Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 63 of 172
Found at i:20600893 original size:50 final size:50
Alignment explanation
Indices: 20600820--20600920 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
20600810 TAGTGAATCT
* *
20600820 TTTCCAATTTTAGTGGTAAATCCAATCGGTAAGCAACTGGCCCCACTCTC
1 TTTCCAATTTTAGCGGTAAATCCAATCGATAAGCAACTGGCCCCACTCTC
20600870 TTTCCAATTTTAGCGGTAAATCCAATCGATAAGCAACTGGCCCCACTCTC
1 TTTCCAATTTTAGCGGTAAATCCAATCGATAAGCAACTGGCCCCACTCTC
20600920 T
1 T
20600921 CGGTAACCAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (50 bp):
TTTCCAATTTTAGCGGTAAATCCAATCGATAAGCAACTGGCCCCACTCTC
Found at i:20606762 original size:47 final size:48
Alignment explanation
Indices: 20606694--20606955 Score: 244
Period size: 47 Copynumber: 5.6 Consensus size: 48
20606684 TAAGGTGCAA
* **
20606694 ATGCCATGT-CCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCTCAAGCCG
* *
20606740 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCTCAAGCCG
*
20606787 ATGCCATGTCCCTA-ACATGGTCTTACACTGACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCC-AGACATGGTCTTACACTGACTCATCATCTC-AAGCCG
* * * *
20606835 ATG-CATGTCCCAGACAT-GTCATACACTCAC-CCTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCTCAA-GCCG
* *** *
20606881 ATGCCATG-CCCTAGACATGGTCTTACACT-AGCTC-TCATAATGTGGCTG
1 ATGCCATGTCCC-AGACATGGTCTTACACTGA-CTCATCAT-CTCAAGCCG
20606929 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
20606956 AACACACGCA
Statistics
Matches: 186, Mismatches: 16, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
45 1 0.01
46 49 0.26
47 104 0.56
48 30 0.16
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCTCAAGCCG
Found at i:20606883 original size:94 final size:94
Alignment explanation
Indices: 20606694--20606955 Score: 281
Period size: 94 Copynumber: 2.8 Consensus size: 94
20606684 TAAGGTGCAA
* * *
20606694 ATGCCATGT-CC-AGACATGGTCTTACACTGGCTCAT-ATCTC-AAGTTGATGCCATGTCCCAGA
1 ATGCCATGTCCCTAGACATGGTCTTACACTGACT-ATCATCTCGTAGCTGATG-CATGTCCCAGA
** *
20606755 CATGGTCTTACACTGGCTCATATCTCAAGTCG
64 CAT-GTCTTACACTCACTCATATCTCAAGCCG
*
20606787 ATGCCATGTCCCTA-ACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACA
1 ATGCCATGTCCCTAGACATGGTCTTACACTGACTATCATCTCGTAGCTGATGCATGTCCCAGACA
* * *
20606851 TGTCATACACTCAC-CCTCGTCTCAATGCCG
66 TGTCTTACACTCACTCAT-ATCTCAA-GCCG
* * *
20606881 ATGCCATG-CCCTAGACATGGTCTTACACT-AGCTCTCATAAT-GTGGCTGATGCATGTCCCAGA
1 ATGCCATGTCCCTAGACATGGTCTTACACTGA-CTATCAT-CTCGTAGCTGATGCATGTCCCAGA
20606943 CATGTCTTACACT
64 CATGTCTTACACT
20606956 AACACACGCA
Statistics
Matches: 145, Mismatches: 15, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
92 2 0.01
93 33 0.23
94 102 0.70
95 8 0.06
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (94 bp):
ATGCCATGTCCCTAGACATGGTCTTACACTGACTATCATCTCGTAGCTGATGCATGTCCCAGACA
TGTCTTACACTCACTCATATCTCAAGCCG
Found at i:20608942 original size:24 final size:24
Alignment explanation
Indices: 20608915--20608960 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20608905 GAACTGATGA
20608915 TGAAT-TAAAATGAGACTATGAAAT
1 TGAATGTAAAATGAGA-TATGAAAT
* *
20608939 TGAATGTGAAATGATATATGAA
1 TGAATGTAAAATGAGATATGAA
20608961 TTGGATGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.48, C:0.02, G:0.20, T:0.30
Consensus pattern (24 bp):
TGAATGTAAAATGAGATATGAAAT
Found at i:20611229 original size:34 final size:35
Alignment explanation
Indices: 20611162--20611229 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
20611152 TAAAATATTC
* *
20611162 AAAAAAATTAAAAAATGCTTAGAAAATTTTAAAATA
1 AAAAAAATTAAAAAAT-CATAGAAAATTATAAAATA
* *
20611198 AAAAAAATTTAAAAAT-ATAGAGAATTATAAAA
1 AAAAAAATTAAAAAATCATAGAAAATTATAAAA
20611230 AGATATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 13 0.46
36 15 0.54
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.26
Consensus pattern (35 bp):
AAAAAAATTAAAAAATCATAGAAAATTATAAAATA
Found at i:20616486 original size:46 final size:45
Alignment explanation
Indices: 20616397--20616602 Score: 179
Period size: 46 Copynumber: 4.5 Consensus size: 45
20616387 CCGATGCCAC
* * * *
20616397 GTCCCAAACATGGCCTTACACTGGC-ACATCTCGTAGCTAATGCAT
1 GTCCCAGACAT-GTCTTACACTGGCTACATCTCGAAGCTGATGCAT
20616442 GTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCTGATGCAT
1 GTCCCAGACATGTCTTACACTGGC-TACATCTCGAAGCTGATGCAT
* * *
20616488 GTCCCAAACATGTCTTACACTAG-TAC-TCGTCTCAATG-TCGATGCCAT
1 GTCCCAGACATGTCTTACACTGGCTACATC-TC-GAA-GCT-GATG-CAT
* * ** *
20616535 GTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCAT
1 GTCCCAGACAT-GTCTTACACTGGCT-ACAT-CTCGAAGCTGATGCAT
20616582 GTCCCAGACATGTCTTACACT
1 GTCCCAGACATGTCTTACACT
20616603 AGCTCACACA
Statistics
Matches: 133, Mismatches: 15, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
43 2 0.02
44 17 0.13
45 13 0.10
46 54 0.41
47 27 0.20
48 16 0.12
49 1 0.01
50 1 0.01
51 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
GTCCCAGACATGTCTTACACTGGCTACATCTCGAAGCTGATGCAT
Found at i:20618802 original size:15 final size:16
Alignment explanation
Indices: 20618782--20618813 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20618772 ATTTTAAATA
20618782 ATATAA-AATTACATT
1 ATATAAGAATTACATT
20618797 ATATAAGAATTACATT
1 ATATAAGAATTACATT
20618813 A
1 A
20618814 AAAAAATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
ATATAAGAATTACATT
Found at i:20618925 original size:102 final size:102
Alignment explanation
Indices: 20618804--20619026 Score: 432
Period size: 102 Copynumber: 2.2 Consensus size: 102
20618794 ATTATATAAG
20618804 AATTACATTA--AAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCAT
1 AATTACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCAT
20618867 AAATTACTAATAAAATAACCATAAAATTATTTTTTTA
66 AAATTACTAATAAAATAACCATAAAATTATTTTTTTA
20618904 AATTACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCAT
1 AATTACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCAT
20618969 AAATTACTAATAAAATAACCATAAAATTATTTTTTTA
66 AAATTACTAATAAAATAACCATAAAATTATTTTTTTA
20619006 AATTACATTACTAAAAAATCA
1 AATTACATTACTAAAAAATCA
20619027 TAATACCCTA
Statistics
Matches: 121, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
100 10 0.08
102 111 0.92
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (102 bp):
AATTACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCAT
AAATTACTAATAAAATAACCATAAAATTATTTTTTTA
Found at i:20619341 original size:32 final size:27
Alignment explanation
Indices: 20619277--20619329 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
20619267 CTCACCAAAT
20619277 ACTAAACTAAACACAACAATTTATAAA
1 ACTAAACTAAACACAACAATTTATAAA
20619304 ACTAAACTAAACACAACAATTTATAA
1 ACTAAACTAAACACAACAATTTATAA
20619330 CATAATCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (27 bp):
ACTAAACTAAACACAACAATTTATAAA
Found at i:20619561 original size:17 final size:18
Alignment explanation
Indices: 20619530--20619573 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
20619520 TACCCTTTTT
*
20619530 TTCTT-TCTTTCTTCTTC
1 TTCTTCTCTTTCTTCTTA
20619547 TTCTTCTCTTT-TTCTTA
1 TTCTTCTCTTTCTTCTTA
*
20619564 TTTTTCTCTT
1 TTCTTCTCTT
20619574 CTCCTTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTTCTCTTTCTTCTTA
Found at i:20619570 original size:20 final size:20
Alignment explanation
Indices: 20619525--20619570 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
20619515 CACATTACCC
*
20619525 TTTTT-TTCTTTCTTTCTTC
1 TTTTTCTTCTTTCTTTCTTA
*
20619544 TTCTTCTTCTCTT-TTTCTTA
1 TTTTTCTTCT-TTCTTTCTTA
20619564 TTTTTCT
1 TTTTTCT
20619571 CTTCTCCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 16 0.73
21 2 0.09
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTCTTCTTTCTTTCTTA
Found at i:20619573 original size:22 final size:22
Alignment explanation
Indices: 20619529--20619602 Score: 63
Period size: 23 Copynumber: 3.6 Consensus size: 22
20619519 TTACCCTTTT
20619529 TTTCTT-TCTTTCT-TC--TTC
1 TTTCTTCTCTTTCTCTCATTTC
* *
20619547 -TTCTTCTCTTTTTCTTATTT-
1 TTTCTTCTCTTTCTCTCATTTC
20619567 TTCTCTTCTCCTTTCTCTCATTTC
1 TT-TCTTCT-CTTTCTCTCATTTC
20619591 TTTC-TCTCTTTC
1 TTTCTTCTCTTTC
20619603 GGTGGTTGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
17 5 0.11
18 6 0.14
19 1 0.02
21 8 0.18
22 9 0.20
23 13 0.30
24 2 0.05
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTCTTCTCTTTCTCTCATTTC
Found at i:20619573 original size:28 final size:29
Alignment explanation
Indices: 20619527--20619600 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
20619517 CATTACCCTT
*
20619527 TTTTTCTTTCTTTCTTCTTCTTC-TTCTC
1 TTTTTCTTTCTTTCTTCTTCTCCTTTCTC
*
20619555 TTTTTCTTATTTTTC-TCTTCTCCTTTCTC
1 TTTTTCTT-TCTTTCTTCTTCTCCTTTCTC
* *
20619584 TCATTTCTTTCTCTCTT
1 T-TTTTCTTTCTTTCTT
20619601 TCGGTGGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 15 0.41
29 15 0.41
30 7 0.19
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTTTCTTTCTTTCTTCTTCTCCTTTCTC
Found at i:20620595 original size:30 final size:30
Alignment explanation
Indices: 20620537--20620595 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
20620527 TTTACGAGAC
* * *
20620537 TAGGGGTCAAAGTGTAAATATGTGAAAGTT
1 TAGGGGTCAAAATGAAAATATGTAAAAGTT
* *
20620567 TAGGGGTCAAAATGAAAATTTTTAAAAGT
1 TAGGGGTCAAAATGAAAATATGTAAAAGT
20620596 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGTCAAAATGAAAATATGTAAAAGTT
Found at i:20621829 original size:23 final size:23
Alignment explanation
Indices: 20621777--20621829 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
20621767 ATGCATATTT
* *
20621777 ATATGATTTATTAATGCATGATG
1 ATATCATTTATTAATGCATGATA
* *
20621800 ATTTCATTTATTATTGGCATGA-A
1 ATATCATTTATTAAT-GCATGATA
20621823 ATATCAT
1 ATATCAT
20621830 ATAAATGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (23 bp):
ATATCATTTATTAATGCATGATA
Found at i:20630173 original size:18 final size:20
Alignment explanation
Indices: 20630137--20630183 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
20630127 AGTTGTAAGT
20630137 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
20630157 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
20630176 ATGATATA
1 AT-ATATA
20630184 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:20630644 original size:50 final size:50
Alignment explanation
Indices: 20630581--20631078 Score: 487
Period size: 50 Copynumber: 9.9 Consensus size: 50
20630571 AAGACAGTTT
* *
20630581 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACCTGTACCAGATTGT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * * *
20630631 TAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
*
20630681 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * ** * **
20630731 TAGGTCACATGTGTAGTACTAACTGTAGGCTACTATGCATACC-CATAAA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * * *
20630780 CTTCGATCACGTATGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGA
1 --TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* **
20630832 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
** * * * * * *
20630882 TAGGTTGCATGTGTAGTACTAAGTGCCGGCTACTATGCGTACCCG-TTAA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * ** *
20630931 CTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGA
1 --TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * * *
20630983 TAAGTCACGTATGTAGTACTAAGTGTAGGCTACCACGTGTATCAAATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * *
20631033 TAGGTCGCATGTGTGGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
20631079 GAGCTTCGGT
Statistics
Matches: 355, Mismatches: 87, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
49 6 0.02
50 276 0.78
51 68 0.19
52 5 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
Found at i:20630824 original size:151 final size:151
Alignment explanation
Indices: 20630642--20631075 Score: 672
Period size: 151 Copynumber: 2.9 Consensus size: 151
20630632 AGGTCGCATG
* * *
20630642 TGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGC
* * * *
20630707 AGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTACTAACTGTAGGCTACTATGCATA
66 AGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
20630772 CCCATAAACTTCGATCACGTA
131 CCCATAAACTTCGATCACGTA
*
20630793 TGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGC
* * *
20630858 AGGCTACTACGTGTACTGGATTGATAGGTTGCATGTGTAGTACTAAGTGCCGGCTACTATGCGTA
66 AGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
* * *
20630923 CCCGTTAACTTCGATCACGTG
131 CCCATAAACTTCGATCACGTA
* * *
20630944 TGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGATAAGTCACGTATGTAGTACTAAGTGT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGC
* * *
20631009 AGGCTACCACGTGTA-TCAAATTGATAGGTCGCATGTGTGGTACTAAGTGCAGGCTACTATGCGT
66 AGGCTACTACGTGTACT-AGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
20631073 ACC
130 ACC
20631076 AGAGAGCTTC
Statistics
Matches: 258, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
150 1 0.00
151 257 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGC
AGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
CCCATAAACTTCGATCACGTA
Found at i:20630993 original size:201 final size:199
Alignment explanation
Indices: 20630584--20631067 Score: 544
Period size: 201 Copynumber: 2.4 Consensus size: 199
20630574 ACAGTTTTAG
* * * * *
20630584 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACCTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 GTCACGTATGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATTGATAGGTCGCATGTGTAGTA
* * *
20630649 CTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
66 CTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCACATGTGTAGTACTAAGTGCAGGCTAC
* * * * *
20630714 TACGTGTACTAGATTGATAGGTCACATGTGTAGTACTAACTGTAGGCTACTATGCATACCCATAA
131 TACGCGTACCAGATTAATAGATCACATGTGTAGTACTAACTGCAGGCTACTATGCATA-CCATAA
**
20630779 ACTTC
195 ACTAA
* * * *
20630784 GATCACGTATGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGT
1 G-TCACGTATGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATTGATAGGTCGCATGTGTAGT
* * ** *
20630849 ACTAAGTGCAGGCTACTACGTGTA-CTGGATTGATAGGTTGCATGTGTAGTACTAAGTGCCGGCT
65 ACTAAGTGCAGGCTACTACGTGTATC-AGATGGATAGGTCACATGTGTAGTACTAAGTGCAGGCT
* * * * * *
20630913 ACTATGCGTACCCG-TTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTA
129 ACTACGCGTACCAGATTAA--TAGATCACATGTGTAGTACTAACTGCAGGCTACTA--TGCA-TA
* **
20630977 -GATGGA-TAA
189 CCATAAACTAA
* * *
20630986 GTCACGTATGTAGTACTAAGTGTAGGCTACCACGTGTATCAAATTGATAGGTCGCATGTGTGGTA
1 GTCACGTATGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATTGATAGGTCGCATGTGTAGTA
20631051 CTAAGTGCAGGCTACTA
66 CTAAGTGCAGGCTACTA
20631068 TGCGTACCAG
Statistics
Matches: 237, Mismatches: 40, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
200 5 0.02
201 192 0.81
202 32 0.14
203 3 0.01
204 3 0.01
205 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (199 bp):
GTCACGTATGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATTGATAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCACATGTGTAGTACTAAGTGCAGGCTAC
TACGCGTACCAGATTAATAGATCACATGTGTAGTACTAACTGCAGGCTACTATGCATACCATAAA
CTAA
Found at i:20630998 original size:101 final size:100
Alignment explanation
Indices: 20630581--20631067 Score: 457
Period size: 101 Copynumber: 4.8 Consensus size: 100
20630571 AAGACAGTTT
* * * *
20630581 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACCTGTACCAGATTG-TTAGGTCGCATGTGT
1 TAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATTA-GTCACGTGTGT
* * *
20630645 AGTACTAAGTGCAAGCTACTACGTGTATCAGATGGT
65 AGTACTAAGTGCAGGCTACTACGTGTATTAGATGGA
* * *
20630681 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGA-TAGGTCACATGTGT
1 TAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATTA-GTCACGTGTGT
* * * * **
20630745 AGTACTAACTGTAGGCTACTA--TGCA-TACCCATAAA
65 AGTACTAAGTGCAGGCTACTACGTGTATTA--GATGGA
* * * * * *
20630780 CTTCGATCACGTATGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTG
1 --TAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATTAGTCACGTGTG
* * *
20630845 TAGTACTAAGTGCAGGCTACTACGTGTACTGGATTGA
64 TAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGA
** * * * * * * * *
20630882 TAGGTTGCATGTGTAGTACTAAGTGCCGGCTACTATGCGTACCCG-TTAACTTCGATCACGTGTG
1 TAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA-TTAG-TCACGTGTG
20630946 TAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGA
64 TAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGA
* * * * * * *
20630983 TAAGTCACGTATGTAGTACTAAGTGTAGGCTACCACGTGTATCAAATTGA-TAGGTCGCATGTGT
1 TAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATTA-GTCACGTGTGT
*
20631047 GGTACTAAGTGCAGGCTACTA
65 AGTACTAAGTGCAGGCTACTA
20631068 TGCGTACCAG
Statistics
Matches: 309, Mismatches: 65, Indels: 26
0.77 0.16 0.06
Matches are distributed among these distances:
97 1 0.00
98 3 0.01
99 4 0.01
100 142 0.46
101 148 0.48
102 7 0.02
103 3 0.01
104 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
TAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATTAGTCACGTGTGTA
GTACTAAGTGCAGGCTACTACGTGTATTAGATGGA
Found at i:20631086 original size:151 final size:151
Alignment explanation
Indices: 20630581--20631078 Score: 671
Period size: 151 Copynumber: 3.3 Consensus size: 151
20630571 AAGACAGTTT
* * ** * * * *
20630581 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA-CCTGTACCAGAT-TGTTAGGTCGCATGTG
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGC-GTACCAGATAACTTCGATCACGTGTG
* * *
20630644 TAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAG
65 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGCAG
20630709 GCTACTACGTGTACTAGATTGA
130 GCTACTACGTGTACTAGATTGA
* * * * *
20630731 TAGGTCACATGTGTAGTACTAACTGTAGGCTACTATGCATACC-CATAAACTTCGATCACGTATG
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT-AACTTCGATCACGTGTG
*
20630795 TAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGCAG
65 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGCAG
*
20630860 GCTACTACGTGTACTGGATTGA
130 GCTACTACGTGTACTAGATTGA
** * * *
20630882 TAGGTTGCATGTGTAGTACTAAGTGCCGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACGTGTGT
* * *
20630947 AGTACTAAGTGCAGGCTACTACGTGTATTAGATGGATAAGTCACGTATGTAGTACTAAGTGTAGG
66 AGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGCAGG
* *
20631012 CTACCACGTGTA-TCAAATTGA
131 CTACTACGTGTACT-AGATTGA
* *
20631033 TAGGTCGCATGTGTGGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
20631079 GAGCTTCGGT
Statistics
Matches: 304, Mismatches: 39, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
149 2 0.01
150 37 0.12
151 264 0.87
152 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACGTGTGT
AGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGCAGG
CTACTACGTGTACTAGATTGA
Found at i:20631960 original size:180 final size:180
Alignment explanation
Indices: 20631648--20631990 Score: 517
Period size: 180 Copynumber: 1.9 Consensus size: 180
20631638 CATAAGATAT
*
20631648 ATAATTTTTAGTGAAGAGAGGTCGGAACTGGAAGACAGTGAAACAGAGGTATCTTTAATGAATAA
1 ATAATTTTTAGTGAAGAGAGGTCGGAACTAGAAGACAGTGAAACAGAGGTATCTTTAATGAATAA
* * *
20631713 ACTGTACTAATTGGAAAAACTAAAAATTCTGAAAATTTTATGGTAAGAATATATTTGAGTCTAGT
66 ACTGTACTAATTGGAAAAACCAAAAATTCTAAAAATTTTATGGTAAGAATATATATGAGTCTAGT
** *
20631778 TTC-TGAGAAAATTAGTGGTTCTTAATTTGGAGTCCATTACCATGAAATAA
131 TTCAT-AGAAAATTAACGGATCTTAATTTGGAGTCCATTACCATGAAATAA
** * ** * *
20631828 ATAATTTTTAGTGAAGAGAGGTCGGAACTATCAGATAGTGAATTAGGGGTATCTTTAATGAATAT
1 ATAATTTTTAGTGAAGAGAGGTCGGAACTAGAAGACAGTGAAACAGAGGTATCTTTAATGAATAA
* * *
20631893 ACTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTCTGGTAAGAATATATATGAGTTTAGT
66 ACTGTACTAATTGGAAAAACCAAAAATTCTAAAAATTTTATGGTAAGAATATATATGAGTCTAGT
20631958 TTCATAGAAAATTAACGGATCTTAATTTGGAGT
131 TTCATAGAAAATTAACGGATCTTAATTTGGAGT
20631991 TTCGTAGCTC
Statistics
Matches: 145, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
180 144 0.99
181 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (180 bp):
ATAATTTTTAGTGAAGAGAGGTCGGAACTAGAAGACAGTGAAACAGAGGTATCTTTAATGAATAA
ACTGTACTAATTGGAAAAACCAAAAATTCTAAAAATTTTATGGTAAGAATATATATGAGTCTAGT
TTCATAGAAAATTAACGGATCTTAATTTGGAGTCCATTACCATGAAATAA
Found at i:20641056 original size:14 final size:14
Alignment explanation
Indices: 20641037--20641064 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20641027 AGTTTGAAGA
20641037 TAGCGCCTTATGAG
1 TAGCGCCTTATGAG
20641051 TAGCGCCTTATGAG
1 TAGCGCCTTATGAG
20641065 GCCTTGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (14 bp):
TAGCGCCTTATGAG
Found at i:20647760 original size:15 final size:14
Alignment explanation
Indices: 20647740--20647797 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 14
20647730 TATGATATTG
20647740 TATCTTGGATTTCCT
1 TATCTTGGATTT-CT
20647755 TATCTTGGATTTCT
1 TATCTTGGATTTCT
*
20647769 CTATCTTGGACTTCT
1 -TATCTTGGATTTCT
*
20647784 TAATCTTGGTTTTC
1 T-ATCTTGGATTTC
20647798 CTGTTGTCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 3 0.08
15 35 0.92
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.53
Consensus pattern (14 bp):
TATCTTGGATTTCT
Found at i:20647776 original size:30 final size:30
Alignment explanation
Indices: 20647740--20647797 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
20647730 TATGATATTG
*
20647740 TATCTTGGATTTCCTT-ATCTTGGATTTCTC
1 TATCTTGGACTT-CTTAATCTTGGATTTCTC
*
20647770 TATCTTGGACTTCTTAATCTTGGTTTTC
1 TATCTTGGACTTCTTAATCTTGGATTTC
20647798 CTGTTGTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.53
Consensus pattern (30 bp):
TATCTTGGACTTCTTAATCTTGGATTTCTC
Found at i:20650881 original size:50 final size:50
Alignment explanation
Indices: 20650764--20651203 Score: 410
Period size: 50 Copynumber: 8.7 Consensus size: 50
20650754 TTGTGAGAAA
* * *
20650764 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGTC
* *
20650816 ACATGTGTAGCACTAAATGCAGGCTACTACGTGTACCAGATTGTTAGGT-
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * * * * *
20650865 AGCATGTGTAGTACTAAGTGTAGGCTACTATGCT-TACCCGATAGTTTCGATC
1 A-CATGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGATTG-TTAGGTC
** * *
20650917 ATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATTAGGTT
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTC
* * *
20650967 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * * * * *
20651017 ACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGTC
* * * * * * *
20651068 ACGTGTATAGTACTAAGTGCAGGGTACTACGTGTATCAGATGGATAAGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* *
20651118 ACGA-GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGAT-
1 AC-ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
*
20651167 AGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
1 A-CATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
20651204 TAGAGAGCTT
Statistics
Matches: 316, Mismatches: 58, Indels: 30
0.78 0.14 0.07
Matches are distributed among these distances:
48 3 0.01
49 8 0.03
50 200 0.63
51 74 0.23
52 31 0.10
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
Found at i:20650951 original size:101 final size:98
Alignment explanation
Indices: 20650764--20651203 Score: 400
Period size: 101 Copynumber: 4.4 Consensus size: 98
20650754 TTGTGAGAAA
* * *** * * *
20650764 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACATGTGTAGCAC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTA-GTCACGTGTGTAGTAC
* *
20650829 TAAATGCAGGCTACTACGTGTACCAGATTGTTAGGT
63 TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGAT
* * * * *
20650865 AGCATGTGTAGTACTAAGTGTAGGCTACTATGCT-TACCCGATAGTTTCGATCATGTGTGTAGTA
1 A-CATGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGATAG-TTAG-TCACGTGTGTAGTA
* *
20650929 CTAAGTGCAGGCTACTACGTGTATCAGA-TGATTAGGTT
62 CTAAGTGCAGGCTACTACGTGTACCAGATTG-TTA-GAT
* * * * *
20650967 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCACATGTGTAGTACTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA-GTCACGTGTGTAGTACTA
* * * * *
20651032 AGTGCAGGCTACTATGCGTACCCG-TTAACTTCGAT
65 AGTGCAGGCTACTACGTGTACCAGATT--GTTAGAT
* * * * * * *
20651067 CACGTGTATAGTACTAAGTGCAGGGTACTACGTGTATCAGATGGATAAGTCACGAGTGTAGTACT
1 -ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGTCACGTGTGTAGTACT
*
20651132 AAGTGCAGGCTACTACGTGTACCAGATTGATAGAT
64 AAGTGCAGGCTACTACGTGTACCAGATTGTTAGAT
*
20651167 AGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
1 A-CATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
20651204 TAGAGAGCTT
Statistics
Matches: 275, Mismatches: 50, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
99 1 0.00
100 77 0.28
101 157 0.57
102 39 0.14
103 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (98 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGTCACGTGTGTAGTACTAA
GTGCAGGCTACTACGTGTACCAGATTGTTAGAT
Found at i:20651041 original size:151 final size:151
Alignment explanation
Indices: 20650767--20651203 Score: 608
Period size: 151 Copynumber: 2.9 Consensus size: 151
20650757 TGAGAAAACA
* * * * * * * *
20650767 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACATGTGTAGCACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TG-ATTAGGTCACGTGTGTAGTACTAA
* * *
20650832 ATGCAGGCTACTACGTGTACCAGATTGTTAGGTAGCATGTGTAGTACTAAGTGTAGGCTACTATG
64 GTGCAGGCTACTACGTGTACCAGATTGATAGGTAGCATGTGTAGTACTAAGTGCAGGCTACTATG
* ** *
20650897 CTTACCCGATAGTTTCGATCATG
129 CGTACCCGATAACTTCGATCACG
*
20650920 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATTAGGTTACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATTAGGTCACGTGTGTAGTACTAAGT
*
20650985 GCAGGCTACTACGTGTACCGGATTGATAGGTCA-CATGTGTAGTACTAAGTGCAGGCTACTATGC
66 GCAGGCTACTACGTGTACCAGATTGATAGGT-AGCATGTGTAGTACTAAGTGCAGGCTACTATGC
*
20651049 GTACCCGTTAACTTCGATCACG
130 GTACCCGATAACTTCGATCACG
* * * *
20651071 TGTATAGTACTAAGTGCAGGGTACTACGTGTATCAGATGGA-TAAGTCACGAGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GATTAGGTCACGTGTGTAGTACTAAG
* *
20651135 TGCAGGCTACTACGTGTACCAGATTGATAGATAGCATGTGTAGTACTAAGTGCAGGCTACTATGT
65 TGCAGGCTACTACGTGTACCAGATTGATAGGTAGCATGTGTAGTACTAAGTGCAGGCTACTATGC
20651200 GTAC
130 GTAC
20651204 TAGAGAGCTT
Statistics
Matches: 255, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
150 1 0.00
151 217 0.85
152 4 0.02
153 33 0.13
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAGATTGATAGGTAGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGATAACTTCGATCACG
Found at i:20651428 original size:16 final size:16
Alignment explanation
Indices: 20651407--20651438 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20651397 AGAATGGAGT
20651407 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
20651423 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
20651439 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:20652103 original size:180 final size:180
Alignment explanation
Indices: 20651768--20652123 Score: 482
Period size: 180 Copynumber: 2.0 Consensus size: 180
20651758 TCGAGAGCTG
* * * * *
20651768 TACCATGAGATAAATAATTTTTAGTGAAGAAAGGTCGGAACTGTTAGACAGTGAAACAATGGTAT
1 TACCATGAAATAAATAATGTTTAGTGAAGAAAGGTCAGAACTGTCAGACAGTGAAACAAGGGTAT
* * * * * *
20651833 CTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTTTGAAAATTTTATGGTAGGAATAT
66 CTTTAATGAATAAACTGTACTAATTAGCTAAACCAAAAATTCTGAAAATTTTATAGTAAGAAGAT
* * * *
20651898 ATGTGAGTTTAGTTTCTGGTAAAATTAGA-GGTTCTCAATTTGGAGTCCAT
131 ATATGAGTCTAGTTTCTGATAAAATTA-ACGGATCTCAATTTGGAGTCCAT
* * * * *
20651948 TACCATGAAATAAATAATGTTTAGTGAAGAGAGGTTAGAACTGTCAGATAGTGAAATAGGGGTAT
1 TACCATGAAATAAATAATGTTTAGTGAAGAAAGGTCAGAACTGTCAGACAGTGAAACAAGGGTAT
20652013 CTTTAATGAATAAACTGTACTAATTAGCTAAACCAAAAATTCTGAAAATTTTATAGTAAGAAGAT
66 CTTTAATGAATAAACTGTACTAATTAGCTAAACCAAAAATTCTGAAAATTTTATAGTAAGAAGAT
* *
20652078 ATATGAGTCTA-TTTTTAGATAAAATTAACGGATCTTAATTTGGAGT
131 ATATGAGTCTAGTTTCT-GATAAAATTAACGGATCTCAATTTGGAGT
20652124 TTCGTAGCTC
Statistics
Matches: 152, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
179 5 0.03
180 147 0.97
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (180 bp):
TACCATGAAATAAATAATGTTTAGTGAAGAAAGGTCAGAACTGTCAGACAGTGAAACAAGGGTAT
CTTTAATGAATAAACTGTACTAATTAGCTAAACCAAAAATTCTGAAAATTTTATAGTAAGAAGAT
ATATGAGTCTAGTTTCTGATAAAATTAACGGATCTCAATTTGGAGTCCAT
Found at i:20654922 original size:10 final size:10
Alignment explanation
Indices: 20654907--20654950 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
20654897 AATTTTAACT
20654907 TTTTTATATA
1 TTTTTATATA
*
20654917 TTTTTAGA-A
1 TTTTTATATA
20654926 TTATTT-TATA
1 TT-TTTATATA
20654936 TTTTTATATA
1 TTTTTATATA
20654946 TTTTT
1 TTTTT
20654951 TAAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTTATATA
Found at i:20655003 original size:18 final size:19
Alignment explanation
Indices: 20654973--20655013 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
20654963 TTTTGAATTT
20654973 TTTTATAAATATTTTGAA-
1 TTTTATAAATATTTTGAAC
20654991 TTTTA-AAATTATTTTGAAC
1 TTTTATAAA-TATTTTGAAC
20655010 TTTT
1 TTTT
20655014 TTTTGTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 14 0.67
19 4 0.19
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTATAAATATTTTGAAC
Found at i:20655108 original size:9 final size:9
Alignment explanation
Indices: 20655094--20655134 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
20655084 TACCAATTTG
20655094 TTATTTAAA
1 TTATTTAAA
20655103 TTATTTAAA
1 TTATTTAAA
*
20655112 TTATTCAAA
1 TTATTTAAA
20655121 TTA-TTAAA
1 TTATTTAAA
20655129 GTTATT
1 -TTATT
20655135 CGAATGGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 4 0.14
9 23 0.82
10 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (9 bp):
TTATTTAAA
Found at i:20660523 original size:42 final size:42
Alignment explanation
Indices: 20660476--20660579 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
20660466 TATCGGGATG
* * *
20660476 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
20660518 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
20660560 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
20660580 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:20660593 original size:42 final size:42
Alignment explanation
Indices: 20660476--20660601 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
20660466 TATCGGGATG
* * ** *
20660476 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
20660518 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
20660560 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
20660601 T
1 T
20660602 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:20661514 original size:21 final size:21
Alignment explanation
Indices: 20661488--20661544 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
20661478 ATGGTATAAG
20661488 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
20661509 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
20661533 GTGGCATGAATT
1 GTTG-ATGAATT
20661545 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:20667834 original size:29 final size:28
Alignment explanation
Indices: 20667798--20667875 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
20667788 TCATGAGATT
20667798 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
20667828 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
20667855 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
20667876 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:20668093 original size:174 final size:174
Alignment explanation
Indices: 20667828--20668155 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
20667818 AAATTGTACA
20667828 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
20667893 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
20667958 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
20668002 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
20668067 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
20668132 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
20668156 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:20672997 original size:30 final size:31
Alignment explanation
Indices: 20672939--20673001 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
20672929 CTTAACAAGT
*
20672939 AAATGCCTCTAAAATAATAAAAAAAATTAAC
1 AAATACCTCTAAAATAATAAAAAAAATTAAC
* *
20672970 AAATACCTTTAAAATAAT-AACAAAATTAAC
1 AAATACCTCTAAAATAATAAAAAAAATTAAC
20673000 AA
1 AA
20673002 TAAAACAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.24
Consensus pattern (31 bp):
AAATACCTCTAAAATAATAAAAAAAATTAAC
Found at i:20673430 original size:20 final size:21
Alignment explanation
Indices: 20673405--20673446 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
20673395 TTTTAAATTA
20673405 TTATTTATTT-TCTATTTAAT
1 TTATTTATTTCTCTATTTAAT
*
20673425 TTATTTATTTCTCTTTTTAAT
1 TTATTTATTTCTCTATTTAAT
20673446 T
1 T
20673447 ACAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATTTATTTCTCTATTTAAT
Found at i:20679326 original size:15 final size:15
Alignment explanation
Indices: 20679306--20679335 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20679296 ACGTATAGAG
20679306 ACTAATTTGCCCATT
1 ACTAATTTGCCCATT
20679321 ACTAATTTGCCCATT
1 ACTAATTTGCCCATT
20679336 TTTTAGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
ACTAATTTGCCCATT
Found at i:20680227 original size:103 final size:103
Alignment explanation
Indices: 20680048--20680256 Score: 355
Period size: 103 Copynumber: 2.0 Consensus size: 103
20680038 GAAATTCAGT
* * * *
20680048 GACCATTCAATCTCGAGTCTAATACTCTTGGACTCTTTAGATCCATTTATCTGAAATTTGAAGAA
1 GACCATGCAAACTCGAGTCTAATACTCTTGGACTCCTGAGATCCATTTATCTGAAATTTGAAGAA
*
20680113 ACGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
66 ACGCATAACTTGGCTATGATTTTATTTTACAGCTCAAA
*
20680151 GACCATGCAAACTCGAGTCTAATACTCTTGGACTCCTGAGATCCATTTGTCTGAAATTTGAAGAA
1 GACCATGCAAACTCGAGTCTAATACTCTTGGACTCCTGAGATCCATTTATCTGAAATTTGAAGAA
*
20680216 ATGCATAACTTGGCTATGATTTTATTTTACAGCTCAAA
66 ACGCATAACTTGGCTATGATTTTATTTTACAGCTCAAA
20680254 GAC
1 GAC
20680257 TTCAGCTTGC
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (103 bp):
GACCATGCAAACTCGAGTCTAATACTCTTGGACTCCTGAGATCCATTTATCTGAAATTTGAAGAA
ACGCATAACTTGGCTATGATTTTATTTTACAGCTCAAA
Found at i:20680817 original size:2 final size:2
Alignment explanation
Indices: 20680810--20680847 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
20680800 TTGTTTTTAC
*
20680810 CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
20680848 ATGTATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:20681116 original size:12 final size:12
Alignment explanation
Indices: 20681099--20681132 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20681089 TCGATGGAGG
20681099 TAATAAAGAGCT
1 TAATAAAGAGCT
20681111 TAATAAAGAGCT
1 TAATAAAGAGCT
**
20681123 CGATAAAGAG
1 TAATAAAGAG
20681133 TGTATGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.21
Consensus pattern (12 bp):
TAATAAAGAGCT
Found at i:20684948 original size:170 final size:170
Alignment explanation
Indices: 20684666--20685002 Score: 611
Period size: 170 Copynumber: 2.0 Consensus size: 170
20684656 TTTAAAATGC
20684666 AAAAGCCACAACACACTCAAATTGACTTACATTTAAACCCAAAAATACCATACCTAACTCATACC
1 AAAAGCCACAACACACTCAAATTGACTTACATTTAAACCCAAAAATACCATACCTAACTCATACC
20684731 AACTTACCACTTCATGCTCACCCACTTATGCTTAAACTTAGAATTAGGCTTGCATATAACCATTA
66 AACTTACCACTTCATGCTCACCCACTTATGCTTAAACTTAGAATTAGGCTTGCATATAACCATTA
* **
20684796 GTTTTTCAATCATTTAAACTAGAATCTCAATTCACAACAA
131 GTTATTCAATCATTTAAAAAAGAATCTCAATTCACAACAA
*
20684836 AAAAGCCACAACACACTCAAATTGACTTACATTTAAACCCAAAAATATCATACCTAACTCATACC
1 AAAAGCCACAACACACTCAAATTGACTTACATTTAAACCCAAAAATACCATACCTAACTCATACC
* *
20684901 AACTTACCATTTCATGCTCACCCACTTATGCTTAAACTTAGAATTAGGCTTGCATATAATCATTA
66 AACTTACCACTTCATGCTCACCCACTTATGCTTAAACTTAGAATTAGGCTTGCATATAACCATTA
*
20684966 GTTATTCAATCATTTAAAAAAGAATCTCAATTTACAA
131 GTTATTCAATCATTTAAAAAAGAATCTCAATTCACAA
20685003 GTATATAGCC
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
170 160 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (170 bp):
AAAAGCCACAACACACTCAAATTGACTTACATTTAAACCCAAAAATACCATACCTAACTCATACC
AACTTACCACTTCATGCTCACCCACTTATGCTTAAACTTAGAATTAGGCTTGCATATAACCATTA
GTTATTCAATCATTTAAAAAAGAATCTCAATTCACAACAA
Found at i:20689780 original size:26 final size:26
Alignment explanation
Indices: 20689744--20689796 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
20689734 CTCTAAAGTG
20689744 TTTGCTTAAATATTTTAAAGGTACTA
1 TTTGCTTAAATATTTTAAAGGTACTA
20689770 TTTGCTTAAATATTTTAAAGGTACTA
1 TTTGCTTAAATATTTTAAAGGTACTA
20689796 T
1 T
20689797 AACTTGGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (26 bp):
TTTGCTTAAATATTTTAAAGGTACTA
Found at i:20691132 original size:14 final size:14
Alignment explanation
Indices: 20691113--20691141 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20691103 AAATTTTTTT
20691113 TGGTCATCATGATA
1 TGGTCATCATGATA
20691127 TGGTCATCATGATA
1 TGGTCATCATGATA
20691141 T
1 T
20691142 AGATATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (14 bp):
TGGTCATCATGATA
Found at i:20692623 original size:26 final size:26
Alignment explanation
Indices: 20692594--20692693 Score: 182
Period size: 26 Copynumber: 3.8 Consensus size: 26
20692584 ATTGAAAATT
20692594 GGTTAGGTAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
*
20692620 GGTTAGGTAAATGTTTCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
*
20692646 GGTTAGATAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
20692672 GGTTAGGTAAATGTTCCATGAT
1 GGTTAGGTAAATGTTCCATGAT
20692694 GGGAATTTCA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
GGTTAGGTAAATGTTCCATGATAATG
Found at i:20694162 original size:28 final size:26
Alignment explanation
Indices: 20694131--20694194 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
20694121 AATTACTTGA
* **
20694131 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGAAAAATTACCATT
*
20694159 ATACCCCTAGGTGAAAAATTACCATT
1 ATACCCCTAGATGAAAAATTACCATT
20694185 ATACCCCTAG
1 ATACCCCTAG
20694195 GGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGAAAAATTACCATT
Found at i:20694339 original size:27 final size:26
Alignment explanation
Indices: 20694299--20694439 Score: 176
Period size: 27 Copynumber: 5.2 Consensus size: 26
20694289 AGGAAGCGTC
*
20694299 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
20694326 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
20694353 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
20694380 CTGGTGGCTCTACCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
*
20694407 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
20694434 CTGGTG
1 CTGGTG
20694440 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.10
27 87 0.87
28 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:20694381 original size:54 final size:53
Alignment explanation
Indices: 20694299--20694439 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
20694289 AGGAAGCGTC
* *
20694299 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTATT
20694353 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTACCACATATATCTATT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTATT
* *
20694407 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
20694440 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 74 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTATT
Found at i:20696789 original size:39 final size:40
Alignment explanation
Indices: 20696694--20696834 Score: 159
Period size: 39 Copynumber: 3.6 Consensus size: 40
20696684 TTGAATGCTG
*
20696694 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
20696732 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20696773 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
20696812 TCCGGGTTAAGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
20696835 CTTGCTGTAA
Statistics
Matches: 89, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
39 53 0.60
40 24 0.27
41 11 0.12
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20699280 original size:24 final size:23
Alignment explanation
Indices: 20699236--20699280 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
20699226 TAAATAAGTC
* * *
20699236 AAAGATTTCTCGATTTGAAACAT
1 AAAGATTTCTAGAATTAAAACAT
20699259 AAAGAGTTTCTAGAATTAAAAC
1 AAAGA-TTTCTAGAATTAAAAC
20699281 TGGGTTGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (23 bp):
AAAGATTTCTAGAATTAAAACAT
Found at i:20709335 original size:40 final size:40
Alignment explanation
Indices: 20709305--20709474 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
20709295 GGACTAAGAT
* *
20709305 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
20709345 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
20709385 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
20709425 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
20709464 CCGAAGGCATT
1 CCGAAGGCATT
20709475 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:20709401 original size:80 final size:79
Alignment explanation
Indices: 20709252--20709474 Score: 232
Period size: 80 Copynumber: 2.8 Consensus size: 79
20709242 TTGAATGCTG
* * * ** * * * * *
20709252 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
20709316 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * *
20709332 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
20709397 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * *
20709412 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
20709475 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 35 0.29
80 81 0.68
81 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:20709494 original size:79 final size:80
Alignment explanation
Indices: 20709327--20709509 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
20709317 GTGCGAGATA
* * *
20709327 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
20709392 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
20709407 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
20709471 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
20709486 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
20709510 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:20711265 original size:220 final size:220
Alignment explanation
Indices: 20710866--20711450 Score: 909
Period size: 220 Copynumber: 2.7 Consensus size: 220
20710856 GTGTTACAGA
* * * ** * * *
20710866 AGATTTGACCTTCAGGTGTTTACGCTGAAGTGGATCCAAGATGATTTAACATCTCTGTATTGTCA
1 AGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGTACTGTCA
*
20710931 GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAG
66 GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAG
* * * *
20710996 TAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTT
131 CAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCCAAAATGATTTGGCATCCTTGCGTTG
* *
20711061 ATAAGGAGCAGATCAAAGACATAGC
196 ACAAGGACCAGATCAAAGACATAGC
* * *
20711086 ATATTTGGCTTTCATGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCA
1 AGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGTACTGTCA
* *
20711151 GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATACTCGACGGAGAGCAGATCAAAGACATAG
66 GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAG
* *
20711216 CAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAAATGATTTGGCATCCTTGTGTTG
131 CAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCCAAAATGATTTGGCATCCTTGCGTTG
*
20711281 ACAAGGACCAGATCGAAGACATAGC
196 ACAAGGACCAGATCAAAGACATAGC
*
20711306 AGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATTTCTGTACTGTCA
1 AGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGTACTGTCA
* * * *
20711371 GAGAACAAATTGAAGAAACAGATTTGGTATCTTCATATTCGACGGAGAGCAGATCGAAGACATAA
66 GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAG
*
20711436 CAGATCTGACCTTCA
131 CAGATCTAACCTTCA
20711451 TTGAAGCAGA
Statistics
Matches: 331, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
220 331 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (220 bp):
AGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGTACTGTCA
GAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAG
CAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCCAAAATGATTTGGCATCCTTGCGTTG
ACAAGGACCAGATCAAAGACATAGC
Found at i:20711475 original size:37 final size:37
Alignment explanation
Indices: 20711418--20711504 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 37
20711408 TTCGACGGAG
* *
20711418 AGCAGATCGAAGACATAACAGATCTGACCTTCATTGA
1 AGCAGATCAAAGACACAACAGATCTGACCTTCATTGA
*
20711455 AGCAGATCAAATACACAACAGATCTGACCTTCATTGA
1 AGCAGATCAAAGACACAACAGATCTGACCTTCATTGA
* *
20711492 ATCAGATCCAAGA
1 AGCAGATCAAAGA
20711505 TGATTTGGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (37 bp):
AGCAGATCAAAGACACAACAGATCTGACCTTCATTGA
Found at i:20711553 original size:78 final size:78
Alignment explanation
Indices: 20711455--20712044 Score: 763
Period size: 78 Copynumber: 7.4 Consensus size: 78
20711445 CCTTCATTGA
* * * *
20711455 AGCAGATCAAATACACAACAGATCTGACCTTCATTGAA-TCAGATCCAAGATGATTTGGCATCTC
1 AGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGT-AGATCCAAGATGATTTGGCATCTC
*
20711519 TGTATTAGACGGGG
65 TGTATTAGACAGGG
* * *
20711533 AGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGAAGTAGATCCAAGATGATTTGACATCTC
1 AGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTC
*
20711597 TGTATTAGACGGGG
65 TGTATTAGACAGGG
*
20711611 AGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATT
1 AGCAGATCGAAGACATAGCAGATCTGACCTTCA------T----TGAAGTAGATCCAAGATGATT
* ** * *
20711676 TGACATCTCCATATTCGACAGAG
56 TGGCATCTCTGTATTAGACAGGG
* *
20711699 AGCAAATCGAAGACATAGCAGATCTGACCTTCATTAAAGTAGATCCAAGATGATTTGGCATCTCT
1 AGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCT
*
20711764 GTATTAGATAGGG
66 GTATTAGACAGGG
* *
20711777 AGTAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCT
1 AGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCT
20711842 GTATTAGACAGGG
66 GTATTAGACAGGG
* * * * *
20711855 AGCAGATCGAAGAAATAACAGAT-TGGACCTTTATTGAAGCATATCCAAGATGATTTGGCATCTC
1 AGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTC
*
20711919 TGTATTAGATAGGG
65 TGTATTAGACAGGG
* *
20711933 AGTAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCT
1 AGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCT
**
20711998 GTATTAGATGGGG
66 GTATTAGACAGGG
*
20712011 AGCAGATCGAAGACATAGCATATCTGACCTTCAT
1 AGCAGATCGAAGACATAGCAGATCTGACCTTCAT
20712045 GTGTTTACAT
Statistics
Matches: 453, Mismatches: 44, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
77 2 0.00
78 376 0.83
79 3 0.01
82 1 0.00
84 1 0.00
88 70 0.15
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (78 bp):
AGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCT
GTATTAGACAGGG
Found at i:20712073 original size:322 final size:315
Alignment explanation
Indices: 20711458--20712044 Score: 840
Period size: 322 Copynumber: 1.8 Consensus size: 315
20711448 TCATTGAAGC
*
20711458 AGATCAAATACACAACAGATCTGACCTTCATTGAATCAGATCCAAGATGATTTGGCATCTCTGTA
1 AGATCAAAGACACAACAGATCTGACCTTCATTGAATCAGATCCAAGATGATTTGGCATCTCTGTA
* * *
20711523 TTAGACGGGGAGCAGATCAAAGACATAACAGATTGGACCTTCATTGAAGTAGATCCAAGATGATT
66 TTAGACAGGGAGCAGATCAAAGAAATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATT
* *
20711588 TGACATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTAC
131 TGACATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCA-----TT--
* *
20711653 GCTGAAGTAGATCTAAGATGATTTGACATCTCCATATTCGACAGAGAGCAAATCGAAGACATAGC
189 -CTGAAGTAGATCCAAGATGATTTGACATCTCCATATTAGACAGAGAGCAAATCGAAGACATAGC
*
20711718 AGATCTGACCTTCATTAAAGTAGATCCAAGAT-GATTTGGCATCTCTGTATTAGATAGGGAGT
253 AGATCTGACCTTCATTAAAGCAGATCCAAGATAGATTTGGCATCTCTGTATTAGATAGGGAGT
* *
20711780 AGATCGAAGACACAGCAGATCTGACCTTCATTGAAGT-AGATCCAAGATGATTTGGCATCTCTGT
1 AGATCAAAGACACAACAGATCTGACCTTCATTGAA-TCAGATCCAAGATGATTTGGCATCTCTGT
* * *
20711844 ATTAGACAGGGAGCAGATCGAAGAAATAACAGATTGGACCTTTATTGAAGCATATCCAAGATGAT
65 ATTAGACAGGGAGCAGATCAAAGAAATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGAT
* * *
20711909 TTGGCATCTCTGTATTAGATAGGGAGTAGATCGAAGACACAGCAGATCTGACCTTCA-T-TGAAG
130 TTGACATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTCTGAAG
* ** ** * * *
20711972 TAGATCCAAGATGATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCATATCTG
195 TAGATCCAAGATGATTTGACATCTCCATATTAGACAGAGAGCAAATCGAAGACATAGCAGATCTG
20712037 ACCTTCAT
260 ACCTTCAT
20712045 GTGTTTACAT
Statistics
Matches: 240, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
312 68 0.28
316 1 0.00
322 170 0.71
323 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (315 bp):
AGATCAAAGACACAACAGATCTGACCTTCATTGAATCAGATCCAAGATGATTTGGCATCTCTGTA
TTAGACAGGGAGCAGATCAAAGAAATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATT
TGACATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTCTGAAGT
AGATCCAAGATGATTTGACATCTCCATATTAGACAGAGAGCAAATCGAAGACATAGCAGATCTGA
CCTTCATTAAAGCAGATCCAAGATAGATTTGGCATCTCTGTATTAGATAGGGAGT
Found at i:20712139 original size:45 final size:45
Alignment explanation
Indices: 20711984--20712257 Score: 268
Period size: 45 Copynumber: 6.1 Consensus size: 45
20711974 GATCCAAGAT
* *
20711984 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * * *
20712031 TATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* * * *
20712076 GATTTGGCATCTCTGTATTAGACGGGTAGCAAATCGGAGATAATA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
20712121 GATTTGGCATCTCTGTATTAGACGGGGATCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
20712165 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
20712210 GATTTGGCCTCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
20712255 GAT
1 GAT
20712258 ATCGCCTTCC
Statistics
Matches: 182, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
43 1 0.01
44 43 0.24
45 109 0.60
46 4 0.02
47 21 0.12
48 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:20712185 original size:89 final size:90
Alignment explanation
Indices: 20712058--20712257 Score: 278
Period size: 89 Copynumber: 2.2 Consensus size: 90
20712048 TTTACATCGA
* * * *
20712058 AGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGTAGCAAATCGGAGATAATAG
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAG
*
20712122 ATTTGGCATCTCTGTATTAGACGGGG
65 ATTTGGCATCTCTGTATTAGACAGGG
* ** * *
20712148 ATCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGA
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGA
*
20712212 TTTGGCCTCTCTGTATTAGACAGGG
66 TTTGGCATCTCTGTATTAGACAGGG
20712237 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
20712258 ATCGCCTTCC
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
89 77 0.81
90 18 0.19
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGA
TTTGGCATCTCTGTATTAGACAGGG
Found at i:20712619 original size:17 final size:17
Alignment explanation
Indices: 20712610--20712664 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
20712600 CTTCAATGAT
20712610 ATACAATCTTAGATATG
1 ATACAATCTTAGATATG
20712627 ATACAATCTTAGATATG
1 ATACAATCTTAGATATG
*
20712644 ATTGCAATCTTAGATATG
1 A-TACAATCTTAGATATG
20712662 ATA
1 ATA
20712665 TGCAATCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 19 0.54
18 16 0.46
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (17 bp):
ATACAATCTTAGATATG
Found at i:20712653 original size:18 final size:18
Alignment explanation
Indices: 20712613--20712673 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
20712603 CAATGATATA
*
20712613 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTG
20712630 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTG
20712648 CAATCTTAGATATGATATG
1 CAATCTTAGATATGAT-TG
20712667 CAATCTT
1 CAATCTT
20712674 TGAAGATATG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 15 0.37
18 17 0.41
19 9 0.22
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (18 bp):
CAATCTTAGATATGATTG
Found at i:20712702 original size:22 final size:22
Alignment explanation
Indices: 20712637--20712699 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
20712627 ATACAATCTT
20712637 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
*
20712655 AGATATGATATGCAATCTTTGA
1 AGATATGATATGCAATCTTAGA
* *
20712677 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
20712700 GATTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.22
23 11 0.30
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:20712988 original size:17 final size:17
Alignment explanation
Indices: 20712966--20712999 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
20712956 TGTTTCTCAG
20712966 ATTTTTT-ATATATTTTA
1 ATTTTTTAATA-ATTTTA
20712983 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
20713000 GTATCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:20722958 original size:45 final size:47
Alignment explanation
Indices: 20722869--20723006 Score: 149
Period size: 45 Copynumber: 2.9 Consensus size: 47
20722859 AAGCCATAAT
** * *
20722869 CGGTAAGCTCCTCCTGAGCTGATGAACAGTATGCTC-TATTGAGCTGAAA
1 CGGTAAGCT-CTAATGAGCTGAT-AACAGTAAGCTCATA-CGAGCTGAAA
20722918 CGGTAAGCTCT-ATCGAGCT-A-AACAGTAAGCTCATACGAGCTGAAA
1 CGGTAAGCTCTAAT-GAGCTGATAACAGTAAGCTCATACGAGCTGAAA
* * *
20722963 CGGTAAGCTCTAATGAGTTGATAATAGTAAGCTCATATGAGCTG
1 CGGTAAGCTCTAATGAGCTGATAACAGTAAGCTCATACGAGCTG
20723007 TGGTGAGTCC
Statistics
Matches: 78, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
45 35 0.45
46 5 0.06
47 22 0.28
48 7 0.09
49 9 0.12
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (47 bp):
CGGTAAGCTCTAATGAGCTGATAACAGTAAGCTCATACGAGCTGAAA
Found at i:20723002 original size:24 final size:23
Alignment explanation
Indices: 20722883--20723006 Score: 112
Period size: 23 Copynumber: 5.3 Consensus size: 23
20722873 AAGCTCCTCC
*
20722883 TGAGCTGATGAACAGTATGCTC-TA
1 TGAGCTGA--AACAGTAAGCTCATA
*
20722907 TTGAGCTGAAACGGTAAGCTC-TA
1 -TGAGCTGAAACAGTAAGCTCATA
20722930 TCGAGCT-AAACAGTAAGCTCATA
1 T-GAGCTGAAACAGTAAGCTCATA
* *
20722953 CGAGCTGAAACGGTAAGCTC-TAA
1 TGAGCTGAAACAGTAAGCTCAT-A
* *
20722976 TGAGTTGATAATAGTAAGCTCATA
1 TGAGCTGA-AACAGTAAGCTCATA
20723000 TGAGCTG
1 TGAGCTG
20723007 TGGTGAGTCC
Statistics
Matches: 83, Mismatches: 10, Indels: 13
0.78 0.09 0.12
Matches are distributed among these distances:
22 19 0.23
23 38 0.46
24 17 0.20
25 9 0.11
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCATA
Found at i:20730733 original size:61 final size:62
Alignment explanation
Indices: 20730611--20730733 Score: 205
Period size: 61 Copynumber: 2.0 Consensus size: 62
20730601 CTAGTGTTGT
*
20730611 ATTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCTGGAAAAATCTTGTCACC
1 ATTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCTGGAAAAAACTTGTCACC
*
20730673 ATTAACTCGATCTATGGATTCCCTTA-TAGGTTTCACCCTAATCT-GATAAAAACTTGTCACC
1 ATTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCTGGA-AAAAACTTGTCACC
20730734 CTATCCCTAG
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
60 2 0.03
61 31 0.53
62 25 0.43
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (62 bp):
ATTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCTGGAAAAAACTTGTCACC
Found at i:20739922 original size:19 final size:19
Alignment explanation
Indices: 20739876--20739914 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
20739866 TAAGTACATA
20739876 TGTGATTAAATAAGTTAAT
1 TGTGATTAAATAAGTTAAT
20739895 TGTGATTAAATAAGTTAAT
1 TGTGATTAAATAAGTTAAT
20739914 T
1 T
20739915 TATATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (19 bp):
TGTGATTAAATAAGTTAAT
Found at i:20740339 original size:43 final size:43
Alignment explanation
Indices: 20740242--20740360 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
20740232 GATTTCAAAT
* * *
20740242 TTACATGTAAGACCATGTCTAGGACATTGGCA-TAGTATATGA
1 TTACATGTAAGACCCTGTCTGGGACATTGGCATTAATATATGA
* * * * *
20740284 TTTCCTGTAAGACCCTGTCTGGGATAGTGGCATTAATATTTGA
1 TTACATGTAAGACCCTGTCTGGGACATTGGCATTAATATATGA
*
20740327 TTACATATAAGA-CCTCGTCTGGGACATTGGCATT
1 TTACATGTAAGACCCT-GTCTGGGACATTGGCATT
20740361 GTACGAGCTT
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (43 bp):
TTACATGTAAGACCCTGTCTGGGACATTGGCATTAATATATGA
Found at i:20753697 original size:27 final size:27
Alignment explanation
Indices: 20753667--20753734 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
20753657 AGTCTGTGGA
20753667 TTACCTGAACAGAAACAGACAGTGAGT
1 TTACCTGAACAGAAACAGACAGTGAGT
* *
20753694 TTACCTGAACAGAAATAGACTGTGAGT
1 TTACCTGAACAGAAACAGACAGTGAGT
* *
20753721 TTACGTAAACAGAA
1 TTACCTGAACAGAA
20753735 TCATATACGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (27 bp):
TTACCTGAACAGAAACAGACAGTGAGT
Found at i:20754022 original size:13 final size:13
Alignment explanation
Indices: 20754006--20754030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20753996 CCCACCCCAA
20754006 AATAGATACAGAT
1 AATAGATACAGAT
20754019 AATAGATACAGA
1 AATAGATACAGA
20754031 GTTACAGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (13 bp):
AATAGATACAGAT
Found at i:20756881 original size:9 final size:9
Alignment explanation
Indices: 20756859--20756931 Score: 65
Period size: 9 Copynumber: 7.8 Consensus size: 9
20756849 ATTTCTTTAC
20756859 ATTTTATAAA
1 ATTTTAT-AA
20756869 ATTTTATAA
1 ATTTTATAA
* *
20756878 ATTTTTTAT
1 ATTTTATAA
*
20756887 ATTTCTATAT
1 ATTT-TATAA
20756897 ATTTTATAA
1 ATTTTATAA
* *
20756906 TTTTTACAA
1 ATTTTATAA
*
20756915 TTTTTATAAA
1 ATTTTAT-AA
20756925 ATTTTAT
1 ATTTTAT
20756932 TTTTTTTACA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
9 30 0.57
10 23 0.43
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTATAA
Found at i:20756886 original size:11 final size:10
Alignment explanation
Indices: 20756859--20756931 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
20756849 ATTTCTTTAC
20756859 ATTTTATAAA
1 ATTTTATAAA
20756869 ATTTTAT-AA
1 ATTTTATAAA
* *
20756878 ATTTT-TTAT
1 ATTTTATAAA
*
20756887 ATTTCTAT-AT
1 ATTT-TATAAA
20756897 ATTTTAT--A
1 ATTTTATAAA
20756905 ATTTT-TACAA
1 ATTTTATA-AA
*
20756915 TTTTTATAAA
1 ATTTTATAAA
20756925 ATTTTAT
1 ATTTTAT
20756932 TTTTTTTACA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
7 1 0.02
8 6 0.12
9 15 0.29
10 27 0.52
11 3 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTTATAAA
Found at i:20756890 original size:28 final size:27
Alignment explanation
Indices: 20756845--20756949 Score: 92
Period size: 28 Copynumber: 3.8 Consensus size: 27
20756835 TTTAGAAAAG
*
20756845 TTAT-ATTTCTTTACATTTTATAAAATT
1 TTATAATTT-TTTAAATTTTATAAAATT
* *
20756872 TTATAAATTTTTTATATTTCTAT-ATATT
1 TTAT-AATTTTTTAAATTT-TATAAAATT
20756900 TTATAA-TTTTTACAATTTTTATAAAATT
1 TTATAATTTTTTA-AA-TTTTATAAAATT
*
20756928 TTAT-TTTTTTTACAATTTTATA
1 TTATAATTTTTTA-AATTTTATA
20756950 TTTTTCTTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
26 6 0.09
27 17 0.26
28 36 0.55
29 7 0.11
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (27 bp):
TTATAATTTTTTAAATTTTATAAAATT
Found at i:20756895 original size:19 final size:20
Alignment explanation
Indices: 20756845--20756903 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
20756835 TTTAGAAAAG
* *
20756845 TTATATTTCTTTACATTTTA
1 TTATATTTCTATAAATTTTA
* *
20756865 TAAAATTT-TATAAATTTT-
1 TTATATTTCTATAAATTTTA
*
20756883 TTATATTTCTATATATTTTA
1 TTATATTTCTATAAATTTTA
20756903 T
1 T
20756904 AATTTTTACA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 6 0.20
19 17 0.57
20 7 0.23
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATATTTCTATAAATTTTA
Found at i:20756935 original size:17 final size:18
Alignment explanation
Indices: 20756860--20756954 Score: 72
Period size: 18 Copynumber: 5.2 Consensus size: 18
20756850 TTTCTTTACA
20756860 TTTTATAAAATTTTATAAAT
1 TTTTATAAAATTTTAT--AT
*
20756880 TTTT-T-ATATTTCTATAT
1 TTTTATAAAATTT-TATAT
* *
20756897 ATTTTAT-AATTTTTACAAT
1 -TTTTATAAAATTTTA-TAT
20756916 TTTTATAAAATTTTAT-T
1 TTTTATAAAATTTTATAT
* *
20756933 TTTTTTACAATTTTATAT
1 TTTTATAAAATTTTATAT
20756951 TTTT
1 TTTT
20756955 CTTAATTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
17 17 0.28
18 22 0.36
19 18 0.30
20 4 0.07
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATAAAATTTTATAT
Found at i:20756961 original size:17 final size:16
Alignment explanation
Indices: 20756923--20756965 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
20756913 AATTTTTATA
20756923 AAATTTTATTTTTTTT
1 AAATTTTATTTTTTTT
20756939 ACAATTTTATATTTTTCTT
1 A-AATTTTAT-TTTTT-TT
*
20756958 AATTTTTA
1 AAATTTTA
20756966 ATAAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 8 0.35
18 11 0.48
19 3 0.13
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (16 bp):
AAATTTTATTTTTTTT
Found at i:20757161 original size:91 final size:90
Alignment explanation
Indices: 20757059--20757236 Score: 234
Period size: 91 Copynumber: 2.0 Consensus size: 90
20757049 TAATAAAAGC
*
20757059 AGGGCTTAATTGCTTTTTTTGAAAAAAG-TTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAG
1 AGGGCTTAATTGCTTTTTTT-AAAAAAGATTTGAGGATCTTTTTGATGCATTTTGAAAGTTCAAG
*
20757123 TA-CTCAATTGAGTGCAAAAAAAAAGTA
65 TATC-CAAATGAGTG-AAAAAAAAAGTA
* **** * *
20757150 AGGGTTTAATTGCTTTTTTTTTTTAAGATTTGAGGATTTTTTTTATGCATTTTGAAAGTTCAAGT
1 AGGGCTTAATTGCTTTTTTTAAAAAAGATTTGAGGATCTTTTTGATGCATTTTGAAAGTTCAAGT
20757215 ATCCAAATGAGTGAAAAAAAAA
66 ATCCAAATGAGTGAAAAAAAAA
20757237 CGTGCTTTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
90 12 0.16
91 63 0.83
92 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (90 bp):
AGGGCTTAATTGCTTTTTTTAAAAAAGATTTGAGGATCTTTTTGATGCATTTTGAAAGTTCAAGT
ATCCAAATGAGTGAAAAAAAAAGTA
Found at i:20757915 original size:24 final size:25
Alignment explanation
Indices: 20757886--20757933 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
20757876 TTATACGTAA
20757886 TTGAAAA-ATTGGGTTGATTATACT
1 TTGAAAATATTGGGTTGATTATACT
20757910 TTGAAAATATTGGGTTGATTATAC
1 TTGAAAATATTGGGTTGATTATAC
20757934 GTGATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (25 bp):
TTGAAAATATTGGGTTGATTATACT
Found at i:20759850 original size:16 final size:16
Alignment explanation
Indices: 20759829--20759879 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
20759819 AGCGACCAGG
20759829 AAAAAGAAAGAGAAAA
1 AAAAAGAAAGAGAAAA
** **
20759845 AAAAAG-AAGATTAGG
1 AAAAAGAAAGAGAAAA
20759860 AAAAAGAAAGAGAAAA
1 AAAAAGAAAGAGAAAA
20759876 AAAA
1 AAAA
20759880 GAAGATTAGG
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (16 bp):
AAAAAGAAAGAGAAAA
Found at i:20759854 original size:15 final size:15
Alignment explanation
Indices: 20759829--20759884 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
20759819 AGCGACCAGG
20759829 AAAAAGAAAGAGAAAA
1 AAAAAG-AAGAGAAAA
** **
20759845 AAAAAGAAGATTAGG
1 AAAAAGAAGAGAAAA
20759860 AAAAAGAA-AGAGAAA
1 AAAAAGAAGAGA-AAA
20759875 AAAAAGAAGA
1 AAAAAGAAGA
20759885 TTAGGAAGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
14 1 0.03
15 22 0.73
16 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (15 bp):
AAAAAGAAGAGAAAA
Found at i:20759876 original size:30 final size:31
Alignment explanation
Indices: 20759826--20759898 Score: 130
Period size: 30 Copynumber: 2.4 Consensus size: 31
20759816 AAAAGCGACC
20759826 AGGAAAAAGAAAGAGAAAAAAAAAGAAGATT
1 AGGAAAAAGAAAGAGAAAAAAAAAGAAGATT
20759857 AGGAAAAAGAAAGAG-AAAAAAAAGAAGATT
1 AGGAAAAAGAAAGAGAAAAAAAAAGAAGATT
*
20759887 AGGAAGAAGAAA
1 AGGAAAAAGAAA
20759899 CGCCATTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 26 0.63
31 15 0.37
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (31 bp):
AGGAAAAAGAAAGAGAAAAAAAAAGAAGATT
Found at i:20764819 original size:40 final size:40
Alignment explanation
Indices: 20764745--20764890 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
20764735 ACTTGATATC
* * ***
20764745 TCGCACACTAAGTGCCGTACATAGTTGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATCTCAAA
* **
20764785 TCGCACACTAAGTGCCATATATAGCCACAA-CTATCTTGATC
1 TCGCACACTAAGTGCCATATATAGCCA-AAGCTATC-TCAAA
* ** *
20764826 TCGTACACTAAGTGCCATATATAGCCAAAGCTAAGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATCTCAAA
*
20764866 TCGCACACTAAGTGCCACATATAGC
1 TCGCACACTAAGTGCCATATATAGC
20764891 TAATTTTTCA
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
40 53 0.62
41 33 0.38
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCAAAGCTATCTCAAA
Found at i:20764834 original size:81 final size:81
Alignment explanation
Indices: 20764742--20764890 Score: 208
Period size: 81 Copynumber: 1.8 Consensus size: 81
20764732 ATTACTTGAT
* *** * *
20764742 ATCTCGCACACTAAGTGCCGTACATAGTTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
1 ATCTCGCACACTAAGTGCCATACATAGCCAAAGCTAACTCAAATCGCACACTAAGTGCCACATAT
20764807 AGCCACAACTATCTTG
66 AGCCACAACTATCTTG
* * * *
20764823 ATCTCGTACACTAAGTGCCATATATAGCCAAAGCTAAGTCGAATCGCACACTAAGTGCCACATAT
1 ATCTCGCACACTAAGTGCCATACATAGCCAAAGCTAACTCAAATCGCACACTAAGTGCCACATAT
20764888 AGC
66 AGC
20764891 TAATTTTTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (81 bp):
ATCTCGCACACTAAGTGCCATACATAGCCAAAGCTAACTCAAATCGCACACTAAGTGCCACATAT
AGCCACAACTATCTTG
Found at i:20772735 original size:47 final size:47
Alignment explanation
Indices: 20772657--20773297 Score: 983
Period size: 47 Copynumber: 13.6 Consensus size: 47
20772647 CCCTTCGGGA
* * * *
20772657 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
20772704 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20772751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20772798 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20772845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20772892 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20772939 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20772986 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
20773033 CTTATCAC----A-ACA-TGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* * * *
20773075 CTTATCACACATATACA-TGTTCACTTTCATCACATTGGCCATTCGGCCC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGG--C
* *
20773124 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20773173 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20773222 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20773269 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
20773298 TATTCAAATA
Statistics
Matches: 563, Mismatches: 17, Indels: 26
0.93 0.03 0.04
Matches are distributed among these distances:
41 1 0.00
42 36 0.06
43 1 0.00
46 3 0.01
47 404 0.72
49 83 0.15
51 34 0.06
52 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20773176 original size:49 final size:49
Alignment explanation
Indices: 20773047--20773297 Score: 368
Period size: 49 Copynumber: 5.2 Consensus size: 49
20773037 TCACAACATG
* *
20773047 TTCACTTTCATCACATTGGCCATTCGGCCTTATCAC--ACATATACA-T
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT
*
20773093 GTTCACTTTCATCACATTGGCCATTCGGCCCCTTATCACATATATATACACT
1 -TTCACATTCATCACATTGGCCATTCGG--CCTTATCACATATATATACACT
20773145 TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT
* * *
20773194 TTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACT
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT
* *
20773241 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT
20773290 TTCACATT
1 TTCACATT
20773298 TATTCAAATA
Statistics
Matches: 191, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
47 73 0.38
49 83 0.43
51 34 0.18
52 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (49 bp):
TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT
Found at i:20778327 original size:27 final size:27
Alignment explanation
Indices: 20778268--20778324 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
20778258 CATAAATTTC
20778268 AAAATTTTAGCATATTCATCCATGGAA
1 AAAATTTTAGCATATTCATCCATGGAA
20778295 AAAATTTTA-CATATTCATCCATGGAA
1 AAAATTTTAGCATATTCATCCATGGAA
20778321 AAAA
1 AAAA
20778325 ATTATACTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTTTAGCATATTCATCCATGGAA
Found at i:20780337 original size:43 final size:43
Alignment explanation
Indices: 20780284--20780368 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
20780274 GATCCTTAGC
20780284 ACATCCAGAAGGAAAAATCGAGGATGTATTGATATGTGTAGAT
1 ACATCCAGAAGGAAAAATCGAGGATGTATTGATATGTGTAGAT
* * *
20780327 ACATCTAGAAGGAAAAATTGAGGATGTATTGGTATGTGTAGA
1 ACATCCAGAAGGAAAAATCGAGGATGTATTGATATGTGTAGA
20780369 CAAATTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (43 bp):
ACATCCAGAAGGAAAAATCGAGGATGTATTGATATGTGTAGAT
Found at i:20783559 original size:25 final size:25
Alignment explanation
Indices: 20783531--20783584 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
20783521 GCCTATCCTC
20783531 TTTTAATAACTGGCGCAAAACCCTT
1 TTTTAATAACTGGCGCAAAACCCTT
* * *
20783556 TTTTATTAACTGGGGCAAAGCCCTT
1 TTTTAATAACTGGCGCAAAACCCTT
20783581 TTTT
1 TTTT
20783585 GCACTTCCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (25 bp):
TTTTAATAACTGGCGCAAAACCCTT
Found at i:20783655 original size:21 final size:21
Alignment explanation
Indices: 20783630--20783688 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
20783620 TATAATGAGT
*
20783630 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
20783651 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
20783672 ATATCATGT-CATATCAT
1 ATATCATGTGCATATCAT
20783689 GTATATCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:20783674 original size:10 final size:10
Alignment explanation
Indices: 20783630--20783696 Score: 82
Period size: 10 Copynumber: 6.6 Consensus size: 10
20783620 TATAATGAGT
20783630 ATATCATGTGC
1 ATATCATGT-C
* **
20783641 ATCTCATAAC
1 ATATCATGTC
20783651 ATATCATGTGC
1 ATATCATGT-C
20783662 ATATCATGTC
1 ATATCATGTC
20783672 ATATCATGTC
1 ATATCATGTC
20783682 ATATCATGT-
1 ATATCATGTC
20783691 ATATCA
1 ATATCA
20783697 AAATCTCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
9 6 0.12
10 27 0.55
11 16 0.33
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.37
Consensus pattern (10 bp):
ATATCATGTC
Found at i:20784077 original size:21 final size:23
Alignment explanation
Indices: 20784048--20784092 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
20784038 GGCCCGAAAG
* *
20784048 CCCATTGA-GCCCAA-TTTCCAA
1 CCCACTGAGGCCCAACTTACCAA
20784069 CCCACTGAGGCCCAACTTACCAA
1 CCCACTGAGGCCCAACTTACCAA
20784092 C
1 C
20784093 GTGCACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 6 0.30
23 7 0.35
ACGTcount: A:0.29, C:0.42, G:0.11, T:0.18
Consensus pattern (23 bp):
CCCACTGAGGCCCAACTTACCAA
Found at i:20786048 original size:22 final size:19
Alignment explanation
Indices: 20786023--20786064 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
20786013 TGATAATAAC
20786023 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
20786045 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
20786064 T
1 T
20786065 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:20786055 original size:16 final size:15
Alignment explanation
Indices: 20786023--20786061 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
20786013 TGATAATAAC
20786023 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
20786039 TTATTATAATATATAT
1 TAATTATAAT-TATAT
20786055 TAATTAT
1 TAATTAT
20786062 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:20786715 original size:17 final size:18
Alignment explanation
Indices: 20786686--20786720 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20786676 TTCTCCTAAA
*
20786686 TTTCAATTTTATTTAATT
1 TTTCAATTTTATTAAATT
20786704 TTTCAA-TTTATTAAATT
1 TTTCAATTTTATTAAATT
20786721 GTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTCAATTTTATTAAATT
Found at i:20790786 original size:43 final size:43
Alignment explanation
Indices: 20790739--20790875 Score: 138
Period size: 43 Copynumber: 3.2 Consensus size: 43
20790729 TCCCGGACGT
* * *
20790739 GGTCTTACATGTAATTCAATATCGATGCCTTTGTCCCAGATAG
1 GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAGACAC
* * * *
20790782 GGTCTTACACG-AAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAATTCA-ATATCGATGCCTATGTCCCAGACAC
* *
20790824 GGTCTTATATGTAAATCTC-A-ATCGAGGCCTATGTCCCAGACAC
1 GGTCTTACATGT-AAT-TCAATATCGATGCCTATGTCCCAGACAC
20790867 GGTCTTACA
1 GGTCTTACA
20790876 CAATGTCTCA
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
42 32 0.42
43 40 0.53
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:20790818 original size:42 final size:43
Alignment explanation
Indices: 20790720--20790876 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
20790710 ACCAAGTACA
* * * *
20790720 ATGCCGACGTCCCGGAC-GTGGTCTTACATGTAATTCAATATCG
1 ATGCCGATGTCCCAGACAG-GGTCTTACACGTAAATCAATATCG
** *
20790763 ATGCCTTTGTCCCAGATAGGGTCTTACACG-AAATCAGATAT-G
1 ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATCA-ATATCG
* * * *
20790805 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATCTCA-ATCG
1 ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATC-AATATCG
* * *
20790848 AGGCCTATGTCCCAGACACGGTCTTACAC
1 ATGCCGATGTCCCAGACAGGGTCTTACAC
20790877 AATGTCTCAG
Statistics
Matches: 90, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
42 32 0.36
43 57 0.63
44 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATCAATATCG
Found at i:20790863 original size:85 final size:85
Alignment explanation
Indices: 20790720--20790876 Score: 210
Period size: 85 Copynumber: 1.8 Consensus size: 85
20790710 ACCAAGTACA
* * * * * *
20790720 ATGCCGACGTCCCGGACGTGGTCTTACATGTAATTCAATATCGATGCCTTTGTCCCAGATAGGGT
1 ATGCCGACGTCCCAGACATGGTCTTACATGTAATTCAATATCGAGGCCTATGTCCCAGACACGGT
20790785 CTTACACGAAATCAGATATG
66 CTTACACGAAATCAGATATG
* *
20790805 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATCTC-A-ATCGAGGCCTATGTCCCAGACACG
1 ATGCCGACGTCCCAGACATGGTCTTACATGT-AAT-TCAATATCGAGGCCTATGTCCCAGACACG
20790868 GTCTTACAC
64 GTCTTACAC
20790877 AATGTCTCAG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 56 0.90
86 4 0.06
87 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (85 bp):
ATGCCGACGTCCCAGACATGGTCTTACATGTAATTCAATATCGAGGCCTATGTCCCAGACACGGT
CTTACACGAAATCAGATATG
Found at i:20801783 original size:20 final size:20
Alignment explanation
Indices: 20801746--20801783 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20801736 ATAGAAAAAA
*
20801746 AAACATACCGTATTAATAGC
1 AAACATACCGTATCAATAGC
20801766 AAACATACC-TAATCAATA
1 AAACATACCGT-ATCAATA
20801784 ATTATGTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (20 bp):
AAACATACCGTATCAATAGC
Found at i:20804616 original size:24 final size:24
Alignment explanation
Indices: 20804583--20804640 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
20804573 CTGGAGGCCT
20804583 AGCCTCTTTTAATAA-CTAGGGCAA
1 AGCC-CTTTTAATAATCTAGGGCAA
** *
20804607 AGCCCATTTTGGTAATCTGGGGCAA
1 AGCCC-TTTTAATAATCTAGGGCAA
20804632 AGCCCTTTT
1 AGCCCTTTT
20804641 CGCACTTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 15 0.52
25 13 0.45
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAATCTAGGGCAA
Found at i:20804874 original size:27 final size:27
Alignment explanation
Indices: 20804844--20804906 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
20804834 GGGGCAAAAT
20804844 GGTAATTTTACCCCAC-GAGGGTATCTC
1 GGTAATTTTACCCCACAG-GGGTATCTC
* * *
20804871 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCCACAGGGGTATCTC
*
20804898 AGTAATTTT
1 GGTAATTTT
20804907 GTAAATCGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTTTACCCCACAGGGGTATCTC
Found at i:20804957 original size:27 final size:27
Alignment explanation
Indices: 20804889--20805095 Score: 130
Period size: 27 Copynumber: 7.7 Consensus size: 27
20804879 TACCCTACAG
**
20804889 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
*** * * *
20804916 GGGTAAAATGATAATTCTGTAAATCGG
1 GGGTATTTTGGTAATTTTGTAAATCGA
* ** *
20804943 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTGTAAATCGA
* **
20804970 GGGTATTTTAGTAATTTTACAAATC-A
1 GGGTATTTTGGTAATTTTGTAAATCGA
** *
20804996 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTTGGTAATTTTGTAAATCGA
* ** * *
20805023 GGGGTATTTTTGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTGTAAATCGA
* * * *
20805051 TGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTGTAAATCGA
*
20805078 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
20805096 ACAAACCAAC
Statistics
Matches: 149, Mismatches: 28, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 145 0.97
28 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAATCGA
Found at i:20805012 original size:81 final size:81
Alignment explanation
Indices: 20804942--20805101 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 81
20804932 CTGTAAATCG
** * * * *
20804942 GGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTG
1 GGGGTACTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTA
20805007 GTAATTTTACAAACTA
66 GTAATTTTACAAACTA
* * * * *
20805023 GGGGTATTTTTGTAATTTTACAAACCAATGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
1 GGGGTACTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTA
20805088 GTAATTTTACAAAC
66 GTAATTTTACAAAC
20805102 CAACGGTAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGGTACTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTA
GTAATTTTACAAACTA
Found at i:20805096 original size:27 final size:27
Alignment explanation
Indices: 20804943--20805109 Score: 199
Period size: 27 Copynumber: 6.2 Consensus size: 27
20804933 TGTAAATCGG
* * ** *
20804943 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTAGTAATTTTACAAACCAA
* *
20804970 GGGTATTTTAGTAATTTTACAAATCAG
1 GGGTATTTTAGTAATTTTACAAACCAA
* * *
20804997 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTACAAACCAA
*
20805024 GGGTATTTTTGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAA
* * *
20805051 TGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAA
20805078 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAA
*
20805105 CGGTA
1 GGGTA
20805110 ATTTGGTGAA
Statistics
Matches: 122, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAA
Found at i:20805101 original size:54 final size:54
Alignment explanation
Indices: 20804944--20805116 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 54
20804934 GTAAATCGGG
* ** * * **
20804944 GGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAC
* * * *
20804998 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTTGTAATTTTACAAACCAAT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAC
*
20805052 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAAC
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAC
*
20805106 GGTAATTTGGT
1 GGTATTTTGGT
20805117 GAACTACAGT
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAC
Found at i:20810012 original size:47 final size:47
Alignment explanation
Indices: 20809961--20810155 Score: 266
Period size: 47 Copynumber: 4.1 Consensus size: 47
20809951 TTTAGGATTT
*
20809961 TATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
20810008 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * *
20810055 AATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * * * *
20810102 AATGTGGTGAATATGAACATACATATATGCGGTAAAGCCGAATGG-C
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
20810148 TAGTGTGA
1 TA-TGTGA
20810156 AATATGTAGG
Statistics
Matches: 131, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 2 0.02
47 129 0.98
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:20810111 original size:25 final size:25
Alignment explanation
Indices: 20810036--20810111 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
20810026 ATGCATATAT
20810036 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
20810061 ATGA-ACGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
20810083 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
20810108 GTGA
1 GTGA
20810112 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:20810455 original size:37 final size:37
Alignment explanation
Indices: 20810310--20810454 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
20810300 GGAAATATAT
*
20810310 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
20810347 TCCGGGTAAGACCCGATGACTATGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
20810384 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
20810421 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
20810455 TCGTCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:20812352 original size:96 final size:96
Alignment explanation
Indices: 20812181--20812367 Score: 347
Period size: 96 Copynumber: 1.9 Consensus size: 96
20812171 TAATCGGTAC
20812181 AAATACCTAATATTCATAAGTACAAGTTAGAGTGTGAATTTGATGTTTCCATAGAAGGGAAAAAT
1 AAATACCTAATATTCATAAGTACAAGTTAGAGTGTGAATTTGATGTTTCCATAGAAGGGAAAAAT
20812246 GACCAACATGTCATAAAACATAAGAAAGTAA
66 GACCAACATGTCATAAAACATAAGAAAGTAA
*
20812277 AAATACCTAATATTCATAAGTACATGTTAGAGTGTGAATTTGATGTTTCCATAGAAGGGAAAAAT
1 AAATACCTAATATTCATAAGTACAAGTTAGAGTGTGAATTTGATGTTTCCATAGAAGGGAAAAAT
* *
20812342 GATCAGCATGTCATAAAACATAAGAA
66 GACCAACATGTCATAAAACATAAGAA
20812368 TATAGGATGA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.27
Consensus pattern (96 bp):
AAATACCTAATATTCATAAGTACAAGTTAGAGTGTGAATTTGATGTTTCCATAGAAGGGAAAAAT
GACCAACATGTCATAAAACATAAGAAAGTAA
Found at i:20822712 original size:23 final size:23
Alignment explanation
Indices: 20822678--20822729 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
20822668 TATCTTATCG
* *
20822678 TTTCATTATATACATATATCATCCA
1 TTTCAATATAT-CATATACCAT-CA
*
20822703 TTTCAATATATCATGTACCATCA
1 TTTCAATATATCATATACCATCA
20822726 TTTC
1 TTTC
20822730 TATGTATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 8 0.33
25 10 0.42
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTCAATATATCATATACCATCA
Found at i:20824739 original size:26 final size:25
Alignment explanation
Indices: 20824702--20824769 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
20824692 TTTTCTTGGA
* *
20824702 AATTTTAATAGGGGTAAAATTGTCAT
1 AATTTTACTAGGGGTAAAA-TATCAT
20824728 AATTTTACTA-GGGTAAAATATCAT
1 AATTTTACTAGGGGTAAAATATCAT
* * *
20824752 ATTTTTACCAGGGATAAA
1 AATTTTACTAGGGGTAAA
20824770 GTTGGGATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 13 0.36
25 14 0.39
26 9 0.25
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (25 bp):
AATTTTACTAGGGGTAAAATATCAT
Found at i:20824757 original size:24 final size:25
Alignment explanation
Indices: 20824702--20824769 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
20824692 TTTTCTTGGA
* *
20824702 AATTTTAATAGGGGTAAAATTGTCAT
1 AATTTTACTA-GGGTAAAATTATCAT
20824728 AATTTTACTAGGGTAAAA-TATCAT
1 AATTTTACTAGGGTAAAATTATCAT
* *
20824752 ATTTTTACCAGGGATAAA
1 AATTTTACTAGGG-TAAA
20824770 GTTGGGATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 16 0.43
25 12 0.32
26 9 0.24
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (25 bp):
AATTTTACTAGGGTAAAATTATCAT
Found at i:20848679 original size:46 final size:46
Alignment explanation
Indices: 20848628--20848752 Score: 196
Period size: 46 Copynumber: 2.7 Consensus size: 46
20848618 GGTTGAGCAT
* *
20848628 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* **
20848674 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
20848720 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20848753 GGAGCGGGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:20849014 original size:19 final size:20
Alignment explanation
Indices: 20848977--20849014 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20848967 ATAAGGTGGT
20848977 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
20848997 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
20849015 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:20857962 original size:12 final size:12
Alignment explanation
Indices: 20857947--20857976 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20857937 CCTTGATCCA
20857947 CTCCTCAAATCT
1 CTCCTCAAATCT
*
20857959 CTCCCCAAATCT
1 CTCCTCAAATCT
20857971 CTCCTC
1 CTCCTC
20857977 TAGTCCCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (12 bp):
CTCCTCAAATCT
Found at i:20859773 original size:56 final size:56
Alignment explanation
Indices: 20859713--20859903 Score: 256
Period size: 56 Copynumber: 3.4 Consensus size: 56
20859703 CCTAAACAGG
* * * *
20859713 GTCTTACTCGCACACATATAACGGAATCACATATCAATGCCAACATATTAAACGTC
1 GTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTA
* * * *
20859769 GTCTTACTTGTACACATATATCGGAATCACATATCGATGCCAATGTATTGAACGTA
1 GTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTA
* * * * *
20859825 GTCTTACTTGTACACATATATTGGAATCACATATCGATGCCAACGTATTCAACGTG
1 GTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTA
*
20859881 GTCTTACTCACACACATATATCG
1 GTCTTACTCGCACACATATATCG
20859904 ATGCCATGGT
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.30
Consensus pattern (56 bp):
GTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTA
Found at i:20868483 original size:22 final size:22
Alignment explanation
Indices: 20868453--20868497 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20868443 CTAGTGCCAT
20868453 AGCCCTCAACTCCCTAGCCGCA
1 AGCCCTCAACTCCCTAGCCGCA
* * *
20868475 AGCCTTCAACTTCTTAGCCGCA
1 AGCCCTCAACTCCCTAGCCGCA
20868497 A
1 A
20868498 CATCGTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.42, G:0.13, T:0.20
Consensus pattern (22 bp):
AGCCCTCAACTCCCTAGCCGCA
Found at i:20868927 original size:25 final size:27
Alignment explanation
Indices: 20868868--20868928 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
20868858 ATTTTTTCTC
*
20868868 TTAA-ATTTTAAATTTTATTTAATCAT
1 TTAATATTTTAAATTTTATTGAATCAT
* *
20868894 TTAAT-TTTTCAA-TTTATTGAATTA-
1 TTAATATTTTAAATTTTATTGAATCAT
20868918 TTAATATTTTA
1 TTAATATTTTA
20868929 TATTAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.17
25 14 0.48
26 10 0.34
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
TTAATATTTTAAATTTTATTGAATCAT
Done.