGTTTGGTATATTTTGAAAAGTATTTATATATATGGTCTTACCATGTTTGAT
131 TTGGTATGGCTTGTGTTTGGTATATTTTGAAAAGTATTTATATATATGGTCTTACCATGTTTGAT
16571117 GTGTGAAATTCAAATGGTTTAATGATGGTAAGCATATGGA
196 GTGTGAAATTCAAATGGTTTAATGATGGTAAGCATATGGA
16571157 TG
1 TG
16571159 AGTGGATGGA
Statistics
Matches: 237, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 237 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.40
Consensus pattern (235 bp):
TGGAGGATATCACTCAAACTATCCATCAACCTATTTCGGTACAATTATGAAACTAATTTTGGTTA
TAATGGCATGTATAGGTTAACTTGGCCATTGTTGGCATTTTAAATATTTTGGTTGTAACTAGCCA
TTGGTATGGCTTGTGTTTGGTATATTTTGAAAAGTATTTATATATATGGTCTTACCATGTTTGAT
GTGTGAAATTCAAATGGTTTAATGATGGTAAGCATATGGA
Found at i:16575073 original size:42 final size:42
Alignment explanation
Indices: 16575027--16575127 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
16575017 TACTTCTCAA
* *
16575027 GAGCTTCTGTTTAACTCATATAAGTTTCCGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTAT
* ** *
16575069 GAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCTTAT
1 GAGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTAT
* * *
16575111 GAGTTTCCGTTCAACCC
1 GAGCTTCTGTTTAACCC
16575128 TTACGGGTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (42 bp):
GAGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTAT
Found at i:16575109 original size:21 final size:21
Alignment explanation
Indices: 16575049--16575151 Score: 80
Period size: 21 Copynumber: 4.9 Consensus size: 21
16575039 AACTCATATA
* * *
16575049 AGTTTCCGTTCAGCTCTTTTG
1 AGTTTCCGTTTAGCCCTTATG
* * *
16575070 AGCTTCTGTTTAACCCTTATG
1 AGTTTCCGTTTAGCCCTTATG
* *
16575091 GGTTTCCGTTTAGCTCTTATG
1 AGTTTCCGTTTAGCCCTTATG
* * *
16575112 AGTTTCCGTTCAACCCTTACG
1 AGTTTCCGTTTAGCCCTTATG
* * *
16575133 GGTTTCTGTTTAGCACTTA
1 AGTTTCCGTTTAGCCCTTA
16575152 CGTGCTTCTG
Statistics
Matches: 61, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (21 bp):
AGTTTCCGTTTAGCCCTTATG
Found at i:16575128 original size:42 final size:42
Alignment explanation
Indices: 16575050--16575151 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
16575040 ACTCATATAA
* * * * *
16575050 GTTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGG
1 GTTTCCGTTTAGCTCTTATGAGCTTCCGTTCAACCCTTACGG
*
16575092 GTTTCCGTTTAGCTCTTATGAGTTTCCGTTCAACCCTTACGG
1 GTTTCCGTTTAGCTCTTATGAGCTTCCGTTCAACCCTTACGG
* *
16575134 GTTTCTGTTTAGCACTTA
1 GTTTCCGTTTAGCTCTTA
16575152 CGTGCTTCTG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (42 bp):
GTTTCCGTTTAGCTCTTATGAGCTTCCGTTCAACCCTTACGG
Found at i:16575152 original size:21 final size:21
Alignment explanation
Indices: 16575073--16575168 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 21
16575063 TCTTTTGAGC
* *
16575073 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAGCCCTTACGGGT
* * * *
16575094 TTCCGTTTAGCTCTTATGAGT
1 TTCTGTTTAGCCCTTACGGGT
* * *
16575115 TTCCGTTCAACCCTTACGGGT
1 TTCTGTTTAGCCCTTACGGGT
* * *
16575136 TTCTGTTTAGCACTTACGTGC
1 TTCTGTTTAGCCCTTACGGGT
16575157 TTCTGTTTAGCC
1 TTCTGTTTAGCC
16575169 TTCAGGCTTC
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (21 bp):
TTCTGTTTAGCCCTTACGGGT
Found at i:16575165 original size:63 final size:63
Alignment explanation
Indices: 16575029--16575167 Score: 143
Period size: 63 Copynumber: 2.2 Consensus size: 63
16575019 CTTCTCAAGA
* * * ** * *
16575029 GCTTCTGTTTAACTCATATAAGTTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGG
1 GCTTCTGTTTAGCTCATATAAGTTTCCGTTCAACCCTTACGAGCTTCTGTTTAACACTTACGG
* * * * * * * *
16575092 GTTTCCGTTTAGCTCTTATGAGTTTCCGTTCAACCCTTACGGGTTTCTGTTTAGCACTTACGT
1 GCTTCTGTTTAGCTCATATAAGTTTCCGTTCAACCCTTACGAGCTTCTGTTTAACACTTACGG
16575155 GCTTCTGTTTAGC
1 GCTTCTGTTTAGC
16575168 CTTCAGGCTT
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (63 bp):
GCTTCTGTTTAGCTCATATAAGTTTCCGTTCAACCCTTACGAGCTTCTGTTTAACACTTACGG
Found at i:16579409 original size:67 final size:67
Alignment explanation
Indices: 16579297--16579600 Score: 301
Period size: 67 Copynumber: 4.6 Consensus size: 67
16579287 GGCTGTAATA
* * * **
16579297 GGGTATAATGTG-CAGACCATAGCTCGACTATGGTAACATAAAGAGTCCGTTAGGACATTAAACT
1 GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCGCCAGGACATTAAACT
16579361 TG
66 TG
* * ** * *
16579363 GGGTATAATATGTAAGTCCGGAGCTCGATTATGGCAACATAGAGAGTCCGCTAGGACATTAAA-T
1 GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCGCCAGGACATTAAACT
*
16579427 ATA
66 -TG
* * * * *
16579430 GAGTATAATGTGTAAGACCTTAGCTCGATTATGGCAACATAGAGAG-CCTGTCAAGACATTAAAC
1 GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCC-GCCAGGACATTAAAC
*
16579494 ATG
65 TTG
* * * * * * *
16579497 GGCTATGATGTGTAAGACCATAGCTCAACTAAGGCAACATTGAGAGTCTGCCAGAACATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCGCCAGGACATTAAAC-
16579562 TT-
65 TTG
* * *
16579564 GGGTATGATTTGTAAGACTATAGCTCGACTATGGCAA
1 GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAA
16579601 AATATGAAGT
Statistics
Matches: 194, Mismatches: 38, Indels: 11
0.80 0.16 0.05
Matches are distributed among these distances:
66 14 0.07
67 178 0.92
68 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (67 bp):
GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCGCCAGGACATTAAACT
TG
Found at i:16579556 original size:134 final size:134
Alignment explanation
Indices: 16579294--16579600 Score: 341
Period size: 134 Copynumber: 2.3 Consensus size: 134
16579284 ATGGGCTGTA
* * * * *
16579294 ATAGGGTATAATGTG-CAGACCATAGCTCGACTATGGTAACATAAAGAGTCCGTTAGGACATTAA
1 ATAGGGTATAATGTGTAAGACCTTAGCTCGACTATGGCAACATAAAGAGTCCGTCAAGACATTAA
* * * * * * * * *
16579358 ACTTGGGGTATAATATGTAAGTCCGGAGCTCGATTATGGCAACATAGAGAGTCCGCTAGGACATT
66 ACATGGGCTATAATATGTAAGACCAGAGCTCAACTAAGGCAACATAGAGAGTCCGCCAGAACATT
*
16579423 AAAT
131 AAAC
* * *
16579427 ATAGAGTATAATGTGTAAGACCTTAGCTCGATTATGGCAACATAGAGAG-CCTGTCAAGACATTA
1 ATAGGGTATAATGTGTAAGACCTTAGCTCGACTATGGCAACATAAAGAGTCC-GTCAAGACATTA
* * * * *
16579491 AACATGGGCTATGATGTGTAAGACCATAGCTCAACTAAGGCAACATTGAGAGTCTGCCAGAACAT
65 AACATGGGCTATAATATGTAAGACCAGAGCTCAACTAAGGCAACATAGAGAGTCCGCCAGAACAT
16579556 TAAAC
130 TAAAC
* * *
16579561 ATTGGGTATGATTTGTAAGA-CTATAGCTCGACTATGGCAA
1 ATAGGGTATAATGTGTAAGACCT-TAGCTCGACTATGGCAA
16579601 AATATGAAGT
Statistics
Matches: 143, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
133 18 0.13
134 125 0.87
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (134 bp):
ATAGGGTATAATGTGTAAGACCTTAGCTCGACTATGGCAACATAAAGAGTCCGTCAAGACATTAA
ACATGGGCTATAATATGTAAGACCAGAGCTCAACTAAGGCAACATAGAGAGTCCGCCAGAACATT
AAAC
Found at i:16579659 original size:27 final size:27
Alignment explanation
Indices: 16579615--16579666 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
16579605 TGAAGTCTGT
**
16579615 TGGGACAATAAATGTGGGATAGTCCAC
1 TGGGACAATAAAAATGGGATAGTCCAC
* *
16579642 TGGGATAATAAAAATGGGGTAGTCC
1 TGGGACAATAAAAATGGGATAGTCC
16579667 GACAAGACGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.23
Consensus pattern (27 bp):
TGGGACAATAAAAATGGGATAGTCCAC
Found at i:16581407 original size:277 final size:274
Alignment explanation
Indices: 16580886--16581565 Score: 699
Period size: 277 Copynumber: 2.5 Consensus size: 274
16580876 TACCCTCATG
* * * * * *
16580886 GCTTTGTTATTGGGAGCGTCCATACACCCCCAAAAGGCCTCTTACTATTTAAGTGTTGCTACCCC
1 GCTTTGTTCTTGGGAGTGCCCATACACCCCAAAAAGGCCTCTTACCACTTAAGTGTTGCTACCCC
* * * * *
16580951 TTTATATAGCCTACGTCTCTCCTATGGTTTACCGACGTAGGATTTTTCTAGGGGTGTTACATTCA
66 TTTATATAGCC-ACGTCTCTCCCATGCTTTA-CGATGTAGGAATTTGCTAGGGGTGTTACATTCA
* * * * * * *
16581016 CCCTTCCTTAAGGACTAAGCGTCGTCGCTGAAGTTTGTCTCACCATCGCTCAAAAGGTAGAGCGA
129 CCCCTCCTTAAGGACTAAGCGTCCTCGATGAAGTTTGCCCCACCATCGCTCAAAAGGCACAGCGA
* * * * * *
16581081 GTGGTTCTGATACCAATAAATGTCATATCTAGCACCCAGCTCAGTAAGATATTG-TTCACTTTAG
194 ATGGTTCTGATACAAATAAATGTCATAGCTAACACCCAGCCCAGTAAGATATTGACT-ACTTTAG
*
16581145 ACCCACATG-GTCCTCAC
258 ACCCACATGACT-CTCAC
* * * *
16581162 GACTTTGTTCTTGGGAGTGCCCAAACACTCCAAAAAAGCCTCTTACCACTTAAGTGTTGTTACCC
1 G-CTTTGTTCTTGGGAGTGCCCATACACCCCAAAAAGGCCTCTTACCACTTAAGTGTTGCTACCC
* * * * *
16581227 CATTATATAGCTCATGTGTCTCCCATGCTTTTCTAATGT-GGAATTTGCTTAGGGGTGTTACATT
65 CTTTATATAGC-CACGTCTCTCCCATGCTTTAC-GATGTAGGAATTTGC-TAGGGGTGTTACATT
* * * * * *
16581291 TATCCCCT-CTTAGGGACTCAGCGTCCTCGATGAGGTTTGCCCCACCATTGCTCAAGAGGCACAG
127 CA-CCCCTCCTTAAGGACTAAGCGTCCTCGATGAAGTTTGCCCCACCATCGCTCAAAAGGCACAG
* * * *
16581355 CGAATGGCTT-TGATACAAATAAATGTCATAGGC-AACACTCTGCCCGGTAAGATATTGACTATT
191 CGAATGG-TTCTGATACAAATAAATGTCATA-GCTAACACCCAGCCCAGTAAGATATTGACTACT
* * *
16581418 TTGGGCGCACATGACTCTCAC
254 TTAGACCCACATGACTCTCAC
* * * **
16581439 GGTTGTATTCTTAGGAGTGCCTGTACACCCCAAAAAGGCCTCTTACCACTTAAGTGTTGCTACCC
1 GCTT-TGTTCTTGGGAGTGCCCATACACCCCAAAAAGGCCTCTTACCACTTAAGTGTTGCTACCC
*
16581504 CTTTATATAGCCCAGGTCTCTCCCATGCTTTGACGATGTAGG-ATTTGCCTAGGGGTGTTACA
65 CTTTATATAG-CCACGTCTCTCCCATGCTTT-ACGATGTAGGAATTTG-CTAGGGGTGTTACA
16581566 CTAGTCAACT
Statistics
Matches: 329, Mismatches: 61, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
276 11 0.03
277 303 0.92
278 15 0.05
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (274 bp):
GCTTTGTTCTTGGGAGTGCCCATACACCCCAAAAAGGCCTCTTACCACTTAAGTGTTGCTACCCC
TTTATATAGCCACGTCTCTCCCATGCTTTACGATGTAGGAATTTGCTAGGGGTGTTACATTCACC
CCTCCTTAAGGACTAAGCGTCCTCGATGAAGTTTGCCCCACCATCGCTCAAAAGGCACAGCGAAT
GGTTCTGATACAAATAAATGTCATAGCTAACACCCAGCCCAGTAAGATATTGACTACTTTAGACC
CACATGACTCTCAC
Found at i:16593103 original size:18 final size:18
Alignment explanation
Indices: 16593080--16593128 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
16593070 TTTGGTTAAA
*
16593080 AATTAACTGAATTACCCG
1 AATTAACCGAATTACCCG
16593098 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
16593116 AATTAACCAAATT
1 AATTAACCGAATT
16593129 GAATCACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:16593128 original size:9 final size:9
Alignment explanation
Indices: 16593080--16593128 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
16593070 TTTGGTTAAA
*
16593080 AATTAACTG
1 AATTAACCG
*
16593089 AATTACCCG
1 AATTAACCG
16593098 AATTAACCG
1 AATTAACCG
*
16593107 AATTACCCG
1 AATTAACCG
*
16593116 AATTAACCA
1 AATTAACCG
16593125 AATT
1 AATT
16593129 GAATCACTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:16597541 original size:10 final size:10
Alignment explanation
Indices: 16597523--16597566 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
16597513 AGATAAAAAC
*
16597523 GAAACAGAAA
1 GAAAAAGAAA
16597533 GAAAAAGAAA
1 GAAAAAGAAA
*
16597543 GAAAGA-AAA
1 GAAAAAGAAA
16597552 GAAAAAGGAAA
1 GAAAAA-GAAA
16597563 GAAA
1 GAAA
16597567 GGAAGGAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 8 0.28
10 14 0.48
11 7 0.24
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:16597578 original size:20 final size:20
Alignment explanation
Indices: 16597530--16597567 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
16597520 AACGAAACAG
16597530 AAAGAAAAA-GAAAGAAAGA
1 AAAGAAAAAGGAAAGAAAGA
16597549 AAAGAAAAAGGAAAGAAAG
1 AAAGAAAAAGGAAAGAAAG
16597568 GAAGGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGGAAAGAAAGA
Found at i:16598507 original size:41 final size:40
Alignment explanation
Indices: 16598462--16598575 Score: 99
Period size: 38 Copynumber: 2.9 Consensus size: 40
16598452 TTTCGAGTCG
*
16598462 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTAATTCA
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTAACT-A
* * * * ** * *
16598503 ATGAGGCACTAGGT-ACCAA-T-TTACTTCGGTTTAGCTG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTAACTA
* *
16598540 ATGAGAAACTGGGTGTCAATTTATTACTTCGAATTA
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
16598576 TCCGATTAGG
Statistics
Matches: 53, Mismatches: 17, Indels: 7
0.69 0.22 0.09
Matches are distributed among these distances:
37 11 0.21
38 14 0.26
39 2 0.04
40 14 0.26
41 12 0.23
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAAATTATTACTTCGAATTAACTA
Found at i:16598591 original size:40 final size:39
Alignment explanation
Indices: 16598460--16598594 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 39
16598450 GATTTCGAGT
* *
16598460 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAATT
1 CGATGAGGCACTGGGTGTC-AATTATTACTTCGAATT-ATC
* * ** ** *
16598501 CAATGAGGCACTAGGTACCAA-T-TTACTTCGGTTTAGC
1 CGATGAGGCACTGGGTGTCAATTATTACTTCGAATTATC
* **
16598538 TGATGAGAAACTGGGTGTCAATTTATTACTTCGAATTATC
1 CGATGAGGCACTGGGTGTCAA-TTATTACTTCGAATTATC
*
16598578 CGATTAGGCACTGGGTG
1 CGATGAGGCACTGGGTG
16598595 CTAAACTGGT
Statistics
Matches: 68, Mismatches: 23, Indels: 7
0.69 0.23 0.07
Matches are distributed among these distances:
37 15 0.22
38 10 0.15
39 2 0.03
40 27 0.40
41 14 0.21
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGTCAATTATTACTTCGAATTATC
Found at i:16599844 original size:43 final size:43
Alignment explanation
Indices: 16599808--16599890 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
16599798 TAAAAAAAGG
16599808 AAAAAAATATTTT-AAAAAATCATTAAAATTATTTAAAAATAA
1 AAAAAAATATTTTAAAAAAATCATTAAAATTATTTAAAAATAA
*
16599850 AAAAAATTATTTTAAAAAAATCATTAAAATTATTTAAAAAT
1 AAAAAAATATTTTAAAAAAATCATTAAAATTATTTAAAAAT
16599891 TATAACTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 12 0.31
43 27 0.69
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (43 bp):
AAAAAAATATTTTAAAAAAATCATTAAAATTATTTAAAAATAA
Found at i:16599847 original size:20 final size:20
Alignment explanation
Indices: 16599822--16599890 Score: 84
Period size: 20 Copynumber: 3.3 Consensus size: 20
16599812 AAATATTTTA
16599822 AAAAATCATTAAAATTATTT
1 AAAAATCATTAAAATTATTT
* **
16599842 AAAAATAAAAAAAATTATTTT
1 AAAAATCATTAAAATTA-TTT
16599863 AAAAAAATCATTAAAATTATTT
1 --AAAAATCATTAAAATTATTT
16599885 AAAAAT
1 AAAAAT
16599891 TATAACTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
20 20 0.50
21 3 0.08
22 3 0.08
23 14 0.35
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATCATTAAAATTATTT
Found at i:16599900 original size:23 final size:21
Alignment explanation
Indices: 16599818--16599904 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 21
16599808 AAAAAAATAT
*
16599818 TTTAAAAA-ATCATTAAAATTA
1 TTTAAAAATAT-AATAAAATTA
*
16599839 TTTAAAAATA-AAAAAAATTA
1 TTTAAAAATATAATAAAATTA
* *
16599859 TTTTAAAAAAATCATTAAAATTA
1 -TTTAAAAATAT-AATAAAATTA
16599882 TTTAAAAATTATAACT-AAATTA
1 TTTAAAAA-TATAA-TAAAATTA
16599904 T
1 T
16599905 AAAAGTTGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
20 8 0.15
21 17 0.32
22 17 0.32
23 11 0.21
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAAAAATATAATAAAATTA
Found at i:16611023 original size:28 final size:26
Alignment explanation
Indices: 16610969--16611044 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 26
16610959 CCCGGCCCAT
* *
16610969 TTTTAAAAT-AAACATTAAAAAATTA
1 TTTTAAAATAAAAAATTAAAAAAATA
16610994 TTTTAAAAATAAAAAAATTAAAAAAATA
1 TTTT-AAAAT-AAAAAATTAAAAAAATA
*
16611022 TTTTAAAATTAAAAATTAAAAAA
1 TTTTAAAATAAAAAATTAAAAAA
16611045 TAAAAATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
25 4 0.09
26 18 0.40
27 5 0.11
28 18 0.40
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (26 bp):
TTTTAAAATAAAAAATTAAAAAAATA
Found at i:16619831 original size:14 final size:14
Alignment explanation
Indices: 16619777--16619841 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 14
16619767 TCCAGACGGT
16619777 AGAGAAAAA-AA-A
1 AGAGAAAAAGAAGA
16619789 AGAGAGAAAGGAGAAGA
1 AGAGA-AAA--AGAAGA
* **
16619806 GGAGAAGGAGAAGA
1 AGAGAAAAAGAAGA
16619820 AGAGAAAAAGAAGA
1 AGAGAAAAAGAAGA
16619834 AGAAGAAA
1 AG-AGAAA
16619842 GTTTATAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
12 5 0.12
13 3 0.07
14 19 0.46
15 6 0.15
16 3 0.07
17 5 0.12
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
AGAGAAAAAGAAGA
Found at i:16620005 original size:22 final size:21
Alignment explanation
Indices: 16619978--16620159 Score: 101
Period size: 22 Copynumber: 8.7 Consensus size: 21
16619968 TAGATTAGAA
*
16619978 TTTTGTATGAATATTTTAAAAT
1 TTTTGTATGAATATTAT-AAAT
*
16620000 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTATAAAT
* *
16620021 TTTTTTATGAATATTGT-AA-
1 TTTTGTATGAATATTATAAAT
* * *
16620040 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTATAAAT
* * **
16620061 ATTTTATAATTAA-ATT-TGTAT
1 -TTTTGT-ATGAATATTATAAAT
* * * *
16620082 TTATAGTTTTG--GATTAGTAATT
1 TT-TTG-TATGAATATTA-TAAAT
*
16620104 TTTTGTATGAATATTGT-AA-
1 TTTTGTATGAATATTATAAAT
16620123 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTATAAA-T
16620145 TTTTGTATGAATATT
1 TTTTGTATGAATATT
16620160 GTAATAATAT
Statistics
Matches: 119, Mismatches: 27, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
19 31 0.26
20 13 0.11
21 25 0.21
22 46 0.39
23 4 0.03
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTATAAAT
Found at i:16620050 original size:19 final size:19
Alignment explanation
Indices: 16620002--16620059 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
16619992 TTTAAAATTT
* *
16620002 TTGTATGAATATTATAATTTT
1 TTGTATGAATATTGTAA--TG
*
16620023 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
16620042 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
16620060 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:16620145 original size:41 final size:40
Alignment explanation
Indices: 16619978--16620164 Score: 175
Period size: 41 Copynumber: 4.5 Consensus size: 40
16619968 TAGATTAGAA
*
16619978 TTTTGTATGAATATTTTAAAATTTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGT--AA-TTTTGTATGAATATTATAATT
* * *
16620021 TTTTTTATGAATATTGTAATGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
* * * *
16620061 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATT
1 -TTTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATT
16620104 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATT
16620145 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
16620165 AATATTATAG
Statistics
Matches: 118, Mismatches: 14, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
39 3 0.03
40 21 0.18
41 48 0.41
42 22 0.19
43 21 0.18
44 3 0.03
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
Found at i:16620285 original size:19 final size:19
Alignment explanation
Indices: 16620261--16620318 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
16620251 TGAATGTTGT
16620261 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
16620280 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
* *
16620302 AATATTGTAATATTGTA
1 AATATTATAATTTTGTA
16620319 ATTTTACATG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 13 0.43
22 17 0.57
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:16620288 original size:96 final size:98
Alignment explanation
Indices: 16620113--16620339 Score: 359
Period size: 96 Copynumber: 2.3 Consensus size: 98
16620103 TTTTTGTATG
*
16620113 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAATATTATAGTTT
1 AATATTGTAATTTTGTATGAATATTAT-AATTTTTTGTATGAATATTG--ATAATATTATAATTT
16620178 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
63 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
16620214 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATGTTG-TAATATTATAATTTTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGATAATATTATAATTTTGT
16620277 ATGAATATTGCAATTTTTTTGTATGAATATTGT
66 ATGAATATTGCAATTTTTTTGTATGAATATTGT
** *
16620310 AATATTGTAATTTTACATGAATATTGTAAT
1 AATATTGTAATTTTGTATGAATATTATAAT
16620340 GTGAGGATAT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
96 72 0.61
97 2 0.02
99 18 0.15
101 26 0.22
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (98 bp):
AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGATAATATTATAATTTTGT
ATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:16620335 original size:49 final size:49
Alignment explanation
Indices: 16620113--16620335 Score: 301
Period size: 49 Copynumber: 4.5 Consensus size: 49
16620103 TTTTTGTATG
** *
16620113 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
16620162 AATAATAT-TATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AAT-AT-TGTA-A-TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
16620214 AATTTTGTAATTTTGTATGAATATT---ATATTTTTTGTATGAATGTTGT
1 AATATTGTAATTTTGTATGAATATTGCAAT-TTTTTTGTATGAATATTGT
*
16620261 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
**
16620310 AATATTGTAATTTTACATGAATATTG
1 AATATTGTAATTTTGTATGAATATTG
16620336 TAATGTGAGG
Statistics
Matches: 154, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
46 2 0.01
47 41 0.27
49 59 0.38
50 8 0.05
51 5 0.03
52 39 0.25
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:16620371 original size:96 final size:95
Alignment explanation
Indices: 16620113--16620387 Score: 284
Period size: 96 Copynumber: 2.8 Consensus size: 95
16620103 TTTTTGTATG
** * * * * *
16620113 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAATATTATAGTTT
1 AATATTGTAATTTTACATGAATATTAT--A-TATGTGTAGGAATATTG---TAATATTACAATTT
16620178 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
60 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* ** * * * * *
16620214 AATTTTGTAATTTTGTATGAATATTATATTTTTTGTATGAATGTTGTAATATTATAATTTTGTAT
1 AATATTGTAATTTTACATGAATATTATA-TATGTGTAGGAATATTGTAATATTACAATTTTGTAT
16620279 GAATATTGCAATTTTTTTGTATGAATATTGT
65 GAATATTGCAATTTTTTTGTATGAATATTGT
* *
16620310 AATATTGTAATTTTACATGAATATTGTA-ATGTG-AGGATATATTGTAATATTGCAATTTTTTGT
1 AATATTGTAATTTTACATGAATATTATATATGTGTAGGA-ATATTGTAATATTACAA--TTTTGT
*
16620373 ATGAATATTGTAATT
63 ATGAATATTGCAATT
16620388 AGTTTATAAA
Statistics
Matches: 157, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
93 3 0.02
94 17 0.11
96 93 0.59
99 18 0.11
101 26 0.17
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.52
Consensus pattern (95 bp):
AATATTGTAATTTTACATGAATATTATATATGTGTAGGAATATTGTAATATTACAATTTTGTATG
AATATTGCAATTTTTTTGTATGAATATTGT
Found at i:16623904 original size:49 final size:49
Alignment explanation
Indices: 16623850--16624032 Score: 271
Period size: 49 Copynumber: 3.7 Consensus size: 49
16623840 ATAAAAATTG
16623850 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATA
* *
16623899 CAAAATTATAATATTACAACATTCATACAAAAAAATAT--AATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAAT-TGCAATATTCATA
*
16623947 CAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATA
1 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATA
* *
16623996 CAAAACTATATTATTATTACAATATTCATACAAAAAA
1 CAAAA-T-TA-CAATATTACAATATTCATACAAAAAA
16624033 TTACTAATCC
Statistics
Matches: 120, Mismatches: 8, Indels: 9
0.88 0.06 0.07
Matches are distributed among these distances:
47 1 0.01
48 43 0.36
49 49 0.41
50 2 0.02
51 2 0.02
52 23 0.19
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.31
Consensus pattern (49 bp):
CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATA
Found at i:16623951 original size:97 final size:100
Alignment explanation
Indices: 16623850--16624032 Score: 318
Period size: 97 Copynumber: 1.9 Consensus size: 100
16623840 ATAAAAATTG
*
16623850 CAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAA-T-TA-TAATA
1 CAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATATTAATA
16623912 TTACAACATTCATACAAAAAAATATAATATTCATA
66 TTACAACATTCATACAAAAAAATATAATATTCATA
*
16623947 CAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATATTATTA
1 CAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATATTAATA
*
16624012 TTACAATATTCATACAAAAAA
66 TTACAACATTCATACAAAAAA
16624033 TTACTAATCC
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
97 53 0.66
98 1 0.01
99 2 0.03
100 24 0.30
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.31
Consensus pattern (100 bp):
CAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATATTAATA
TTACAACATTCATACAAAAAAATATAATATTCATA
Found at i:16623977 original size:19 final size:19
Alignment explanation
Indices: 16623856--16623913 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 19
16623846 ATTGCAAAAT
*
16623856 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
*
16623875 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
*
16623897 TACAAAATTATAATATT
1 TACAAAATTACAATATT
16623914 ACAACATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 15 0.47
22 17 0.53
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:16623978 original size:19 final size:19
Alignment explanation
Indices: 16623953--16624000 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
16623943 CATACAAAAT
16623953 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
16623972 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
16623994 TACAAAA
1 TACAAAA
16624001 CTATATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.28
22 18 0.72
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.27
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:16624144 original size:22 final size:21
Alignment explanation
Indices: 16624069--16624155 Score: 99
Period size: 20 Copynumber: 4.2 Consensus size: 21
16624059 ATTTAATTAT
*
16624069 AAAATAATTACAATATTCATAC
1 AAAA-AATTAAAATATTCATAC
* *
16624091 --AACATTACAATATTCATA-
1 AAAAAATTAAAATATTCATAC
*
16624109 AAAAAATTATAATATTCATAC
1 AAAAAATTAAAATATTCATAC
16624130 AAAAAATTTAAAATATTCATAC
1 AAAAAA-TTAAAATATTCATAC
16624152 AAAA
1 AAAA
16624156 TTCTAATCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
19 15 0.26
20 18 0.32
21 6 0.11
22 18 0.32
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAATTAAAATATTCATAC
Found at i:16624365 original size:14 final size:13
Alignment explanation
Indices: 16624325--16624366 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
16624315 AACTTTCTTA
*
16624325 TTCTTCTTCT-TC
1 TTCTCCTTCTCTC
16624337 TTCTCCTTCTCCTC
1 TTCTCCTTCT-CTC
16624351 TTCTCCTTTCTCTC
1 TTCTCC-TTCTCTC
16624365 TT
1 TT
16624367 TTTTTTTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 9 0.35
14 13 0.50
15 4 0.15
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (13 bp):
TTCTCCTTCTCTC
Found at i:16625428 original size:22 final size:21
Alignment explanation
Indices: 16625403--16625472 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 21
16625393 AAATTCAATA
16625403 TCAATTTCCTTCAAAAATTCTC
1 TCAA-TTCCTTCAAAAATTCTC
16625425 TCAATTCCGTTCAAAAATTCTC
1 TCAATTCC-TTCAAAAATTCTC
**
16625447 TCAAATTCCTTTTAAAATTCTC
1 TC-AATTCCTTCAAAAATTCTC
16625469 TCAA
1 TCAA
16625473 ACTCTCAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
21 6 0.14
22 32 0.73
23 6 0.14
ACGTcount: A:0.33, C:0.26, G:0.01, T:0.40
Consensus pattern (21 bp):
TCAATTCCTTCAAAAATTCTC
Found at i:16625479 original size:30 final size:30
Alignment explanation
Indices: 16625444--16625502 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
16625434 TTCAAAAATT
**
16625444 CTCTCAAATTCCTTTTAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATTCTCTCAAA
16625474 CTCTCAAATTCCTTCCAAAATTCTCTCAA
1 CTCTCAAATTCCTTCCAAAATTCTCTCAA
16625503 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.31, G:0.00, T:0.37
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATTCTCTCAAA
Found at i:16625499 original size:22 final size:22
Alignment explanation
Indices: 16625474--16625525 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
16625464 TTCTCTCAAA
* *
16625474 CTCTCAAATTCCTTCCAAAATT
1 CTCTCAAATTCCTTCAAAAAAT
*
16625496 CTCTCAATTTCCTTCAAAAAAT
1 CTCTCAAATTCCTTCAAAAAAT
16625518 CTC-CAAAT
1 CTCTCAAAT
16625526 CCATATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAAAT
Found at i:16625712 original size:14 final size:15
Alignment explanation
Indices: 16625683--16625716 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16625673 AAATTTTAAA
16625683 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
16625698 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
16625712 TTTTA
1 TTTTA
16625717 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:16625731 original size:26 final size:24
Alignment explanation
Indices: 16625692--16625742 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 24
16625682 ATTTTATTTA
16625692 AGATATTTTTATTTATGTATTTTT
1 AGATATTTTTATTTATGTATTTTT
*
16625716 AGATATTTATTAATTTATTTATTTTT
1 AGATATTT-TT-ATTTATGTATTTTT
16625742 A
1 A
16625743 TAAAAGGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.33
25 2 0.08
26 14 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
AGATATTTTTATTTATGTATTTTT
Found at i:16627914 original size:29 final size:29
Alignment explanation
Indices: 16627862--16628437 Score: 563
Period size: 29 Copynumber: 20.3 Consensus size: 29
16627852 TTTTGACATT
* *
16627862 ATTTGATTAAAAACCCTAA-CCTAACTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
16627890 ATTTAATTAAAAACCGTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
16627919 TTTTACA-T-GAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAACCCTAACCTA
* **
16627947 ATTTAATTAAAAACCATAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
16627975 ATTTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
16627998 ATTTAGTTAAAAACCCTAATCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
16628027 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAACCCTAACCTA
**
16628056 ATTTAATTAAAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* * **
16628084 ATTTAGTTAAAAACCCTAA-CATAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
16628112 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
16628141 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAACCCTAACCTA
**
16628170 ATTTAATTAAAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* **
16628198 ATTTAATTAAAAA-CCTAA-CATAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
**
16628225 ATTTAATTAAAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
16628253 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
16628282 TTTTACA-TGAAAACCCTAACCCTAACCTAATTTA
1 ATTTA-ATTAAAAACCCTAACCCTAACC-----TA
*
16628316 ATTTAATTAAAAACCCTAA-CCTAA-TTGA
1 ATTTAATTAAAAACCCTAACCCTAACCT-A
*
16628344 ATTTAATTTAATTAAA----AACCCTAACATA
1 ATTTAA-TTAA--AAACCCTAACCCTAACCTA
* *
16628372 ATTTAGTTAAAAACCTTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
16628401 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
16628430 ATTTAATT
1 ATTTAATT
16628438 TAATTAAATA
Statistics
Matches: 467, Mismatches: 47, Indels: 67
0.80 0.08 0.12
Matches are distributed among these distances:
23 20 0.04
25 5 0.01
27 36 0.08
28 188 0.40
29 189 0.40
30 3 0.01
31 3 0.01
33 6 0.01
34 17 0.04
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:16627961 original size:23 final size:23
Alignment explanation
Indices: 16627935--16628255 Score: 138
Period size: 23 Copynumber: 11.9 Consensus size: 23
16627925 ATGAAACCCT
16627935 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
16627958 AACCATAACCTAATTTAATTTAATTAAA
1 AACCCTAACC-----TAATTTAATTAAA
* *
16627986 AACCCTAACATAATTTAGTTAAA
1 AACCCTAACCTAATTTAATTAAA
*
16628009 AACCCTAATCCTAACCTATTTTACATGAAAA
1 AACCCTAA-CCT-A---A-TTTA-AT-TAAA
16628040 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
16628067 AACCCTAACCTAATTTAATTTAGTTAAA
1 AACCCTAACCTAATTT-A---A-TTAAA
*
16628095 AACCCTAACATAATTTAATTTAATTAAA
1 AACCCTAAC-----CTAATTTAATTAAA
*
16628123 AACCCTAACCCTAACCTATTTTACATGAAAA
1 AACCCTAA-CCT-A---A-TTTA-AT-TAAA
16628154 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
16628181 AACCCTAACCTAATTTAATTTAATTAA
1 AACCCTAACCTAATTTAA-TT-A--AA
* *
16628208 AAACCTAACATAATTTAATTTAATTAAA
1 AACCCTAAC-----CTAATTTAATTAAA
16628236 AACCCTAACCTAATTTAATT
1 AACCCTAACCTAATTTAATT
16628256 TAATTAAAAA
Statistics
Matches: 234, Mismatches: 16, Indels: 96
0.68 0.05 0.28
Matches are distributed among these distances:
23 73 0.31
24 6 0.03
25 3 0.01
27 17 0.07
28 64 0.27
29 18 0.08
30 6 0.03
31 8 0.03
32 9 0.04
33 8 0.03
34 6 0.03
35 16 0.07
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.32
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:16628421 original size:23 final size:23
Alignment explanation
Indices: 16628347--16628421 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 23
16628337 TAATTGAATT
*
16628347 TAATTTAATTAAAAACCCTAACA
1 TAATTTAATTAAAAACCCTAACC
*
16628370 TAATTTAGTTAAAAACCTTAACCCTAACC
1 TAATTTAATT--AAA----AACCCTAACC
16628399 TAATTTAATTAAAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACC
16628422 CTAACCTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
23 19 0.44
25 3 0.07
27 3 0.07
29 18 0.42
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (23 bp):
TAATTTAATTAAAAACCCTAACC
Found at i:16629325 original size:123 final size:123
Alignment explanation
Indices: 16629106--16629369 Score: 413
Period size: 123 Copynumber: 2.1 Consensus size: 123
16629096 CCACGAGGGC
*
16629106 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCGA
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATATTTCCTACATGACCAACTGTAGCGA
* * * **
16629171 AATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* * *
16629229 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAATATTTCTTACATGACC-ACTGTAGCG
1 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAAAATATTTCCTACATGACCAACTGTAGCG
16629293 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
65 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
**
16629352 GCGATTTCCCACTATTTG
1 GCGATTTGACACTATTTG
16629370 ACCAGATACA
Statistics
Matches: 128, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
123 99 0.77
124 29 0.23
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (123 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATATTTCCTACATGACCAACTGTAGCGA
AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:16637209 original size:18 final size:19
Alignment explanation
Indices: 16637186--16637226 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
16637176 TTTAAATACA
16637186 TTTATTTTAT-TATATCAT
1 TTTATTTTATCTATATCAT
*
16637204 TTTA-TTTATCTATATCCT
1 TTTATTTTATCTATATCAT
16637222 TTTAT
1 TTTAT
16637227 ATATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTTATCTATATCAT
Found at i:16637264 original size:3 final size:3
Alignment explanation
Indices: 16637249--16637338 Score: 81
Period size: 3 Copynumber: 30.0 Consensus size: 3
16637239 TTTAAGATTT
* * ** * * *
16637249 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * **
16637297 TTA TTA TTA TTA TTA TTA ATA ATA CCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16637339 AATTGTTTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:16639097 original size:11 final size:11
Alignment explanation
Indices: 16639083--16639149 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
16639073 TTTTTTTTAA
16639083 TTTTAAAATAT
1 TTTTAAAATAT
16639094 TTTTAAAATACT
1 TTTTAAAATA-T
**
16639106 TTTTTTAAT-T
1 TTTTAAAATAT
*
16639116 TTTT----TAA
1 TTTTAAAATAT
16639123 TTTTAAAATAT
1 TTTTAAAATAT
16639134 TTTTAAAATACT
1 TTTTAAAATA-T
16639146 TTTT
1 TTTT
16639150 TTTTTAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
10 5 0.11
11 22 0.49
12 13 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:16639151 original size:40 final size:40
Alignment explanation
Indices: 16639034--16639151 Score: 204
Period size: 40 Copynumber: 3.0 Consensus size: 40
16639024 AAATATATTT
*
16639034 ATTTTTTTAATTTTAAAATATTTTT-ACATAC-TTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
16639072 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 A-TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
16639113 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT
16639152 TTTAATTTTT
Statistics
Matches: 76, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 1 0.01
39 24 0.32
40 43 0.57
41 8 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:16647888 original size:21 final size:21
Alignment explanation
Indices: 16647862--16647972 Score: 131
Period size: 21 Copynumber: 5.3 Consensus size: 21
16647852 ATGTTTTACT
16647862 TTCTGTTCAGCTCTTTCGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* *
16647883 TTCTGTTCAACTCTTAT-GAGT
1 TTCTGTTCAGCTCTT-TCGAGC
16647904 TTCTGTTCAGCTCTTTCGAGC
1 TTCTGTTCAGCTCTTTCGAGC
*
16647925 TTCTGTTCAACTCTTAT-GAG-
1 TTCTGTTCAGCTCTT-TCGAGC
*
16647945 TGTCTGTTCAGCTC-TTCAAGC
1 T-TCTGTTCAGCTCTTTCGAGC
16647966 TTCTGTT
1 TTCTGTT
16647973 GGTGTTTTTG
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
19 1 0.01
20 11 0.14
21 63 0.82
22 2 0.03
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTTCGAGC
Found at i:16647909 original size:42 final size:42
Alignment explanation
Indices: 16647861--16647972 Score: 199
Period size: 42 Copynumber: 2.7 Consensus size: 42
16647851 CATGTTTTAC
16647861 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
16647903 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
* *
16647945 TGTCTGTTCAGCTC-TTCAAGCTTCTGTT
1 TTTCTGTTCAGCTCTTTCGAGCTTCTGTT
16647973 GGTGTTTTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 13 0.19
42 55 0.81
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
Found at i:16653652 original size:5 final size:5
Alignment explanation
Indices: 16653607--16653677 Score: 69
Period size: 5 Copynumber: 14.4 Consensus size: 5
16653597 ATGTTTTAAA
* *
16653607 TATAT TAT-T T-TAT TATAT AATATAA TATAA TATAT TA-AT TATAT TATAT
1 TATAT TATAT TATAT TATAT --TATAT TATAT TATAT TATAT TATAT TATAT
16653656 TATAT TATAT TAT-T ATATAT TA
1 TATAT TATAT TATAT -TATAT TA
16653678 AATAAAGTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
3 1 0.02
4 9 0.16
5 42 0.74
6 1 0.02
7 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:16653654 original size:24 final size:23
Alignment explanation
Indices: 16653605--16653673 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
16653595 TTATGTTTTA
* *
16653605 AATATATTATTTTATTATATAATAT
1 AATATAATATATTATTATAT--TAT
16653630 AATATAATATATTAATTATATTAT
1 AATATAATATATT-ATTATATTAT
* *
16653654 ATTATATTATATTATTATAT
1 AATATAATATATTATTATAT
16653674 ATTAAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.18
24 14 0.36
25 11 0.28
26 7 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATATAATATATTATTATATTAT
Found at i:16653678 original size:34 final size:31
Alignment explanation
Indices: 16653605--16653665 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
16653595 TTATGTTTTA
*
16653605 AATATATT-ATTTTATTATATAATATAATAT
1 AATATATTAATTATATTATATAATATAATAT
* *
16653635 AATATATTAATTATATTATATTATATTATAT
1 AATATATTAATTATATTATATAATATAATAT
16653666 TATTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
AATATATTAATTATATTATATAATATAATAT
Found at i:16653816 original size:3 final size:3
Alignment explanation
Indices: 16653808--16653842 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16653798 TTATATAATA
16653808 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16653843 GTTAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16653917 original size:11 final size:11
Alignment explanation
Indices: 16653885--16653917 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
16653875 AAATAAAAAG
16653885 AAAAAGAAACA
1 AAAAAGAAACA
16653896 AAAGAAG-AACA
1 AAA-AAGAAACA
16653907 AAAAAGAAACA
1 AAAAAGAAACA
16653918 GAGAACGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.15
11 14 0.70
12 3 0.15
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAGAAACA
Found at i:16654318 original size:22 final size:24
Alignment explanation
Indices: 16654290--16654333 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
16654280 TATGGCAAGA
16654290 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
16654312 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
16654334 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:16654929 original size:27 final size:28
Alignment explanation
Indices: 16654871--16654929 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
16654861 ATCTAATGCT
**
16654871 TTATTGGTGTGTTTGGGAGGATATGATA
1 TTATTGGTGTGTTAAGGAGGATATGATA
*
16654899 -TATTGGTGTGTTAAGGAGGAT-TTATA
1 TTATTGGTGTGTTAAGGAGGATATGATA
16654925 TTATT
1 TTATT
16654930 CCGGGTGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (28 bp):
TTATTGGTGTGTTAAGGAGGATATGATA
Found at i:16665729 original size:43 final size:43
Alignment explanation
Indices: 16665666--16665791 Score: 150
Period size: 43 Copynumber: 2.9 Consensus size: 43
16665656 AGGACTCCGA
16665666 TATGTGTTTTTGTGTAAGACCACGTCTGGGAC-GTCGGCATCGAC
1 TATGTGTTTTTGTGTAAGACCACGTCTGGGACAGT-GGCATCG-C
*
16665710 T-TGTGTTTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTTGTGTAAGACCAC-GTCTGGGACAGTGGCATCGC
* *** *
16665752 TATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 TATGTGTTTTTGTGTAAGACCACGTCTGGGACAGTGGCAT
16665792 TGTACTAGCT
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
42 2 0.03
43 66 0.92
44 4 0.06
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (43 bp):
TATGTGTTTTTGTGTAAGACCACGTCTGGGACAGTGGCATCGC
Found at i:16666843 original size:24 final size:24
Alignment explanation
Indices: 16666816--16666892 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 24
16666806 TCAATTTTTG
16666816 ATGTATAAGGCAGGCCAATTATAT
1 ATGTATAAGGCAGGCCAATTATAT
* * ** * *
16666840 ATGTAT-ATGC-TGTTAATTTTTT
1 ATGTATAAGGCAGGCCAATTATAT
* *
16666862 ATGTATAAGGCAGTCGAATTATAT
1 ATGTATAAGGCAGGCCAATTATAT
16666886 ATGTATA
1 ATGTATA
16666893 TGCTGTCAAT
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
22 13 0.34
23 6 0.16
24 19 0.50
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (24 bp):
ATGTATAAGGCAGGCCAATTATAT
Found at i:16667191 original size:325 final size:325
Alignment explanation
Indices: 16666603--16667534 Score: 1539
Period size: 325 Copynumber: 2.9 Consensus size: 325
16666593 TAGGTTATGT
* * * *
16666603 ATTATATATGTATATGCTGTCAATTTTTGATGTA-TAAGGCAGTCC-AAT-TATATATATATGCT
1 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
* * * * *
16666665 GTTAATTTTTTATGTAT-AAGGCAATCCAATTATATATGTATATGCTGTCAATTTTTGACGTATA
66 GTCAATTTTTTATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAA-TTTTGATGTACA
* * * *
16666729 AATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATAT
130 AATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTA-TAATGCAGTCCAATTATAT
*
16666794 ATGTATATGCTGTCAATTTTTGATGTATAAGGCAGGCCAATTATATATGTATATGCTGTTAATTT
194 ATGTATATGCTGTCAATTTTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTT
*
16666859 TTTATGTATAAGGCAGTCGAATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTC
259 TTTATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTC
16666924 CA
324 CA
16666926 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
16666991 GTCAATTTTTTATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTGATGTACAA
66 GTCAATTTTTTATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTGATGTACAA
* *
16667056 ATGCAGTCCAAATATATATGTATATGTTGTCAATTTTTGATGTATAAGGCAGTCCAATTATATAT
131 ATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTATAATGCAGTCCAATTATATAT
*
16667121 GTATATGCTGTTAATTTTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTT
196 GTATATGCTGTCAATTTTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTT
*
16667186 TATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCA
261 TATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTCCA
16667251 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
* *
16667316 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGGTGTCAATTTTGATGTACAA
66 GTCAATTTTTTATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTGATGTACAA
*
16667381 ATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATATA
131 ATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTAT-AATGCAGTCCAATTATATA
* * * *
16667446 TGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTT
195 TGTATATGCTGTCAATTTTTGATGTA-TAAGGCAGTCCAATTATATATGTATATGCTGTTAATTT
* *
16667511 TTGATGTATAAATGCAGTCCAATT
259 TTTATGTAT-AAGGCAGTCCAATT
16667535 TTGTAAATAT
Statistics
Matches: 571, Mismatches: 31, Indels: 9
0.93 0.05 0.01
Matches are distributed among these distances:
323 33 0.06
324 9 0.02
325 318 0.56
326 124 0.22
327 74 0.13
328 13 0.02
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (325 bp):
ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
GTCAATTTTTTATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTGATGTACAA
ATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTATAATGCAGTCCAATTATATAT
GTATATGCTGTCAATTTTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTT
TATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTCCA
Found at i:16667558 original size:47 final size:47
Alignment explanation
Indices: 16666603--16667534 Score: 1427
Period size: 47 Copynumber: 20.1 Consensus size: 47
16666593 TAGGTTATGT
*
16666603 ATTATATATGTATATGCTGTCAATTTTTGATGTAT-AAGGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* * * *
16666649 ATTATATA--TATATGCTGTTAATTTTTTATGTAT-AAGGCAATCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16666693 ATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16666740 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* * *
16666787 AATATATATGTATATGCTGTCAATTTTTGATGTAT-AAGGCAGGCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* * * *
16666833 ATTATATATGTATATGCTGTTAATTTTTTATGTAT-AAGGCAGTCGA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
**
16666879 ATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16666926 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16666973 AATATATATGTATATGCTGTCAATTTTTTATGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16667020 ATTATATATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* * *
16667066 AATATATATGTATATGTTGTCAATTTTTGATGTAT-AAGGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16667112 ATTATATATGTATATGCTGTTAATTTTTGATGTAT-AAGGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* * *
16667158 ATTATATATGTATATGCTGTTAATTTTTTATGTAT-AAGGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16667204 ATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16667251 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16667298 AATATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16667345 ATTATATATGTATATGGTGTCAA-TTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
* *
16667391 AATATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16667438 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
*
16667485 AATATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
1 ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
16667532 ATT
1 ATT
16667535 TTGTAAATAT
Statistics
Matches: 810, Mismatches: 69, Indels: 13
0.91 0.08 0.01
Matches are distributed among these distances:
44 41 0.05
46 326 0.40
47 443 0.55
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (47 bp):
ATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCA
Found at i:16667597 original size:140 final size:141
Alignment explanation
Indices: 16666603--16667534 Score: 1409
Period size: 140 Copynumber: 6.7 Consensus size: 141
16666593 TAGGTTATGT
* * *
16666603 ATTATATATGTATATGCTGTCAATTTTTGATGTA-TAAGGCAGTCC-AAT-TATATATATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
* * * * *
16666665 GTTAATTTTTTATGTAT-AAGGCAATCCAATTATATATGTATATGCTGTCAATTTTTGACGTATA
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
16666729 AATGCAGTCCA
131 AATGCAGTCCA
*
16666740 ATTATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
* * * *
16666805 GTCAATTTTTGATGTAT-AAGGCAGGCCAATTATATATGTATATGCTGTTAATTTTTTATGTAT-
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
* *
16666868 AAGGCAGTCGA
131 AATGCAGTCCA
** * *
16666879 ATTATATATGTATATGCTGTCAATTTTTGACATATAAATGCAGTCCAATTATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
* * * *
16666944 GTCAAATTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTTATGTATA
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
16667009 AATGCAGTCCA
131 AATGCAGTCCA
*
16667020 ATTATATATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCAAATATATATGTATATGTT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
* *
16667084 GTCAATTTTTGATGTAT-AAGGCAGTCCAATTATATATGTATATGCTGTTAATTTTTGATGTAT-
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
*
16667147 AAGGCAGTCCA
131 AATGCAGTCCA
* * * * *
16667158 ATTATATATGTATATGCTGTTAATTTTTTATGTA-TAAGGCAGTCCAATTATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
* * *
16667222 GTCAATTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTACA
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
16667287 AATGCAGTCCA
131 AATGCAGTCCA
* * * *
16667298 AATATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGGT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
* * *
16667363 GTCAA-TTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGACGTATA
66 GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
16667427 AATGCAGTCCA
131 AATGCAGTCCA
16667438 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
1 ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
16667503 GTCAATTTTTGATGTATAAATGCAGTCCAATT
66 GTCAATTTTTGATGTATAAATGCAGTCCAATT
16667535 TTGTAAATAT
Statistics
Matches: 717, Mismatches: 68, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
137 33 0.05
138 83 0.12
139 180 0.25
140 333 0.46
141 88 0.12
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (141 bp):
ATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCT
GTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGATGTATA
AATGCAGTCCA
Found at i:16668264 original size:17 final size:17
Alignment explanation
Indices: 16668242--16668280 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
16668232 AAATTATCGG
16668242 AAGCTCTGACGGGTTGA
1 AAGCTCTGACGGGTTGA
*
16668259 AAGCTCTGATGGGTTGA
1 AAGCTCTGACGGGTTGA
16668276 AAGCT
1 AAGCT
16668281 TGTCGGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (17 bp):
AAGCTCTGACGGGTTGA
Found at i:16670035 original size:12 final size:11
Alignment explanation
Indices: 16670008--16670045 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
16669998 GAAAATAGTC
16670008 AAAATTAATA-
1 AAAATTAATAT
16670018 AAAATTAACTAT
1 AAAATTAA-TAT
16670030 AAAATTAAT-T
1 AAAATTAATAT
16670040 AAAATT
1 AAAATT
16670046 CATCATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:16671385 original size:22 final size:22
Alignment explanation
Indices: 16671366--16671408 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16671356 GATGGAAATG
*
16671366 AAAACAGAAAGGGAAAGAAAGA
1 AAAACAGAAAGAGAAAGAAAGA
*
16671388 AAAAGAGAAAGAGAAAGAAAG
1 AAAACAGAAAGAGAAAGAAAG
16671409 GAGAAATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (22 bp):
AAAACAGAAAGAGAAAGAAAGA
Found at i:16672329 original size:40 final size:40
Alignment explanation
Indices: 16672208--16672347 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 40
16672198 GACTTCGAGT
* *
16672208 CGATGAGACACTTGGTGTC-AATTATTTACTTTGGATTAATT
1 CGATGAGACACTGGGTGTCAAATTA-TTACTTTGGATT-ATC
* * * * *
16672249 TGATGAGGCACTGGGTG-CCAA-T-TTACTTTGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
* *
16672286 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
* * *
16672326 CGATAAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
16672348 CTAGTGTGTT
Statistics
Matches: 79, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 16 0.20
38 14 0.18
39 1 0.01
40 32 0.41
41 16 0.20
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
Found at i:16675918 original size:26 final size:26
Alignment explanation
Indices: 16675882--16675935 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
16675872 ACATATTTAC
16675882 TTAATTCTCCCATTTTTGTCTTATGT
1 TTAATTCTCCCATTTTTGTCTTATGT
16675908 TTAATTCTCCCATTTTTGTCTTATGT
1 TTAATTCTCCCATTTTTGTCTTATGT
16675934 TT
1 TT
16675936 TTCTATACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.07, T:0.59
Consensus pattern (26 bp):
TTAATTCTCCCATTTTTGTCTTATGT
Found at i:16681256 original size:3 final size:3
Alignment explanation
Indices: 16681250--16681277 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16681240 ATGAACTTTA
16681250 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
16681278 TCATATTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:16685474 original size:25 final size:25
Alignment explanation
Indices: 16685446--16685495 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
16685436 ATATAGTTTT
16685446 TATATTAT-TTATAAATGTTATAATA
1 TATATTATATTAT-AATGTTATAATA
16685471 TATATTATATTATAATGTTATAATA
1 TATATTATATTATAATGTTATAATA
16685496 AAACAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
TATATTATATTATAATGTTATAATA
Found at i:16685974 original size:43 final size:43
Alignment explanation
Indices: 16685906--16685989 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
16685896 GATTTCGATA
*
16685906 TGTGTTTTCGTGTAAGACCTCGTCTGGGAC-GTTGGCATCGACT
1 TGTGTTTACGTGTAAGACCTCGTCTGGGACAG-TGGCATCGACT
16685949 TGTGTTTACGTGTAAGACACT-GTCTGGGACAGTGGCATCGA
1 TGTGTTTACGTGTAAGAC-CTCGTCTGGGACAGTGGCATCGA
16685990 TATGTGAGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
43 35 0.92
44 3 0.08
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (43 bp):
TGTGTTTACGTGTAAGACCTCGTCTGGGACAGTGGCATCGACT
Found at i:16686008 original size:43 final size:43
Alignment explanation
Indices: 16685918--16686029 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 43
16685908 TGTTTTCGTG
** * *
16685918 TAAGACCTCGTCTGGGACGTTGGCATCGACTTGTGTTTACGTG
1 TAAGACCTCGTCTGGGACGTTGGCATCGACTTGTGAGTACATC
16685961 TAAGACACT-GTCTGGGACAG-TGGCATCGA-TATGTGAGTACATC
1 TAAGAC-CTCGTCTGGGAC-GTTGGCATCGACT-TGTGAGTACATC
* * *
16686004 TAAGACCACGTCCGGGATGTTGGCAT
1 TAAGACCTCGTCTGGGACGTTGGCAT
16686030 TGTACGAGCC
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
42 3 0.05
43 51 0.89
44 3 0.05
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
TAAGACCTCGTCTGGGACGTTGGCATCGACTTGTGAGTACATC
Found at i:16689242 original size:35 final size:35
Alignment explanation
Indices: 16689170--16689249 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
16689160 TAACAAATAT
* * * *
16689170 TATAACCAAATGTATATATGTATTTATCACCTGCA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
* **
16689205 TATATCCAAATGCATATATGTACTTAACATGTACA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
*
16689240 TATAATCAAA
1 TATAACCAAA
16689250 CCTATAGAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (35 bp):
TATAACCAAATGCATATATGTACTTAACACCTACA
Found at i:16689669 original size:41 final size:41
Alignment explanation
Indices: 16689635--16689904 Score: 378
Period size: 41 Copynumber: 6.6 Consensus size: 41
16689625 ACCGACAATT
* * * *
16689635 AGCCTGTTAGACGTAAAGCCCGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
16689676 AGCCTGCTAGACATAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* ** * *
16689717 AGCCTGCTAGACATAAAGTCCAAAATATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
16689758 AGCCTGCTAGATGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* * * *
16689799 AGCCTGCTAGACATAAAGTCTAAAATATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* * *
16689840 AGCCTGCTAGATGTAAAGTCTGAAACATTTCACCAGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
16689881 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
16689905 TCATCTTACT
Statistics
Matches: 201, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 201 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:16689901 original size:82 final size:82
Alignment explanation
Indices: 16689635--16689900 Score: 433
Period size: 82 Copynumber: 3.2 Consensus size: 82
16689625 ACCGACAATT
* * * * * **
16689635 AGCCTGTTAGACGTAAAGCCCGAAATATTTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAA
1 AGCCTGCTAGACATAAAGTCCAAAATATTTCACTGGCATCAAGCCTGCTAGATGTAAAGTCTGAA
16689700 ACATTTCACCGGCATCA
66 ACATTTCACCGGCATCA
16689717 AGCCTGCTAGACATAAAGTCCAAAATATTTCACTGGCATCAAGCCTGCTAGATGTAAAGTCTGAA
1 AGCCTGCTAGACATAAAGTCCAAAATATTTCACTGGCATCAAGCCTGCTAGATGTAAAGTCTGAA
16689782 ACATTTCACCGGCATCA
66 ACATTTCACCGGCATCA
*
16689799 AGCCTGCTAGACATAAAGTCTAAAATATTTCACTGGCATCAAGCCTGCTAGATGTAAAGTCTGAA
1 AGCCTGCTAGACATAAAGTCCAAAATATTTCACTGGCATCAAGCCTGCTAGATGTAAAGTCTGAA
* *
16689864 ACATTTCACCAGCATTA
66 ACATTTCACCGGCATCA
*
16689881 AGCCTGCTAGACGTAAAGTC
1 AGCCTGCTAGACATAAAGTC
16689901 TGAATCATCT
Statistics
Matches: 173, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 173 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (82 bp):
AGCCTGCTAGACATAAAGTCCAAAATATTTCACTGGCATCAAGCCTGCTAGATGTAAAGTCTGAA
ACATTTCACCGGCATCA
Found at i:16693608 original size:23 final size:23
Alignment explanation
Indices: 16693582--16693663 Score: 103
Period size: 23 Copynumber: 3.5 Consensus size: 23
16693572 TTAATGTTCA
*
16693582 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-TGAACATTAAT
*
16693605 CGAACATGTTCATGAACATTAAA
1 CGAACATGTTCATGAACATTAAT
*
16693628 CAAACATGTTCATGAACATATAAT
1 CGAACATGTTCATGAACAT-TAAT
*
16693652 TGAACATGTTCA
1 CGAACATGTTCA
16693664 CGAATAATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
22 4 0.08
23 34 0.67
24 13 0.25
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (23 bp):
CGAACATGTTCATGAACATTAAT
Found at i:16693752 original size:23 final size:23
Alignment explanation
Indices: 16693725--16693806 Score: 103
Period size: 23 Copynumber: 3.5 Consensus size: 23
16693715 CACTTATACA
*
16693725 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-TGAACATTAAT
*
16693748 CGAACATGTTCATGAACATTAAA
1 CGAACATGTTCATGAACATTAAT
*
16693771 CAAACATGTTCATGAACATATAAT
1 CGAACATGTTCATGAACAT-TAAT
*
16693795 TGAACATGTTCA
1 CGAACATGTTCA
16693807 CGAATAATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
22 4 0.08
23 34 0.67
24 13 0.25
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (23 bp):
CGAACATGTTCATGAACATTAAT
Found at i:16693838 original size:143 final size:143
Alignment explanation
Indices: 16693580--16693880 Score: 602
Period size: 143 Copynumber: 2.1 Consensus size: 143
16693570 TTTTAATGTT
16693580 CACGAACATGTTCATTTAACTTAATCGAACATGTTCATGAACATTAAACAAACATGTTCATGAAC
1 CACGAACATGTTCATTTAACTTAATCGAACATGTTCATGAACATTAAACAAACATGTTCATGAAC
16693645 ATATAATTGAACATGTTCACGAATAATGTTAATAAATAATAAACAAACAAACAATAAATACATGC
66 ATATAATTGAACATGTTCACGAATAATGTTAATAAATAATAAACAAACAAACAATAAATACATGC
16693710 GTACACACTTATA
131 GTACACACTTATA
16693723 CACGAACATGTTCATTTAACTTAATCGAACATGTTCATGAACATTAAACAAACATGTTCATGAAC
1 CACGAACATGTTCATTTAACTTAATCGAACATGTTCATGAACATTAAACAAACATGTTCATGAAC
16693788 ATATAATTGAACATGTTCACGAATAATGTTAATAAATAATAAACAAACAAACAATAAATACATGC
66 ATATAATTGAACATGTTCACGAATAATGTTAATAAATAATAAACAAACAAACAATAAATACATGC
16693853 GTACACACTTATA
131 GTACACACTTATA
16693866 CACGAACATGTTCAT
1 CACGAACATGTTCAT
16693881 CGAATGCTCT
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 158 1.00
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (143 bp):
CACGAACATGTTCATTTAACTTAATCGAACATGTTCATGAACATTAAACAAACATGTTCATGAAC
ATATAATTGAACATGTTCACGAATAATGTTAATAAATAATAAACAAACAAACAATAAATACATGC
GTACACACTTATA
Found at i:16701683 original size:20 final size:21
Alignment explanation
Indices: 16701649--16701689 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
16701639 GACCGAAAGG
16701649 CTGTTCGGATCTCTG-CACAT
1 CTGTTCGGATCTCTGTCACAT
* *
16701669 CTGTTCGGTTTTCTGTCACAT
1 CTGTTCGGATCTCTGTCACAT
16701690 TTTATATAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.41
Consensus pattern (21 bp):
CTGTTCGGATCTCTGTCACAT
Found at i:16709501 original size:19 final size:19
Alignment explanation
Indices: 16709479--16709515 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16709469 TCTCAAAAAT
*
16709479 TGACCAAATTACCATTTTA
1 TGACAAAATTACCATTTTA
16709498 TGACAAAATTACCATTTT
1 TGACAAAATTACCATTTT
16709516 GCCCCCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (19 bp):
TGACAAAATTACCATTTTA
Found at i:16729069 original size:5 final size:5
Alignment explanation
Indices: 16729061--16729085 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16729051 TGCTGTACTG
16729061 TGCTT TGCTT TGCTT TGCTT TGCTT
1 TGCTT TGCTT TGCTT TGCTT TGCTT
16729086 GGATGTGCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.20, T:0.60
Consensus pattern (5 bp):
TGCTT
Found at i:16743861 original size:21 final size:21
Alignment explanation
Indices: 16743821--16743861 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16743811 CAAATAGATA
*
16743821 TCAATCTCATCTTTATAGTAT
1 TCAATCTCATCTTTACAGTAT
16743842 TCAATCTCAT-TGTTACAGTA
1 TCAATCTCATCT-TTACAGTA
16743862 AATAATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (21 bp):
TCAATCTCATCTTTACAGTAT
Found at i:16753208 original size:59 final size:59
Alignment explanation
Indices: 16753111--16753263 Score: 161
Period size: 59 Copynumber: 2.6 Consensus size: 59
16753101 AACAATTCAA
* **** * *
16753111 TATAATTGGATGACT-AAAAAGAAAAATTGAATAGTTAAGTGA-TCATTTTGCAACATTT
1 TATAGTTGGATGACTAAAAAAGAAAAAAACCATAATTAAGTAACT-ATTTTGCAACATTT
* **
16753169 TATAGTTGGATGACTAAAAAAGAAAAAAACCATAATTAAGTAACTATTTTGTAATTTTT
1 TATAGTTGGATGACTAAAAAAGAAAAAAACCATAATTAAGTAACTATTTTGCAACATTT
*
16753228 TATAGTT-GAGTGAC-AAAAAAGAAAATAACCATAATT
1 TATAGTTGGA-TGACTAAAAAAGAAAAAAACCATAATT
16753264 GGGTAAGCTT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
58 37 0.46
59 43 0.53
60 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (59 bp):
TATAGTTGGATGACTAAAAAAGAAAAAAACCATAATTAAGTAACTATTTTGCAACATTT
Found at i:16759845 original size:60 final size:58
Alignment explanation
Indices: 16759754--16759873 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 58
16759744 TCTATCTACT
16759754 TTTTTTATTAATAATATTAATTAAAATAAATCTAATCATTGTCATTACAATCAAATGG
1 TTTTTTATTAATAATATTAATTAAAATAAATCTAATCATTGTCATTACAATCAAATGG
16759812 TTTTTTATTAAATAATATTTAATTAAAATAAATCTAATCATTGTCATTACAATCAAATGG
1 TTTTTTATT-AATAATA-TTAATTAAAATAAATCTAATCATTGTCATTACAATCAAATGG
16759872 TT
1 TT
16759874 CCTATTCATC
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 9 0.15
59 7 0.12
60 44 0.73
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (58 bp):
TTTTTTATTAATAATATTAATTAAAATAAATCTAATCATTGTCATTACAATCAAATGG
Found at i:16761824 original size:99 final size:99
Alignment explanation
Indices: 16761689--16761869 Score: 281
Period size: 99 Copynumber: 1.8 Consensus size: 99
16761679 TTTATTTTGA
* * **
16761689 TTTATGTTTCACTATATATGGACTTTGTGTAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
1 TTTATGTTGCACTATATATAGACTTTGCATAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
*
16761754 GATTAATTTTGATTATAGTTGTGATTGTACTTGG
66 GATTAATTCTGATTATAGTTGTGATTGTACTTGG
* * * *
16761788 TTTATGTTGCACTATATATAGACTTTGCATATGTTTTGATTATCAATCTAATCATGTTTTGTAAT
1 TTTATGTTGCACTATATATAGACTTTGCATAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
16761853 GATTAATTCTGATTATA
66 GATTAATTCTGATTATA
16761870 TATATTCAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (99 bp):
TTTATGTTGCACTATATATAGACTTTGCATAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
GATTAATTCTGATTATAGTTGTGATTGTACTTGG
Found at i:16776964 original size:21 final size:21
Alignment explanation
Indices: 16776936--16776975 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
16776926 GATTGAGAGT
16776936 TTTAAAAATAT-TTTATATAC
1 TTTAAAAATATATTTATATAC
16776956 TTTATAAAATATATTTATAT
1 TTTA-AAAATATATTTATAT
16776976 GTATTGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAAAAATATATTTATATAC
Found at i:16778264 original size:26 final size:29
Alignment explanation
Indices: 16778235--16778324 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 29
16778225 TTTGTTATTA
*
16778235 TTTTTATAATTTTTTA-AATTT-ATTTTT
1 TTTTTATAATCTTTTATAATTTAATTTTT
*
16778262 TTTTT-T-ATCTTTTATTATTTAATTTTT
1 TTTTTATAATCTTTTATAATTTAATTTTT
* *
16778289 TTTTTATAATATATTTAT-TTTTAATTACTTT
1 TTTTTATAATCT-TTTATAATTTAATT--TTT
16778320 TTTTT
1 TTTTT
16778325 TATATAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
25 7 0.13
26 5 0.10
27 16 0.31
28 1 0.02
29 10 0.19
30 5 0.10
31 8 0.15
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTTTATAATCTTTTATAATTTAATTTTT
Found at i:16778267 original size:28 final size:27
Alignment explanation
Indices: 16778235--16778324 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 27
16778225 TTTGTTATTA
*
16778235 TTTTTATAATTTT-TTAAATTTATTTTTT
1 TTTTTATAATTTTATT--ATTTAATTTTT
*
16778263 TTTTTAT-CTTTTATTATTTAATTTTT
1 TTTTTATAATTTTATTATTTAATTTTT
16778289 TTTTTATAATATATTTATT-TTTAATTACTTT
1 TTTTTAT-A-AT-TTTATTATTTAATT--TTT
16778320 TTTTT
1 TTTTT
16778325 TATATAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
26 17 0.33
27 4 0.08
28 9 0.17
29 8 0.15
30 6 0.12
31 8 0.15
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (27 bp):
TTTTTATAATTTTATTATTTAATTTTT
Found at i:16778290 original size:29 final size:29
Alignment explanation
Indices: 16778179--16778330 Score: 93
Period size: 31 Copynumber: 5.2 Consensus size: 29
16778169 TATGCTTAAA
16778179 ATAT-TTTATTTATTAATTTTTATTTTTTCTT
1 ATATATTTATTT-TTAATTTTT-TTTTTT-TT
* * *
16778210 CT-TATATATTATTT-ATTTGTTATTATTTTT
1 ATATATTTATT-TTTAATTT-TT-TTTTTTTT
*
16778240 ATA-A-TT-TTTTAAATTTATTTTTTTTTT
1 ATATATTTATTTTTAATTT-TTTTTTTTTT
* * *
16778267 -TATCTTTTATTATTTAATTTTTTTTTTATA
1 ATAT-ATTTATT-TTTAATTTTTTTTTTTTT
**
16778297 ATATATTTATTTTTAATTACTTTTTTTTT
1 ATATATTTATTTTTAATTTTTTTTTTTTT
16778326 ATATA
1 ATATA
16778331 AAAAAAAGTC
Statistics
Matches: 93, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
26 2 0.02
27 9 0.10
28 8 0.09
29 22 0.24
30 25 0.27
31 26 0.28
32 1 0.01
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.72
Consensus pattern (29 bp):
ATATATTTATTTTTAATTTTTTTTTTTTT
Found at i:16778306 original size:27 final size:27
Alignment explanation
Indices: 16778200--16778308 Score: 73
Period size: 26 Copynumber: 4.0 Consensus size: 27
16778190 ATTAATTTTT
16778200 ATTTTTTCTTCTTAT-ATATTATTTATTT-
1 ATTTTTT-TT-TTATAATA-TATTTATTTA
* * *
16778228 GTTATTATTTTTATAAT-TTTTTAAATTTA
1 ATT-TTTTTTTTATAATATATTT--ATTTA
* ** *
16778257 TTTTTTTTTTTATCTTTTA-TTATTTA
1 ATTTTTTTTTTATAATATATTTATTTA
16778283 ATTTTTTTTTTATAATATATTTATTT
1 ATTTTTTTTTTATAATATATTTATTT
16778309 TTAATTACTT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
26 24 0.39
27 10 0.16
28 22 0.35
29 6 0.10
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (27 bp):
ATTTTTTTTTTATAATATATTTATTTA
Found at i:16790985 original size:59 final size:59
Alignment explanation
Indices: 16790876--16791031 Score: 172
Period size: 59 Copynumber: 2.6 Consensus size: 59
16790866 AACAATTCAA
* *** * *
16790876 TATAATTGGATGACTAAAAAAGAAAAAATTGAATAGTTAAGTGATCATTTTGCAACATTT
1 TATAGTTGGATGACTAAAAAAGAAAAAA-ACCATAATTAAGTAATCATTTTGCAACATTT
* **
16790936 TATAGTTGGATGACTAAAAAAGAAAAAAACCATAATTAAGTAA-CTATTTTGTAATTTTT
1 TATAGTTGGATGACTAAAAAAGAAAAAAACCATAATTAAGTAATC-ATTTTGCAACATTT
* *
16790995 TATAGTT-GAGTGACAAAAAAAGAAAATAACCATAATT
1 TATAGTTGGA-TGACTAAAAAAGAAAAAAACCATAATT
16791032 GGGTAAGCTT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
58 3 0.04
59 53 0.64
60 27 0.33
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.32
Consensus pattern (59 bp):
TATAGTTGGATGACTAAAAAAGAAAAAAACCATAATTAAGTAATCATTTTGCAACATTT
Found at i:16797709 original size:61 final size:61
Alignment explanation
Indices: 16797614--16797737 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
16797604 CTATCTACTT
16797614 TTTTTTATTAAATAATATTTAATTAAAATAAAATCTAATCATTGTCATTACAATCAAATGG
1 TTTTTTATTAAATAATATTTAATTAAAATAAAATCTAATCATTGTCATTACAATCAAATGG
16797675 TTTTTTATTAAATAATATTTAATTAAAATAAAATCTAATCATTGTCATTACAATCAAATGG
1 TTTTTTATTAAATAATATTTAATTAAAATAAAATCTAATCATTGTCATTACAATCAAATGG
16797736 TT
1 TT
16797738 CCTATTCATC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (61 bp):
TTTTTTATTAAATAATATTTAATTAAAATAAAATCTAATCATTGTCATTACAATCAAATGG
Found at i:16799718 original size:99 final size:99
Alignment explanation
Indices: 16799583--16799763 Score: 281
Period size: 99 Copynumber: 1.8 Consensus size: 99
16799573 TTTATTTTGA
* * **
16799583 TTTATGTTTCACTATATATGGACTTTGTGTAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
1 TTTATGTTGCACTATATATAGACTTTGCATAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
*
16799648 GATTAATTTTGATTATAGTTGTGATTGTACTTGG
66 GATTAATTCTGATTATAGTTGTGATTGTACTTGG
* * * *
16799682 TTTATGTTGCACTATATATAGACTTTGCATATGTTTTGATTATCAATCTAATCATGTTTTGTAAT
1 TTTATGTTGCACTATATATAGACTTTGCATAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
16799747 GATTAATTCTGATTATA
66 GATTAATTCTGATTATA
16799764 TATATTCAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (99 bp):
TTTATGTTGCACTATATATAGACTTTGCATAGGTTTTGATTATCAATCTAATCATGCTCTATAAT
GATTAATTCTGATTATAGTTGTGATTGTACTTGG
Found at i:16817893 original size:46 final size:45
Alignment explanation
Indices: 16817786--16817901 Score: 173
Period size: 46 Copynumber: 2.6 Consensus size: 45
16817776 TACATATGAT
* *
16817786 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAA
*
16817829 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAA
*
16817875 CACTTGTCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
16817902 AGTACTCAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 10 0.15
44 4 0.06
45 20 0.31
46 31 0.48
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAA
Found at i:16823703 original size:20 final size:20
Alignment explanation
Indices: 16823678--16823716 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16823668 AAGCTACAAC
*
16823678 TTTTAAATTAAAAAAATTAG
1 TTTTAAAATAAAAAAATTAG
*
16823698 TTTTAAAATATAAAAATTA
1 TTTTAAAATAAAAAAATTA
16823717 AATCTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
TTTTAAAATAAAAAAATTAG
Found at i:16827852 original size:75 final size:75
Alignment explanation
Indices: 16827724--16827867 Score: 175
Period size: 75 Copynumber: 1.9 Consensus size: 75
16827714 GCAATCACCA
* * * *
16827724 TTGGTTCATCCAACTGGAGCTGGGCTCACAATTATTATCGTCGGTATACCCGACTAGCACTGGGT
1 TTGGTTCATCCAACTAGAGCTAGGCTCACAATTATTACCGTCGGTATACCCGACTAGCACTGGGC
16827789 GCAAATATTG
66 GCAAATATTG
* * * * *
16827799 TTGGTTTATCCAACTAGAGCTAGGCTCAC-CTTCATTACCGTCAGT-TAATCCGACTAGCGCTGG
1 TTGGTTCATCCAACTAGAGCTAGGCTCACAATT-ATTACCGTCGGTAT-ACCCGACTAGCACTGG
16827862 GCGCAA
64 GCGCAA
16827868 CCTTTCTGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
74 3 0.05
75 55 0.95
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (75 bp):
TTGGTTCATCCAACTAGAGCTAGGCTCACAATTATTACCGTCGGTATACCCGACTAGCACTGGGC
GCAAATATTG
Found at i:16829250 original size:441 final size:441
Alignment explanation
Indices: 16828428--16829328 Score: 1777
Period size: 441 Copynumber: 2.0 Consensus size: 441
16828418 ATGTTACATG
16828428 TTTTAAGCTTGATTTTGGGTTGGTTTGAATGCCTATTATATCATGGTCATATGCATATTTTTGAG
1 TTTTAAGCTTGATTTTGGGTTGGTTTGAATGCCTATTATATCATGGTCATATGCATATTTTTGAG
16828493 TTGAGGTTGGTATCAATTTGGGTGAGAAATATGACTTAGAAAATGACATATTTTTATCCACATGG
66 TTGAGGTTGGTATCAATTTGGGTGAGAAATATGACTTAGAAAATGACATATTTTTATCCACATGG
16828558 GCAGAGACACGGTGTGTATCTCAGCCGTGTGTGACACACGGCCAGGTAACACGGTTGTGTGTCCC
131 GCAGAGACACGGTGTGTATCTCAGCCGTGTGTGACACACGGCCAGGTAACACGGTTGTGTGTCCC
16828623 CTGTAACTTCTATAGAAAACAAGTCAGTACCTTCACACAGCCAAGCCACACGCTCGTGTGCTAGG
196 CTGTAACTTCTATAGAAAACAAGTCAGTACCTTCACACAGCCAAGCCACACGCTCGTGTGCTAGG
16828688 CCGTGTGGCACAAGTCAGTATACCCTCCAATTTTCACACGGCCTGACACACGGGCGTGTGAGACC
261 CCGTGTGGCACAAGTCAGTATACCCTCCAATTTTCACACGGCCTGACACACGGGCGTGTGAGACC
16828753 ATTTTGAATGCCCACACAGCATGGCCATACGGGCATGTGTCCCCTGTACCTTTGAAAAAAAATTC
326 ATTTTGAATGCCCACACAGCATGGCCATACGGGCATGTGTCCCCTGTACCTTTGAAAAAAAATTC
16828818 CATGTTTTTTTGAAAAAAATTCCTTCAGTACCTGGTTTAGCCCTGAACTAT
391 CATGTTTTTTTGAAAAAAATTCCTTCAGTACCTGGTTTAGCCCTGAACTAT
16828869 TTTTAAGCTTGATTTTGGGTTGGTTTGAATGCCTATTATATCATGGTCATATGCATATTTTTGAG
1 TTTTAAGCTTGATTTTGGGTTGGTTTGAATGCCTATTATATCATGGTCATATGCATATTTTTGAG
16828934 TTGAGGTTGGTATCAATTTGGGTGAGAAATATGACTTAGAAAATGACATATTTTTATCCACATGG
66 TTGAGGTTGGTATCAATTTGGGTGAGAAATATGACTTAGAAAATGACATATTTTTATCCACATGG
16828999 GCAGAGACACGGTGTGTATCTCAGCCGTGTGTGACACACGGCCAGGTAACACGGTTGTGTGTCCC
131 GCAGAGACACGGTGTGTATCTCAGCCGTGTGTGACACACGGCCAGGTAACACGGTTGTGTGTCCC
16829064 CTGTAACTTCTATAGAAAACAAGTCAGTACCTTCACACAGCCAAGCCACACGCTCGTGTGCTAGG
196 CTGTAACTTCTATAGAAAACAAGTCAGTACCTTCACACAGCCAAGCCACACGCTCGTGTGCTAGG
16829129 CCGTGTGGCACAAGTCAGTATACCCTCCAATTTTCACACGGCCTGACACACGGGCGTGTGAGACC
261 CCGTGTGGCACAAGTCAGTATACCCTCCAATTTTCACACGGCCTGACACACGGGCGTGTGAGACC
16829194 ATTTTGAATGCCCACACAGCATGGCCATACGGGCATGTGTCCCCTGTACCTTTGAAAAAAAATTC
326 ATTTTGAATGCCCACACAGCATGGCCATACGGGCATGTGTCCCCTGTACCTTTGAAAAAAAATTC
16829259 CATGTTTTTTTGAAAAAAATTCCTTCAGTACCTGGTTTAGCCCTGAACTAT
391 CATGTTTTTTTGAAAAAAATTCCTTCAGTACCTGGTTTAGCCCTGAACTAT
*
16829310 TTTTAATG-TTTATTTTGGG
1 TTTTAA-GCTTGATTTTGGG
16829329 CCTCGAGGGC
Statistics
Matches: 458, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
441 457 1.00
442 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (441 bp):
TTTTAAGCTTGATTTTGGGTTGGTTTGAATGCCTATTATATCATGGTCATATGCATATTTTTGAG
TTGAGGTTGGTATCAATTTGGGTGAGAAATATGACTTAGAAAATGACATATTTTTATCCACATGG
GCAGAGACACGGTGTGTATCTCAGCCGTGTGTGACACACGGCCAGGTAACACGGTTGTGTGTCCC
CTGTAACTTCTATAGAAAACAAGTCAGTACCTTCACACAGCCAAGCCACACGCTCGTGTGCTAGG
CCGTGTGGCACAAGTCAGTATACCCTCCAATTTTCACACGGCCTGACACACGGGCGTGTGAGACC
ATTTTGAATGCCCACACAGCATGGCCATACGGGCATGTGTCCCCTGTACCTTTGAAAAAAAATTC
CATGTTTTTTTGAAAAAAATTCCTTCAGTACCTGGTTTAGCCCTGAACTAT
Found at i:16829985 original size:15 final size:15
Alignment explanation
Indices: 16829948--16829993 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
16829938 TTATTGTATA
*
16829948 TTATTTTTAAATAT-
1 TTATTTTTAAATTTG
16829962 TTATATTTTAAATTTG
1 TTAT-TTTTAAATTTG
*
16829978 TTATTTTTATATTTG
1 TTATTTTTAAATTTG
16829993 T
1 T
16829994 ACATGTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
TTATTTTTAAATTTG
Found at i:16831051 original size:15 final size:17
Alignment explanation
Indices: 16831026--16831057 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16831016 TAATTCATCT
16831026 TTTTAATTAAT-ATATC
1 TTTTAATTAATAATATC
16831042 TTTT-ATTAATAATATC
1 TTTTAATTAATAATATC
16831058 AAATTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAATTAATAATATC
Found at i:16831202 original size:32 final size:32
Alignment explanation
Indices: 16831166--16831227 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
16831156 TTTGTATGTG
* *
16831166 TATTTAAAATGTTTTACATATAAACATAATGA
1 TATTTAAAATATTTTACATATAAAAATAATGA
* *
16831198 TATTTGAAATATTTTAGATATAAAAATAAT
1 TATTTAAAATATTTTACATATAAAAATAAT
16831228 AATTAATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (32 bp):
TATTTAAAATATTTTACATATAAAAATAATGA
Found at i:16831470 original size:17 final size:17
Alignment explanation
Indices: 16831448--16831503 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
16831438 TTTTATGAAT
16831448 AAAAGATTTATTAATTA
1 AAAAGATTTATTAATTA
** *
16831465 AAAAGATGAATTAAAAATA
1 AAAAGATTTATT--AATTA
16831484 AAAA-ATTTATTAATTA
1 AAAAGATTTATTAATTA
16831500 AAAA
1 AAAA
16831504 AAACATGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 8 0.26
17 10 0.32
18 5 0.16
19 8 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
AAAAGATTTATTAATTA
Found at i:16837692 original size:13 final size:11
Alignment explanation
Indices: 16837656--16837686 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
16837646 CCGTCCGTAT
16837656 TAATTTTTATA
1 TAATTTTTATA
*
16837667 TTATTTTTATA
1 TAATTTTTATA
16837678 TAATTTTTA
1 TAATTTTTA
16837687 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:16843778 original size:24 final size:24
Alignment explanation
Indices: 16843742--16843789 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
16843732 AATTTTTCGG
* **
16843742 CAGAGAGAGAGAGCTAAAGAAAAA
1 CAGAGAGAAAGAGAGAAAGAAAAA
16843766 CAGAGAGAAAGAGAGAAAGAAAAA
1 CAGAGAGAAAGAGAGAAAGAAAAA
16843790 AAATCAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.62, C:0.06, G:0.29, T:0.02
Consensus pattern (24 bp):
CAGAGAGAAAGAGAGAAAGAAAAA
Found at i:16855583 original size:6 final size:6
Alignment explanation
Indices: 16855572--16855609 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
16855562 GGGTACTGGA
*
16855572 TTGGGG TTGGGG TTAGGG TTGGGG TTGGGG TTGGGG TT
1 TTGGGG TTGGGG TTGGGG TTGGGG TTGGGG TTGGGG TT
16855610 TGAAAGGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.61, T:0.37
Consensus pattern (6 bp):
TTGGGG
Found at i:16856157 original size:19 final size:18
Alignment explanation
Indices: 16856116--16856159 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
16856106 TTATATTTTT
*
16856116 TAAAAATATTAATTATTA
1 TAAAAATATTAATTATGA
16856134 TAAAAATTATTAA-TATGA
1 TAAAAA-TATTAATTATGA
*
16856152 TGAAAATA
1 TAAAAATA
16856160 ATTTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 15 0.65
19 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
TAAAAATATTAATTATGA
Found at i:16856830 original size:16 final size:16
Alignment explanation
Indices: 16856806--16856839 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16856796 ATTAAGTACA
16856806 AATAAATAAAATTTAT
1 AATAAATAAAATTTAT
* *
16856822 AATATATAACATTTAT
1 AATAAATAAAATTTAT
16856838 AA
1 AA
16856840 ATAAGTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAAATAAAATTTAT
Found at i:16860194 original size:14 final size:14
Alignment explanation
Indices: 16860177--16860203 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16860167 CTCAAATAAA
16860177 TGGGGATCAAATGT
1 TGGGGATCAAATGT
16860191 TGGGGATCAAATG
1 TGGGGATCAAATG
16860204 AAAATTAAAT
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:0.30, C:0.07, G:0.37, T:0.26
Consensus pattern (14 bp):
TGGGGATCAAATGT
Found at i:16863705 original size:20 final size:20
Alignment explanation
Indices: 16863682--16863744 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
16863672 AAATGGAATT
16863682 TTAAAATATTTTTTAAAAAA
1 TTAAAATATTTTTTAAAAAA
*
16863702 TTAAAATAATTTTT--AAAA
1 TTAAAATATTTTTTAAAAAA
* *
16863720 TTCAAAATATTTATAAAAAAA
1 TT-AAAATATTTTTTAAAAAA
16863741 TTAA
1 TTAA
16863745 TTTTGAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 15 0.42
21 6 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAATATTTTTTAAAAAA
Found at i:16863721 original size:18 final size:18
Alignment explanation
Indices: 16863682--16863737 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
16863672 AAATGGAATT
*
16863682 TTAAAATATTTTTTAAAAAA
1 TTAAAATAATTTTT--AAAA
16863702 TTAAAATAATTTTTAAAA
1 TTAAAATAATTTTTAAAA
*
16863720 TTCAAAAT-ATTTATAAAA
1 TT-AAAATAATTTTTAAAA
16863738 AAATTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 15 0.45
19 5 0.15
20 13 0.39
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAATAATTTTTAAAA
Found at i:16865452 original size:11 final size:11
Alignment explanation
Indices: 16865432--16865470 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
16865422 GTAATTCTAC
*
16865432 CTTTTCCTTTT
1 CTTTTCTTTTT
16865443 CTTTTTCTTTTT
1 C-TTTTCTTTTT
*
16865455 CTTTTTTTTTT
1 CTTTTCTTTTT
16865466 CTTTT
1 CTTTT
16865471 GATTGATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
CTTTTCTTTTT
Done.