Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 106 of 136
Found at i:35810829 original size:19 final size:21
Alignment explanation
Indices: 35810775--35810833 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
35810765 TGAAAATTTT
* *
35810775 AATTTTAATTTAATATTTTTATA
1 AATTTTAA--TAATGTTTTTACA
35810798 AATTTTAATAATGTTTTTACA
1 AATTTTAATAATGTTTTTACA
35810819 AA-TTT-ATAATGTTTT
1 AATTTTAATAATGTTTT
35810834 AATTTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.29
20 3 0.09
21 13 0.38
23 8 0.24
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (21 bp):
AATTTTAATAATGTTTTTACA
Found at i:35812263 original size:15 final size:16
Alignment explanation
Indices: 35812223--35812264 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
35812213 TGATTGCGCT
* *
35812223 GGACTTTACAATTTGA
1 GGACTTTACAATATAA
35812239 GGACTTTACAATATAA
1 GGACTTTACAATATAA
35812255 GGA-TTTACAA
1 GGACTTTACAA
35812265 GCAAATATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (16 bp):
GGACTTTACAATATAA
Found at i:35812708 original size:18 final size:17
Alignment explanation
Indices: 35812685--35812718 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
35812675 TCCTTCACCC
35812685 TACCCATTCCTGATTTCT
1 TACCCATTCCT-ATTTCT
35812703 TACCCATTCCTATTTC
1 TACCCATTCCTATTTC
35812719 GAAAAACCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.18, C:0.35, G:0.03, T:0.44
Consensus pattern (17 bp):
TACCCATTCCTATTTCT
Found at i:35813259 original size:26 final size:26
Alignment explanation
Indices: 35813108--35813260 Score: 121
Period size: 26 Copynumber: 5.8 Consensus size: 26
35813098 GTTATTATTA
* * * *
35813108 GCCACAAAGGCATCCCTTTCCATAGAC
1 GCCACAAAGGCTTCCATTT-CAGATAC
* *
35813135 TGCCACAGAGGCTTCCATTTCAGATAT
1 -GCCACAAAGGCTTCCATTTCAGATAC
* ** * *
35813162 ACCACAAAGAG-TTTAATTTTAGATAT
1 GCCACAAAG-GCTTCCATTTCAGATAC
* *
35813188 GGCACAAAGGCTTTCACTTT-AGATAC
1 GCCACAAAGGCTTCCA-TTTCAGATAC
* *
35813214 GCCACAAAGGCTTTCATTTCAAATAC
1 GCCACAAAGGCTTCCATTTCAGATAC
35813240 GCCACAAAGGCTTCCATTTCA
1 GCCACAAAGGCTTCCATTTCA
35813261 TAGATTACCA
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
25 4 0.04
26 75 0.73
27 8 0.08
28 16 0.16
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (26 bp):
GCCACAAAGGCTTCCATTTCAGATAC
Found at i:35844165 original size:26 final size:26
Alignment explanation
Indices: 35844136--35844187 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35844126 ACACACAAGT
35844136 ATGATTCAGGTAAATGAGTGTTCGAA
1 ATGATTCAGGTAAATGAGTGTTCGAA
35844162 ATGATTCAGGTAAATGAGTGTTCGAA
1 ATGATTCAGGTAAATGAGTGTTCGAA
35844188 CTAGTCAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (26 bp):
ATGATTCAGGTAAATGAGTGTTCGAA
Found at i:35851548 original size:23 final size:23
Alignment explanation
Indices: 35851522--35851567 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
35851512 ATGCGTTAGA
35851522 GTTTGTGCACCTTAGTCAGTATG
1 GTTTGTGCACCTTAGTCAGTATG
*
35851545 GTTTGTGCGCCTTAGTCAGTATG
1 GTTTGTGCACCTTAGTCAGTATG
35851568 CGCCTGAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.28, T:0.39
Consensus pattern (23 bp):
GTTTGTGCACCTTAGTCAGTATG
Found at i:35855152 original size:31 final size:31
Alignment explanation
Indices: 35855117--35855178 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
35855107 ATGGAGGCCA
35855117 TCGTAGAGGTGAAGTTGCTATGTTGTTTCTT
1 TCGTAGAGGTGAAGTTGCTATGTTGTTTCTT
35855148 TCGTAGAGGTGAAGTTGCTATGTTGTTTCTT
1 TCGTAGAGGTGAAGTTGCTATGTTGTTTCTT
35855179 GACTTCTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.10, G:0.29, T:0.45
Consensus pattern (31 bp):
TCGTAGAGGTGAAGTTGCTATGTTGTTTCTT
Found at i:35856693 original size:32 final size:32
Alignment explanation
Indices: 35856652--35856744 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
35856642 CTCTTATCTT
*
35856652 TATAAATTCACTAACCTTGTGAGGTTTTTCTG
1 TATAAATTCACTAACCTTGTGAGGTTTGTCTG
*
35856684 TATAAATTCACTAACCTTGTGAGGTTTGTCTT
1 TATAAATTCACTAACCTTGTGAGGTTTGTCTG
*
35856716 TATAAATTCACTAACCTTGTGAGGCTTGT
1 TATAAATTCACTAACCTTGTGAGGTTTGT
35856745 GGTGTGTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (32 bp):
TATAAATTCACTAACCTTGTGAGGTTTGTCTG
Found at i:35857160 original size:57 final size:57
Alignment explanation
Indices: 35857068--35857181 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
35857058 TGTAAAGGTG
*
35857068 AATAAGTATTTATTTGTCACTTTTGGCATATGTATGTCTATATATATGTGCTTATAA
1 AATAAGTATTTATTTGTCACTTTTGGCATAAGTATGTCTATATATATGTGCTTATAA
35857125 AATAAGTATTTATTTGTCACTTTTGGCATAAGTATGTCTATATATATGTGCTTATAA
1 AATAAGTATTTATTTGTCACTTTTGGCATAAGTATGTCTATATATATGTGCTTATAA
35857182 TCCTTTGTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (57 bp):
AATAAGTATTTATTTGTCACTTTTGGCATAAGTATGTCTATATATATGTGCTTATAA
Found at i:35861927 original size:28 final size:28
Alignment explanation
Indices: 35861887--35861943 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
35861877 CTATCTTGAG
35861887 AAGTTATGAGTCCTTTAGGGACCCATAC
1 AAGTTATGAGTCCTTTAGGGACCCATAC
35861915 AAGTTATGAGTCCTTTAGGGACCCATAC
1 AAGTTATGAGTCCTTTAGGGACCCATAC
35861943 A
1 A
35861944 CTTTTAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (28 bp):
AAGTTATGAGTCCTTTAGGGACCCATAC
Found at i:35864313 original size:20 final size:22
Alignment explanation
Indices: 35864271--35864314 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
35864261 CAATTTTGTT
*
35864271 ATTATTTTTAAGAAAGATATCG
1 ATTATTTTCAAGAAAGATATCG
35864293 ATTATTTTCAA-AAAG-TATCG
1 ATTATTTTCAAGAAAGATATCG
35864313 AT
1 AT
35864315 ACCAAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 4 0.19
22 10 0.48
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (22 bp):
ATTATTTTCAAGAAAGATATCG
Found at i:35868085 original size:31 final size:29
Alignment explanation
Indices: 35868047--35868123 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
35868037 CTAACGGCTT
* *
35868047 AGTGACTAAAATGTTACAATGTGATAACATA
1 AGTGACTAAAATGTAAC-ATGTCA-AACATA
* *
35868078 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACATGTCAAACATA
*
35868107 AGTGACTAAAATATAAC
1 AGTGACTAAAATGTAAC
35868124 CTGAGCAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 21 0.52
30 4 0.10
31 15 0.38
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATGTCAAACATA
Found at i:35868457 original size:24 final size:23
Alignment explanation
Indices: 35868409--35868458 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
35868399 AAAATTCATA
35868409 ATATTAAATATTAAAAATAGCTTT
1 ATATTAAATATTAAAAATA-CTTT
*
35868433 ATATTAATATATATTAAAATA-TTT
1 ATATTAA-ATAT-TAAAAATACTTT
35868457 AT
1 AT
35868459 TTTTATTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 12 0.52
25 4 0.17
26 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATATTAAATATTAAAAATACTTT
Found at i:35871565 original size:30 final size:31
Alignment explanation
Indices: 35871521--35871580 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
35871511 GCTAGGGTAA
* *
35871521 TTTGGGTAACGAAGTATAGTTTTGGTACCAC
1 TTTGGGTAACGAAGTATAATTTAGGTACCAC
*
35871552 TTTGGGT-ACGAAGTTTAATTTAGGTACCA
1 TTTGGGTAACGAAGTATAATTTAGGTACCA
35871581 TTTATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (31 bp):
TTTGGGTAACGAAGTATAATTTAGGTACCAC
Found at i:35872165 original size:16 final size:15
Alignment explanation
Indices: 35872123--35872166 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
35872113 AAAAAAGTTA
35872123 AAGGATGGAAAATTG
1 AAGGATGGAAAATTG
* *
35872138 AAGGGGTAGAAAATTAG
1 AA-GGATGGAAAATT-G
35872155 AAGGATGGAAAA
1 AAGGATGGAAAA
35872167 CATAATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 2 0.09
16 18 0.78
17 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.34, T:0.16
Consensus pattern (15 bp):
AAGGATGGAAAATTG
Found at i:35891115 original size:21 final size:21
Alignment explanation
Indices: 35891091--35891131 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
35891081 ATTGCTCAAC
35891091 ACATATTTACCAAATCATTAA
1 ACATATTTACCAAATCATTAA
35891112 ACATATTTACCAAATCATTA
1 ACATATTTACCAAATCATTA
35891132 CACGACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (21 bp):
ACATATTTACCAAATCATTAA
Found at i:35911112 original size:12 final size:12
Alignment explanation
Indices: 35911092--35911125 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
35911082 TCACGAACAA
*
35911092 GCTCATTTATTG
1 GCTCGTTTATTG
35911104 GCTCGTTTATTG
1 GCTCGTTTATTG
*
35911116 ACTCGTTTAT
1 GCTCGTTTAT
35911126 GACTTGTTTA
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:0.15, C:0.18, G:0.18, T:0.50
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:35915548 original size:70 final size:70
Alignment explanation
Indices: 35915462--35915603 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
35915452 GACTAAGGAC
35915462 ATGTTTAGGTTCATCTACTAATACAAGTTGTCTTTCGGTGTTACGATCCGACCACGTAATATCAT
1 ATGTTTAGGTTCATCTACTAATACAAGTTGTCTTTCGGTGTTACGATCCGACCACGTAATATCAT
35915527 TTAGT
66 TTAGT
35915532 ATGTTTAGGTTCATCTACTAATACAAGTTGTCTTTCGGTGTTACGATCCGACCACGTAATATCAT
1 ATGTTTAGGTTCATCTACTAATACAAGTTGTCTTTCGGTGTTACGATCCGACCACGTAATATCAT
35915597 TTAGT
66 TTAGT
35915602 AT
1 AT
35915604 CAATTTAAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (70 bp):
ATGTTTAGGTTCATCTACTAATACAAGTTGTCTTTCGGTGTTACGATCCGACCACGTAATATCAT
TTAGT
Found at i:35917183 original size:20 final size:20
Alignment explanation
Indices: 35917158--35917199 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
35917148 TGTTAATCAT
*
35917158 ATTTTATTAAATAAAATTAC
1 ATTTTAATAAATAAAATTAC
**
35917178 ATTTTAATAAATGGAATTAC
1 ATTTTAATAAATAAAATTAC
35917198 AT
1 AT
35917200 CTGCAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (20 bp):
ATTTTAATAAATAAAATTAC
Found at i:35918974 original size:3 final size:3
Alignment explanation
Indices: 35918966--35918995 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
35918956 CATTGAAAAT
35918966 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35918996 GTTGCTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35923963 original size:25 final size:25
Alignment explanation
Indices: 35923935--35924008 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 25
35923925 TCCAAGTTGA
* *
35923935 ATAACGATAAGCTCCTTCGAGCTAT
1 ATAACGATAAGCTCATACGAGCTAT
* *
35923960 ATAATGGTAAGCTCATACGAGCTGAGT
1 ATAACGATAAGCTCATACGAGCT-A-T
* *
35923987 ATCA-G-TAAGCTCATAAGAGCTA
1 ATAACGATAAGCTCATACGAGCTA
35924009 AAATTCGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
24 1 0.02
25 34 0.83
26 2 0.05
27 4 0.10
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (25 bp):
ATAACGATAAGCTCATACGAGCTAT
Found at i:35927036 original size:50 final size:50
Alignment explanation
Indices: 35926925--35927120 Score: 230
Period size: 50 Copynumber: 3.8 Consensus size: 50
35926915 TTTTGGGTAA
* *
35926925 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
35926981 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
35927031 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
35927081 GGAAGTCCCATGTAAGACCATATCTAGGATATGGCATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
35927121 TAGTACATAA
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 80 0.65
53 3 0.02
55 1 0.01
56 40 0.32
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:35927387 original size:12 final size:12
Alignment explanation
Indices: 35927370--35927408 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
35927360 ATGAGTTTTT
35927370 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
35927382 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
35927394 TAAGTGAGTAAG
1 TAAGTAAGCAAG
35927406 TAA
1 TAA
35927409 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:35929072 original size:25 final size:25
Alignment explanation
Indices: 35929035--35929089 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
35929025 GTGTTGCGAT
*
35929035 AGCTCATATGAGCTTACTGAT-TTAC
1 AGCTCATACGAGCTTACTGATATT-C
*
35929060 AGCTCCTACGAGCTTACTGATATTC
1 AGCTCATACGAGCTTACTGATATTC
35929085 AGCTC
1 AGCTC
35929090 GAAGAAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (25 bp):
AGCTCATACGAGCTTACTGATATTC
Found at i:35929098 original size:25 final size:25
Alignment explanation
Indices: 35929044--35929101 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
35929034 TAGCTCATAT
* *
35929044 GAGCTTACTGATTTACAGCTCCTAC
1 GAGCTTACTGATTTACAGCTCCGAA
35929069 GAGCTTACTGATATT-CAGCT-CGAA
1 GAGCTTACTGAT-TTACAGCTCCGAA
35929093 GAAGCTTAC
1 G-AGCTTAC
35929102 CGTTTATCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 3 0.10
25 24 0.83
26 2 0.07
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (25 bp):
GAGCTTACTGATTTACAGCTCCGAA
Found at i:35935294 original size:16 final size:17
Alignment explanation
Indices: 35935273--35935305 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
35935263 CACATTGAAG
35935273 TGTTTTC-TGAAAACCA
1 TGTTTTCATGAAAACCA
35935289 TGTTTTCATTGAAAACC
1 TGTTTTCA-TGAAAACC
35935306 CTTCTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (17 bp):
TGTTTTCATGAAAACCA
Found at i:35935874 original size:28 final size:28
Alignment explanation
Indices: 35935809--35935874 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
35935799 TTTAACAGTA
* *
35935809 ACAGTATC-GTGTGGGCCTTAGCCCAAT
1 ACAGTATCAGTGGGGGCCTAAGCCCAAT
* * *
35935836 ACAGAAACAGTGGGGGCCTAAGCCTAAT
1 ACAGTATCAGTGGGGGCCTAAGCCCAAT
35935864 ACAGTATCAGT
1 ACAGTATCAGT
35935875 ATGGTGCAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (28 bp):
ACAGTATCAGTGGGGGCCTAAGCCCAAT
Found at i:35936121 original size:32 final size:32
Alignment explanation
Indices: 35936036--35936301 Score: 264
Period size: 32 Copynumber: 8.3 Consensus size: 32
35936026 GAATGGCTTC
* * * *
35936036 AAGCCATAAGT-ACAGTAATATGATTGGCAAA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * * *
35936067 AAGCCATTACTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * *
35936099 CATCCATCAGTAACGGTAATATGATCGACACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * * * *
35936131 AAGCCATTAGCAACAGTAATATGATCAGTAAA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
35936163 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * *
35936195 AAGCCATCAGTAATGGTATTATGATCGGTATA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * *
35936227 AAGCCATTAGTAATGGTATTATGGTCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * *
35936259 AAGCCATCAATAACGGTAATATAACCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
35936291 AAGCCATCAGT
1 AAGCCATCAGT
35936302 TGCATCGCAG
Statistics
Matches: 189, Mismatches: 45, Indels: 1
0.80 0.19 0.00
Matches are distributed among these distances:
31 9 0.05
32 180 0.95
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGGCACA
Found at i:35936218 original size:96 final size:96
Alignment explanation
Indices: 35936047--35936301 Score: 294
Period size: 96 Copynumber: 2.7 Consensus size: 96
35936037 AGCCATAAGT
* * * * * * * *
35936047 ACAGTAATATGATTGGCAAAAAGCCATTACTAGCAGTGATATGATCGGCACACATCCATCAGTAA
1 ACAGTAATATGATCGGCAAAAAGCCATCAATAACGGTAATATGATCGGCACAAAGCCATCAGTAA
35936112 CGGTAATATGATCGACACAAAGCCATTAGCA
66 CGGTAATATGATCGACACAAAGCCATTAGCA
* * *
35936143 ACAGTAATATGATCAGTAAAAAGCCATCAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAA
1 ACAGTAATATGATCGGCAAAAAGCCATCAATAACGGTAATATGATCGGCACAAAGCCATCAGTAA
* * ** * *
35936208 TGGTATTATGATCGGTATAAAGCCATTAGTA
66 CGGTAATATGATCGACACAAAGCCATTAGCA
** * * * * *
35936239 ATGGTATTATGGTCGGCACAAAGCCATCAATAACGGTAATATAACCGGCACAAAGCCATCAGT
1 ACAGTAATATGATCGGCAAAAAGCCATCAATAACGGTAATATGATCGGCACAAAGCCATCAGT
35936302 TGCATCGCAG
Statistics
Matches: 133, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 133 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (96 bp):
ACAGTAATATGATCGGCAAAAAGCCATCAATAACGGTAATATGATCGGCACAAAGCCATCAGTAA
CGGTAATATGATCGACACAAAGCCATTAGCA
Found at i:35936334 original size:26 final size:26
Alignment explanation
Indices: 35936305--35936358 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
35936295 CATCAGTTGC
*
35936305 ATCGCAGCAAAGCTGCCAGCAGCAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* *
35936331 ATCGTAGCAAAGCTGCCAGTAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
35936357 AT
1 AT
35936359 ATGTGGCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Found at i:35936401 original size:27 final size:27
Alignment explanation
Indices: 35936346--35936407 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
35936336 AGCAAAGCTG
*
35936346 CCAGTAACAGTATATGTGGCCAAGCCA
1 CCAGTAACAGTATATGTGGCCAAGACA
35936373 CCAGTAACAGTGAT-TGTGG-CAGAGACA
1 CCAGTAACAGT-ATATGTGGCCA-AGACA
35936400 CCAG-AACA
1 CCAGTAACA
35936408 ATATTTCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.19
27 24 0.75
28 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCCAAGACA
Found at i:35936504 original size:24 final size:23
Alignment explanation
Indices: 35936477--35936532 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
35936467 TGCTCAGAAT
35936477 CAGTCATTCAAATTACAGACAAAC
1 CAGTCATTCAAA-TACAGACAAAC
* * *
35936501 CAGTCATACCAAATATAGACAAAT
1 CAGTCAT-TCAAATACAGACAAAC
35936525 CAGTCATT
1 CAGTCATT
35936533 TAACCACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (23 bp):
CAGTCATTCAAATACAGACAAAC
Found at i:35936631 original size:26 final size:27
Alignment explanation
Indices: 35936576--35936743 Score: 184
Period size: 27 Copynumber: 6.4 Consensus size: 27
35936566 GGGAAAAATA
35936576 GTCA-TTTACCC-ACCA-GGGCATTACG
1 GTCATTTTACCCTA-CAGGGGCATTACG
* *
35936601 GTCA-TTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
35936627 GTCATTTTATCCTACAGGGGCATTAAG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
35936654 GTCA-TTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
35936680 GTCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
35936707 GTCATTTTACCTTAAAGGGGTATCACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
35936734 ATCATTTTAC
1 GTCATTTTAC
35936744 AACCTTTCTG
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.11
26 35 0.29
27 73 0.60
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:35936643 original size:27 final size:27
Alignment explanation
Indices: 35936595--35936743 Score: 185
Period size: 27 Copynumber: 5.6 Consensus size: 27
35936585 CCACCAGGGC
35936595 ATTACGGTCA-TTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
35936621 ATTATGGTCATTTTATCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
35936648 ATTAAGGTCA-TTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
35936674 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
35936701 ATTATGGTCATTTTACCTTAAAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
35936728 ATCACGATCATTTTAC
1 ATTACGGTCATTTTAC
35936744 AACCTTTCTG
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 31 0.30
27 73 0.70
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:35936658 original size:53 final size:53
Alignment explanation
Indices: 35936576--35936743 Score: 216
Period size: 53 Copynumber: 3.2 Consensus size: 53
35936566 GGGAAAAATA
* *
35936576 GTCA-TTTACCC-ACCA-GGGCATTACGGTCATTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTA-CAGGGGCATTAAGGTCATTTACCCTACAGGGGTATTACG
* *
35936627 GTCATTTTATCCTACAGGGGCATTAAGGTCATTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTAAGGTCATTTACCCTACAGGGGTATTACG
* * * *
35936680 GTCATTTTACCCTACAGGGGCATTATGGTCATTTTACCTTAAAGGGGTATCACG
1 GTCATTTTACCCTACAGGGGCATTAAGGTCA-TTTACCCTACAGGGGTATTACG
*
35936734 ATCATTTTAC
1 GTCATTTTAC
35936744 AACCTTTCTG
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
51 4 0.04
52 8 0.08
53 63 0.62
54 27 0.26
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (53 bp):
GTCATTTTACCCTACAGGGGCATTAAGGTCATTTACCCTACAGGGGTATTACG
Found at i:35938008 original size:12 final size:12
Alignment explanation
Indices: 35937976--35938015 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
35937966 TTCCTCCCTT
35937976 AATCTCTCC-CA
1 AATCTCTCCACA
*
35937987 ACATCCCTCCACA
1 A-ATCTCTCCACA
35938000 AATCTCTCCACA
1 AATCTCTCCACA
35938012 AATC
1 AATC
35938016 ACTTAACCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 1 0.04
12 21 0.84
13 3 0.12
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.23
Consensus pattern (12 bp):
AATCTCTCCACA
Found at i:35942733 original size:56 final size:56
Alignment explanation
Indices: 35942643--35942799 Score: 233
Period size: 56 Copynumber: 2.8 Consensus size: 56
35942633 AGTAGTTACG
*
35942643 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATCTCCTACAATATCCCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTACAATATCCCAT
* * * *
35942699 TAGGAATCAAATTGCTAAGAGATAATATCCCATAATAATATCCTATAATATCCTAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTACAATATCCCAT
** * *
35942755 TACAAATCAAATTGCTAAAAGATAATGTCTCATGATAATATCCTA
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTA
35942800 ATAGTGCACA
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 90 1.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.31
Consensus pattern (56 bp):
TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTACAATATCCCAT
Found at i:35944203 original size:14 final size:15
Alignment explanation
Indices: 35944179--35944217 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
35944169 AAAAATGGGT
35944179 AAGAGGGATTTTTAC
1 AAGAGGGATTTTTAC
*
35944194 AAGA-GGATTTTTAG
1 AAGAGGGATTTTTAC
35944208 AA-AGGGATTT
1 AAGAGGGATTT
35944218 GGGAAAGCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 17 0.77
15 4 0.18
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (15 bp):
AAGAGGGATTTTTAC
Found at i:35962448 original size:14 final size:14
Alignment explanation
Indices: 35962414--35962440 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35962404 AACATAAATT
35962414 AAAGAAAATTAAAG
1 AAAGAAAATTAAAG
35962428 AAAGAAAATTAAA
1 AAAGAAAATTAAA
35962441 AATTGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (14 bp):
AAAGAAAATTAAAG
Found at i:35966553 original size:9 final size:9
Alignment explanation
Indices: 35966539--35966575 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
35966529 TATCGTTTGA
*
35966539 TATTCGAGT
1 TATTCGAAT
35966548 TATTCGAAT
1 TATTCGAAT
35966557 TATTCGAAT
1 TATTCGAAT
35966566 TATTCGAAT
1 TATTCGAAT
35966575 T
1 T
35966576 CAAAAACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:35967040 original size:21 final size:21
Alignment explanation
Indices: 35967015--35967054 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35967005 AAAACCTTGC
35967015 TGTTTTGCTGCTATTTTTCTA
1 TGTTTTGCTGCTATTTTTCTA
* *
35967036 TGTTTTGCTGTTGTTTTTC
1 TGTTTTGCTGCTATTTTTC
35967055 CAACTTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.12, G:0.17, T:0.65
Consensus pattern (21 bp):
TGTTTTGCTGCTATTTTTCTA
Found at i:35969146 original size:6 final size:7
Alignment explanation
Indices: 35969117--35969143 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
35969107 TGAATTATTA
35969117 AAAAATT
1 AAAAATT
35969124 AAAAATT
1 AAAAATT
35969131 AAAAATT
1 AAAAATT
35969138 AAAAAT
1 AAAAAT
35969144 AAATTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:35969310 original size:6 final size:7
Alignment explanation
Indices: 35969290--35969319 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
35969280 TAGATGAATT
35969290 ATTAAAA
1 ATTAAAA
35969297 ATTAAAA
1 ATTAAAA
35969304 ATTAAAA
1 ATTAAAA
35969311 ATTAAAA
1 ATTAAAA
35969318 AT
1 AT
35969320 AAATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATTAAAA
Found at i:35969408 original size:176 final size:177
Alignment explanation
Indices: 35969106--35969458 Score: 699
Period size: 176 Copynumber: 2.0 Consensus size: 177
35969096 TTGAAAGTAA
35969106 ATGAATTATTAAAAAATTAAAAATTAAAAATTAAAAATAAATTTATTTAAATAATTATAAAAATA
1 ATGAATTATTAAAAAATTAAAAATTAAAAATTAAAAATAAATTTATTTAAATAATTATAAAAATA
35969171 TATTCAACCACTGGTTCAATTATTTTTTTAACTCAATCCAACCGGCCTGTATCAGTTCACAGATC
66 TATTCAACCACTGGTTCAATTATTTTTTTAACTCAATCCAACCGGCCTGTATCAGTTCACAGATC
35969236 AACTAGTTTTATACCTCTAATCGGATCGATTTCTCGTTAATTTCTAG
131 AACTAGTTTTATACCTCTAATCGGATCGATTTCTCGTTAATTTCTAG
35969283 ATGAATTATT-AAAAATTAAAAATTAAAAATTAAAAATAAATTTATTTAAATAATTATAAAAATA
1 ATGAATTATTAAAAAATTAAAAATTAAAAATTAAAAATAAATTTATTTAAATAATTATAAAAATA
35969347 TATTCAACCACTGGTTCAATTATTTTTTTAACTCAATCCAACCGGCCTGTATCAGTTCACAGATC
66 TATTCAACCACTGGTTCAATTATTTTTTTAACTCAATCCAACCGGCCTGTATCAGTTCACAGATC
35969412 AACTAGTTTTATACCTCTAATCGGATCGATTTCTCGTTAATTTCTAG
131 AACTAGTTTTATACCTCTAATCGGATCGATTTCTCGTTAATTTCTAG
35969459 TCCAATCGAT
Statistics
Matches: 176, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
176 166 0.94
177 10 0.06
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (177 bp):
ATGAATTATTAAAAAATTAAAAATTAAAAATTAAAAATAAATTTATTTAAATAATTATAAAAATA
TATTCAACCACTGGTTCAATTATTTTTTTAACTCAATCCAACCGGCCTGTATCAGTTCACAGATC
AACTAGTTTTATACCTCTAATCGGATCGATTTCTCGTTAATTTCTAG
Found at i:35969751 original size:27 final size:27
Alignment explanation
Indices: 35969712--35969765 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
35969702 ACGGAGAAGA
*
35969712 AAGTTAGAAATTTTTTTGAT-TAAGATT
1 AAGTTAGAAATTTATTT-ATATAAGATT
* *
35969739 AAGTTATATATTTATTTATATAAGATT
1 AAGTTAGAAATTTATTTATATAAGATT
35969766 TAAATGCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (27 bp):
AAGTTAGAAATTTATTTATATAAGATT
Found at i:35970787 original size:3 final size:3
Alignment explanation
Indices: 35970779--35970825 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
35970769 TGATTTAGAA
*
35970779 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
35970826 AAGGATTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:35978749 original size:131 final size:131
Alignment explanation
Indices: 35978515--35978751 Score: 359
Period size: 131 Copynumber: 1.8 Consensus size: 131
35978505 GGCCATGCGA
* *
35978515 CATGGCCGTTTGTCCCCTGTAGGTTTGAAAGGTTGCATTTCAAGGGTTACACGACCTAGCACATG
1 CATGGCCGTGTGTCCCCTGTAGGTTTGAAAGGTTGCATTTCAAGGGTTACACGACCTAGCACACG
* * *
35978580 GGCGTCTGGCTTGGCTGTGTGACCTAAGTAAGAGAGTTACACGAAAACGGGCTAGGACACATGAC
66 AGCGTCTGGCTTGGCTGTGTAACCCAAGTAAGAGAGTTACACGAAAACGGGCTAGGACACATGAC
35978645 G
131 G
* * * *
35978646 CATGGCCGTGTGTCCCCTGTAGGTTTTAAAGGTTGCATTTCAAGTGTTATACGGCCTAGCACACG
1 CATGGCCGTGTGTCCCCTGTAGGTTTGAAAGGTTGCATTTCAAGGGTTACACGACCTAGCACACG
* *
35978711 AGCGTCTGGCTTGGTTGTGTAACCCATGTCAA-AGAGTTACA
66 AGCGTCTGGCTTGGCTGTGTAACCCAAGT-AAGAGAGTTACA
35978752 AGGGCACGGA
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
131 92 0.98
132 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (131 bp):
CATGGCCGTGTGTCCCCTGTAGGTTTGAAAGGTTGCATTTCAAGGGTTACACGACCTAGCACACG
AGCGTCTGGCTTGGCTGTGTAACCCAAGTAAGAGAGTTACACGAAAACGGGCTAGGACACATGAC
G
Found at i:35987090 original size:20 final size:19
Alignment explanation
Indices: 35987065--35987122 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
35987055 TTGTACGGGA
35987065 TTGCACTTCGGTGCCTCTGT
1 TTGCACTT-GGTGCCTCTGT
* * *
35987085 TTGCACATTTGTGTCTTTGT
1 TTGCAC-TTGGTGCCTCTGT
35987105 TTGCACTTTGGTGCCTCT
1 TTGCAC-TTGGTGCCTCT
35987123 ATTACACATC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.07, C:0.24, G:0.22, T:0.47
Consensus pattern (19 bp):
TTGCACTTGGTGCCTCTGT
Found at i:36010545 original size:5 final size:5
Alignment explanation
Indices: 36010535--36010564 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
36010525 GACTATAATC
*
36010535 ATACA ATACA ATACA ATGCA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA
36010565 TAAAAATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (5 bp):
ATACA
Found at i:36014770 original size:148 final size:147
Alignment explanation
Indices: 36014587--36014865 Score: 362
Period size: 148 Copynumber: 1.9 Consensus size: 147
36014577 AGGAGCAGAC
* *
36014587 TCATTATCTTTACCTTCCCTAAGCCTCCCCCCATACGACTAGGAGCAAGGTCACTATTCTTACCT
1 TCATTATCTTTACCTTCCCTAAGCCTCCCCCCATACGACTAAGAGCAAGGTAACTATTCTTACCT
* * * * *
36014652 TTCGTAAGCTTCCC-CAATGTGTTTGGGAGCAAGGCCAAATTTATTACATTTCATAAGTCGTCCC
66 TTCATAAGCTTCCCTC-ATATGTATAGGAGCAAGGCCAAATTTATTACATTTCATAAG-CCTCCC
36014716 CATTCGTTTGGGAGTAAGG
129 CATTCGTTTGGGAGTAAGG
* ** ** * * * * *
36014735 TCATTATTTTTACCTTCTGTAAGCCTCCTTCCATACGTCTAAGAGTAGGGTAACTGTTTTTACCT
1 TCATTATCTTTACCTTCCCTAAGCCTCCCCCCATACGACTAAGAGCAAGGTAACTATTCTTACCT
* *
36014800 TTCATAAGCTTCCCTCATATGTATAGGAGCAAGGCCAAATTTATTACCTTTCGTAAGCCTCCCCA
66 TTCATAAGCTTCCCTCATATGTATAGGAGCAAGGCCAAATTTATTACATTTCATAAGCCTCCCCA
36014865 T
131 T
36014866 ACATCTAGGA
Statistics
Matches: 111, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
147 8 0.07
148 102 0.92
149 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (147 bp):
TCATTATCTTTACCTTCCCTAAGCCTCCCCCCATACGACTAAGAGCAAGGTAACTATTCTTACCT
TTCATAAGCTTCCCTCATATGTATAGGAGCAAGGCCAAATTTATTACATTTCATAAGCCTCCCCA
TTCGTTTGGGAGTAAGG
Found at i:36022187 original size:14 final size:14
Alignment explanation
Indices: 36022170--36022208 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
36022160 TAAATACCAA
36022170 GTATGAAATGAGAT
1 GTATGAAATGAGAT
36022184 GTATGAAATGAGAT
1 GTATGAAATGAGAT
*
36022198 GTAAGAAATGA
1 GTATGAAATGA
36022209 ATTTAGTAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (14 bp):
GTATGAAATGAGAT
Found at i:36030113 original size:13 final size:13
Alignment explanation
Indices: 36030095--36030120 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36030085 TATGTTTTTG
36030095 GAATCCCAGTGTT
1 GAATCCCAGTGTT
36030108 GAATCCCAGTGTT
1 GAATCCCAGTGTT
36030121 AATTACTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
GAATCCCAGTGTT
Found at i:36030440 original size:19 final size:20
Alignment explanation
Indices: 36030416--36030456 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
36030406 GAATTTAGGC
*
36030416 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
36030435 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
36030455 AA
1 AA
36030457 TTGTGTAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:36030778 original size:16 final size:16
Alignment explanation
Indices: 36030753--36030786 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36030743 ATGAATATAT
* *
36030753 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
36030769 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
36030785 AT
1 AT
36030787 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:36040751 original size:21 final size:21
Alignment explanation
Indices: 36040727--36040769 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
36040717 AATTGCTCTC
36040727 TGTTTCTTT-TCTTCTTTGTTT
1 TGTTTCTTTCT-TTCTTTGTTT
36040748 TGTTTCTTTCTTTCTTTGTTT
1 TGTTTCTTTCTTTCTTTGTTT
36040769 T
1 T
36040770 TTTACTTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (21 bp):
TGTTTCTTTCTTTCTTTGTTT
Found at i:36045777 original size:21 final size:20
Alignment explanation
Indices: 36045752--36045795 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
36045742 AATATATTTC
36045752 TTTGTATATA-ATTGAGATATA
1 TTTGTATATATATT-A-ATATA
36045773 TTTGTATATATATTAATATA
1 TTTGTATATATATTAATATA
36045793 TTT
1 TTT
36045796 TTAAAATGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 11 0.50
22 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTGTATATATATTAATATA
Found at i:36048167 original size:22 final size:22
Alignment explanation
Indices: 36048142--36048185 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
36048132 GAGGTGAATT
36048142 TTTAAAATACTTTA-ATTACATC
1 TTTAAAAT-CTTTATATTACATC
*
36048164 TTTAAAATTTTTATATTACATC
1 TTTAAAATCTTTATATTACATC
36048186 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAAATCTTTATATTACATC
Found at i:36048191 original size:22 final size:21
Alignment explanation
Indices: 36048152--36048192 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
36048142 TTTAAAATAC
**
36048152 TTTAATTACATCTTTAAAATT
1 TTTAATTACATCAATAAAATT
36048173 TTTATATTACATCAATAAAA
1 TTTA-ATTACATCAATAAAA
36048193 AAACTTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAATTACATCAATAAAATT
Found at i:36048602 original size:9 final size:9
Alignment explanation
Indices: 36048588--36048618 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36048578 GTTAAACGAA
36048588 TCGAGTTAT
1 TCGAGTTAT
*
36048597 TCGAGTTAA
1 TCGAGTTAT
36048606 TCGAGTTAT
1 TCGAGTTAT
36048615 TCGA
1 TCGA
36048619 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:36048686 original size:9 final size:9
Alignment explanation
Indices: 36048672--36048708 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
36048662 TGAGTTTTCG
36048672 AATTCGAAT
1 AATTCGAAT
36048681 AATTCGAAT
1 AATTCGAAT
36048690 AATTCGAAT
1 AATTCGAAT
36048699 AATTCGAAT
1 AATTCGAAT
36048708 A
1 A
36048709 TCAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:36052436 original size:23 final size:23
Alignment explanation
Indices: 36052410--36052475 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
36052400 TACCTTGTGG
36052410 AAAATTTAAAATAATTAATTTTA
1 AAAATTTAAAATAATTAATTTTA
* *
36052433 AAAAATTAAAATTAA-AATATTTTA
1 AAAATTTAAAA-TAATTA-ATTTTA
* *
36052457 AATATTAACAAATAATTAA
1 AAAATTTA-AAATAATTAA
36052476 AATGATAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
23 11 0.33
24 18 0.55
25 4 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATTTAAAATAATTAATTTTA
Found at i:36052439 original size:14 final size:15
Alignment explanation
Indices: 36052414--36052451 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
36052404 TTGTGGAAAA
36052414 TTTAAAATAATTAAT
1 TTTAAAATAATTAAT
*
36052429 TTTAAAA-AATTAAA
1 TTTAAAATAATTAAT
*
36052443 ATTAAAATA
1 TTTAAAATA
36052452 TTTTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTAAAATAATTAAT
Found at i:36054490 original size:20 final size:20
Alignment explanation
Indices: 36054465--36054504 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
36054455 ACACACATGT
36054465 TAGAAAACAATACTAGCTAG
1 TAGAAAACAATACTAGCTAG
36054485 TAGAAAACAATACTAGCTAG
1 TAGAAAACAATACTAGCTAG
36054505 AAACAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (20 bp):
TAGAAAACAATACTAGCTAG
Found at i:36062525 original size:40 final size:40
Alignment explanation
Indices: 36062476--36062577 Score: 168
Period size: 40 Copynumber: 2.5 Consensus size: 40
36062466 TCTACCCCAA
* * * *
36062476 TCCAACCCTACACTCCAAAATAAGAGTTCCCTAGAACTAG
1 TCCATCCCTACACACCAAAATAAGAGTTCCCCAAAACTAG
36062516 TCCATCCCTACACACCAAAATAAGAGTTCCCCAAAACTAG
1 TCCATCCCTACACACCAAAATAAGAGTTCCCCAAAACTAG
36062556 TCCATCCCTACACACCAAAATA
1 TCCATCCCTACACACCAAAATA
36062578 GTATTTTGCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.39, C:0.35, G:0.07, T:0.19
Consensus pattern (40 bp):
TCCATCCCTACACACCAAAATAAGAGTTCCCCAAAACTAG
Found at i:36069199 original size:48 final size:48
Alignment explanation
Indices: 36069124--36069215 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
36069114 TTAGGAGGTA
* * *
36069124 GCTGATTATTTTGGTTATCACCTATCTCTACAATAATATCCTTTTCTT
1 GCTGATTATTTTGATTATCACCCATCTCCACAATAATATCCTTTTCTT
36069172 GCTGATTATTTTGATTATCACCCATCTCCACAATAATATCCTTT
1 GCTGATTATTTTGATTATCACCCATCTCCACAATAATATCCTTT
36069216 CTTCTTGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.45
Consensus pattern (48 bp):
GCTGATTATTTTGATTATCACCCATCTCCACAATAATATCCTTTTCTT
Found at i:36069408 original size:26 final size:26
Alignment explanation
Indices: 36069379--36069441 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
36069369 CAAACAAACG
* * * *
36069379 AAAAATTAGAATATAAAAATTAAATT
1 AAAAATAAAAATATAAAAATAAAAAT
* *
36069405 AAAAACAAAAATATTAAAATAAAAAT
1 AAAAATAAAAATATAAAAATAAAAAT
36069431 AAAAATAAAAA
1 AAAAATAAAAA
36069442 ATGGCTAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (26 bp):
AAAAATAAAAATATAAAAATAAAAAT
Found at i:36069422 original size:20 final size:20
Alignment explanation
Indices: 36069393--36069437 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
36069383 ATTAGAATAT
*
36069393 AAAA-ATTAAATTAAAAACA
1 AAAATATTAAAATAAAAACA
*
36069412 AAAATATTAAAATAAAAATA
1 AAAATATTAAAATAAAAACA
36069432 AAAATA
1 AAAATA
36069438 AAAAATGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATATTAAAATAAAAACA
Found at i:36069427 original size:32 final size:33
Alignment explanation
Indices: 36069374--36069441 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
36069364 AGAAGCAAAC
* * *
36069374 AAACGAAAAATTAGAATATAAAAATTAAATTAA
1 AAACAAAAAATTAGAATATAAAAATAAAAATAA
36069407 AAACAAAAATATTA-AA-ATAAAAATAAAAATAA
1 AAACAAAAA-ATTAGAATATAAAAATAAAAATAA
36069439 AAA
1 AAA
36069442 ATGGCTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 17 0.55
33 10 0.32
34 4 0.13
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (33 bp):
AAACAAAAAATTAGAATATAAAAATAAAAATAA
Found at i:36069443 original size:7 final size:6
Alignment explanation
Indices: 36069391--36069441 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
36069381 AAATTAGAAT
* * *
36069391 ATAAAA ATTAAA TTAAAA ACAAAA ATATTAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATA--AAA ATAAAA ATAAAA ATAAAA
36069441 A
1 A
36069442 ATGGCTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
6 31 0.84
8 6 0.16
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (6 bp):
ATAAAA
Found at i:36072186 original size:27 final size:27
Alignment explanation
Indices: 36072130--36072188 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
36072120 ATCCTGTCAG
* *
36072130 CCTTTGTGGCATACCCTGAATGAATCA
1 CCTTTGTAGCATACCCTGAATGAATAA
* *
36072157 CCTTTGTAGCATACTCTGTAT-ATATAA
1 CCTTTGTAGCATACCCTGAATGA-ATAA
36072184 CCTTT
1 CCTTT
36072189 ATGGCGTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (27 bp):
CCTTTGTAGCATACCCTGAATGAATAA
Found at i:36074075 original size:33 final size:33
Alignment explanation
Indices: 36074033--36074101 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
36074023 AATCAAAATC
*
36074033 TTAGTGAGTCGATTGCTGAAGAAACCTTTTCGA
1 TTAGTGAGTCAATTGCTGAAGAAACCTTTTCGA
*
36074066 TTAGTGAGTCAATTGCTGAAGAAACCTTTTTGA
1 TTAGTGAGTCAATTGCTGAAGAAACCTTTTCGA
36074099 TTA
1 TTA
36074102 CCAGACGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (33 bp):
TTAGTGAGTCAATTGCTGAAGAAACCTTTTCGA
Found at i:36074852 original size:25 final size:25
Alignment explanation
Indices: 36074820--36075004 Score: 104
Period size: 25 Copynumber: 6.9 Consensus size: 25
36074810 GTATGTTTTT
36074820 TATG-TATGTATATTACTATTTATG
1 TATGTTATGTATATTACTATTTATG
*
36074844 TATGTTATGTATTATATTTCTATTTATG
1 TATGTTATG---TATATTACTATTTATG
* * * *
36074872 TATTTTATGCATACTACTGTTTATG
1 TATGTTATGTATATTACTATTTATG
* * * *
36074897 TATGTTTTATATATCACTGTTTATATCATG
1 TATGTTATGTATATTAC----TAT-TTATG
* *
36074927 TATGTTACGTATATTACTATTTATA
1 TATGTTATGTATATTACTATTTATG
*
36074952 T-TGTGTATGTATATTAATGTTGATATTATG
1 TATGT-TATGTATATT-A--CT-AT-TTATG
* *
36074982 TATGTTATGTATACTACTGTTTA
1 TATGTTATGTATATTACTATTTA
36075005 CATTATTTAT
Statistics
Matches: 119, Mismatches: 26, Indels: 31
0.68 0.15 0.18
Matches are distributed among these distances:
24 7 0.06
25 43 0.36
26 5 0.04
27 1 0.01
28 24 0.20
29 5 0.04
30 31 0.26
31 3 0.03
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.54
Consensus pattern (25 bp):
TATGTTATGTATATTACTATTTATG
Found at i:36074868 original size:28 final size:29
Alignment explanation
Indices: 36074819--36074993 Score: 106
Period size: 30 Copynumber: 6.3 Consensus size: 29
36074809 AGTATGTTTT
36074819 TTATGTATGTATATTACTATTTATGTATG
1 TTATGTATGTATATTACTATTTATGTATG
*
36074848 TTATGTAT-TATATTTCTATTTATGTA--
1 TTATGTATGTATATTACTATTTATGTATG
* * *
36074874 TT-T-TATGCATACTACTGTTTATGTATG
1 TTATGTATGTATATTACTATTTATGTATG
* * *
36074901 TT-T-TA--TATATCACTGTTTATATCATG
1 TTATGTATGTATATTACTATTTATGT-ATG
* *
36074927 -TATGTTACGTATATTACTATTTATAT-TG
1 TTATG-TATGTATATTACTATTTATGTATG
* *
36074955 TGTATGTATATTAATGTTGA-TA-TTATGTATG
1 T-TATGTAT-GT-ATATT-ACTATTTATGTATG
36074986 TTATGTAT
1 TTATGTAT
36074994 ACTACTGTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
24 3 0.03
25 29 0.25
26 6 0.05
27 5 0.04
28 21 0.18
29 10 0.09
30 32 0.28
31 9 0.08
32 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.55
Consensus pattern (29 bp):
TTATGTATGTATATTACTATTTATGTATG
Found at i:36074940 original size:30 final size:30
Alignment explanation
Indices: 36074839--36075042 Score: 166
Period size: 30 Copynumber: 7.2 Consensus size: 30
36074829 ATATTACTAT
36074839 TTATGTATGTTATGTAT-TATA-T-TTCTAT-
1 TTATGTATGTTATGTATAT-TACTGTT-TATA
* * *
36074867 TTATGTATTTTATGCATACTACTGTTTAT-
1 TTATGTATGTTATGTATATTACTGTTTATA
* *
36074896 GTATGT-T-TTA--TATATCACTGTTTATA
1 TTATGTATGTTATGTATATTACTGTTTATA
* * *
36074922 TCATGTATGTTACGTATATTACTATTTATA
1 TTATGTATGTTATGTATATTACTGTTTATA
* *
36074952 -T-TG--TG-TATGTATATTAATGTTGATA
1 TTATGTATGTTATGTATATTACTGTTTATA
* *
36074977 TTATGTATGTTATGTATACTACTGTTTACA
1 TTATGTATGTTATGTATATTACTGTTTATA
* *
36075007 TTATTTATGTTATGTATATTAATGTTTATA
1 TTATGTATGTTATGTATATTACTGTTTATA
36075037 TTATGT
1 TTATGT
36075043 CACTCACTTT
Statistics
Matches: 138, Mismatches: 25, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
25 28 0.20
26 7 0.05
27 6 0.04
28 23 0.17
29 11 0.08
30 63 0.46
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (30 bp):
TTATGTATGTTATGTATATTACTGTTTATA
Found at i:36074981 original size:21 final size:19
Alignment explanation
Indices: 36074957--36075042 Score: 59
Period size: 21 Copynumber: 4.3 Consensus size: 19
36074947 TTATATTGTG
36074957 TATGTATATTAATGTTGATAT
1 TATGTATATT-ATGTT-ATAT
* *
36074978 TATGTATGTTATG-TATAC
1 TATGTATATTATGTTATAT
* *
36074996 TACTGTTTACATTAT-TTATGT
1 TA-TG--TATATTATGTTATAT
36075017 TATGTATATTAATGTTTATAT
1 TATGTATATT-ATG-TTATAT
36075038 TATGT
1 TATGT
36075043 CACTCACTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
18 10 0.20
19 5 0.10
20 5 0.10
21 30 0.60
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (19 bp):
TATGTATATTATGTTATAT
Found at i:36075016 original size:55 final size:54
Alignment explanation
Indices: 36074867--36075016 Score: 140
Period size: 55 Copynumber: 2.7 Consensus size: 54
36074857 ATATTTCTAT
* * * * * *
36074867 TTATGTATTTTATGCATACTACTGTTT-ATGTATGTTTTATATATCACTGTTTATA
1 TTATGTATGTTATGTATACTACTGTTTAAT-TAT-TTATGTATATCAATGTTGATA
* * * * * * *
36074922 TCATGTATGTTACGTATATTACTATTTATATTGTGTATGTATATTAATGTTGATA
1 TTATGTATGTTATGTATACTACTGTTTA-ATTATTTATGTATATCAATGTTGATA
36074977 TTATGTATGTTATGTATACTACTGTTTACATTATTTATGT
1 TTATGTATGTTATGTATACTACTGTTTA-ATTATTTATGT
36075017 TATGTATATT
Statistics
Matches: 73, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
55 69 0.95
56 2 0.03
57 2 0.03
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (54 bp):
TTATGTATGTTATGTATACTACTGTTTAATTATTTATGTATATCAATGTTGATA
Found at i:36089028 original size:20 final size:21
Alignment explanation
Indices: 36088995--36089034 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
36088985 CAAACCATAC
*
36088995 AAAACCCTAGAAAACCTAATG
1 AAAACCCTAGAAAAACTAATG
*
36089016 AAAACCTTA-AAAAACTAAT
1 AAAACCCTAGAAAAACTAAT
36089035 AAGCAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.57, C:0.20, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAACCCTAGAAAAACTAATG
Found at i:36089338 original size:31 final size:31
Alignment explanation
Indices: 36089280--36089339 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
36089270 TAATCCTTAT
* * *
36089280 TTAATTAAAATAATAAATTAACTCTATTTAA
1 TTAAGTAAAATAATAAACTAACCCTATTTAA
36089311 TTAAGTAAAAT-ATCAAACTAACCCTATTT
1 TTAAGTAAAATAAT-AAACTAACCCTATTT
36089340 TCATCCCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (31 bp):
TTAAGTAAAATAATAAACTAACCCTATTTAA
Found at i:36098441 original size:26 final size:27
Alignment explanation
Indices: 36098379--36098441 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
36098369 GCCCAATTTA
*
36098379 AACCCAGCGCAATTTACCCAGCACCGAAT
1 AACCCAGCCCAATTTA--CAGCACCGAAT
**
36098408 AAGACAGCCCAATTTA-AGCACCGAAT
1 AACCCAGCCCAATTTACAGCACCGAAT
36098434 AACCCAGC
1 AACCCAGC
36098442 ACCGAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 16 0.55
29 13 0.45
ACGTcount: A:0.38, C:0.35, G:0.14, T:0.13
Consensus pattern (27 bp):
AACCCAGCCCAATTTACAGCACCGAAT
Found at i:36102675 original size:17 final size:17
Alignment explanation
Indices: 36102653--36102762 Score: 67
Period size: 17 Copynumber: 6.1 Consensus size: 17
36102643 AATTCAAGAC
36102653 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
36102670 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
36102689 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* **
36102707 TTATGTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
*
36102726 TTTATGTAATGCTTTTAA
1 -TTATGTAATGTTTTTAA
* *
36102744 TTATGTAGTGATTTTAA
1 TTATGTAATGTTTTTAA
36102761 TT
1 TT
36102763 CGGGAATTTG
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
17 34 0.50
18 9 0.13
19 8 0.12
20 17 0.25
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:36102732 original size:20 final size:19
Alignment explanation
Indices: 36102669--36102757 Score: 69
Period size: 17 Copynumber: 4.8 Consensus size: 19
36102659 AATGTTTTTA
*
36102669 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTTAAAG
* **
36102688 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTTAAAG
36102706 ATTATGTAGTGATTTAAAG
1 ATTATGTAGTGATTTAAAG
* * *
36102725 ATTTATGTAATGCTTT-TA-
1 A-TTATGTAGTGATTTAAAG
36102743 ATTATGTAGTGATTT
1 ATTATGTAGTGATTT
36102758 TAATTCGGGA
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
17 20 0.37
18 7 0.13
19 7 0.13
20 20 0.37
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (19 bp):
ATTATGTAGTGATTTAAAG
Found at i:36102757 original size:37 final size:37
Alignment explanation
Indices: 36102648--36102757 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
36102638 GTGTTAATTC
*
36102648 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
*
36102685 AAGACTTATGTAATATTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
* *
36102722 AAGATTTATGTAATGCTTTTAATTATGTAGTGATTT
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTT
36102758 TAATTCGGGA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
Found at i:36102793 original size:9 final size:9
Alignment explanation
Indices: 36102758--36102837 Score: 90
Period size: 9 Copynumber: 8.6 Consensus size: 9
36102748 GTAGTGATTT
36102758 TAATTCGGG
1 TAATTCGGG
*
36102767 -AATTTGGG
1 TAATTCGGG
36102775 TAATTTTCGGG
1 TAA--TTCGGG
*
36102786 TAACTCGGG
1 TAATTCGGG
36102795 TAATTTTCGGG
1 TAA--TTCGGG
36102806 TAATTCGGG
1 TAATTCGGG
36102815 TAATTCGGG
1 TAATTCGGG
*
36102824 TAATTCAGG
1 TAATTCGGG
36102833 TAATT
1 TAATT
36102838 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.11
9 38 0.62
11 16 0.26
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:36102797 original size:20 final size:20
Alignment explanation
Indices: 36102761--36102839 Score: 110
Period size: 20 Copynumber: 4.1 Consensus size: 20
36102751 GTGATTTTAA
*
36102761 TTCGGG-AATTTGGGTAATT
1 TTCGGGTAATTCGGGTAATT
*
36102780 TTCGGGTAACTCGGGTAATT
1 TTCGGGTAATTCGGGTAATT
36102800 TTCGGGTAATTCGGGTAA--
1 TTCGGGTAATTCGGGTAATT
*
36102818 TTCGGGTAATTCAGGTAATT
1 TTCGGGTAATTCGGGTAATT
36102838 TT
1 TT
36102840 TAACCAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
18 17 0.32
19 6 0.11
20 30 0.57
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (20 bp):
TTCGGGTAATTCGGGTAATT
Found at i:36109041 original size:30 final size:30
Alignment explanation
Indices: 36109007--36109069 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
36108997 ACTTATTTTA
36109007 TTGTTAATTTTGTTATTATTTTA-AAGTCAT
1 TTGTTAATTTTGTTATTATTTTAGAAG-CAT
36109037 TTGTTAATTTTGTTATTATTTTAGAAGCAT
1 TTGTTAATTTTGTTATTATTTTAGAAGCAT
36109067 TTG
1 TTG
36109070 CTTGTTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAGCAT
Found at i:36112300 original size:5 final size:5
Alignment explanation
Indices: 36112292--36112316 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36112282 AGGTTAGGGT
36112292 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
36112317 ACTTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:36115673 original size:35 final size:35
Alignment explanation
Indices: 36115634--36115704 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
36115624 GTTGAATACT
* *
36115634 TGATAAAATTTGTGTTAATTTGTTAGATTTTAAGC
1 TGATAAAATTGGTGTTAATTTGTTAAATTTTAAGC
36115669 TGATAAAATTGGTGTTAATTTGTTAAATTTTAAGC
1 TGATAAAATTGGTGTTAATTTGTTAAATTTTAAGC
36115704 T
1 T
36115705 TAGAAGTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (35 bp):
TGATAAAATTGGTGTTAATTTGTTAAATTTTAAGC
Found at i:36117653 original size:21 final size:21
Alignment explanation
Indices: 36117590--36117654 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
36117580 TCAAAATTTC
36117590 TTCTTTCTTTCTTCTGTCAAA
1 TTCTTTCTTTCTTCTGTCAAA
* * * *
36117611 TTC-TACACTTCATCTTTC---
1 TTCTTTC-TTTCTTCTGTCAAA
36117629 TTCTTTCTTTCTTCTGTCAAA
1 TTCTTTCTTTCTTCTGTCAAA
36117650 TTCTT
1 TTCTT
36117655 GCAAGTTCAC
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 11 0.35
19 2 0.06
20 2 0.06
21 16 0.52
ACGTcount: A:0.14, C:0.26, G:0.03, T:0.57
Consensus pattern (21 bp):
TTCTTTCTTTCTTCTGTCAAA
Found at i:36125746 original size:37 final size:37
Alignment explanation
Indices: 36125673--36125747 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
36125663 ATATAGTTGG
* * *
36125673 TTCCCATTTTTTAGGGAAACACTATAGTTGGTTATTT
1 TTCCCATTTTTTAGGGAAACACTATAGCTAGATATTT
*
36125710 TTCCCTTTTTTTAGAGG-AACACTATAGCTAGATATTT
1 TTCCCATTTTTTAG-GGAAACACTATAGCTAGATATTT
36125747 T
1 T
36125748 GGAAACCCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 31 0.94
38 2 0.06
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (37 bp):
TTCCCATTTTTTAGGGAAACACTATAGCTAGATATTT
Found at i:36141653 original size:28 final size:28
Alignment explanation
Indices: 36141621--36141675 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
36141611 CATTTGTTAA
* *
36141621 TCCTTGACTAACATTCCACTTAAGATAG
1 TCCTTGACGAACATCCCACTTAAGATAG
*
36141649 TCCTTGGCGAACATCCCACTTAAGATA
1 TCCTTGACGAACATCCCACTTAAGATA
36141676 ATCCCTGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
TCCTTGACGAACATCCCACTTAAGATAG
Found at i:36141684 original size:28 final size:28
Alignment explanation
Indices: 36141630--36141684 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
36141620 ATCCTTGACT
* * *
36141630 AACATTCCACTTAAGATAGTCCTTGGCG
1 AACATCCCACTTAAGATAATCCCTGGCG
36141658 AACATCCCACTTAAGATAATCCCTGGC
1 AACATCCCACTTAAGATAATCCCTGGC
36141685 TTACTTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (28 bp):
AACATCCCACTTAAGATAATCCCTGGCG
Found at i:36153819 original size:43 final size:42
Alignment explanation
Indices: 36153752--36153916 Score: 149
Period size: 43 Copynumber: 3.9 Consensus size: 42
36153742 AGCTCGTACA
* * * * *
36153752 ATGCCAACGTCCCAGAC-GTGGTCTTGCATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACAG-AGTCTTACACGAAATCAAAT-ACG
* *
36153795 ATGCCACTGTCCCAGACAGAGTCTTACACGAAATCATATACG
1 ATGCCAATGTCCCAGACAGAGTCTTACACGAAATCAAATACG
36153837 ATGCCAATGTCCCAGACATG-GTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAATGTCCCAGACA-GAGTCTTACACG-AAA--TCAAATACG
* * *
36153881 ATGCCAACGTCCCAGAC-GTGGTCTTACACGATATCA
1 ATGCCAATGTCCCAGACAG-AGTCTTACACGAAATCA
36153917 CATATCGAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
41 3 0.03
42 31 0.30
43 36 0.35
44 29 0.28
45 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGAGTCTTACACGAAATCAAATACG
Found at i:36153906 original size:86 final size:84
Alignment explanation
Indices: 36153752--36153916 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 84
36153742 AGCTCGTACA
* * *
36153752 ATGCCAACGTCCCAGACGTGGTCTTGCATGTAATCAAATAACGATGCCACTGTCCCAGACAGAGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAAT-ACGATGCCACTGTCCCAGACAGAGT
36153817 CTTACACGAAATCATATACG
65 CTTACACGAAATCATATACG
*
36153837 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAC-GTCCCAGAC-G
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AA--TCAAATACGATGCC-ACTGTCCCAGACAG
* *
36153899 TGGTCTTACACGATATCA
62 -AGTCTTACACGAAATCA
36153917 CATATCGAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
85 28 0.41
86 33 0.48
87 2 0.03
88 6 0.09
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATACGATGCCACTGTCCCAGACAGAGTC
TTACACGAAATCATATACG
Found at i:36160036 original size:16 final size:17
Alignment explanation
Indices: 36160006--36160040 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
36159996 AGAGAGCTGA
*
36160006 GAGAGAGGATGAGAGAT
1 GAGAGAGGATAAGAGAT
36160023 GAGAG-GGATAAGAGAT
1 GAGAGAGGATAAGAGAT
36160039 GA
1 GA
36160041 TTATAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.43, C:0.00, G:0.46, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATAAGAGAT
Found at i:36164966 original size:20 final size:20
Alignment explanation
Indices: 36164941--36164978 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36164931 ACCCCCTTTA
36164941 TTAACATAAA-AATTTAAAAT
1 TTAACA-AAATAATTTAAAAT
36164961 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
36164979 CTAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAACAAAATAATTTAAAAT
Found at i:36174307 original size:36 final size:36
Alignment explanation
Indices: 36174267--36174338 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
36174257 ATTCCCCCAT
36174267 GACTTAGTAGACAAAATAATATAAGCATAATAATTC
1 GACTTAGTAGACAAAATAATATAAGCATAATAATTC
36174303 GACTTAGTAGACAAAATAATATAAGCATAATAATTC
1 GACTTAGTAGACAAAATAATATAAGCATAATAATTC
36174339 ATTACCATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (36 bp):
GACTTAGTAGACAAAATAATATAAGCATAATAATTC
Found at i:36181172 original size:18 final size:18
Alignment explanation
Indices: 36181149--36181184 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
36181139 TATCTCATAA
36181149 TATATAATTCTTTTTCCT
1 TATATAATTCTTTTTCCT
36181167 TATATAATTCTTTTTCCT
1 TATATAATTCTTTTTCCT
36181185 ACACTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATAATTCTTTTTCCT
Found at i:36181195 original size:18 final size:18
Alignment explanation
Indices: 36181152--36181197 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
36181142 CTCATAATAT
*
36181152 ATAATTCTTTTTCCTTAT
1 ATAATTCTTTTTCCTTAC
36181170 ATAATTCTTTTTCC-TAC
1 ATAATTCTTTTTCCTTAC
*
36181187 ACTATTTCTTT
1 A-TAATTCTTT
36181198 CAAGTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.59
Consensus pattern (18 bp):
ATAATTCTTTTTCCTTAC
Found at i:36182523 original size:42 final size:44
Alignment explanation
Indices: 36182458--36182572 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 44
36182448 TCAAATAACA
* * * * *
36182458 ATGCCACTGTCTCAGACAGGGTCTTACGCA-AAA--TCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAAAT-CG
*
36182500 ATGCCAATGTCCCAAACATGGTCTTACACATAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAAATCG
* * *
36182544 ATGCCAACGTCCCAGACGTGGTCGTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
36182573 GATATCACAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 25 0.42
43 3 0.05
44 27 0.45
45 5 0.08
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAAATCG
Found at i:36184715 original size:24 final size:24
Alignment explanation
Indices: 36184684--36184729 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
36184674 TTTCATCCTA
*
36184684 AAAATTAAATATTA-TTGTAAAAAT
1 AAAATTAAA-ATTACATGTAAAAAT
36184708 AAAATTAAAATTACATGTAAAA
1 AAAATTAAAATTACATGTAAAA
36184730 GAGAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAATTAAAATTACATGTAAAAAT
Found at i:36184736 original size:25 final size:24
Alignment explanation
Indices: 36184684--36184737 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
36184674 TTTCATCCTA
* *
36184684 AAAATTAAATATTATTGTAAAAAT
1 AAAATTAAATATTAATGTAAAAAG
36184708 AAAATTAAA-ATTACATGTAAAAGAG
1 AAAATTAAATATTA-ATGTAAAA-AG
36184733 AAAAT
1 AAAAT
36184738 ATAAGTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 16 0.62
25 6 0.23
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (24 bp):
AAAATTAAATATTAATGTAAAAAG
Found at i:36194610 original size:22 final size:22
Alignment explanation
Indices: 36194582--36194646 Score: 80
Period size: 20 Copynumber: 3.0 Consensus size: 22
36194572 TCTGTCATAG
*
36194582 TCACACGGCCGTGTGCCTCCTT
1 TCACACGGGCGTGTGCCTCCTT
** *
36194604 TCACACGGGCGTACG-CT-TTT
1 TCACACGGGCGTGTGCCTCCTT
36194624 TCACACGGGCGTGTGCCTCCTT
1 TCACACGGGCGTGTGCCTCCTT
36194646 T
1 T
36194647 ACATAGGAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
20 15 0.44
21 4 0.12
22 15 0.44
ACGTcount: A:0.11, C:0.35, G:0.25, T:0.29
Consensus pattern (22 bp):
TCACACGGGCGTGTGCCTCCTT
Found at i:36194985 original size:21 final size:21
Alignment explanation
Indices: 36194961--36195000 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
36194951 ATTTGATTCC
36194961 GTATTCTATTTCTATATGCAT
1 GTATTCTATTTCTATATGCAT
36194982 GTATTCTATTTCTATATGC
1 GTATTCTATTTCTATATGC
36195001 CTGTCTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.53
Consensus pattern (21 bp):
GTATTCTATTTCTATATGCAT
Found at i:36200306 original size:31 final size:31
Alignment explanation
Indices: 36200268--36200330 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
36200258 ATATTCTAGC
36200268 TCCCCATAGTCTCCTTGTTATCTTTCTCTCT
1 TCCCCATAGTCTCCTTGTTATCTTTCTCTCT
36200299 TCCCCATAGTCTCCTTGTTATCTTTCTCTCT
1 TCCCCATAGTCTCCTTGTTATCTTTCTCTCT
36200330 T
1 T
36200331 GATGGATCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.10, C:0.35, G:0.06, T:0.49
Consensus pattern (31 bp):
TCCCCATAGTCTCCTTGTTATCTTTCTCTCT
Found at i:36204715 original size:21 final size:20
Alignment explanation
Indices: 36204677--36204716 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36204667 AATTTTAAAA
*
36204677 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
36204697 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
36204717 GGCGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:36211216 original size:4 final size:4
Alignment explanation
Indices: 36211207--36211231 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
36211197 TTTGCAACTT
36211207 TTAG TTAG TTAG TTAG TTAG TTAG T
1 TTAG TTAG TTAG TTAG TTAG TTAG T
36211232 ATAATCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TTAG
Found at i:36213915 original size:17 final size:17
Alignment explanation
Indices: 36213895--36213930 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
36213885 AACCACATAT
*
36213895 AATTTAGTCATTATCAC
1 AATTTACTCATTATCAC
36213912 AATTTACTCATTATCAC
1 AATTTACTCATTATCAC
36213929 AA
1 AA
36213931 ACATCCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (17 bp):
AATTTACTCATTATCAC
Found at i:36214661 original size:20 final size:20
Alignment explanation
Indices: 36214636--36214676 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
36214626 CTTAGAAGAA
36214636 TAGAGAAGACAATGTCTTTC
1 TAGAGAAGACAATGTCTTTC
36214656 TAGAGAAGACAATGTCTTTC
1 TAGAGAAGACAATGTCTTTC
36214676 T
1 T
36214677 CTTTCTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (20 bp):
TAGAGAAGACAATGTCTTTC
Found at i:36217347 original size:19 final size:20
Alignment explanation
Indices: 36217305--36217348 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
36217295 ATTATTATAC
*
36217305 AATA-ATATTTTAATTTTAG
1 AATATATATTTTAATTTTAA
*
36217324 GATATATATTTT-ATTTTAA
1 AATATATATTTTAATTTTAA
36217343 AATATA
1 AATATA
36217349 ATTATATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
AATATATATTTTAATTTTAA
Found at i:36217863 original size:40 final size:40
Alignment explanation
Indices: 36217819--36217918 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
36217809 AAAGAATACA
* *
36217819 AAAATTTCTAAGAGCATATTCTTA-AATATTTTGATATTTC
1 AAAATTTCTAAGAGCATATACATAGAA-ATTTTGATATTTC
* *
36217859 AAAATATCT-A-AGCATACGTACATAGAAATTTTGGTATTTC
1 AAAATTTCTAAGAGCATA--TACATAGAAATTTTGATATTTC
*
36217899 AAAATTTGTAAAGAGCATAT
1 AAAATTTCT-AAGAGCATAT
36217919 CATTAGCTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
38 6 0.12
39 1 0.02
40 31 0.65
41 3 0.06
42 1 0.02
43 6 0.12
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (40 bp):
AAAATTTCTAAGAGCATATACATAGAAATTTTGATATTTC
Found at i:36220899 original size:19 final size:19
Alignment explanation
Indices: 36220875--36220916 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
36220865 AAAAAGTTGG
36220875 AAATATAAACCCTTTAAGC
1 AAATATAAACCCTTTAAGC
36220894 AAATATAAACCCTTTAAGC
1 AAATATAAACCCTTTAAGC
36220913 AAAT
1 AAAT
36220917 TGAAAGTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATATAAACCCTTTAAGC
Found at i:36222016 original size:6 final size:6
Alignment explanation
Indices: 36222007--36222044 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
36221997 GCTTTTCATT
36222007 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
36222045 ACTATTACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:36222050 original size:6 final size:6
Alignment explanation
Indices: 36222041--36222087 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
36222031 TTTTTATTTT
*
36222041 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAT TATTA
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTA
36222088 TGTTTATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (6 bp):
TATTAC
Found at i:36222088 original size:6 final size:6
Alignment explanation
Indices: 36222010--36222106 Score: 63
Period size: 6 Copynumber: 16.2 Consensus size: 6
36222000 TTTCATTTTT
* * * * * * *
36222010 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTA CTATTA CTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * *
36222058 CTATTA CTATTA CTATTA CTATTA TTATTA TGT-TTA TTATGT- TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA T-TATTA TTAT-TA TTATTA
36222106 T
1 T
36222107 GTTTATGTAT
Statistics
Matches: 84, Mismatches: 3, Indels: 8
0.88 0.03 0.08
Matches are distributed among these distances:
5 2 0.02
6 80 0.95
7 2 0.02
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (6 bp):
TTATTA
Found at i:36222094 original size:9 final size:9
Alignment explanation
Indices: 36222082--36222112 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
36222072 ATTACTATTA
36222082 TTATTATGT
1 TTATTATGT
36222091 TTATTATGT
1 TTATTATGT
36222100 TTATTATGT
1 TTATTATGT
36222109 TTAT
1 TTAT
36222113 GTATACTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (9 bp):
TTATTATGT
Found at i:36227398 original size:205 final size:206
Alignment explanation
Indices: 36227035--36227445 Score: 815
Period size: 205 Copynumber: 2.0 Consensus size: 206
36227025 TTTAAGACAT
36227035 TTAAAAATTTATCATGCTACACATATTCATTAGTTGAGAATTTTCACAGCATTAAGAAATTAGCC
1 TTAAAAATTTATCATGCTACACATATTCATTAGTTGAGAATTTTCACAGCATTAAGAAATTAGCC
36227100 AAAAACCTATAATGAAAGAATATTTAGATTCAATATCATATCATAAATTAAGGCTAATTTAAAAG
66 AAAAACCTATAATGAAAGAATATTTAGATTCAATATCATATCATAAATTAAGGCTAATTTAAAAG
36227165 TTAATATAGATATGTGAAATATGCTAATACATGTCTATAGGTAGAATTAGAGCAACAAAATGATA
131 TTAATATAGATATGTGAAATATGCTAATACATGTCTATAGGTAGAATTAGAGCAACAAAATGATA
36227230 TTTTCTATTAA
196 TTTTCTATTAA
36227241 TTAAAAATTT-TCATGCTACACATATTCATTAGTTGAGAATTTTCACAGCATTAAGAAATTAGCC
1 TTAAAAATTTATCATGCTACACATATTCATTAGTTGAGAATTTTCACAGCATTAAGAAATTAGCC
36227305 AAAAACCTATAATGAAAGAATATTTAGATTCAATATCATATCATAAATTAAGGCTAATTTAAAAG
66 AAAAACCTATAATGAAAGAATATTTAGATTCAATATCATATCATAAATTAAGGCTAATTTAAAAG
36227370 TTAATATAGATATGTGAAATATGCTAATACATGTCTATAGGTAGAATTAGAGCAACAAAATGATA
131 TTAATATAGATATGTGAAATATGCTAATACATGTCTATAGGTAGAATTAGAGCAACAAAATGATA
36227435 TTTTCTATTAA
196 TTTTCTATTAA
36227446 AAAACATTTT
Statistics
Matches: 205, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
205 195 0.95
206 10 0.05
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.34
Consensus pattern (206 bp):
TTAAAAATTTATCATGCTACACATATTCATTAGTTGAGAATTTTCACAGCATTAAGAAATTAGCC
AAAAACCTATAATGAAAGAATATTTAGATTCAATATCATATCATAAATTAAGGCTAATTTAAAAG
TTAATATAGATATGTGAAATATGCTAATACATGTCTATAGGTAGAATTAGAGCAACAAAATGATA
TTTTCTATTAA
Found at i:36228340 original size:17 final size:17
Alignment explanation
Indices: 36228315--36228355 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
36228305 GCGGCACCAC
*
36228315 TATTTTTTTAATAAATTT
1 TATTTTTTTAA-AAATAT
36228333 TATTTTTTTAAAAATAT
1 TATTTTTTTAAAAATAT
36228350 TATTTT
1 TATTTT
36228356 ATTAGTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTTTTAAAAATAT
Found at i:36230073 original size:28 final size:29
Alignment explanation
Indices: 36230019--36230077 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
36230009 GCATTTCGTT
*
36230019 AAAAAAAATATCAACAGAGAATTTAAACAA
1 AAAAAAAATATAAACAGAGAA-TTAAACAA
36230049 AAAAAAAATA-AAACAGATGAA-TAAACAA
1 AAAAAAAATATAAACAGA-GAATTAAACAA
36230077 A
1 A
36230078 GTGAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 8 0.30
29 6 0.22
30 13 0.48
ACGTcount: A:0.71, C:0.08, G:0.07, T:0.14
Consensus pattern (29 bp):
AAAAAAAATATAAACAGAGAATTAAACAA
Found at i:36230895 original size:30 final size:29
Alignment explanation
Indices: 36230851--36230910 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
36230841 TAATTTTTAA
*
36230851 ATGTAGTGTTTTTTAAAAATAAAAAAATAT
1 ATGTAGTGTATTTTAAAAAT-AAAAAATAT
*
36230881 ATGTGGTGTATTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
36230910 A
1 A
36230911 GTTTATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (29 bp):
ATGTAGTGTATTTTAAAAATAAAAAATAT
Found at i:36231199 original size:23 final size:23
Alignment explanation
Indices: 36231154--36231204 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
36231144 AAAGAATAGG
* *
36231154 GAAAGAAAGGAGAGGAAGGAGAA
1 GAAAGAAAGAAGAGGAAGAAGAA
* *
36231177 GAAAGAAAGAAGATGTAGAAGAA
1 GAAAGAAAGAAGAGGAAGAAGAA
*
36231200 AAAAG
1 GAAAG
36231205 GAAAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (23 bp):
GAAAGAAAGAAGAGGAAGAAGAA
Done.