Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 113 of 226
Found at i:35228148 original size:40 final size:40
Alignment explanation
Indices: 35227993--35228215 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
35227983 TTGAATGATG
* * * *
35227993 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
35228033 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35228072 TCCGGGTTAAGT-CCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35228110 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35228150 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35228191 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35228216 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
37 13 0.08
38 24 0.14
39 19 0.11
40 100 0.60
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35231924 original size:24 final size:24
Alignment explanation
Indices: 35231892--35231945 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
35231882 CATGGAAATG
* *
35231892 AATTCCTACAAGTGGCCAAACAAA
1 AATTCCTACAACTGACCAAACAAA
35231916 AATTCCTACAACTGACCAAACAAA
1 AATTCCTACAACTGACCAAACAAA
35231940 AGATTC
1 A-ATTC
35231946 ACTTACGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.19
Consensus pattern (24 bp):
AATTCCTACAACTGACCAAACAAA
Found at i:35233787 original size:42 final size:42
Alignment explanation
Indices: 35233733--35233836 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 42
35233723 AGGATACGGT
* * * **
35233733 GGAATCAGCACTTAGCAACCACCTTTAGAATAGATAATTTGG
1 GGAATCAACACTTAGCAACCAACTTTAGAATAAATAATTCAG
* *
35233775 GGAATCAACACTTACCAACCAACTTTAGAATAAATAATTCAT
1 GGAATCAACACTTAGCAACCAACTTTAGAATAAATAATTCAG
*
35233817 GGAATCACCACTTAGCAACC
1 GGAATCAACACTTAGCAACC
35233837 CCTCGGGTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.24
Consensus pattern (42 bp):
GGAATCAACACTTAGCAACCAACTTTAGAATAAATAATTCAG
Found at i:35233896 original size:41 final size:41
Alignment explanation
Indices: 35233839--35234029 Score: 244
Period size: 41 Copynumber: 4.7 Consensus size: 41
35233829 TAGCAACCCC
*
35233839 TCGGGTAATCTGCACTTAGCAACCCCTTTTTTATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTTATCAGAGTT
* *
35233880 TCGGGGAATTTGCACTTAGCAACCCCATTTTTATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTTATCAGAGTT
* * *
35233921 TCAGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTTATCAGAG-TT
* * * *
35233963 T-GGGGTATCTGCATTTAGCAA-CCCTTTTTTGATCAGTGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTT-ATCAGAGTT
*
35234003 TCGGGGAA-CTGCACTTAGCAGCCCCTT
1 TCGGGGAATCTGCACTTAGCAACCCCTT
35234030 ACATTCAATG
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
40 21 0.16
41 106 0.82
42 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (41 bp):
TCGGGGAATCTGCACTTAGCAACCCCTTTTTTATCAGAGTT
Found at i:35240399 original size:257 final size:258
Alignment explanation
Indices: 35239924--35240450 Score: 876
Period size: 257 Copynumber: 2.0 Consensus size: 258
35239914 AACACAATTT
* *
35239924 AAATTGTCAGAAATCATCACACTATCACAATATATCTATGGCATGTATAGATGGACTTTCACACA
1 AAATTTTCAGAAATCAT-ACACTATCACAATATATCTATAGCATGTATAGATGGACTTTCACACA
35239989 CATTAAATTAATCCGAGAACTGACTAAACCATAGCTCTGATACCACTAAAATGTAACACCCCTTA
65 CATTAAATTAATCCGAGAACTGACTAAACCATAGCTCTGATACCACTAAAATGTAACACCCCTTA
* * * *
35240054 CTCGTGTTCCTCACCGGAACAGAGTATGAGGTATTACTAGAACACAAACACTTGTAATTGTTCCA
130 CTCATGTTCCTCACCGGAACAGAGTATAAGGTATTACTAGAACACAAACACTTCTAATCGTTCCA
* * * *
35240119 ACTCAGATTTTTTTTTACGAAAATTTTGACATAATCCCCTTTATAAATATGTAACCTCACCTAC
195 ACTAAGATTTTTTTTAACGAAAATTTTGACATAATCCCCTTTATAAAGAAGTAACCTCACCTAC
35240183 AAATTTTCAGAAATCAT-CACTATCACAATATATCTATAGCATGTATAGATGGACTTTCACACAC
1 AAATTTTCAGAAATCATACACTATCACAATATATCTATAGCATGTATAGATGGACTTTCACACAC
* *
35240247 ATTAAATTAATCTGAGAACTGATTAAACCATAGCTCTGATACCACTAAAATGTAACACCCCTTAC
66 ATTAAATTAATCCGAGAACTGACTAAACCATAGCTCTGATACCACTAAAATGTAACACCCCTTAC
* * * * *
35240312 TTATGTTCCTCGCCGGAACAGAGTATAAGGTATTACTAGAGCACAAACACTTCTCATCGTTCGAA
131 TCATGTTCCTCACCGGAACAGAGTATAAGGTATTACTAGAACACAAACACTTCTAATCGTTCCAA
*
35240377 CTAAGATTTTTTTTAACGAAAATTTTGACATAATCTCCTTTATAAAGAAGTAACCTCACCTAC
196 CTAAGATTTTTTTTAACGAAAATTTTGACATAATCCCCTTTATAAAGAAGTAACCTCACCTAC
35240440 AAATTTTCAGA
1 AAATTTTCAGA
35240451 TGGTAACCCA
Statistics
Matches: 250, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
257 234 0.94
259 16 0.06
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (258 bp):
AAATTTTCAGAAATCATACACTATCACAATATATCTATAGCATGTATAGATGGACTTTCACACAC
ATTAAATTAATCCGAGAACTGACTAAACCATAGCTCTGATACCACTAAAATGTAACACCCCTTAC
TCATGTTCCTCACCGGAACAGAGTATAAGGTATTACTAGAACACAAACACTTCTAATCGTTCCAA
CTAAGATTTTTTTTAACGAAAATTTTGACATAATCCCCTTTATAAAGAAGTAACCTCACCTAC
Found at i:35244731 original size:16 final size:17
Alignment explanation
Indices: 35244710--35244742 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35244700 TCTCAAATTT
*
35244710 CTTAAA-CCTTAAAACC
1 CTTAAATCCTAAAAACC
35244726 CTTAAATCCTAAAAACC
1 CTTAAATCCTAAAAACC
35244743 TTATCTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.24
Consensus pattern (17 bp):
CTTAAATCCTAAAAACC
Found at i:35246179 original size:28 final size:28
Alignment explanation
Indices: 35246126--35246179 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
35246116 TTGTATAAGT
* *
35246126 TATTAAACATTATAAAAAATTGAAAAAA
1 TATTAAACATCATAAAAAATTAAAAAAA
*
35246154 TATTAAA-ATCATAAAATTATTAAAAA
1 TATTAAACATCATAAAA-AATTAAAAA
35246180 CAACTGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (28 bp):
TATTAAACATCATAAAAAATTAAAAAAA
Found at i:35247808 original size:24 final size:24
Alignment explanation
Indices: 35247781--35247854 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
35247771 CATCTAGAGC
35247781 ATGAAGAAGAGAAGCAAGAGAGTG
1 ATGAAGAAGAGAAGCAAGAGAGTG
35247805 ATG-AGCAAGAAGAAAGCAAG-GA-TG
1 ATGAAG-AAG-AG-AAGCAAGAGAGTG
*
35247829 AGGAAG--GAGAAGCAAGAGAGTG
1 ATGAAGAAGAGAAGCAAGAGAGTG
35247851 ATGA
1 ATGA
35247855 GCAAGAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
20 7 0.17
21 4 0.10
22 6 0.14
23 2 0.05
24 10 0.24
25 6 0.14
26 7 0.17
ACGTcount: A:0.49, C:0.05, G:0.38, T:0.08
Consensus pattern (24 bp):
ATGAAGAAGAGAAGCAAGAGAGTG
Found at i:35247830 original size:21 final size:21
Alignment explanation
Indices: 35247804--35247885 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 21
35247794 GCAAGAGAGT
35247804 GATGAGCAAGAAGAAAGCAAG
1 GATGAGCAAGAAGAAAGCAAG
* *
35247825 GATGAGGAAGGAG-AAGCAAGAGAG
1 GATGAGCAAGAAGAAAGC---A-AG
35247849 TGATGAGCAAGAAGAAAGCAAG
1 -GATGAGCAAGAAGAAAGCAAG
* *
35247871 GATGAGGAAGGAGAA
1 GATGAGCAAGAAGAA
35247886 GGGAATGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
20 4 0.08
21 24 0.49
22 2 0.04
23 2 0.04
24 2 0.04
25 11 0.22
26 4 0.08
ACGTcount: A:0.49, C:0.06, G:0.39, T:0.06
Consensus pattern (21 bp):
GATGAGCAAGAAGAAAGCAAG
Found at i:35247856 original size:46 final size:46
Alignment explanation
Indices: 35247781--35247886 Score: 196
Period size: 46 Copynumber: 2.3 Consensus size: 46
35247771 CATCTAGAGC
*
35247781 ATGAAGAA-GAGAAGCAAGAGAGTGATGAGCAAGAAGAAAGCAAGG
1 ATGAGGAAGGAGAAGCAAGAGAGTGATGAGCAAGAAGAAAGCAAGG
35247826 ATGAGGAAGGAGAAGCAAGAGAGTGATGAGCAAGAAGAAAGCAAGG
1 ATGAGGAAGGAGAAGCAAGAGAGTGATGAGCAAGAAGAAAGCAAGG
35247872 ATGAGGAAGGAGAAG
1 ATGAGGAAGGAGAAG
35247887 GGAATGAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
45 7 0.12
46 52 0.88
ACGTcount: A:0.49, C:0.06, G:0.39, T:0.07
Consensus pattern (46 bp):
ATGAGGAAGGAGAAGCAAGAGAGTGATGAGCAAGAAGAAAGCAAGG
Found at i:35248007 original size:18 final size:17
Alignment explanation
Indices: 35247941--35248007 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
35247931 TTGTAATTTT
*
35247941 TAATGTTTATTTTTGGA
1 TAATGTTTATTTTGGGA
*
35247958 GT-TTGTATTAATTTTGGGA
1 -TAATGT-TT-ATTTTGGGA
* *
35247977 TAATTTTTTTTTTGGGGA
1 TAATGTTTATTTT-GGGA
35247995 TAATGTTTATTTT
1 TAATGTTTATTTT
35248008 CTTTTCAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 7 0.18
18 21 0.55
19 10 0.26
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (17 bp):
TAATGTTTATTTTGGGA
Found at i:35251875 original size:30 final size:30
Alignment explanation
Indices: 35251821--35252226 Score: 328
Period size: 30 Copynumber: 13.6 Consensus size: 30
35251811 TTCGATAGCT
* ** * *
35251821 GAAGCTATCCCTTCCCATATTTTGATAGTT
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
* *
35251851 GAAGCCATCCCTTGTCATAATTTGATGGTC
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
* * * *
35251881 GTCA-CCATCTCTTTTCAT--TGTTGATGGTT
1 G-AAGCCATCCCTTTTCATAAT-TTGATAGTC
*
35251910 GTTA-CCATCCCTTTTCATAATTTGATAGTC
1 G-AAGCCATCCCTTTTCATAATTTGATAGTC
* * *
35251940 GAAGCCATCCCTTGTCATAATTCGATGGTC
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
* * * *
35251970 G-TGACCATCTCTTTTCAT--TGTTGATGGTT
1 GAAG-CCATCCCTTTTCATAAT-TTGATAGTC
* *
35251999 GTTA-CCATCCCTTTTCATAATTTGATAGCC
1 G-AAGCCATCCCTTTTCATAATTTGATAGTC
** *
35252029 GAAGCCATCCCTTTTCATAATTCAATAGTT
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
* * * *
35252059 GAAGCTATCCTTTTTCATAATTCGATAGCC
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
* *
35252089 GAAGCTACCCCTTTTCATAATTTGATAGTC
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
**
35252119 GAAGTTATCCCTTTTCATAATTTGATAGAT-
1 GAAGCCATCCCTTTTCATAATTTGATAG-TC
* * *
35252149 GAA-CTCATCTCTTTCCATATTTTGATAGTC
1 GAAGC-CATCCCTTTTCATAATTTGATAGTC
* * *
35252179 GAAGCCATCCCTTTCCATATTTTGATAGCC
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
35252209 GAAGCCATCCCTTTTCAT
1 GAAGCCATCCCTTTTCAT
35252227 TAGTCGATGA
Statistics
Matches: 308, Mismatches: 52, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.01
29 49 0.16
30 252 0.82
31 5 0.02
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (30 bp):
GAAGCCATCCCTTTTCATAATTTGATAGTC
Found at i:35251938 original size:89 final size:89
Alignment explanation
Indices: 35251827--35252051 Score: 378
Period size: 89 Copynumber: 2.5 Consensus size: 89
35251817 AGCTGAAGCT
** * * *
35251827 ATCCCTTCCCATATTTTGATAGTTGAAGCCATCCCTTGTCATAATTTGATGGTCGTCACCATCTC
1 ATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTGTCATAATTCGATGGTCGTCACCATCTC
35251892 TTTTCATTGTTGATGGTTGTTACC
66 TTTTCATTGTTGATGGTTGTTACC
*
35251916 ATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTGTCATAATTCGATGGTCGTGACCATCTC
1 ATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTGTCATAATTCGATGGTCGTCACCATCTC
35251981 TTTTCATTGTTGATGGTTGTTACC
66 TTTTCATTGTTGATGGTTGTTACC
* *
35252005 ATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATAATTC
1 ATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTGTCATAATTC
35252052 AATAGTTGAA
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 128 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (89 bp):
ATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTGTCATAATTCGATGGTCGTCACCATCTC
TTTTCATTGTTGATGGTTGTTACC
Found at i:35259602 original size:30 final size:29
Alignment explanation
Indices: 35259568--35259644 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
35259558 ATAGCCAGAG
**
35259568 CCATCCCTTTTCATAATTTAATTATTGTCA
1 CCATCCCTTTTCATAATTTAA-TATCCTCA
* *
35259598 CCATCCCTTTTCAT--TGTTGATGTCCTCA
1 CCATCCCTTTTCATAAT-TTAATATCCTCA
35259626 CCATCCCTTTTCATAATTT
1 CCATCCCTTTTCATAATTT
35259645 GATAGCCGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 20 0.50
29 5 0.12
30 15 0.38
ACGTcount: A:0.21, C:0.29, G:0.05, T:0.45
Consensus pattern (29 bp):
CCATCCCTTTTCATAATTTAATATCCTCA
Found at i:35259662 original size:30 final size:29
Alignment explanation
Indices: 35259534--35259666 Score: 89
Period size: 30 Copynumber: 4.5 Consensus size: 29
35259524 TTCGATAGTT
* * * *
35259534 CAAGCTATCCCTTTCCGTATTTTGATAGC
1 CAAGCCATCCCTTTTCATAATTTGATAGC
* *
35259563 CAGAGCCATCCCTTTTCATAATTTAATTATTGT
1 CA-AGCCATCCCTTTTCATAATTTGA-TA--GC
35259596 C-A-CCATCCCTTTTCAT--TGTTGAT-GTC
1 CAAGCCATCCCTTTTCATAAT-TTGATAG-C
*
35259622 CTCA-CCATCCCTTTTCATAATTTGATAGC
1 C-AAGCCATCCCTTTTCATAATTTGATAGC
35259651 CGAAGCCATCCCTTTT
1 C-AAGCCATCCCTTTT
35259667 TTAAATTCGA
Statistics
Matches: 82, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
28 17 0.21
29 13 0.16
30 45 0.55
31 3 0.04
33 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.11, T:0.39
Consensus pattern (29 bp):
CAAGCCATCCCTTTTCATAATTTGATAGC
Found at i:35259690 original size:30 final size:29
Alignment explanation
Indices: 35259594--35259715 Score: 79
Period size: 29 Copynumber: 4.2 Consensus size: 29
35259584 TTTAATTATT
* ** *
35259594 GTCACCATCCCTTTTCATTGTTGAT-GTC
1 GTCACCATCCTTTTTCATAATTCATGGTC
* * * * *
35259622 CTCACCATCCCTTTTCATAATTTGATAGCC
1 GTCACCATCCTTTTTCATAA-TTCATGGTC
* *
35259652 G-AAGCCATCCCTTTTTTA-AATTCGATGGTC
1 GTCA-CCAT-CCTTTTTCATAATTC-ATGGTC
*
35259682 GTCACCATCCTTTTTCATTATTCATGGTC
1 GTCACCATCCTTTTTCATAATTCATGGTC
35259711 GTCAC
1 GTCAC
35259716 TGTCCATTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
28 17 0.23
29 27 0.37
30 21 0.29
31 8 0.11
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (29 bp):
GTCACCATCCTTTTTCATAATTCATGGTC
Found at i:35262715 original size:22 final size:23
Alignment explanation
Indices: 35262674--35262720 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
35262664 ATACAAGCAC
*
35262674 TTTTATCATGTTTTAGTTAAGTT
1 TTTTATCATGTTTTAGTTAAATT
35262697 TTTTAT-AT-TTTTAGTTTAAATT
1 TTTTATCATGTTTTAG-TTAAATT
35262719 TT
1 TT
35262721 ATAAAAAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 10 0.45
23 6 0.27
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (23 bp):
TTTTATCATGTTTTAGTTAAATT
Found at i:35262720 original size:21 final size:23
Alignment explanation
Indices: 35262674--35262720 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 23
35262664 ATACAAGCAC
*
35262674 TTTTATCATGTTTTAGTTAAGTT
1 TTTTATCATGTTTTAGTTAAGAT
35262697 TTTTAT-AT-TTTTAGTTTAA-AT
1 TTTTATCATGTTTTAG-TTAAGAT
35262718 TTT
1 TTT
35262721 ATAAAAAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 10 0.45
22 6 0.27
23 6 0.27
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (23 bp):
TTTTATCATGTTTTAGTTAAGAT
Found at i:35263774 original size:27 final size:25
Alignment explanation
Indices: 35263744--35263798 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
35263734 CTCTTTCGAG
* *
35263744 TTAATAAATTCTCTTTGGGTTTTTCTT
1 TTAAGAAATTCTC-TTGAG-TTTTCTT
*
35263771 TTAAGAATTTCTCTTGAGTTTTCTT
1 TTAAGAAATTCTCTTGAGTTTTCTT
35263796 TTA
1 TTA
35263799 GAAGAGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 4 0.16
27 11 0.44
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.58
Consensus pattern (25 bp):
TTAAGAAATTCTCTTGAGTTTTCTT
Found at i:35264002 original size:13 final size:13
Alignment explanation
Indices: 35263979--35264034 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
35263969 TATTTTATTC
* *
35263979 TCTTCTTTATTTT
1 TCTTATTTATTTA
35263992 TC-TATTTTATTTA
1 TCTTA-TTTATTTA
35264005 TCTTATTTATTTA
1 TCTTATTTATTTA
* *
35264018 TTTTAATTATTTTA
1 TCTTATTTA-TTTA
35264032 TCT
1 TCT
35264035 AACTTGGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
12 1 0.03
13 26 0.74
14 8 0.23
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (13 bp):
TCTTATTTATTTA
Found at i:35266085 original size:25 final size:24
Alignment explanation
Indices: 35266057--35266104 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
35266047 CTCAATATAA
35266057 AGTTTCTATCATTTTCACAATCTAT
1 AGTTTCTATCATTTTCAC-ATCTAT
**
35266082 AGTTTCTATTGTTTTCACATCTA
1 AGTTTCTATCATTTTCACATCTA
35266105 AAGATCACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (24 bp):
AGTTTCTATCATTTTCACATCTAT
Found at i:35268508 original size:18 final size:20
Alignment explanation
Indices: 35268471--35268509 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
35268461 GTAGGACTTG
35268471 TATACTGTATAATCTGTTAC
1 TATACTGTATAATCTGTTAC
*
35268491 TATACTG-ATTAT-TGTTAC
1 TATACTGTATAATCTGTTAC
35268509 T
1 T
35268510 GTAATGGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (20 bp):
TATACTGTATAATCTGTTAC
Found at i:35268855 original size:15 final size:15
Alignment explanation
Indices: 35268836--35268868 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
35268826 TTGGATTTAT
35268836 ATTTTTAAT-TTTGG
1 ATTTTTAATCTTTGG
*
35268850 ATTTTTAATCTTTTG
1 ATTTTTAATCTTTGG
35268865 ATTT
1 ATTT
35268869 ATAACTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (15 bp):
ATTTTTAATCTTTGG
Found at i:35269208 original size:25 final size:25
Alignment explanation
Indices: 35269171--35269218 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
35269161 GGCTGAGTTG
35269171 GGGTGTTAAATTTAGTGGTATCAAA
1 GGGTGTTAAATTTAGTGGTATCAAA
*
35269196 GGGTGTTACATTTAGTGGTATCA
1 GGGTGTTAAATTTAGTGGTATCA
35269219 GAGTCAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.06, G:0.29, T:0.38
Consensus pattern (25 bp):
GGGTGTTAAATTTAGTGGTATCAAA
Found at i:35269416 original size:25 final size:25
Alignment explanation
Indices: 35269388--35269436 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
35269378 CTTATTTTGA
*
35269388 TAGTATATCCTGAAACTACTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
35269413 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
35269437 ATAGGCTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:35269448 original size:25 final size:25
Alignment explanation
Indices: 35269386--35269452 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
35269376 AACTTATTTT
* *
35269386 GATAGTATATCCTGAAACTACTATA
1 GATAGGATATACTGAAACTACTATA
* * *
35269411 GGTAGTATATACTGAGACTACTATA
1 GATAGGATATACTGAAACTACTATA
* *
35269436 GATAGGCTGTACTGAAA
1 GATAGGATATACTGAAA
35269453 ACACTTAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (25 bp):
GATAGGATATACTGAAACTACTATA
Found at i:35275937 original size:78 final size:78
Alignment explanation
Indices: 35275808--35275966 Score: 291
Period size: 78 Copynumber: 2.0 Consensus size: 78
35275798 TAAATGTTCC
*
35275808 AATTAAAACTTTTACTGTTGCGTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTAGTTAG
1 AATTAAAACTTTTACTGTTGCGTTAGAAATATATTGTTTGACATTAAGTTAGTCTCCCTAGTTAG
35275873 AAATTTTATCAAA
66 AAATTTTATCAAA
* *
35275886 AATTAGAACTTTTACTGTTGCGTTAGAAATCTATTGTTTGACATTAAGTTAGTCTCCCTAGTTAG
1 AATTAAAACTTTTACTGTTGCGTTAGAAATATATTGTTTGACATTAAGTTAGTCTCCCTAGTTAG
35275951 AAATTTTATCAAA
66 AAATTTTATCAAA
35275964 AAT
1 AAT
35275967 GCCTCCGAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (78 bp):
AATTAAAACTTTTACTGTTGCGTTAGAAATATATTGTTTGACATTAAGTTAGTCTCCCTAGTTAG
AAATTTTATCAAA
Found at i:35276935 original size:24 final size:24
Alignment explanation
Indices: 35276903--35276952 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
35276893 AAAAAAAAAG
35276903 AATTTGGCGAGAGTAGCATTCCAC
1 AATTTGGCGAGAGTAGCATTCCAC
35276927 AATTTGGCGAGAGTAGCATTCCAC
1 AATTTGGCGAGAGTAGCATTCCAC
35276951 AA
1 AA
35276953 AAAAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (24 bp):
AATTTGGCGAGAGTAGCATTCCAC
Found at i:35279855 original size:17 final size:17
Alignment explanation
Indices: 35279833--35279867 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35279823 AAGATGATAG
35279833 TCTTTT-CATCTTTTAAT
1 TCTTTTACAT-TTTTAAT
35279850 TCTTTTACATTTTTAAT
1 TCTTTTACATTTTTAAT
35279867 T
1 T
35279868 AATTATCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (17 bp):
TCTTTTACATTTTTAAT
Found at i:35280858 original size:16 final size:17
Alignment explanation
Indices: 35280837--35280871 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
35280827 TTATATTTTT
*
35280837 AAAAAACGAAAATA-AA
1 AAAAAAAGAAAATAGAA
35280853 AAAAAAAGAAAATAGAA
1 AAAAAAAGAAAATAGAA
35280870 AA
1 AA
35280872 CGAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.83, C:0.03, G:0.09, T:0.06
Consensus pattern (17 bp):
AAAAAAAGAAAATAGAA
Found at i:35286548 original size:17 final size:18
Alignment explanation
Indices: 35286498--35286548 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
35286488 AATATTTTAT
* * *
35286498 ATAAATTTTTATTTTAAT
1 ATAAATATTTATTATAAC
35286516 ATAAATATTGTA-TATAAC
1 ATAAATATT-TATTATAAC
35286534 AT-AATATTTATTATA
1 ATAAATATTTATTATA
35286549 TGTAATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 2 0.07
17 10 0.36
18 14 0.50
19 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
ATAAATATTTATTATAAC
Found at i:35287371 original size:17 final size:16
Alignment explanation
Indices: 35287330--35287367 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
35287320 TTTAAACTCA
35287330 AATTTTCTTGAGTTTG
1 AATTTTCTTGAGTTTG
*
35287346 AACTTTCTTGAGTTTG
1 AATTTTCTTGAGTTTG
35287362 AATTTT
1 AATTTT
35287368 TCTTATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (16 bp):
AATTTTCTTGAGTTTG
Found at i:35292662 original size:18 final size:16
Alignment explanation
Indices: 35292639--35292673 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
35292629 CCTTGACTAA
35292639 CTATCCAATTAATAAAAT
1 CTATCCAA-TAA-AAAAT
35292657 CTATCCAATAAAAAAT
1 CTATCCAATAAAAAAT
35292673 C
1 C
35292674 ACCATAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (16 bp):
CTATCCAATAAAAAAT
Found at i:35293621 original size:17 final size:19
Alignment explanation
Indices: 35293587--35293624 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35293577 AACTCCATTA
35293587 CAAACTATATACATTTAAC
1 CAAACTATATACATTTAAC
*
35293606 CAAATTATA-ACA-TTAAC
1 CAAACTATATACATTTAAC
35293623 CA
1 CA
35293625 TTAAACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (19 bp):
CAAACTATATACATTTAAC
Found at i:35294509 original size:86 final size:86
Alignment explanation
Indices: 35294361--35294641 Score: 273
Period size: 86 Copynumber: 3.3 Consensus size: 86
35294351 ATCTGGCACT
* * * *
35294361 GTAGTGTATCATCGGATAAACT-GAAGGAAATATACTGACATATACAGTGCATCATCAGACAAGC
1 GTAGTGCATCATCAGATAAACTAGAAGGAAATATACTGACACACACAGTGCATCATCA-ACAAGC
* *
35294425 CAAAGCAATTATACTATCACAT
65 CAAAGCAATTATACTAGCACAC
* * * *
35294447 GTAGTGCATCATCAGATAAA-TAGAAAGAAATATAATGTCACACATAGTGCATCATCGAACAAGC
1 GTAGTGCATCATCAGATAAACTAGAAGGAAATATACTGACACACACAGTGCATCATC-AACAAGC
* * **
35294511 CGAAGCGATTATACTAGCATGC
65 CAAAGCAATTATACTAGCACAC
** * * * * ***
35294533 GTAGTGCATCATTGGATAAACCA-AAGGAAACATACTGGCACAGACAACACATCATCAAACAAGC
1 GTAGTGCATCATCAGATAAACTAGAAGGAAATATACTGACACACACAGTGCATCATC-AACAAGC
*
35294597 TGAAA-CAATTATACTAGCACAC
65 -CAAAGCAATTATACTAGCACAC
*
35294619 GCAGTGCATCATCAGATAAACTA
1 GTAGTGCATCATCAGATAAACTA
35294642 AAGCAATTAT
Statistics
Matches: 155, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
85 1 0.01
86 150 0.97
87 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (86 bp):
GTAGTGCATCATCAGATAAACTAGAAGGAAATATACTGACACACACAGTGCATCATCAACAAGCC
AAAGCAATTATACTAGCACAC
Found at i:35294649 original size:43 final size:43
Alignment explanation
Indices: 35294405--35294762 Score: 135
Period size: 43 Copynumber: 8.4 Consensus size: 43
35294395 CTGACATATA
* * * *
35294405 CAGTGCATCATCAGACAAGCCAAAGCAATTATACTATCACATG
1 CAGTGCATCATCAGATAAACCAAAGCAATTATACTAGCACACG
* ** * * *
35294448 TAGTGCATCATCAGATAAATAGAAAG-AAATATAAT-GTCACACA
1 CAGTGCATCATCAGATAAA-CCAAAGCAATTATACTAG-CACACG
* * * **
35294491 TAGTGCATCATC-GA-ACAAGCCGAAGCGATTATACTAGCATGCG
1 CAGTGCATCATCAGATA-AA-CCAAAGCAATTATACTAGCACACG
* ** * ** *
35294534 TAGTGCATCATTGGATAAACCAAAGGAAACATACTGGCACA-G
1 CAGTGCATCATCAGATAAACCAAAGCAATTATACTAGCACACG
*** * * * *
35294576 ACAACACATCATCAAACAAGCTGAAA-CAATTATACTAGCACACG
1 -CAGTGCATCATCAGATAAAC-CAAAGCAATTATACTAGCACACG
* * *
35294620 CAGTGCATCATCAGATAAACTAAAGCAATTATGC-AG-GCACG
1 CAGTGCATCATCAGATAAACCAAAGCAATTATACTAGCACACG
* * * ** * * * *
35294661 TAAGTGCATCACCGGATGTACC-GAGAAAATATACT-G-ACACAT
1 -CAGTGCATCATCAGATAAACCAAAGCAATTATACTAGCACAC-G
* * * * * * *
35294703 AAATGCATCATCGGATATACCAAAGCAATTATACTGGCACGCA
1 CAGTGCATCATCAGATAAACCAAAGCAATTATACTAGCACACG
35294746 CAGTGCATCATCAGATA
1 CAGTGCATCATCAGATA
35294763 TACCGGAGTA
Statistics
Matches: 223, Mismatches: 75, Indels: 34
0.67 0.23 0.10
Matches are distributed among these distances:
41 35 0.16
42 38 0.17
43 133 0.60
44 16 0.07
45 1 0.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (43 bp):
CAGTGCATCATCAGATAAACCAAAGCAATTATACTAGCACACG
Found at i:35297287 original size:15 final size:15
Alignment explanation
Indices: 35297267--35297297 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35297257 TTCCGATCCT
35297267 TGATGATGATGATAA
1 TGATGATGATGATAA
35297282 TGATGATGATGATAA
1 TGATGATGATGATAA
35297297 T
1 T
35297298 AAACTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
TGATGATGATGATAA
Found at i:35302431 original size:37 final size:37
Alignment explanation
Indices: 35302381--35302459 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35302371 TTATTACGAA
* * *
35302381 GTCTTACCCGGACACAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
35302418 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
35302455 GTCTT
1 GTCTT
35302460 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:35302656 original size:47 final size:47
Alignment explanation
Indices: 35302578--35302800 Score: 331
Period size: 47 Copynumber: 4.7 Consensus size: 47
35302568 CCCTTCGGGA
* * * * * *
35302578 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35302625 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35302672 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35302719 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35302766 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
35302801 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.01
47 161 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35308143 original size:11 final size:11
Alignment explanation
Indices: 35308129--35308204 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
35308119 GATAATCACT
35308129 TTAATATTAAA
1 TTAATATTAAA
35308140 TTAATA--AAA
1 TTAATATTAAA
35308149 -TAATATTAAGA
1 TTAATATTAA-A
35308160 -TAAGTATTAAA
1 TTAA-TATTAAA
35308171 TTAA-ATTTAATA
1 TTAATA-TTAA-A
35308183 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
35308196 ATAATATTA
1 TTAATATTA
35308205 TTTTTAGAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
8 5 0.09
9 3 0.06
10 3 0.06
11 20 0.37
12 14 0.26
13 4 0.07
14 4 0.07
15 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:35311243 original size:16 final size:16
Alignment explanation
Indices: 35311222--35311262 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
35311212 ATATTTGATA
35311222 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
35311238 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
35311254 TAGTTTTAA
1 TAATTTTAA
35311263 GAAAAAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:35314953 original size:13 final size:14
Alignment explanation
Indices: 35314928--35314956 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35314918 ATTAAAATGT
35314928 CTAAGTCTAGCTAG
1 CTAAGTCTAGCTAG
35314942 CTAAGT-TAGCTAG
1 CTAAGTCTAGCTAG
35314955 CT
1 CT
35314957 GATTCGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (14 bp):
CTAAGTCTAGCTAG
Found at i:35319733 original size:19 final size:20
Alignment explanation
Indices: 35319705--35319742 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
35319695 AATAATTTAT
*
35319705 ATATTTTTATTTTT-TAATA
1 ATATTATTATTTTTCTAATA
35319724 ATATTATTATTTTTCTAAT
1 ATATTATTATTTTTCTAAT
35319743 TTTCAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
ATATTATTATTTTTCTAATA
Found at i:35320013 original size:42 final size:42
Alignment explanation
Indices: 35319950--35320029 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
35319940 AACAATGGTA
* **
35319950 AAATAATTTAATTGATGTATTTTTTTAATTTAAGTATTTGAT
1 AAATAATTTAATTGATATATTTTTACAATTTAAGTATTTGAT
*
35319992 AAATAATTTAATTGATATATTTTTACAGTTTAAGTATT
1 AAATAATTTAATTGATATATTTTTACAATTTAAGTATT
35320030 CAATTAAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.38, C:0.01, G:0.09, T:0.53
Consensus pattern (42 bp):
AAATAATTTAATTGATATATTTTTACAATTTAAGTATTTGAT
Found at i:35321186 original size:16 final size:16
Alignment explanation
Indices: 35321165--35321198 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35321155 ACTATTTTTT
35321165 AAATATAAAATTAAAA
1 AAATATAAAATTAAAA
* *
35321181 AAATATTAACTTAAAA
1 AAATATAAAATTAAAA
35321197 AA
1 AA
35321199 TAGTTATTAT
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATATAAAATTAAAA
Found at i:35321389 original size:36 final size:39
Alignment explanation
Indices: 35321327--35321398 Score: 105
Period size: 36 Copynumber: 1.9 Consensus size: 39
35321317 AAAAATAGTT
*
35321327 TTTTTAAAATTCTATTTATCTAATTAAACATTTATTTAA
1 TTTTTAAAATTCTATTTACCTAATTAAACATTTATTTAA
*
35321366 TTTTT-AAATT-T-TTTACCTAATTAAATATTTATT
1 TTTTTAAAATTCTATTTACCTAATTAAACATTTATT
35321399 AAGTTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 20 0.65
37 1 0.03
38 5 0.16
39 5 0.16
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (39 bp):
TTTTTAAAATTCTATTTACCTAATTAAACATTTATTTAA
Found at i:35321776 original size:20 final size:20
Alignment explanation
Indices: 35321732--35321776 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
35321722 TAGTCACTTA
*
35321732 TGTTTGAAACGTTACGTCTT
1 TGTTAGAAACGTTACGTCTT
*
35321752 AGTTAGAAACGTTATCGT-TT
1 TGTTAGAAACGTTA-CGTCTT
35321772 TGTTA
1 TGTTA
35321777 CGAAGTGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (20 bp):
TGTTAGAAACGTTACGTCTT
Found at i:35324183 original size:26 final size:26
Alignment explanation
Indices: 35324147--35324198 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
35324137 CACCACTGAA
* *
35324147 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
35324173 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
35324199 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:35324275 original size:70 final size:71
Alignment explanation
Indices: 35324159--35324309 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
35324149 GGGGAATCAT
*
35324159 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
35324223 ATATCG
66 ATATCG
* ***
35324229 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
35324294 GATATCG
65 GATATCG
35324301 CACTTAGCA
1 CACTTAGCA
35324310 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:35324352 original size:104 final size:104
Alignment explanation
Indices: 35324228--35324451 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
35324218 AATGGATATC
35324228 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
35324293 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
35324332 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
35324397 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
35324436 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
35324452 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:35324813 original size:29 final size:29
Alignment explanation
Indices: 35324780--35324843 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
35324770 TAATCCACCA
35324780 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
35324809 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
35324839 CCCAA
1 CCCAA
35324844 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:35324817 original size:30 final size:30
Alignment explanation
Indices: 35324787--35324843 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
35324777 CCACCCAACT
35324787 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
35324816 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
35324844 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:35331099 original size:26 final size:26
Alignment explanation
Indices: 35331063--35331114 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
35331053 CACCACTGAA
* *
35331063 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
35331089 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
35331115 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:35331188 original size:70 final size:71
Alignment explanation
Indices: 35331075--35331224 Score: 248
Period size: 70 Copynumber: 2.1 Consensus size: 71
35331065 GGGGAATCAT
* *
35331075 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
35331139 ATATCG
66 ATATCG
***
35331145 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
35331210 ATATCG
66 ATATCG
35331216 CACTTAGCA
1 CACTTAGCA
35331225 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 44 0.59
71 30 0.41
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
ATATCG
Found at i:35331328 original size:104 final size:103
Alignment explanation
Indices: 35331144--35331366 Score: 358
Period size: 104 Copynumber: 2.2 Consensus size: 103
35331134 AATGGATATC
*
35331144 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATAGTG
* *
35331209 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
35331247 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATAGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATAGT
* *
35331312 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
35331351 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
35331367 TTATATACAA
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
103 17 0.15
104 93 0.84
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATAGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:35331727 original size:29 final size:29
Alignment explanation
Indices: 35331694--35331757 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
35331684 TAATCCACCA
35331694 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
35331723 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
35331753 CCCAA
1 CCCAA
35331758 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:35331731 original size:30 final size:30
Alignment explanation
Indices: 35331701--35331757 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
35331691 CCACCCAACT
35331701 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
35331730 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
35331758 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:35332667 original size:23 final size:22
Alignment explanation
Indices: 35332617--35332667 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
35332607 ATTATTATTT
*
35332617 TAAATATATATAATATAAATTTA
1 TAAA-ATATATAATATAAATATA
35332640 T-AAATATATAAT-TAAGAATATA
1 TAAAATATATAATAT-A-AATATA
35332662 TAAAAT
1 TAAAAT
35332668 GCGTATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 10 0.42
22 8 0.33
23 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAATATATAATATAAATATA
Found at i:35348384 original size:3 final size:3
Alignment explanation
Indices: 35348369--35348413 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
35348359 GAGAGTTGGG
*
35348369 GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
35348414 AAGGGAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:35352793 original size:169 final size:170
Alignment explanation
Indices: 35352514--35352856 Score: 670
Period size: 169 Copynumber: 2.0 Consensus size: 170
35352504 AAAATAACAC
*
35352514 TAAATAGTAGTATAGAATAGTAGGACTGAATCCATAGGGATTGGTTATCTAATTTTGCCTTTTCT
1 TAAATAGCAGTATAGAATAGTAGGACTGAATCCATAGGGATTGGTTATCTAATTTTGCCTTTTCT
35352579 TGTGACTAGAATTATTGTTGCGGCAATTGTCTTGCCCACGACTCGTGACAAACATGCTG-AAAAA
66 TGTGACTAGAATTATTGTTGCGGCAATTGTCTTGCCCACGACTCGTGACAAACATGCTGAAAAAA
35352643 ATAAATAAATCAGGGGAGATGAAAATGTTTGGAAAGTAAA
131 ATAAATAAATCAGGGGAGATGAAAATGTTTGGAAAGTAAA
35352683 TAAATAGCAGTATAGAATAGTAGGACTGAATCCATAGGGATTGGTTATCTAATTTTGCCTTTTCT
1 TAAATAGCAGTATAGAATAGTAGGACTGAATCCATAGGGATTGGTTATCTAATTTTGCCTTTTCT
35352748 TGTGACTAGAATTATTGTTGCGGCAATTGTCTTGCCCACGACTCGTGACAAACATGCTGAAAAAA
66 TGTGACTAGAATTATTGTTGCGGCAATTGTCTTGCCCACGACTCGTGACAAACATGCTGAAAAAA
35352813 ATAAATAAATCAGGGGAGATGAAAATGTTTGGAAAGTAAA
131 ATAAATAAATCAGGGGAGATGAAAATGTTTGGAAAGTAAA
35352853 TAAA
1 TAAA
35352857 GTGAAATTGC
Statistics
Matches: 172, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
169 123 0.72
170 49 0.28
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (170 bp):
TAAATAGCAGTATAGAATAGTAGGACTGAATCCATAGGGATTGGTTATCTAATTTTGCCTTTTCT
TGTGACTAGAATTATTGTTGCGGCAATTGTCTTGCCCACGACTCGTGACAAACATGCTGAAAAAA
ATAAATAAATCAGGGGAGATGAAAATGTTTGGAAAGTAAA
Found at i:35356586 original size:6 final size:6
Alignment explanation
Indices: 35356575--35356607 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
35356565 AGGAATAAGT
*
35356575 AATGAC AATGAC AATGAA AATGA- AATGAC AATG
1 AATGAC AATGAC AATGAC AATGAC AATGAC AATG
35356608 TATACTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (6 bp):
AATGAC
Found at i:35361141 original size:18 final size:18
Alignment explanation
Indices: 35361118--35361155 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
35361108 ATAAAATCAG
35361118 CCTAAAAAATGAATTTAT
1 CCTAAAAAATGAATTTAT
35361136 CCTAAAAAATGAATTTAT
1 CCTAAAAAATGAATTTAT
35361154 CC
1 CC
35361156 ACACGAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (18 bp):
CCTAAAAAATGAATTTAT
Found at i:35365058 original size:19 final size:18
Alignment explanation
Indices: 35365034--35365076 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
35365024 ATAATGTTCA
35365034 TATTTTAACAATATTTAAG
1 TATTTT-ACAATATTTAAG
* *
35365053 TATTTTATAATATTTAAT
1 TATTTTACAATATTTAAG
35365071 TATTTT
1 TATTTT
35365077 TGGACAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTTTACAATATTTAAG
Found at i:35365311 original size:17 final size:17
Alignment explanation
Indices: 35365289--35365326 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
35365279 TATATAAGGA
* *
35365289 AAACAAAGTACAAAGAT
1 AAACAAAGAACAAAAAT
35365306 AAAC-AAGAACAAAAAT
1 AAACAAAGAACAAAAAT
35365322 AAACA
1 AAACA
35365327 TCAAACAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.71, C:0.13, G:0.08, T:0.08
Consensus pattern (17 bp):
AAACAAAGAACAAAAAT
Found at i:35369024 original size:20 final size:20
Alignment explanation
Indices: 35368967--35369013 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
35368957 TTGTATGGGA
35368967 TTGCACTTTGGTGACTCTAT
1 TTGCACTTTGGTGACTCTAT
* *
35368987 TTACACTTTGGTGTCTCTAT
1 TTGCACTTTGGTGACTCTAT
35369007 TTGCACT
1 TTGCACT
35369014 ATGATGCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (20 bp):
TTGCACTTTGGTGACTCTAT
Found at i:35370273 original size:22 final size:22
Alignment explanation
Indices: 35370205--35370278 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
35370195 AACGGTATCA
35370205 TTCTAAAAGCCTTAATATCATG
1 TTCTAAAAGCCTTAATATCATG
* *
35370227 TTAC-AAAAACAC-AAAGGTATC--G
1 TT-CTAAAAGC-CTTAA--TATCATG
35370249 TTCTAAAAGCCTTAATATCATG
1 TTCTAAAAGCCTTAATATCATG
*
35370271 TTCAAAAA
1 TTCTAAAA
35370279 TAAAAAGGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 16
0.65 0.08 0.27
Matches are distributed among these distances:
20 4 0.10
21 2 0.05
22 27 0.69
23 2 0.05
24 4 0.10
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (22 bp):
TTCTAAAAGCCTTAATATCATG
Found at i:35370291 original size:43 final size:43
Alignment explanation
Indices: 35370184--35370294 Score: 177
Period size: 44 Copynumber: 2.6 Consensus size: 43
35370174 TCTGTGTACT
* *
35370184 TTCAAAAATACAACGGTATCATTCTAAAAGCCTTAATATCATG
1 TTCAAAAATACAAAGGTATCGTTCTAAAAGCCTTAATATCATG
*
35370227 TTACAAAAACACAAAGGTATCGTTCTAAAAGCCTTAATATCATG
1 TT-CAAAAATACAAAGGTATCGTTCTAAAAGCCTTAATATCATG
*
35370271 TTCAAAAATAAAAAGGTATCGTTC
1 TTCAAAAATACAAAGGTATCGTTC
35370295 GATAATGCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 22 0.35
44 40 0.65
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (43 bp):
TTCAAAAATACAAAGGTATCGTTCTAAAAGCCTTAATATCATG
Found at i:35371295 original size:21 final size:21
Alignment explanation
Indices: 35371269--35371337 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
35371259 TCACAACAGA
35371269 CATCCCAACATGTTCATATTC
1 CATCCCAACATGTTCATATTC
* *
35371290 CATCCCATTATAATGCTC-T-TT-
1 CATCCCA--A-CATGTTCATATTC
35371311 -ATCCCAACATGTTCATATTC
1 CATCCCAACATGTTCATATTC
35371331 CATCCCA
1 CATCCCA
35371338 TTATAATGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
17 5 0.14
18 2 0.05
19 2 0.05
20 6 0.16
21 13 0.35
22 2 0.05
23 2 0.05
24 5 0.14
ACGTcount: A:0.28, C:0.33, G:0.04, T:0.35
Consensus pattern (21 bp):
CATCCCAACATGTTCATATTC
Found at i:35371315 original size:41 final size:41
Alignment explanation
Indices: 35371270--35371371 Score: 204
Period size: 41 Copynumber: 2.5 Consensus size: 41
35371260 CACAACAGAC
35371270 ATCCCAACATGTTCATATTCCATCCCATTATAATGCTCTTT
1 ATCCCAACATGTTCATATTCCATCCCATTATAATGCTCTTT
35371311 ATCCCAACATGTTCATATTCCATCCCATTATAATGCTCTTT
1 ATCCCAACATGTTCATATTCCATCCCATTATAATGCTCTTT
35371352 ATCCCAACATGTTCATATTC
1 ATCCCAACATGTTCATATTC
35371372 TAAAACACTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.05, T:0.38
Consensus pattern (41 bp):
ATCCCAACATGTTCATATTCCATCCCATTATAATGCTCTTT
Found at i:35371316 original size:20 final size:20
Alignment explanation
Indices: 35371291--35371357 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
35371281 TTCATATTCC
35371291 ATCCCATTATAATGCTCTTT
1 ATCCCATTATAATGCTCTTT
* *
35371311 ATCCCA--A-CATGTTCATATT
1 ATCCCATTATAATGCTC-T-TT
35371330 CCATCCCATTATAATGCTCTTT
1 --ATCCCATTATAATGCTCTTT
35371352 ATCCCA
1 ATCCCA
35371358 ACATGTTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 5 0.14
18 2 0.06
19 2 0.06
20 12 0.33
21 6 0.17
22 2 0.06
23 2 0.06
24 5 0.14
ACGTcount: A:0.27, C:0.30, G:0.04, T:0.39
Consensus pattern (20 bp):
ATCCCATTATAATGCTCTTT
Found at i:35380691 original size:10 final size:10
Alignment explanation
Indices: 35380665--35380716 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
35380655 AGCAAATCTG
*
35380665 TCAAAAATAA
1 TCAAAATTAA
35380675 TCAAAATTAA
1 TCAAAATTAA
35380685 TCAAAATTTGATA
1 TCAAAA-TT-A-A
35380698 T-AAAATTAA
1 TCAAAATTAA
*
35380707 TTAAAATTAA
1 TCAAAATTAA
35380717 AAAATTTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
9 2 0.05
10 24 0.65
11 4 0.11
12 5 0.14
13 2 0.05
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.33
Consensus pattern (10 bp):
TCAAAATTAA
Found at i:35383353 original size:49 final size:50
Alignment explanation
Indices: 35383280--35383386 Score: 153
Period size: 49 Copynumber: 2.1 Consensus size: 50
35383270 GGCATTTCAA
* *
35383280 ATGAAATGACCATATCGTGTAAGACCATAGCTGCTGGGCTATGACATCTT
1 ATGAAATGACCATATCGTGTAAGACCATAACTGCTGGGCTATGACATCAT
* * *
35383330 ATGAAA-GACCATATCGTGTAAGACCATAACTGGTGGGTTATGGCATCAT
1 ATGAAATGACCATATCGTGTAAGACCATAACTGCTGGGCTATGACATCAT
35383379 ATGGAAAT
1 AT-GAAAT
35383387 ATCTAAAGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 40 0.80
50 10 0.20
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGAAATGACCATATCGTGTAAGACCATAACTGCTGGGCTATGACATCAT
Found at i:35383591 original size:59 final size:59
Alignment explanation
Indices: 35383514--35383698 Score: 225
Period size: 59 Copynumber: 3.2 Consensus size: 59
35383504 ACACTTTATG
* *
35383514 GCAAATCACT-GGAAAGGAAAGCCTTTGTGGTGAGTATTGAATGAAAGGATGCCTTTGTA
1 GCAAATCTCTAGG-AAGGAAAGCCTTTGTGGTGAGTATAGAATGAAAGGATGCCTTTGTA
* *
35383573 GCAAATCTCTAGGAAGGAAAGCCTTTGTGGGGAGTATCA-AATGAAAGGATGCCTATG-A
1 GCAAATCTCTAGGAAGGAAAGCCTTTGTGGTGAGTAT-AGAATGAAAGGATGCCTTTGTA
* * * * * *
35383631 -CAAATCTCTAGAAAGGACAGCCTTTGTGGTGAGTACAGAATGAAAGAATGACTTTGTG
1 GCAAATCTCTAGGAAGGAAAGCCTTTGTGGTGAGTATAGAATGAAAGGATGCCTTTGTA
*
35383689 GAAAATCTCT
1 GCAAATCTCT
35383699 TTAAAAAAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
56 1 0.01
57 47 0.44
58 1 0.01
59 57 0.53
60 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (59 bp):
GCAAATCTCTAGGAAGGAAAGCCTTTGTGGTGAGTATAGAATGAAAGGATGCCTTTGTA
Found at i:35383740 original size:116 final size:116
Alignment explanation
Indices: 35383510--35383740 Score: 257
Period size: 116 Copynumber: 2.0 Consensus size: 116
35383500 TGGAACACTT
* * ** * * *
35383510 TATGGCAAATCACTGGAAAGGAAAGCCTTTGTGGTGAGTATTGAATGAAAGGATGCCTTTGTAGC
1 TATGACAAATCACTAGAAAGGAAAGCCTTTGTGGTGAGTACAGAATGAAAGAATGACTTTGTAGA
** * ** * *
35383575 AAATCTCTAGGAAGGAAAGCCTTTGTGGGGAGTATCAAATGAAAGGATGCC
66 AAATCTCTAGGAAAAAAAGCCTTTATGGCAAGTATCAAACGAAACGATGCC
* * *
35383626 TATGACAAATCTCTAGAAAGGACAGCCTTTGTGGTGAGTACAGAATGAAAGAATGACTTTGTGGA
1 TATGACAAATCACTAGAAAGGAAAGCCTTTGTGGTGAGTACAGAATGAAAGAATGACTTTGTAGA
** * *
35383691 AAATCTCT-TTAAAAAAATCCTTTATGGCAAGTATTAAACGAAAACGATGC
66 AAATCTCTAGGAAAAAAAGCCTTTATGGCAAGTATCAAACG-AAACGATGC
35383741 TTTTGTGGAA
Statistics
Matches: 93, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
115 22 0.24
116 71 0.76
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (116 bp):
TATGACAAATCACTAGAAAGGAAAGCCTTTGTGGTGAGTACAGAATGAAAGAATGACTTTGTAGA
AAATCTCTAGGAAAAAAAGCCTTTATGGCAAGTATCAAACGAAACGATGCC
Found at i:35388546 original size:28 final size:28
Alignment explanation
Indices: 35388510--35388567 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
35388500 TACAATCCGT
* *
35388510 ATATATGATTATGTATCTATGAATCTGC
1 ATATATGATTATGCATCTATGAACCTGC
* * *
35388538 ATATGTGATTTTGCATCTTTGAACCTGC
1 ATATATGATTATGCATCTATGAACCTGC
35388566 AT
1 AT
35388568 GTAAGAGTCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (28 bp):
ATATATGATTATGCATCTATGAACCTGC
Found at i:35396626 original size:79 final size:81
Alignment explanation
Indices: 35396488--35396660 Score: 237
Period size: 79 Copynumber: 2.2 Consensus size: 81
35396478 GGACTAAGAT
35396488 CCGAAGGCATTTGTGCGAGATACTAATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATACTAATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACT
*
35396553 A-ATTCCGAGCTAAG-C
66 ACA-ACCGAGCTAAGTC
* ** *
35396568 CCGAAGGCATTTGTGCGAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTAC
1 CCGAAGGCATTTGTGCGAGATACTAATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
* *
35396631 TACAACCGGGCTATGTC
65 TACAACCGAGCTAAGTC
35396648 CCGAAGGCATTTG
1 CCGAAGGCATTTG
35396661 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 42 0.51
80 40 0.48
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
CCGAAGGCATTTGTGCGAGATACTAATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACT
ACAACCGAGCTAAGTC
Found at i:35396667 original size:40 final size:40
Alignment explanation
Indices: 35396435--35396660 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
35396425 TTGAATGATG
* * * *
35396435 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
35396475 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* * *
35396516 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35396556 TCCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35396595 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35396636 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35396661 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 34 0.21
40 81 0.49
41 50 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35396683 original size:79 final size:79
Alignment explanation
Indices: 35396488--35396693 Score: 197
Period size: 79 Copynumber: 2.6 Consensus size: 79
35396478 GGACTAAGAT
** * *
35396488 CCGAAGGCATTTGTGCGAGATACTAATATCCG-GACTAAGAT-CCGAAGGCATTTGTGCGAGATA
1 CCGAAGGCATTTGAACGAGTTACTAA-ATCCGAG-TTAA-ATCCCGAAGGCATTTGTGCGAGATA
*
35396551 CTAATTCCGAGCTAAGC
63 CTAATACCGAGCTAAGC
** * * *
35396568 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGAGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
* *
35396633 CA-ACCGGGCTATGTC
66 -ATACCGAGCTAAG-C
* *
35396648 CCGAAGGCATTTGAACGAG-TAGCTATATCC-AGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGAGTTAAATCCCGAAGG
35396694 TACGTGATTT
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 55 0.51
80 52 0.48
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGAGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGAGCTAAGC
Found at i:35398359 original size:50 final size:50
Alignment explanation
Indices: 35398289--35399245 Score: 903
Period size: 50 Copynumber: 19.2 Consensus size: 50
35398279 TAACTTCAAT
* * * * **
35398289 CTGCAACGTCGGAGAAGTAAGATTCGCTGTTGTAGCTTTAACCTGCTTCA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* *
35398339 CTGCAATGTCGGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTCCA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* ** * * * *
35398389 CTACACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * *
35398439 CTGCAATGTCGGGGTAGCAAGATTTGCTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* ** * * *
35398489 CTACACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * * *
35398539 TTGTAATGTCGGGGAAGCAAGATTCGCTGATGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * *
35398589 CTACACTGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * * *
35398639 CTGCAATGTTGGCGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * ** * * *
35398689 GTACACTGCCAAGGAAATAAGATTCGCTGTTGTAGCTTTAATCTATTTAA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * *
35398739 CTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* ** * * * * *
35398789 CTACACCGCCAGGGAAGTAAGGTTCGCTGTTATAGCTTCAATCTATTTAA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * *
35398839 CTGCAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTTCA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* ** * * * *
35398889 CTACACCGCCAGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * *
35398939 CTGCAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* ** * * * *
35398989 CTACACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * * *
35399039 TTGCAAAGTCGGGGAAGCAAGATTCGCTGTTATAGCTTCAATCTGTTCCA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* ** * *
35399089 CTAC-ACCTCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
1 CTGCAATGTC-GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * *
35399139 CTGCAATGTCGAGGAAGTAAGATTCGCGGTTCTAGC-TCAATCTGTTCCA
1 CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* ** * * * *
35399188 CTACACCG-CTAGGGAAGTAAGATTCGCTGTTGTATCTTCAATCTGTTCCA
1 CTGCAATGTC-GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
*
35399238 CTGTAATG
1 CTGCAATG
35399246 CCAAAGAGAT
Statistics
Matches: 704, Mismatches: 199, Indels: 8
0.77 0.22 0.01
Matches are distributed among these distances:
48 1 0.00
49 39 0.06
50 661 0.94
51 3 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
CTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
Found at i:35398475 original size:100 final size:100
Alignment explanation
Indices: 35398302--35399231 Score: 1484
Period size: 100 Copynumber: 9.3 Consensus size: 100
35398292 CAACGTCGGA
* * ** * * *
35398302 GAAGTAAGATTCGCTGTTGTAGCTTTAACCTGCTTCACTGCAATGTCGGGGAAGTAAGATTCGTT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
*
35398367 GTTGTAGCTTCAATCTATTCCACTACACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* * *
35398402 GAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGTAGCAAGATTTGCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
35398467 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* *
35398502 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAATTGTAATGTCGGGGAAGCAAGATTCGCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
* *
35398567 GATGTAGCTTCAATCTGTTCCACTACACTGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* * *
35398602 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTTGGCGAAGCAAGATTCGTT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
* * *
35398667 GTTGTAGCTTCAATCTGTTCCAGTACACTGCCAAG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* *
35398702 GAAATAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
35398767 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* * *
35398802 GAAGTAAGGTTCGCTGTTATAGCTTCAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCGCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
*
35398867 GTTGTAGCTTCAATCTGTTTCACTACACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* *
35398902 GAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCGCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
35398967 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* * *
35399002 GAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAATTGCAAAGTCGGGGAAGCAAGATTCGCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
* * *
35399067 GTTATAGCTTCAATCTGTTCCACTACACCTCTAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* * *
35399102 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGAGGAAGTAAGATTCGCG
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
* *
35399167 GTTCTAGC-TCAATCTGTTCCACTACACCGCTAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
*
35399201 GAAGTAAGATTCGCTGTTGTATCTTCAATCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCT
35399232 GTTCCACTGT
Statistics
Matches: 769, Mismatches: 61, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
99 55 0.07
100 714 0.93
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (100 bp):
GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
Found at i:35403225 original size:25 final size:27
Alignment explanation
Indices: 35403191--35403256 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
35403181 ACATGTATGT
*
35403191 TCACACGAGCTGT-AAATTA-AAATAC
1 TCACACGAGCTGTGAAAATAGAAATAC
***
35403216 TCACACGAGCTGTGAAAATAGGCCTAC
1 TCACACGAGCTGTGAAAATAGAAATAC
35403243 TCACACGAGCTGTG
1 TCACACGAGCTGTG
35403257 GGTCAGAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 13 0.37
26 5 0.14
27 17 0.49
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (27 bp):
TCACACGAGCTGTGAAAATAGAAATAC
Found at i:35406069 original size:50 final size:50
Alignment explanation
Indices: 35406004--35406188 Score: 208
Period size: 50 Copynumber: 3.6 Consensus size: 50
35405994 CAGTGACATA
* * ** *
35406004 TCCCAGATATGGTCTTATATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATGCCATG
* * *
35406054 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATGCCATG
* *
35406104 TCCCAGACATGATCTTACATGGGACCTCTCATAACCTCAACGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T---CGGTGCCAATGCCATG
* *
35406160 TCCCAGACATGGTCGTACATGGGATCTCT
1 TCCCAGACATGGTCTTACATGGGACCTCT
35406189 TTACCCAAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 72 0.64
53 1 0.01
56 40 0.35
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATGCCATG
Found at i:35413650 original size:50 final size:49
Alignment explanation
Indices: 35413531--35413707 Score: 171
Period size: 50 Copynumber: 3.6 Consensus size: 49
35413521 ATGTCAAACA
** *
35413531 CATGTCCCAGACATGGTCTTACATGGGATGTT-TC-TTGTACTGCCAATGT
1 CATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATT-TGGTGCCCATGT
* * *
35413580 CATATCCTAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGT
1 CATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-TTGGTGCCCATGT
** *** * *
35413630 CATGTCCCAGACATGGTCTTACGGGGGACCCCTCATCTCGGTG-CCATTGC
1 CATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-TTGGTGCCCA-TGT
35413680 CATGTCCCAGACATGGTCTTACATGGGA
1 CATGTCCCAGACATGGTCTTACATGGGA
35413708 TCTCTTTACC
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.03
49 30 0.29
50 71 0.68
51 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (49 bp):
CATGTCCCAGACATGGTCTTACATGGGAGTTCTCATTTGGTGCCCATGT
Found at i:35418075 original size:26 final size:27
Alignment explanation
Indices: 35418033--35418083 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
35418023 TTTGCGAAAA
35418033 ACTCTATAAGGAACG-CCTTCGTGGCTC
1 ACTCTATAAGGAACGCCCTT-GTGGCTC
35418060 ACTCT-TAA-GAATCGCCCTTGTGGC
1 ACTCTATAAGGAA-CGCCCTTGTGGC
35418084 GAACAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
25 3 0.14
26 10 0.45
27 9 0.41
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (27 bp):
ACTCTATAAGGAACGCCCTTGTGGCTC
Found at i:35426641 original size:3 final size:3
Alignment explanation
Indices: 35426633--35426662 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
35426623 TAGAAGCAAC
*
35426633 CTG CTG CTG CTG CTG CTG CTG CTG TTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
35426663 TTGATAGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.33, T:0.37
Consensus pattern (3 bp):
CTG
Found at i:35429056 original size:3 final size:3
Alignment explanation
Indices: 35429048--35429099 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
35429038 AATGTACATA
35429048 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
35429096 AAT A
1 AAT A
35429100 TTTTAGTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:35430071 original size:43 final size:43
Alignment explanation
Indices: 35430010--35430232 Score: 227
Period size: 43 Copynumber: 5.2 Consensus size: 43
35430000 TTGCGGCACT
*
35430010 TGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACA
* *
35430053 TGACCTTTAGTGGCGC-TTTCACCACAAACGCCGCTAAAGACCA
1 TGACCTTTAGCGGCGCTTTTC-CCACAAACGCCGCTAAAGAACA
* * **
35430096 AGACCTTTAGCGGCGCTTTTCCCACCAACGCCGCTAAAGCCCA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACA
* ** * *
35430139 TGACCTTTAGCGACGCTTTTTGTCACAAACGCCGCTATAGATCA
1 TGACCTTTAGCGGCGC-TTTTCCCACAAACGCCGCTAAAGAACA
* ** * * * *
35430183 -AACCTTTAGCGATGCTTCTCACAAAAAAGCCGCTAAA-AACA
1 TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACA
*
35430224 TAACCTTTA
1 TGACCTTTA
35430233 AAAAATTTAT
Statistics
Matches: 152, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.02
42 28 0.18
43 96 0.63
44 25 0.16
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
TGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACA
Found at i:35430156 original size:86 final size:87
Alignment explanation
Indices: 35430011--35430232 Score: 261
Period size: 86 Copynumber: 2.6 Consensus size: 87
35430001 TGCGGCACTT
* * *
35430011 GACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACATGACCTTTAGTGGCGC-TTTCAC
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCAC
35430075 CACAAACGCCGCTAAAGACCAA
66 CACAAACGCCGCTAAAGACCAA
* ** ***
35430097 GACCTTTAGCGGCGCTTTTCCCACCAACGCCGCTAAAGCCCATGACCTTTAGCGACGCTTTTTGT
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCAC
* *
35430162 CACAAACGCCGCTATAGATCAA
66 CACAAACGCCGCTAAAGACCAA
** * * * * *
35430184 -ACCTTTAGCGATGCTTCTCACAAAAAAGCCGCTAAA-AACATAACCTTTA
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTA
35430233 AAAAATTTAT
Statistics
Matches: 114, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
85 10 0.09
86 81 0.71
87 23 0.20
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (87 bp):
GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCAC
CACAAACGCCGCTAAAGACCAA
Found at i:35432260 original size:15 final size:15
Alignment explanation
Indices: 35432240--35432269 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35432230 GCATTGACAC
35432240 AAAAAATTCAGACCA
1 AAAAAATTCAGACCA
35432255 AAAAAATTCAGACCA
1 AAAAAATTCAGACCA
35432270 TATGGCTATT
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:0.60, C:0.20, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAAAATTCAGACCA
Found at i:35435098 original size:14 final size:14
Alignment explanation
Indices: 35435083--35435136 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
35435073 AAAACATAAA
35435083 CCCTAAACCCCTAAC
1 CCCT-AACCCCTAAC
*
35435098 CCCTAACGCCTAAC
1 CCCTAACCCCTAAC
* *
35435112 CCTTAACCTCTAAC
1 CCCTAACCCCTAAC
35435126 CCCTAACCCCT
1 CCCTAACCCCT
35435137 CTTTTACAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 29 0.88
15 4 0.12
ACGTcount: A:0.28, C:0.52, G:0.02, T:0.19
Consensus pattern (14 bp):
CCCTAACCCCTAAC
Found at i:35435113 original size:21 final size:21
Alignment explanation
Indices: 35435083--35435136 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
35435073 AAAACATAAA
35435083 CCCTAAACCCCTAACCCCTAAC
1 CCCT-AACCCCTAACCCCTAAC
* * *
35435105 GCCTAACCCTTAACCTCTAAC
1 CCCTAACCCCTAACCCCTAAC
35435126 CCCTAACCCCT
1 CCCTAACCCCT
35435137 CTTTTACAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.28, C:0.52, G:0.02, T:0.19
Consensus pattern (21 bp):
CCCTAACCCCTAACCCCTAAC
Found at i:35435259 original size:7 final size:7
Alignment explanation
Indices: 35435249--35435300 Score: 77
Period size: 7 Copynumber: 7.4 Consensus size: 7
35435239 CACTAACTCT
*
35435249 TAACCTC
1 TAACCCC
35435256 TAACCCC
1 TAACCCC
35435263 TAACCCC
1 TAACCCC
35435270 TAACCCC
1 TAACCCC
35435277 TAACCCC
1 TAACCCC
**
35435284 TAACTAC
1 TAACCCC
35435291 TAACCCC
1 TAACCCC
35435298 TAA
1 TAA
35435301 ACCTTATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.19
Consensus pattern (7 bp):
TAACCCC
Found at i:35435293 original size:21 final size:20
Alignment explanation
Indices: 35435241--35435300 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
35435231 TCCTAAATCA
*
35435241 CTAACTCTTAACCTCTAACCC
1 CTAACTC-TAACCCCTAACCC
*
35435262 CTAACCCCTAACCCCTAACCC
1 CTAA-CTCTAACCCCTAACCC
35435283 CTAACTACTAACCCCTAA
1 CTAACT-CTAACCCCTAA
35435301 ACCTTATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.03
21 31 0.91
22 2 0.06
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.22
Consensus pattern (20 bp):
CTAACTCTAACCCCTAACCC
Found at i:35435468 original size:87 final size:89
Alignment explanation
Indices: 35435290--35435469 Score: 258
Period size: 87 Copynumber: 2.0 Consensus size: 89
35435280 CCCCTAACTA
35435290 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACCCT
1 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACCCT
* * *
35435355 AAACCTAACCCGAATCCCTAACCC
66 AAACCTAACCCAAATCCATAAACC
*
35435379 CTAACCCCTAAACCTTATTT-A-ATATAAATTAAAATACACTAATTAATCTAAACCTTAAA-CCT
1 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACCCT
* * * *
35435441 TAATCTAACATCAAATTCATAAACC
66 AAACCTAAC-CCAAATCCATAAACC
35435466 CTAA
1 CTAA
35435470 ATCACTAACT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
86 10 0.12
87 51 0.62
88 1 0.01
89 20 0.24
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (89 bp):
CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACCCT
AAACCTAACCCAAATCCATAAACC
Found at i:35435500 original size:7 final size:7
Alignment explanation
Indices: 35435488--35435519 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
35435478 CTCTTAATCT
35435488 CTAACCC
1 CTAACCC
35435495 CTAACCC
1 CTAACCC
*
35435502 CTAGCCC
1 CTAACCC
35435509 CTAACCC
1 CTAACCC
35435516 CTAA
1 CTAA
35435520 ATCACAACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.28, C:0.53, G:0.03, T:0.16
Consensus pattern (7 bp):
CTAACCC
Found at i:35435643 original size:14 final size:14
Alignment explanation
Indices: 35435620--35435656 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
35435610 ATCCTAAATT
* *
35435620 AACCACATACCTTA
1 AACCATATACCCTA
35435634 AACCATATACCCTA
1 AACCATATACCCTA
35435648 AACCATATA
1 AACCATATA
35435657 TATTAAGCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:35435963 original size:41 final size:41
Alignment explanation
Indices: 35435917--35436189 Score: 411
Period size: 41 Copynumber: 6.7 Consensus size: 41
35435907 ATATTTTTGT
*
35435917 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAAC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
* *
35435958 GGCGCTTTCTCAAAAACGCCACTAAAGATCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
* *
35435999 GGCGCTTTTTCAAAAACGCCGCTAAAAATTTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
* * *
35436040 GGCGCTTTCTCAAAAATGCCGCTAAAGATCTGAGTATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
* * * *
35436081 GACGCTTTCTCAAAAACTCCGCTAAAGATCTGAGCATCAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
35436122 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
* * *
35436163 GGCGCTTTTTCAGAAATGACGCTAAAG
1 GGCGCTTTTTCAAAAACGCCGCTAAAG
35436190 CCCTGAAAGG
Statistics
Matches: 208, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 208 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (41 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
Found at i:35448081 original size:23 final size:23
Alignment explanation
Indices: 35448055--35448176 Score: 181
Period size: 23 Copynumber: 5.3 Consensus size: 23
35448045 ATAAGTGCCA
*
35448055 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
*
35448078 CACTGAGATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
* *
35448101 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
*
35448124 TACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
* *
35448147 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
35448170 CACTGAT
1 CACTGAT
35448177 CAATAACACT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 88 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGTAGCTAC
Found at i:35448421 original size:17 final size:18
Alignment explanation
Indices: 35448399--35448439 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
35448389 CAATTTTCCT
35448399 TTCACAT-TC-AATATTAA
1 TTCACATATCAAATA-TAA
35448416 TTCACATATCAAATATAA
1 TTCACATATCAAATATAA
35448434 TTCACA
1 TTCACA
35448440 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
TTCACATATCAAATATAA
Found at i:35456363 original size:12 final size:13
Alignment explanation
Indices: 35456338--35456366 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35456328 AAGTACAAAA
35456338 GAAAACTAAAACT
1 GAAAACTAAAACT
35456351 GAAAACT-AAACT
1 GAAAACTAAAACT
35456363 GAAA
1 GAAA
35456367 GGAAAATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (13 bp):
GAAAACTAAAACT
Found at i:35465106 original size:46 final size:46
Alignment explanation
Indices: 35465050--35465145 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
35465040 ACTTCCAAAT
* * *
35465050 CAGATATATATGGTCAAGCCACTAT-GTTGCAGCCAAGCTGCCAGTA
1 CAGATATATATGGTCAAGCCACCATAATTGCAGACAAGCTGCCAG-A
* * *
35465096 CAGATGTATATGGTCTAGCCACCATAATTGTAGACAAGCTGCCAGA
1 CAGATATATATGGTCAAGCCACCATAATTGCAGACAAGCTGCCAGA
35465142 CAGA
1 CAGA
35465146 ATTGTGGATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 27 0.63
47 16 0.37
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (46 bp):
CAGATATATATGGTCAAGCCACCATAATTGCAGACAAGCTGCCAGA
Found at i:35469728 original size:14 final size:14
Alignment explanation
Indices: 35469709--35469736 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35469699 ATGTTATATC
35469709 AATAAATTTAATAA
1 AATAAATTTAATAA
35469723 AATAAATTTAATAA
1 AATAAATTTAATAA
35469737 TATTAATAAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAAATTTAATAA
Found at i:35469785 original size:23 final size:23
Alignment explanation
Indices: 35469758--35469801 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
35469748 GAACATAAAT
35469758 ATTAAAATCTAAAAAATAAAAGA
1 ATTAAAATCTAAAAAATAAAAGA
** *
35469781 ATTAAGTTCTTAAAAATAAAA
1 ATTAAAATCTAAAAAATAAAA
35469802 ATACAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (23 bp):
ATTAAAATCTAAAAAATAAAAGA
Found at i:35470277 original size:6 final size:6
Alignment explanation
Indices: 35470263--35470293 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
35470253 TCAGCCCTTT
*
35470263 CATTTG CATTCG CATTCG CATTCG CATTCG C
1 CATTCG CATTCG CATTCG CATTCG CATTCG C
35470294 CTACTCTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.35
Consensus pattern (6 bp):
CATTCG
Found at i:35471422 original size:15 final size:15
Alignment explanation
Indices: 35471402--35471435 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
35471392 AACAACATGA
35471402 TAGTTGGGTGGCTAC
1 TAGTTGGGTGGCTAC
35471417 TAGTTGGGTGGCTAC
1 TAGTTGGGTGGCTAC
35471432 TAGT
1 TAGT
35471436 GTAGTTTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.38, T:0.35
Consensus pattern (15 bp):
TAGTTGGGTGGCTAC
Found at i:35472595 original size:23 final size:23
Alignment explanation
Indices: 35472569--35472615 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
35472559 CGCAAGCAGC
35472569 TTTTGTTCATGGACAACAAGTCA
1 TTTTGTTCATGGACAACAAGTCA
35472592 TTTTGTTCATGGACAACAAGTCA
1 TTTTGTTCATGGACAACAAGTCA
35472615 T
1 T
35472616 AGATAATGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (23 bp):
TTTTGTTCATGGACAACAAGTCA
Found at i:35479447 original size:21 final size:21
Alignment explanation
Indices: 35479421--35479461 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
35479411 TAATGAGACT
*
35479421 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGACAAGTTAACTA
35479442 GCTGATGTGACAAGTTAACT
1 GCTGATGTGACAAGTTAACT
35479462 TACCATGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (21 bp):
GCTGATGTGACAAGTTAACTA
Found at i:35479713 original size:40 final size:40
Alignment explanation
Indices: 35479609--35479713 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 40
35479599 GCAAAAAAAA
* *
35479609 TAATAGGGATTT-GGGTTAG-AAATCGATTCAAGAATTGAT
1 TAATAGGG-TTTAGGGTTAGAAAATCAATTCAACAATTGAT
35479648 TAATAAGGTTGGTTTAGGGTTAGAAAATCAATTCAACAATTGAT
1 TAAT-A-G--GGTTTAGGGTTAGAAAATCAATTCAACAATTGAT
35479692 TAATAGGGTTTAGGGTTAGAAA
1 TAATAGGGTTTAGGGTTAGAAA
35479714 TCGATTGATA
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
39 4 0.07
40 17 0.29
41 1 0.02
42 4 0.07
43 10 0.17
44 22 0.38
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (40 bp):
TAATAGGGTTTAGGGTTAGAAAATCAATTCAACAATTGAT
Found at i:35480240 original size:102 final size:103
Alignment explanation
Indices: 35480045--35480247 Score: 327
Period size: 102 Copynumber: 2.0 Consensus size: 103
35480035 TTAAGGTCTA
* *
35480045 GTTATTAAAGTGAATGGCAGATACTGTGTATGGTATGCCATGTACATGATGTTGTGTATGTCATA
1 GTTATTAAAGTGAATGGCAGATACTGTGCATGGTATGCCATGTACATGATGCTGTGTATGTCATA
* *
35480110 TTTATTGTTTGTTGTATATGCTGCTGTGTATGTCATTT
66 TTTATTGTTTGTTGCATATACTGCTGTGTATGTCATTT
* * *
35480148 GTTATT-AAGTGAATGGTAGATACTGTGCATGGTATGCCATGTGCATGATGCTGTGTATGTCATG
1 GTTATTAAAGTGAATGGCAGATACTGTGCATGGTATGCCATGTACATGATGCTGTGTATGTCATA
*
35480212 TTTATTGTTTGTTGCATATACTGTTGTGTATGTCAT
66 TTTATTGTTTGTTGCATATACTGCTGTGTATGTCAT
35480248 GTTTATTGTT
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 86 0.93
103 6 0.07
ACGTcount: A:0.22, C:0.09, G:0.25, T:0.44
Consensus pattern (103 bp):
GTTATTAAAGTGAATGGCAGATACTGTGCATGGTATGCCATGTACATGATGCTGTGTATGTCATA
TTTATTGTTTGTTGCATATACTGCTGTGTATGTCATTT
Found at i:35481138 original size:20 final size:20
Alignment explanation
Indices: 35481101--35481138 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35481091 ATGAAATTAG
*
35481101 TATAAAAATATAAGATTAAA
1 TATAAAAATATAAAATTAAA
35481121 TATAAAGAATA-AAAATTA
1 TATAAA-AATATAAAATTA
35481139 GTCTCGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TATAAAAATATAAAATTAAA
Found at i:35484121 original size:47 final size:47
Alignment explanation
Indices: 35484043--35484544 Score: 799
Period size: 47 Copynumber: 10.6 Consensus size: 47
35484033 CCCTTCGGGA
* * * * * *
35484043 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35484089 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35484137 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35484184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35484231 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35484280 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35484327 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35484374 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35484423 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35484472 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35484519 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
35484545 CACAATTATC
Statistics
Matches: 428, Mismatches: 22, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.00
47 283 0.66
48 2 0.00
49 141 0.33
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35484277 original size:96 final size:96
Alignment explanation
Indices: 35484043--35484544 Score: 806
Period size: 96 Copynumber: 5.3 Consensus size: 96
35484033 CCCTTCGGGA
* * * * * *
35484043 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATA
35484105 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
* *
35484137 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
35484200 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
35484231 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
35484296 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
35484327 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
35484390 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35484423 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
35484488 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
35484519 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
35484545 CACAATTATC
Statistics
Matches: 383, Mismatches: 16, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
93 1 0.00
94 141 0.37
95 2 0.01
96 194 0.51
98 45 0.12
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35484299 original size:143 final size:143
Alignment explanation
Indices: 35484043--35484544 Score: 843
Period size: 143 Copynumber: 3.5 Consensus size: 143
35484033 CCCTTCGGGA
* * * * * * *
35484043 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCAC--ATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATATA
*
35484105 CACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
* * *
35484170 ATCGGCTATTAGGC
130 ATTGGCCATTCGGC
35484184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
35484249 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
35484314 TTGGCCATTCGGC
131 TTGGCCATTCGGC
35484327 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
35484392 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
35484457 CATTGGCCATTCGGC
129 CATTGGCCATTCGGC
35484472 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
35484537 A--TTCACAT
66 ACTTTCACAT
35484545 CACAATTATC
Statistics
Matches: 345, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
141 45 0.13
142 2 0.01
143 193 0.56
145 105 0.30
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TTGGCCATTCGGC
Found at i:35488326 original size:15 final size:15
Alignment explanation
Indices: 35488308--35488367 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
35488298 TGTCTGATTT
35488308 TGATGTGTCTAATAG
1 TGATGTGTCTAATAG
* ** *
35488323 TGATGTCTCTGTTAA
1 TGATGTGTCTAATAG
*
35488338 TGATGTGTCTGATAG
1 TGATGTGTCTAATAG
*
35488353 TGATGTGTTTAATAG
1 TGATGTGTCTAATAG
35488368 GATAAGGGTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.43
Consensus pattern (15 bp):
TGATGTGTCTAATAG
Found at i:35490742 original size:21 final size:21
Alignment explanation
Indices: 35490665--35490759 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 21
35490655 CAAGTGGTTA
* * * *
35490665 CCCAACTCAATAACAGTCTAT
1 CCCAACTCAGTAAGAGACTAC
* * *
35490686 CCCAAATCAGTAATAGTCTAC
1 CCCAACTCAGTAAGAGACTAC
* * *
35490707 CCCAAATTAGAAAGAGACTAC
1 CCCAACTCAGTAAGAGACTAC
* * *
35490728 CCTAACTCAGTAAGAGGCTGC
1 CCCAACTCAGTAAGAGACTAC
35490749 CCCAACTCAGT
1 CCCAACTCAGT
35490760 TACAAACTGC
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.37, C:0.31, G:0.13, T:0.20
Consensus pattern (21 bp):
CCCAACTCAGTAAGAGACTAC
Found at i:35491531 original size:29 final size:29
Alignment explanation
Indices: 35491473--35491534 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
35491463 AATATTACAA
* *
35491473 AACATAAGCTGGTTTTTAGTGTTAACAAC
1 AACATAAGCTGGTTTTAAGTGTTAAAAAC
35491502 AACATAAGCTGG-TTTAAG-GTTTAAAAAAC
1 AACATAAGCTGGTTTTAAGTG-TT-AAAAAC
35491531 AACA
1 AACA
35491535 ACAATATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.03
28 7 0.24
29 21 0.72
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (29 bp):
AACATAAGCTGGTTTTAAGTGTTAAAAAC
Found at i:35501370 original size:50 final size:50
Alignment explanation
Indices: 35501259--35501503 Score: 217
Period size: 50 Copynumber: 4.8 Consensus size: 50
35501249 ATTTGGGTAA
**
35501259 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG--T-ACCGAG---ATG
* *
35501315 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATG
* ** * * * *
35501365 AGAGGTCCCCCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATG
* * * * *
35501415 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGG--CAGTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCG-AGATG
* * * *
35501464 AAACATCCCATGTAAGACCATGTCTAGGACATGGCTTTGG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
35501504 CATGTTATTA
Statistics
Matches: 160, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.01
49 36 0.22
50 79 0.49
53 4 0.03
54 1 0.01
56 38 0.24
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATG
Found at i:35506431 original size:18 final size:18
Alignment explanation
Indices: 35506408--35506442 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35506398 ATTAATTTTG
35506408 ATCAAATAAAATAAAATA
1 ATCAAATAAAATAAAATA
* *
35506426 ATCAAATTAATTAAAAT
1 ATCAAATAAAATAAAAT
35506443 TAATATGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
ATCAAATAAAATAAAATA
Found at i:35507942 original size:372 final size:372
Alignment explanation
Indices: 35507257--35508000 Score: 1479
Period size: 372 Copynumber: 2.0 Consensus size: 372
35507247 AACAATTAAA
35507257 TTAATAAAAATAAAATAAAATAAGAAATGGAATTGAATTTAGTAAGTAGTAATATTAAGTCTTAT
1 TTAATAAAAATAAAATAAAATAAGAAATGGAATTGAATTTAGTAAGTAGTAATATTAAGTCTTAT
35507322 CCCTAGACTTGATGAATTTCGTTTCCGAATCGATCCTTGAAGATGGGTTTTCTTTTCCAAACCAT
66 CCCTAGACTTGATGAATTTCGTTTCCGAATCGATCCTTGAAGATGGGTTTTCTTTTCCAAACCAT
35507387 AAACTGGTTATAGCGACCAAGAGCATCCTAATCACCAATTCATACTTTTGTAGTTGATTTCGGTA
131 AAACTGGTTATAGCGACCAAGAGCATCCTAATCACCAATTCATACTTTTGTAGTTGATTTCGGTA
35507452 CGACCTACAAACCAACCCTTACTGATTGTTAAACTGCAATACATGCGTTCACAATTCAAGACCCC
196 CGACCTACAAACCAACCCTTACTGATTGTTAAACTGCAATACATGCGTTCACAATTCAAGACCCC
35507517 GACAGCCTTGCGTTTTGAAGAACCCAACTCGGATCAACGGCCTCAACCACATGGGTCGTTTAAAT
261 GACAGCCTTGCGTTTTGAAGAACCCAACTCGGATCAACGGCCTCAACCACATGGGTCGTTTAAAT
35507582 CCAATCACTATTTCCCTTGACAAAAATCCCACTAGTATGACCCCACT
326 CCAATCACTATTTCCCTTGACAAAAATCCCACTAGTATGACCCCACT
35507629 TTAATAAAAATAAAATAAAATAAGAAATGGAATTGAATTTAGTAAGTAGTAATATTAAGTCTTAT
1 TTAATAAAAATAAAATAAAATAAGAAATGGAATTGAATTTAGTAAGTAGTAATATTAAGTCTTAT
*
35507694 CCCTAGACTTGATGAATTTCGTTTCTGAATCGATCCTTGAAGATGGGTTTTCTTTTCCAAACCAT
66 CCCTAGACTTGATGAATTTCGTTTCCGAATCGATCCTTGAAGATGGGTTTTCTTTTCCAAACCAT
35507759 AAACTGGTTATAGCGACCAAGAGCATCCTAATCACCAATTCATACTTTTGTAGTTGATTTCGGTA
131 AAACTGGTTATAGCGACCAAGAGCATCCTAATCACCAATTCATACTTTTGTAGTTGATTTCGGTA
35507824 CGACCTACAAACCAACCCTTACTGATTGTTAAACTGCAATACATGCGTTCACAATTCAAGACCCC
196 CGACCTACAAACCAACCCTTACTGATTGTTAAACTGCAATACATGCGTTCACAATTCAAGACCCC
35507889 GACAGCCTTGCGTTTTGAAGAACCCAACTCGGATCAACGGCCTCAACCACATGGGTCGTTTAAAT
261 GACAGCCTTGCGTTTTGAAGAACCCAACTCGGATCAACGGCCTCAACCACATGGGTCGTTTAAAT
35507954 CCAATCACTATTTCCCTTGACAAAAATCCCACTAGTATGACCCCACT
326 CCAATCACTATTTCCCTTGACAAAAATCCCACTAGTATGACCCCACT
35508001 AGGATACGCC
Statistics
Matches: 371, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
372 371 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (372 bp):
TTAATAAAAATAAAATAAAATAAGAAATGGAATTGAATTTAGTAAGTAGTAATATTAAGTCTTAT
CCCTAGACTTGATGAATTTCGTTTCCGAATCGATCCTTGAAGATGGGTTTTCTTTTCCAAACCAT
AAACTGGTTATAGCGACCAAGAGCATCCTAATCACCAATTCATACTTTTGTAGTTGATTTCGGTA
CGACCTACAAACCAACCCTTACTGATTGTTAAACTGCAATACATGCGTTCACAATTCAAGACCCC
GACAGCCTTGCGTTTTGAAGAACCCAACTCGGATCAACGGCCTCAACCACATGGGTCGTTTAAAT
CCAATCACTATTTCCCTTGACAAAAATCCCACTAGTATGACCCCACT
Found at i:35511002 original size:51 final size:51
Alignment explanation
Indices: 35510926--35511159 Score: 215
Period size: 51 Copynumber: 4.6 Consensus size: 51
35510916 TGTCGATGAA
** *
35510926 CACATGTGTAGTACTGTGTGAAGGCTACTACATGTATCGATAAA-TAATGGT
1 CACATGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAACT-ATGGT
* *
35510977 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGCTTTGAG-
1 CACATGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-CTATG-GT
* ** * *
35511028 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTATGGT
1 CACATGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAACTATGGT
* * * * * * * *
35511079 TACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGA-AAAGCTTTAGC
1 CACATGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-CTATGGT
* * *
35511130 CACGTATGTAGTACTATGTGAAGGCTACTA
1 CACATGTGTAGTACTAAGTGAAGGCTACTA
35511160 AGTGAGCCGT
Statistics
Matches: 147, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
50 7 0.05
51 135 0.92
52 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAACTATGGT
Done.