Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 175 of 344
Found at i:58408657 original size:190 final size:190
Alignment explanation
Indices: 58408334--58408803 Score: 931
Period size: 190 Copynumber: 2.5 Consensus size: 190
58408324 GAAATGATAG
58408334 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
58408399 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
58408464 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
131 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
58408524 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
58408589 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
58408654 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
131 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
58408714 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
58408779 GTGATGAATGTGAAAGTGTATATAT
66 GTGATGAATGTGAAAGTGTATATAT
58408804 GTGACGGGGC
Statistics
Matches: 278, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 278 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (190 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:58409033 original size:37 final size:37
Alignment explanation
Indices: 58408977--58409055 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
58408967 CCGAGCTCTA
* *
58408977 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
58409014 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58409051 AAGAC
1 AAGAC
58409056 TTCATAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58410857 original size:40 final size:40
Alignment explanation
Indices: 58410753--58410858 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
58410743 TACTCGAATT
* * **
58410753 CTCGCACATTAAGTGCCAATACATAGCCGAAGCTATTTTAA
1 CTCGCACACTAAGTGCC-ATACATAGCCAAAGCTATTCGAA
* *
58410794 TCTCGCACACTAAGTGTCGTACATAGCCAAAGCTATCTCGAA
1 -CTCGCACACTAAGTGCCATACATAGCCAAAGCTAT-TCGAA
58410836 -TCGCACACTAAGTGCCATACATA
1 CTCGCACACTAAGTGCCATACATA
58410859 ATCGAATTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 21 0.38
41 16 0.29
42 18 0.33
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
CTCGCACACTAAGTGCCATACATAGCCAAAGCTATTCGAA
Found at i:58412303 original size:20 final size:19
Alignment explanation
Indices: 58412276--58412313 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
58412266 AAGTAACTTA
58412276 ATGATATT-TATATGATATG
1 ATGATATTAT-TATGATATG
58412295 ATGATTATTATTATGATAT
1 ATGA-TATTATTATGATAT
58412314 ATTATGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 12 0.71
21 1 0.06
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (19 bp):
ATGATATTATTATGATATG
Found at i:58416150 original size:39 final size:39
Alignment explanation
Indices: 58416106--58416346 Score: 392
Period size: 39 Copynumber: 6.2 Consensus size: 39
58416096 GCTCTGGTGA
58416106 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
*
58416145 GCTTCAGTCAGCCTTTGGGCTTCCGTTTAGCACTTCTGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
*
58416184 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCAGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
*
58416223 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
* * *
58416262 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
* * * *
58416301 GCTTCAATTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
58416340 GCTTCAG
1 GCTTCAG
58416347 CTAAACTTCG
Statistics
Matches: 190, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 190 1.00
ACGTcount: A:0.12, C:0.28, G:0.23, T:0.37
Consensus pattern (39 bp):
GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
Found at i:58425248 original size:21 final size:20
Alignment explanation
Indices: 58425214--58425252 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
58425204 AAACTTGTAT
*
58425214 ATCTATTAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
*
58425235 ATCTATCAAGAAACTTCA
1 ATCTATCAACAAACTTCA
58425253 AAACACATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:58427248 original size:49 final size:49
Alignment explanation
Indices: 58427179--58427496 Score: 298
Period size: 49 Copynumber: 6.4 Consensus size: 49
58427169 GTCATGTGTA
* * * *
58427179 TAGTACTAAATGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTG
* *** * * * *
58427228 TAGTACTAAGTGCAGACTACTATACGTACCCGATAACTTCGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAA-TT-GGTCACATGTG
* **** *
58427279 TAGTACTAAGTGCAGGCTACTA-GTGTATTAGATGGCCAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-AATTGGTCACATGTG
* * *
58427328 TAGTACTAAGTGCAAGCTACTACGCGTATCAGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTG
* * **** *
58427377 TAGTTCTAAGTGCAGGCTACTA-GTGTATTAGATGGCCAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-AATTGGTCACATGTG
* * *
58427426 TAGTACTAAGTGCAAGCTACTACGTGTATCGGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTG
*
58427475 TAGTTCTAAGTGCAGGCTACTA
1 TAGTACTAAGTGCAGGCTACTA
58427497 TGCGTACCAG
Statistics
Matches: 211, Mismatches: 52, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
48 9 0.04
49 148 0.70
50 26 0.12
51 28 0.13
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTG
Found at i:58427402 original size:98 final size:98
Alignment explanation
Indices: 58427224--58427496 Score: 422
Period size: 98 Copynumber: 2.8 Consensus size: 98
58427214 ATTGGCCGCA
** * * * * * *
58427224 TGTGTAGTACTAAGTGC-AGACTACTATACGTACCCGATAACTTCGATCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAAG-CTACTACGCGTATCAGATAA-TT-GGTCGCATGTGTAGTTCTAA
58427288 GTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACG
63 GTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACG
58427324 TGTGTAGTACTAAGTGCAAGCTACTACGCGTATCAGATAATTGGTCGCATGTGTAGTTCTAAGTG
1 TGTGTAGTACTAAGTGCAAGCTACTACGCGTATCAGATAATTGGTCGCATGTGTAGTTCTAAGTG
58427389 CAGGCTACTAGTGTATTAGATGGCCAGGTCACG
66 CAGGCTACTAGTGTATTAGATGGCCAGGTCACG
* *
58427422 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATAATTGGTCGCATGTGTAGTTCTAAGTG
1 TGTGTAGTACTAAGTGCAAGCTACTACGCGTATCAGATAATTGGTCGCATGTGTAGTTCTAAGTG
58427487 CAGGCTACTA
66 CAGGCTACTA
58427497 TGCGTACCAG
Statistics
Matches: 162, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
98 125 0.77
99 2 0.01
100 33 0.20
101 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (98 bp):
TGTGTAGTACTAAGTGCAAGCTACTACGCGTATCAGATAATTGGTCGCATGTGTAGTTCTAAGTG
CAGGCTACTAGTGTATTAGATGGCCAGGTCACG
Found at i:58427553 original size:98 final size:97
Alignment explanation
Indices: 58427275--58427554 Score: 269
Period size: 98 Copynumber: 2.9 Consensus size: 97
58427265 TTCGATCACG
* * ** * * * *
58427275 TGTGTAGTACTAAGTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACGTGTGTAGTACTAAGTG
1 TGTGTAGTTCTAAGTGCAGGCTACTAGCGTACCAGATAGCCAGGTCAAGTGTGTAGAAATAAGTG
* *
58427340 CAAGCTACTACGCGTATCAGATAATTGGTCGCA
66 CAAGCAACTA-GAGTATCAGATAATTGGTCGCA
* ** * * * *
58427373 TGTGTAGTTCTAAGTGCAGGCTACTAGTGTATTAGATGGCCAGGTCACGTGTGTAGTACTAAGTG
1 TGTGTAGTTCTAAGTGCAGGCTACTAGCGTACCAGATAGCCAGGTCAAGTGTGTAGAAATAAGTG
* * *
58427438 CAAGCTACTACGTGTATCGGATAATTGGTCGCA
66 CAAGCAACTA-GAGTATCAGATAATTGGTCGCA
**
58427471 TGTGTAGTTCTAAGTGCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTG-A-AAATA
1 TGTGTAGTTCTAAGTGCAGGCTACTA-GCGTACCAGATAGC-CAGG-T-CAAGTGTGTAGAAATA
* *
58427534 TGTGCAGGCAACT-GAGTATCA
62 AGTGCAAGCAACTAGAGTATCA
58427555 ATTATTATTC
Statistics
Matches: 161, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
98 127 0.79
99 10 0.06
100 15 0.09
101 2 0.01
102 7 0.04
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (97 bp):
TGTGTAGTTCTAAGTGCAGGCTACTAGCGTACCAGATAGCCAGGTCAAGTGTGTAGAAATAAGTG
CAAGCAACTAGAGTATCAGATAATTGGTCGCA
Found at i:58430950 original size:28 final size:29
Alignment explanation
Indices: 58430919--58430978 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
58430909 GATTTTGAGT
* *
58430919 AAAAATGCATATT-AGGGATTAAATTGTG
1 AAAAATGCAAATTGAGGGATTAAATTATG
* * *
58430947 AAAAGTGTAAATTGAGGGGTTAAATTATG
1 AAAAATGCAAATTGAGGGATTAAATTATG
58430976 AAA
1 AAA
58430979 TAAATGTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (29 bp):
AAAAATGCAAATTGAGGGATTAAATTATG
Found at i:58431926 original size:57 final size:57
Alignment explanation
Indices: 58431856--58431965 Score: 211
Period size: 57 Copynumber: 1.9 Consensus size: 57
58431846 TTGATATTTA
*
58431856 AATGTCATGTGATGACTTTATTTGTATATGGCCTACTAAGCTTTTAAAGCTTAGTTT
1 AATGTCATCTGATGACTTTATTTGTATATGGCCTACTAAGCTTTTAAAGCTTAGTTT
58431913 AATGTCATCTGATGACTTTATTTGTATATGGCCTACTAAGCTTTTAAAGCTTA
1 AATGTCATCTGATGACTTTATTTGTATATGGCCTACTAAGCTTTTAAAGCTTA
58431966 CTTTGTGTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (57 bp):
AATGTCATCTGATGACTTTATTTGTATATGGCCTACTAAGCTTTTAAAGCTTAGTTT
Found at i:58432987 original size:42 final size:42
Alignment explanation
Indices: 58432921--58433014 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
58432911 GCCCTATTTT
*
58432921 CACACGGCCTATGACATAGACATGTCTGGTGACCGTATGAGG
1 CACACGGCCTATGACATAGACATGTCTGGTGACCGTATGAAG
* * *
58432963 CACACGGCCTATGACATGGGCATGTCTGGTGACCGTGTGAAG
1 CACACGGCCTATGACATAGACATGTCTGGTGACCGTATGAAG
58433005 CACACGGCCT
1 CACACGGCCT
58433015 TTTTACATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (42 bp):
CACACGGCCTATGACATAGACATGTCTGGTGACCGTATGAAG
Found at i:58436093 original size:25 final size:25
Alignment explanation
Indices: 58436065--58436124 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
58436055 TAGCTCAAGA
*
58436065 GAGCTTACTGATATTCAGCTCGCAT
1 GAGCTTACCGATATTCAGCTCGCAT
* *
58436090 GAGCTTACCGATATTTAGCTCGTAT
1 GAGCTTACCGATATTCAGCTCGCAT
58436115 GAGCTTACCG
1 GAGCTTACCG
58436125 TTTACATCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (25 bp):
GAGCTTACCGATATTCAGCTCGCAT
Found at i:58439045 original size:28 final size:28
Alignment explanation
Indices: 58439009--58439115 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
58438999 GCAATCAAAT
*
58439009 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
58439037 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
58439065 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
58439093 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
58439116 CGAATGATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:58445093 original size:79 final size:81
Alignment explanation
Indices: 58444957--58445141 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
58444947 TTGAATGATG
*
58444957 TCTGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCTGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
58445021 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
58445036 TTCTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCTGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
58445098 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
58445116 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCTGGGCTAAGTCCCGAAGGCATTTG
58445142 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCTGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:58445148 original size:40 final size:40
Alignment explanation
Indices: 58444960--58445141 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
58444950 AATGATGTCT
* * * *
58444960 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * * *
58445000 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
58445040 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
58445079 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
58445119 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
58445142 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:58445163 original size:79 final size:79
Alignment explanation
Indices: 58445010--58445164 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
58445000 GGACTAAGAT
* * **
58445010 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
58445075 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
58445089 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
58445152 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
58445165 ATTCCAAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:58453109 original size:79 final size:81
Alignment explanation
Indices: 58452976--58453157 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 81
58452966 AATGATGTCT
* *
58452976 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
*
58453040 GCGAGATACTA-ATTCC
66 GCGAGATACTATA-ACC
* * **
58453056 GGGCTAAG-CCCGAAGGCATTTGTGCGAA-TTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTG
*
58453118 TGCGAGTTACTATAACC
65 TGCGAGATACTATAACC
*
58453135 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
58453158 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGATACTATAACC
Found at i:58453164 original size:40 final size:39
Alignment explanation
Indices: 58452976--58453157 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 39
58452966 AATGATGTCT
* * * *
58452976 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACC
* * *
58453016 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-ACC
*
58453056 GGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-CC
*
58453095 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACC
*
58453135 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
58453158 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACC
Found at i:58453179 original size:79 final size:79
Alignment explanation
Indices: 58453026--58453190 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
58453016 GGACTAAGAT
* ** *
58453026 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAAGTACTAA
*
58453091 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
58453105 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACG-AGTAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAAGTA-C
* *
58453168 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
58453184 CCGAAGG
1 CCGAAGG
58453191 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.66
80 23 0.31
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAAGTACTAA
ATCCGGGTTAAATC
Found at i:58455762 original size:15 final size:16
Alignment explanation
Indices: 58455744--58455773 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58455734 AACTGTTTTA
58455744 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
58455759 TTACATAATTTCACT
1 TTACATAATTTCACT
58455774 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:58456103 original size:50 final size:50
Alignment explanation
Indices: 58455985--58456266 Score: 246
Period size: 50 Copynumber: 5.6 Consensus size: 50
58455975 CTGGCACGCA
* * * * *
58455985 TAGTATCCTGCACTTAGTACTACACATGTGACC-AACAATCCGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
* *
58456034 TAGTAGTCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
* * *** * * *
58456084 TAGTAGCCTGCACTTAGTACTACACACGTGATC-AAAGTTGTCAAGTAC-GG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCT-GA-TACACG
* * * * *
58456134 ATAGTAGTCTGAACTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 -TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
* * * * * * *
58456185 TAGTAGCCTACACTTAGTACTACATATGTGACCTAAAACCATTTTAAATACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGATACACG
*
58456237 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
58456267 TTCTCACAAC
Statistics
Matches: 183, Mismatches: 42, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
49 34 0.19
50 77 0.42
51 32 0.17
52 40 0.22
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
Found at i:58456931 original size:16 final size:16
Alignment explanation
Indices: 58456910--58456949 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
58456900 TTTTTGCCCC
58456910 TAAACTTTGTCAAAAA
1 TAAACTTTGTCAAAAA
58456926 TAAACTTTGTCAAAAA
1 TAAACTTTGTCAAAAA
*
58456942 TACACTTT
1 TAAACTTT
58456950 TTCCCCTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (16 bp):
TAAACTTTGTCAAAAA
Found at i:58463462 original size:7 final size:7
Alignment explanation
Indices: 58463450--58463480 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
58463440 AAAGGAATAG
*
58463450 GTGAGTT
1 GTGAGTC
58463457 GTGAGTC
1 GTGAGTC
58463464 GTGAGTC
1 GTGAGTC
58463471 GTGAGTC
1 GTGAGTC
58463478 GTG
1 GTG
58463481 TGTGCAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.10, G:0.45, T:0.32
Consensus pattern (7 bp):
GTGAGTC
Found at i:58474119 original size:42 final size:41
Alignment explanation
Indices: 58474047--58474206 Score: 124
Period size: 42 Copynumber: 3.8 Consensus size: 41
58474037 TCATACGAGT
** * * *
58474047 TTTAACCCTTTTGGGCTTCATTTCAGCTCTTTTGAGCTTCAG
1 TTTAACCCTTACGGGTTTCGTTT-AGCTCTTATGAGCTTCAG
* * * * * *
58474089 TTTAACCCTAACGGGTTTCAGTTTATCTCTTCTAAGTTTTAG
1 TTTAACCCTTACGGGTTTC-GTTTAGCTCTTATGAGCTTCAG
* * *
58474131 TTCAACCCTTATGGGTTTTCGTTCAGCTCTTATGAGCTTTCA-
1 TTTAACCCTTACGGG-TTTCGTTTAGCTCTTATGAGC-TTCAG
* *
58474173 TTTAACCCTTACGAGTTTCCGTTTAGCACTTATG
1 TTTAACCCTTACGGGTTT-CGTTTAGCTCTTATG
58474207 TGTTTCAATT
Statistics
Matches: 90, Mismatches: 24, Indels: 8
0.74 0.20 0.07
Matches are distributed among these distances:
41 3 0.03
42 77 0.86
43 10 0.11
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.44
Consensus pattern (41 bp):
TTTAACCCTTACGGGTTTCGTTTAGCTCTTATGAGCTTCAG
Found at i:58474148 original size:21 final size:21
Alignment explanation
Indices: 58474124--58474164 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
58474114 TCTCTTCTAA
58474124 GTTTTAGTTCAACCCTTATGG
1 GTTTTAGTTCAACCCTTATGG
* * *
58474145 GTTTTCGTTCAGCTCTTATG
1 GTTTTAGTTCAACCCTTATG
58474165 AGCTTTCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (21 bp):
GTTTTAGTTCAACCCTTATGG
Found at i:58476635 original size:24 final size:24
Alignment explanation
Indices: 58476601--58476646 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
58476591 ATTCATGCCA
58476601 CAAAATATACCAATTCATCATCAT
1 CAAAATATACCAATTCATCATCAT
*
58476625 CAAAATGTACCAATTCATCATC
1 CAAAATATACCAATTCATCATC
58476647 CCTATACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.28
Consensus pattern (24 bp):
CAAAATATACCAATTCATCATCAT
Found at i:58478245 original size:18 final size:19
Alignment explanation
Indices: 58478212--58478247 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58478202 TTCATATTTC
58478212 ACAATTTAATCCAAAATTA
1 ACAATTTAATCCAAAATTA
*
58478231 ACAATTTTA-CCAAAATT
1 ACAATTTAATCCAAAATT
58478248 CACTTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
ACAATTTAATCCAAAATTA
Found at i:58479106 original size:21 final size:21
Alignment explanation
Indices: 58479080--58479121 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
58479070 TTGATCTATA
58479080 AGTAATCAAAATCAGCTTATT
1 AGTAATCAAAATCAGCTTATT
58479101 AGTAATCAAAATCAGCTTATT
1 AGTAATCAAAATCAGCTTATT
58479122 TATTCTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (21 bp):
AGTAATCAAAATCAGCTTATT
Found at i:58479428 original size:21 final size:20
Alignment explanation
Indices: 58479394--58479432 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
58479384 AAACTTGTAT
58479394 ATCTATCAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
* *
58479415 ATCTATTAAGAAACTTCA
1 ATCTATCAACAAACTTCA
58479433 AATTACATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:58481417 original size:21 final size:21
Alignment explanation
Indices: 58481393--58481433 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58481383 TTCTCTTTTG
*
58481393 AAGATAGA-AAACATACAACTA
1 AAGAAAGAGAAACA-ACAACTA
58481414 AAGAAAGAGAAACAACAACT
1 AAGAAAGAGAAACAACAACT
58481434 TTAGGAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.63, C:0.15, G:0.12, T:0.10
Consensus pattern (21 bp):
AAGAAAGAGAAACAACAACTA
Found at i:58483392 original size:39 final size:39
Alignment explanation
Indices: 58483349--58483425 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
58483339 TAATTCATCG
*
58483349 TTTCAGCGAACGAAGTAAGTTCGTATGCTAATAGACGTC
1 TTTCAGCGAACGAAGCAAGTTCGTATGCTAATAGACGTC
58483388 TTTCAGCGAACGAAGCAAGTTCGTATGCTAATAGACGT
1 TTTCAGCGAACGAAGCAAGTTCGTATGCTAATAGACGT
58483426 ACTTACATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (39 bp):
TTTCAGCGAACGAAGCAAGTTCGTATGCTAATAGACGTC
Found at i:58483635 original size:43 final size:42
Alignment explanation
Indices: 58483587--58483757 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 42
58483577 GTTACTAAGA
*
58483587 TGTGATTACATGTCAGACCATGTCTGGGACACTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATTGTAT
* * * *
58483630 TGTGATTACGTGTAAAACTATGTCTGGGACATTGGCATTGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATTG-TAT
* * * * *
58483674 T-CGATTTCGTGTAAGACTC-TGTCTAGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGAC-CATGTCTGGGACA-TGGCATTGTAT
* * * *
58483715 ATATGATAACATGTAAGACCATATCTGGGATATGGCATTGTAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATGGCATTGTAT
58483758 GAGCTTTATG
Statistics
Matches: 100, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 87 0.87
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATGGCATTGTAT
Found at i:58491967 original size:19 final size:20
Alignment explanation
Indices: 58491943--58491981 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
58491933 GATAGAAAAG
58491943 TTGAGAAATT-TGAGGCTAT
1 TTGAGAAATTATGAGGCTAT
58491962 TTGAGAAATTGATGAGGCTA
1 TTGAGAAATT-ATGAGGCTA
58491982 GTGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (20 bp):
TTGAGAAATTATGAGGCTAT
Found at i:58501537 original size:59 final size:57
Alignment explanation
Indices: 58501471--58501659 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
58501461 ATTTTATTAA
58501471 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
58501530 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
58501591 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
58501650 ATCATATATT
1 ATCATATATT
58501660 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:58501568 original size:66 final size:64
Alignment explanation
Indices: 58501498--58501696 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
58501488 AAATATATTT
*
58501498 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
58501563 G
64 G
* * * * **
58501564 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
58501618 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
58501683 G
64 G
*
58501684 AATATTGATTATT
1 AATATTAATTATT
58501697 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:58501590 original size:120 final size:120
Alignment explanation
Indices: 58501460--58501752 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
58501450 AATTATTTTA
* * *
58501460 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
58501524 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
58501580 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
58501645 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
58501700 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATGTT
58501753 TAAAGATGAT
Statistics
Matches: 162, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
120 159 0.98
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:58501600 original size:61 final size:61
Alignment explanation
Indices: 58501533--58501720 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
58501523 TTATAGTATC
*
58501533 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
58501594 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
58501652 C
61 T
*
58501653 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
58501714 CTATATT
1 ATATATT
58501721 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:58501620 original size:15 final size:15
Alignment explanation
Indices: 58501585--58501636 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
58501575 TTAAGAATTT
*
58501585 TATTAAATTAT-ATA
1 TATTTAATTATAATA
58501599 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
58501613 TATTTAATAATAAT-
1 TATTTAATTATAATA
58501627 TATGTTAATT
1 TAT-TTAATT
58501637 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:58501992 original size:16 final size:16
Alignment explanation
Indices: 58501971--58502038 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
58501961 GATTTGCTAT
58501971 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58501987 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
58502003 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
58502019 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58502035 TACA
1 TACA
58502039 GAGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58502492 original size:6 final size:6
Alignment explanation
Indices: 58502481--58502506 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
58502471 AATTGCTTAA
58502481 ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT AT
58502507 TCAATGGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:58508145 original size:18 final size:18
Alignment explanation
Indices: 58508121--58508161 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
58508111 TATCTCATGT
*
58508121 ATCATATTATCCATGTAA
1 ATCATATAATCCATGTAA
* *
58508139 TTCATATAATTCATGTAA
1 ATCATATAATCCATGTAA
58508157 ATCAT
1 ATCAT
58508162 GTAACTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (18 bp):
ATCATATAATCCATGTAA
Found at i:58508415 original size:23 final size:23
Alignment explanation
Indices: 58508362--58508442 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
58508352 CTGAGCTAAT
*
58508362 AAACGGTAAACTCCGAAGAGCTG
1 AAACGGTAAGCTCCGAAGAGCTG
* * *
58508385 -AACGGTAAGCTCCGTATAGTTG
1 AAACGGTAAGCTCCGAAGAGCTG
* *
58508407 AAACGGTAAGCCCCAAAGAGCTG
1 AAACGGTAAGCTCCGAAGAGCTG
58508430 AAACGGTAAGCTC
1 AAACGGTAAGCTC
58508443 ATATGAACTA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
22 18 0.38
23 29 0.62
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (23 bp):
AAACGGTAAGCTCCGAAGAGCTG
Found at i:58515147 original size:18 final size:17
Alignment explanation
Indices: 58515119--58515153 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
58515109 GTATATTATA
58515119 TATTTATAATTAATAAT
1 TATTTATAATTAATAAT
58515136 TATTTGATAATTAATAAT
1 TATTT-ATAATTAATAAT
58515154 AAATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TATTTATAATTAATAAT
Found at i:58517726 original size:43 final size:42
Alignment explanation
Indices: 58517647--58517814 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 42
58517637 AAAATGCCGT
* * * *
58517647 TAAAGACCATGAACTTTAGTGGAGCTTTTTTCGCAAACGCCAA
1 TAAAGACCATG-ACTTTAGCGGCGCTTTTTCCGCAAACGCCAC
* *
58517690 TAAAAACCATGATCTTTAGCGGCG-TTTTTCCTGCAAACGCCTC
1 TAAAGACCATGA-CTTTAGCGGCGCTTTTTCC-GCAAACGCCAC
* * * * *
58517733 TAAAGACCATGACCTTAGCGTCGCTTTTTTCACAAACGCCGC
1 TAAAGACCATGACTTTAGCGGCGCTTTTTCCGCAAACGCCAC
* *
58517775 TAAAGACCATGACCTTTAGCGGCACTTTTCCCGCAAACGC
1 TAAAGACCATGA-CTTTAGCGGCGCTTTTTCCGCAAACGC
58517815 TGCTATATAA
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
42 37 0.36
43 66 0.64
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (42 bp):
TAAAGACCATGACTTTAGCGGCGCTTTTTCCGCAAACGCCAC
Found at i:58517772 original size:85 final size:86
Alignment explanation
Indices: 58517647--58517814 Score: 221
Period size: 85 Copynumber: 2.0 Consensus size: 86
58517637 AAAATGCCGT
* * * *
58517647 TAAAGACCATGAACTTTAGTGGAGCTTTTTTCGCAAACGCCAATAAAAACCATGATCTTTAGCGG
1 TAAAGACCATGAACCTTAGCGGAGCTTTTTTCACAAACGCCAATAAAAACCATGACCTTTAGCGG
** *
58517712 CGTTTTTCCTGCAAACGCCTC
66 CACTTTTCCCGCAAACGCCTC
** ** *
58517733 TAAAGACCATG-ACCTTAGCGTCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGG
1 TAAAGACCATGAACCTTAGCGGAGCTTTTTTCACAAACGCCAATAAAAACCATGACCTTTAGCGG
58517797 CACTTTTCCCGCAAACGC
66 CACTTTTCCCGCAAACGC
58517815 TGCTATATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
85 59 0.84
86 11 0.16
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (86 bp):
TAAAGACCATGAACCTTAGCGGAGCTTTTTTCACAAACGCCAATAAAAACCATGACCTTTAGCGG
CACTTTTCCCGCAAACGCCTC
Found at i:58517836 original size:85 final size:83
Alignment explanation
Indices: 58517670--58517865 Score: 207
Period size: 85 Copynumber: 2.3 Consensus size: 83
58517660 CTTTAGTGGA
* ** * * ** *
58517670 GCTTTTTTCGCAAACGCCAATAAAAACCATGATCTTTAGCGGCGTTTTTCCTGCAAACGCCTCTA
1 GCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCCCGCAAACGCCTCTA
*
58517735 AAGACCATGACCTTAGCGT
66 AAGAACATGACCTTAGC-T
58517754 CGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCCCGCAAACG-CTGC
1 -GCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCCCGCAAACGCCT-C
* *
58517818 TATATAACAT-ACCTTTAGCT
64 TAAAGAACATGACC-TTAGCT
* *
58517838 GCGTTTTTCCCACAAATGCCGCTAAAGA
1 GC-TTTTT-TCACAAACGCCGCTAAAGA
58517866 ATATAACCTT
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
83 2 0.02
84 11 0.12
85 81 0.86
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (83 bp):
GCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCCCGCAAACGCCTCTA
AAGAACATGACCTTAGCT
Found at i:58522951 original size:22 final size:22
Alignment explanation
Indices: 58522921--58522974 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
58522911 CTTAAACTGC
58522921 AACTCTTAAAACAATAACTCATA
1 AACT-TTAAAACAATAACTCATA
*
58522944 AACTTTAAAACAGTAACTCATA
1 AACTTTAAAACAATAACTCATA
*
58522966 AACCTTAAA
1 AACTTTAAA
58522975 CCCTTAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26
Consensus pattern (22 bp):
AACTTTAAAACAATAACTCATA
Found at i:58522982 original size:22 final size:22
Alignment explanation
Indices: 58522925--58523001 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 22
58522915 AACTGCAACT
* *
58522925 CTTAAAACAATAACTCATAAAC
1 CTTAAACCAGTAACTCATAAAC
* *
58522947 TTTAAAACAGTAACTCATAAAC
1 CTTAAACCAGTAACTCATAAAC
** *
58522969 CTTAAACCCTTAAC-CATATAC
1 CTTAAACCAGTAACTCATAAAC
*
58522990 CCTAAACC-GTAA
1 CTTAAACCAGTAA
58523002 ACCCTAAACT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
20 3 0.07
21 13 0.28
22 30 0.65
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.25
Consensus pattern (22 bp):
CTTAAACCAGTAACTCATAAAC
Found at i:58522983 original size:14 final size:14
Alignment explanation
Indices: 58522964--58523015 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
58522954 CAGTAACTCA
*
58522964 TAAACCTTAAACCC
1 TAAACCATAAACCC
* *
58522978 TTAACCATATACCC
1 TAAACCATAAACCC
*
58522992 TAAACCGTAAACCC
1 TAAACCATAAACCC
*
58523006 TAAACTATAA
1 TAAACCATAA
58523016 TGATAATTGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:58522986 original size:21 final size:22
Alignment explanation
Indices: 58522957--58522997 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
58522947 TTTAAAACAG
*
58522957 TAACTCATAAACCTTAAACCCT
1 TAACTCATAAACCCTAAACCCT
*
58522979 TAAC-CATATACCCTAAACC
1 TAACTCATAAACCCTAAACC
58522998 GTAAACCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (22 bp):
TAACTCATAAACCCTAAACCCT
Found at i:58523196 original size:21 final size:22
Alignment explanation
Indices: 58523140--58523196 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 22
58523130 CCTAATCCCT
* *
58523140 AATCCATAATCCTTAAACCATA
1 AATCCATAAGCCTTAAAACATA
* *
58523162 AA-CCCTAAGTCTTAAAACATA
1 AATCCATAAGCCTTAAAACATA
*
58523183 AATCCTTAA-CCTTA
1 AATCCATAAGCCTTA
58523197 GACCCCTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.28
Consensus pattern (22 bp):
AATCCATAAGCCTTAAAACATA
Found at i:58523232 original size:36 final size:36
Alignment explanation
Indices: 58523192--58523292 Score: 121
Period size: 36 Copynumber: 2.8 Consensus size: 36
58523182 AAATCCTTAA
* * *
58523192 CCTTAGACCCCTAACCCCTAACCCTTAAACCATAAT
1 CCTTAAACCCATAACCCCTAAACCTTAAACCATAAT
* *
58523228 CCTTAAACCTATAACCCCTAAACTTTAAACCATAAT
1 CCTTAAACCCATAACCCCTAAACCTTAAACCATAAT
* * * *
58523264 CCCTAAACCAATAATCCATAAACCTTAAA
1 CCTTAAACCCATAACCCCTAAACCTTAAA
58523293 ATGGTAACTC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.24
Consensus pattern (36 bp):
CCTTAAACCCATAACCCCTAAACCTTAAACCATAAT
Found at i:58523262 original size:21 final size:22
Alignment explanation
Indices: 58523230--58523271 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
58523220 ACCATAATCC
58523230 TTAAACCTATAACCCCTAAACT
1 TTAAACCTATAACCCCTAAACT
*
58523252 TTAAACC-ATAATCCCTAAAC
1 TTAAACCTATAACCCCTAAAC
58523272 CAATAATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAACCTATAACCCCTAAACT
Found at i:58523277 original size:15 final size:14
Alignment explanation
Indices: 58523253--58523287 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
58523243 CCCTAAACTT
*
58523253 TAAACCATAATCCC
1 TAAACCATAATCCA
58523267 TAAACCAATAATCCA
1 TAAACC-ATAATCCA
58523282 TAAACC
1 TAAACC
58523288 TTAAAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:58523346 original size:14 final size:14
Alignment explanation
Indices: 58523211--58523350 Score: 59
Period size: 14 Copynumber: 9.7 Consensus size: 14
58523201 CCTAACCCCT
58523211 AACCCTTAAACCATA
1 AACCC-TAAACCATA
* *
58523226 ATCCTTAAACCTATA
1 AACCCTAAACC-ATA
* **
58523241 ACCCCTAAACTTTA
1 AACCCTAAACCATA
* * *
58523255 AACCATAATCCCTA
1 AACCCTAAACCATA
* *
58523269 AACCAATAATCCATA
1 AACC-CTAAACCATA
* *
58523284 AACCTTAAA--ATGGT
1 AACCCTAAACCAT--A
* *
58523298 AACTCATAAACCTTA
1 AAC-CCTAAACCATA
*
58523313 AACCCTTAACCATA
1 AACCCTAAACCATA
**
58523327 TGCCCTAAACCATA
1 AACCCTAAACCATA
58523341 AACCCTAAAC
1 AACCCTAAAC
58523351 TATATGATAA
Statistics
Matches: 92, Mismatches: 26, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
12 2 0.02
14 54 0.59
15 35 0.38
17 1 0.01
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.24
Consensus pattern (14 bp):
AACCCTAAACCATA
Found at i:58524722 original size:41 final size:40
Alignment explanation
Indices: 58524616--58524757 Score: 140
Period size: 41 Copynumber: 3.5 Consensus size: 40
58524606 AAAAAATATT
* ** *
58524616 TATTGCTTTACCTTTAGCAGCGTTTTTTCATAAACGTCGC
1 TATTGCTTTACCTTTAGCAGCGTTTATGGAAAAACGTCGC
* ** * *
58524656 TATTGCTTTACCTTTTGTGGCGTTTATAGGAAAAAGGTCAC
1 TATTGCTTTACCTTTAGCAGCGTTTAT-GGAAAAACGTCGC
* * **
58524697 TACTGCTTTACCTTTAGCAGTGTTTATGAGAAAAACACCGC
1 TATTGCTTTACCTTTAGCAGCGTTTATG-GAAAAACGTCGC
*
58524738 TATTGCTTTACCTTTTGCAG
1 TATTGCTTTACCTTTAGCAG
58524758 TGTTATCAAT
Statistics
Matches: 80, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
40 24 0.30
41 56 0.70
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (40 bp):
TATTGCTTTACCTTTAGCAGCGTTTATGGAAAAACGTCGC
Found at i:58524807 original size:11 final size:12
Alignment explanation
Indices: 58524770--58524809 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
58524760 TTATCAATCC
58524770 AAACGCCACTAA
1 AAACGCCACTAA
*
58524782 AAATGCCACTAA
1 AAACGCCACTAA
*
58524794 AAACGCCGCTAA
1 AAACGCCACTAA
58524806 AAAC
1 AAAC
58524810 CTATTTTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.50, C:0.30, G:0.10, T:0.10
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:58530368 original size:40 final size:40
Alignment explanation
Indices: 58530291--58530368 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
58530281 CATATCCGTA
* *
58530291 GCGTTTGACCAAAAACGCTACTATTGCTCAACTTTTTGTG
1 GCGTTTGACCAAAAACGCCACTATTGCTCAACCTTTTGTG
* *
58530331 GCGTTTGGACCAAAAAGGCCACTATTGCT-TACCTTTTG
1 GCGTTT-GACCAAAAACGCCACTATTGCTCAACCTTTTG
58530369 CGGCATTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 13 0.39
41 20 0.61
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (40 bp):
GCGTTTGACCAAAAACGCCACTATTGCTCAACCTTTTGTG
Found at i:58531197 original size:7 final size:7
Alignment explanation
Indices: 58531187--58531219 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
58531177 ATCCTAAATC
58531187 CTAAACA
1 CTAAACA
58531194 CTAAACA
1 CTAAACA
58531201 CTAAACA
1 CTAAACA
*
58531208 CTAAACC
1 CTAAACA
58531215 CTAAA
1 CTAAA
58531220 GTCATCAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACA
Found at i:58531197 original size:14 final size:13
Alignment explanation
Indices: 58531180--58531219 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
58531170 CCCCTAAATC
58531180 CTAAATCCTAAACA
1 CTAAA-CCTAAACA
58531194 CTAAACACTAAACA
1 CTAAAC-CTAAACA
58531208 CTAAACCCTAAA
1 CTAAA-CCTAAA
58531220 GTCATCAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 22 0.92
15 1 0.04
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (13 bp):
CTAAACCTAAACA
Found at i:58532237 original size:32 final size:33
Alignment explanation
Indices: 58532182--58532245 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
58532172 TGCTCATAAG
58532182 TGCCGCTACAGCTAGACCTTTTTGCGGCGTTTA
1 TGCCGCTACAGCTAGACCTTTTTGCGGCGTTTA
58532215 TGCCGCTACAGCTAGACC-TTTTGCGGCGTTT
1 TGCCGCTACAGCTAGACCTTTTTGCGGCGTTT
58532246 TTCTCATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.14, C:0.28, G:0.25, T:0.33
Consensus pattern (33 bp):
TGCCGCTACAGCTAGACCTTTTTGCGGCGTTTA
Found at i:58532735 original size:22 final size:23
Alignment explanation
Indices: 58532688--58532737 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
58532678 AACATAATCA
*
58532688 AAGTGCCAAAATAAATTGCACCG
1 AAGTGCCAAAATAAATCGCACCG
* *
58532711 AAGTGCCATAAT-AATCGCACTG
1 AAGTGCCAAAATAAATCGCACCG
58532733 AAGTG
1 AAGTG
58532738 TGAGTATGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (23 bp):
AAGTGCCAAAATAAATCGCACCG
Found at i:58533737 original size:137 final size:137
Alignment explanation
Indices: 58533491--58533763 Score: 492
Period size: 137 Copynumber: 2.0 Consensus size: 137
58533481 TGATTGTGTC
* *
58533491 GTTAGCTATGTATGGTAATCCATTTAAAAAATAGTATTAGTCTACATTCAACAAAGGTATAACCA
1 GTTAGCTATGTATGATAATCCATTTAAAAAATAGTATTAGTCTACATTAAACAAAGGTATAACCA
*
58533556 ATAACCAAGTAAAATTGCATTCTTTACAACTAAGTCTCTTTTTAGCCATAATATCTAAAATGCTT
66 ACAACCAAGTAAAATTGCATTCTTTACAACTAAGTCTCTTTTTAGCCATAATATCTAAAATGCTT
58533621 GTATCTA
131 GTATCTA
*
58533628 GTTAGCTATGTATGATAATCCATTTAAAAAATAGTATTAGTCTACATTAAATAAAGGTATAACCA
1 GTTAGCTATGTATGATAATCCATTTAAAAAATAGTATTAGTCTACATTAAACAAAGGTATAACCA
*
58533693 ACAACCAAGTAAAATTGCATTCTTTACAACTAAGTCTCTTTTTAGCCTTAATATCTAAAATGCTT
66 ACAACCAAGTAAAATTGCATTCTTTACAACTAAGTCTCTTTTTAGCCATAATATCTAAAATGCTT
*
58533758 TTATCT
131 GTATCT
58533764 CATTATTTAG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 130 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (137 bp):
GTTAGCTATGTATGATAATCCATTTAAAAAATAGTATTAGTCTACATTAAACAAAGGTATAACCA
ACAACCAAGTAAAATTGCATTCTTTACAACTAAGTCTCTTTTTAGCCATAATATCTAAAATGCTT
GTATCTA
Found at i:58535219 original size:46 final size:46
Alignment explanation
Indices: 58535169--58535341 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
58535159 TGGTTGAGCA
* *
58535169 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
58535215 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* *
58535262 TCCGAACTCGTTGAGTTGAGTCCGATTTCATTTATGGATGTAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
58535308 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58535342 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 7 0.07
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:58535325 original size:93 final size:93
Alignment explanation
Indices: 58535166--58535336 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
58535156 GGATGGTTGA
* *
58535166 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
58535231 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
58535259 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCATTTATGGATGTAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
58535324 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58535337 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58535603 original size:19 final size:20
Alignment explanation
Indices: 58535566--58535603 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58535556 ATAAGGTGGT
58535566 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58535586 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58535604 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58542798 original size:46 final size:46
Alignment explanation
Indices: 58542748--58542919 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
58542738 TGGTTGAGCA
*
58542748 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
58542794 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
58542841 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
58542887 CCCGAGCT-GTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58542920 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 27 0.25
46 36 0.34
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58543181 original size:19 final size:20
Alignment explanation
Indices: 58543144--58543181 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58543134 ATAAGGTGGT
58543144 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58543164 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58543182 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58546549 original size:12 final size:11
Alignment explanation
Indices: 58546528--58546574 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
58546518 AAAAGTTTTT
58546528 AATT-AAAATA
1 AATTAAAAATA
58546538 ATATTAAAAATA
1 A-ATTAAAAATA
*
58546550 AATTAAACATAA
1 AATTAAAAAT-A
*
58546562 AATAAAAAATA
1 AATTAAAAATA
58546573 AA
1 AA
58546575 AAAAAACCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 1 0.03
11 14 0.45
12 16 0.52
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (11 bp):
AATTAAAAATA
Found at i:58546858 original size:44 final size:44
Alignment explanation
Indices: 58546809--58546897 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
58546799 GTTCAGAAAG
*
58546809 AAAAAATTATTTTAATATTATTTTATAATCTATAGTATGATAAT
1 AAAAAATTATTTTAATATTATTCTATAATCTATAGTATGATAAT
58546853 AAAAAATTATTTTAATATTATTCTATAATCTATAGTATGATAAT
1 AAAAAATTATTTTAATATTATTCTATAATCTATAGTATGATAAT
58546897 A
1 A
58546898 GTATTGTGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (44 bp):
AAAAAATTATTTTAATATTATTCTATAATCTATAGTATGATAAT
Found at i:58548309 original size:57 final size:57
Alignment explanation
Indices: 58548231--58548352 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
58548221 AATCTCTCTC
* * * * * * * *
58548231 GAGCAAATGTTACAATTAGGATTTATCCTGTACTAGTAATCCTAATTGAGCTCTTTT
1 GAGCATATGTTACAATAAGGATTCAACCTGGACTAGTAATCCTAATTAAGCTCATGT
*
58548288 GAGCATATGTTACAGA-AAGGATTCAACCTGGACTAGTAATCCTAATTAAGTTCATGT
1 GAGCATATGTTACA-ATAAGGATTCAACCTGGACTAGTAATCCTAATTAAGCTCATGT
58548345 GAGCATAT
1 GAGCATAT
58548353 ATTGGAGACA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 54 0.98
58 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (57 bp):
GAGCATATGTTACAATAAGGATTCAACCTGGACTAGTAATCCTAATTAAGCTCATGT
Found at i:58548366 original size:57 final size:57
Alignment explanation
Indices: 58548248--58548378 Score: 154
Period size: 57 Copynumber: 2.3 Consensus size: 57
58548238 TGTTACAATT
* * * * * *
58548248 AGGATTTATCCTGTACTAGTAATCCTAATTGAGCTCTTTTGAGCATATGTTACAGAA
1 AGGATTTAACCTGGACTAGTAATCCTAATTAAGCTCATGTGAGCATATATTACAGAA
* * ** *
58548305 AGGATTCAACCTGGACTAGTAATCCTAATTAAGTTCATGTGAGCATATATTGGAGAC
1 AGGATTTAACCTGGACTAGTAATCCTAATTAAGCTCATGTGAGCATATATTACAGAA
*
58548362 AGGATTTAGCCTGGACT
1 AGGATTTAACCTGGACT
58548379 GATAACCCTG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (57 bp):
AGGATTTAACCTGGACTAGTAATCCTAATTAAGCTCATGTGAGCATATATTACAGAA
Found at i:58549908 original size:22 final size:22
Alignment explanation
Indices: 58549852--58549908 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
58549842 ACTGTCTGCA
* *
58549852 ACACGGGCGTGTCCCTTGAACC
1 ACACAGGCGTGTGCCTTGAACC
* *
58549874 ACATAGGCGTGTGCCTTGGACC
1 ACACAGGCGTGTGCCTTGAACC
58549896 ACACAGGCGTGTG
1 ACACAGGCGTGTG
58549909 AGCCCTGCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (22 bp):
ACACAGGCGTGTGCCTTGAACC
Found at i:58551116 original size:52 final size:52
Alignment explanation
Indices: 58551058--58551161 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
58551048 ATTCATATGA
* *
58551058 TACTATTTTCTACTTCTACTGATTGAAGCCCTGAATTGCGAATATGCAAATT
1 TACTATTTTCTACTTCTACTAATTGAAGCCCTGAATTGCGAATATACAAATT
58551110 TACTATTTTCTACTTCTACTAATTGAAGCCCTGAATTGCGAATATACAAATT
1 TACTATTTTCTACTTCTACTAATTGAAGCCCTGAATTGCGAATATACAAATT
58551162 ATATTGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (52 bp):
TACTATTTTCTACTTCTACTAATTGAAGCCCTGAATTGCGAATATACAAATT
Found at i:58553018 original size:40 final size:40
Alignment explanation
Indices: 58552947--58553139 Score: 300
Period size: 40 Copynumber: 4.8 Consensus size: 40
58552937 TATCTAGCAC
* * *
58552947 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACGATTCCAGCACGA
*
58552986 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
*
58553026 AGCCTGCGGGCCTTTAAGCCCGGATACGATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
58553066 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
* *
58553106 AGCCTGCGGGTCTTTAAGCCCAGATACCATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCA
58553140 CATCAAATAA
Statistics
Matches: 144, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.11
40 128 0.89
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
Found at i:58561396 original size:40 final size:40
Alignment explanation
Indices: 58561212--58561396 Score: 266
Period size: 40 Copynumber: 4.7 Consensus size: 40
58561202 TATCTAGCAC
* *
58561212 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-TCAATTCCAGCACGA
*
58561251 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATTCAATTCCAGCACGA
* * * *
58561291 AGCCTACAGGTCTTTAAGCCTGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATTCAATTCCAGCACGA
* *
58561331 AGCCTGCGGGTCTTTAGGCTCGGATTCAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATTCAATTCCAGCACGA
58561371 AGCCTGCGGGTCTTTAAGCCCGGATT
1 AGCCTGCGGGTCTTTAAGCCCGGATT
58561397 GTTTTTATCA
Statistics
Matches: 130, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 16 0.12
40 114 0.88
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATTCAATTCCAGCACGA
Found at i:58566181 original size:21 final size:20
Alignment explanation
Indices: 58566157--58566199 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
58566147 GCCTAAGATG
*
58566157 TAAATTGGATTGAATTGAGTT
1 TAAATTGGATTAAATTGA-TT
*
58566178 TAAATTGTATTAAATTGATT
1 TAAATTGGATTAAATTGATT
58566198 TA
1 TA
58566200 CTCGTATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (20 bp):
TAAATTGGATTAAATTGATT
Found at i:58566855 original size:57 final size:57
Alignment explanation
Indices: 58566672--58566869 Score: 181
Period size: 57 Copynumber: 3.5 Consensus size: 57
58566662 CATTATAGAT
* * ** * * *
58566672 AGGATTTAGCCCGGACGGGTAATCCTGATATAATCTC-TCTCGAGCATATGTTACA-ATT
1 AGGATTCAGCCTGGACTTGTAATCCTAAT-TAAGCTCTTCT-GAGCATATGTTACAGA-A
*
58566730 AGGATTTA-CCTTGGAC-TGATAATCCTAATTAAGCTCTTCTGAGCATATGTTACAGAA
1 AGGATTCAGCC-TGGACTTG-TAATCCTAATTAAGCTCTTCTGAGCATATGTTACAGAA
* ** *
58566787 AGGATTCAGCCTGGACTTGTAATCCTAATTAAGCTCTTTTGAGCATATGTTGGAGAC
1 AGGATTCAGCCTGGACTTGTAATCCTAATTAAGCTCTTCTGAGCATATGTTACAGAA
* *
58566844 AGGAATT-AGCCTGAACTGGTAATCCT
1 AGG-ATTCAGCCTGGACTTGTAATCCT
58566870 GTTATATTAT
Statistics
Matches: 121, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
57 89 0.74
58 32 0.26
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (57 bp):
AGGATTCAGCCTGGACTTGTAATCCTAATTAAGCTCTTCTGAGCATATGTTACAGAA
Found at i:58569839 original size:26 final size:26
Alignment explanation
Indices: 58569810--58569890 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
58569800 ATTTACACGA
58569810 AATGGTTATATAAAGTATATATATGG
1 AATGGTTATATAAAGTATATATATGG
* * **
58569836 AATGATTATATGAA-TCAGGTATATGG
1 AATGGTTATATAAAGT-ATATATATGG
* * *
58569862 AAAATAGTTATATAAAGTGTTTATATGG
1 --AATGGTTATATAAAGTATATATATGG
58569890 A
1 A
58569891 GTGTTGATAT
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
25 1 0.02
26 21 0.51
28 18 0.44
29 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.37
Consensus pattern (26 bp):
AATGGTTATATAAAGTATATATATGG
Found at i:58571662 original size:26 final size:26
Alignment explanation
Indices: 58571633--58571687 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
58571623 GGATACCTGG
*
58571633 GTAATTACTCCTCATCATGGAGCATT
1 GTAATTACTCCTCACCATGGAGCATT
58571659 GTAATTACTCCTCACCATGGAGCATT
1 GTAATTACTCCTCACCATGGAGCATT
58571685 GTA
1 GTA
58571688 GTGTTGAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (26 bp):
GTAATTACTCCTCACCATGGAGCATT
Found at i:58571780 original size:20 final size:20
Alignment explanation
Indices: 58571757--58571840 Score: 91
Period size: 20 Copynumber: 4.2 Consensus size: 20
58571747 TGCAAATAGT
* *
58571757 GGCAAGAAAGTGCAATCAGA
1 GGCATGAAAGTGCAATCAGG
*
58571777 GGCACCG-AAGTGCAAT-AGGG
1 GGCA-TGAAAGTGCAATCA-GG
*
58571797 GGCATGAAAGTGCAATTAGG
1 GGCATGAAAGTGCAATCAGG
*
58571817 GGCATGAAAGTGCAATCAAG
1 GGCATGAAAGTGCAATCAGG
58571837 GGCA
1 GGCA
58571841 CCATAGTGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 2 0.04
20 51 0.93
21 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.35, T:0.13
Consensus pattern (20 bp):
GGCATGAAAGTGCAATCAGG
Found at i:58571840 original size:40 final size:39
Alignment explanation
Indices: 58571757--58571862 Score: 97
Period size: 40 Copynumber: 2.6 Consensus size: 39
58571747 TGCAAATAGT
* * * *
58571757 GGCAAGAAAGTGCAATCAGAGGCACCGAAGTGCAATAGGG
1 GGCAAGAAAGTGCAATTAGGGGCA-TGAAGTGCAATAGAG
*
58571797 GGCATGAAAGTGCAATTAGGGGCATGAAAGTGCAATCA-AG
1 GGCAAGAAAGTGCAATTAGGGGCATG-AAGTGCAAT-AGAG
** *
58571837 GGCACCATAGTGCAAATTAGGGGCAT
1 GGCAAGAAAGTGC-AATTAGGGGCAT
58571863 CGACATTTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 41 0.75
41 13 0.24
ACGTcount: A:0.36, C:0.16, G:0.33, T:0.15
Consensus pattern (39 bp):
GGCAAGAAAGTGCAATTAGGGGCATGAAGTGCAATAGAG
Found at i:58579250 original size:20 final size:20
Alignment explanation
Indices: 58579225--58579265 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
58579215 CTTCTAGGAG
58579225 TTAGTTCTTTGGATATTGAC
1 TTAGTTCTTTGGATATTGAC
58579245 TTAGTTCTTTGGATATTGAC
1 TTAGTTCTTTGGATATTGAC
58579265 T
1 T
58579266 CAAGAACTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (20 bp):
TTAGTTCTTTGGATATTGAC
Found at i:58589114 original size:19 final size:20
Alignment explanation
Indices: 58589092--58589137 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
58589082 GAAATTGATG
58589092 AAAAATGTAGAATGAG-AAA
1 AAAAATGTAGAATGAGTAAA
* *
58589111 AAAAAT-AAGAATGAGTTAA
1 AAAAATGTAGAATGAGTAAA
58589130 AAAAATGT
1 AAAAATGT
58589138 TGTAATAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (20 bp):
AAAAATGTAGAATGAGTAAA
Found at i:58589121 original size:18 final size:19
Alignment explanation
Indices: 58589100--58589135 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58589090 TGAAAAATGT
58589100 AGAATGAG-AAAAAAAATA
1 AGAATGAGTAAAAAAAATA
*
58589118 AGAATGAGTTAAAAAAAT
1 AGAATGAGTAAAAAAAAT
58589136 GTTGTAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (19 bp):
AGAATGAGTAAAAAAAATA
Found at i:58595234 original size:7 final size:8
Alignment explanation
Indices: 58595220--58595244 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
58595210 AATTGAATTA
58595220 ATTTTTTT
1 ATTTTTTT
58595228 ATTTTTTT
1 ATTTTTTT
58595236 ATTTTTTT
1 ATTTTTTT
58595244 A
1 A
58595245 GAGGTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:58596995 original size:8 final size:8
Alignment explanation
Indices: 58596982--58597007 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
58596972 TTAGCTCATT
58596982 TAGTTAAA
1 TAGTTAAA
58596990 TAGTTAAA
1 TAGTTAAA
58596998 TAGTTAAA
1 TAGTTAAA
58597006 TA
1 TA
58597008 ATTTTATCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
TAGTTAAA
Found at i:58600133 original size:92 final size:93
Alignment explanation
Indices: 58599969--58600138 Score: 245
Period size: 92 Copynumber: 1.8 Consensus size: 93
58599959 CCCATAAGAA
* **
58599969 AACTCAGACTCAACCCAATGAGCTCAGGCGTTCGCATCCATAAGTGAATTCGGACTCAACTCAAC
1 AACTCAGACTCAACCCAACGAGCTCAGGAATTCGCATCCATAAGTGAATTCGGACTCAACTCAAC
*
58600034 GAGCTCGGATGCCTAGTTACATCTCACG
66 GACCTCGGATGCCTAGTTACATCTCACG
* * *
58600062 AACTCGGACTCAACTCAACGAGCTC-GGAATTCGCATCCATAAGTGAACTT-GGACTCGACTCAA
1 AACTCAGACTCAACCCAACGAGCTCAGGAATTCGCATCCATAAGTGAA-TTCGGACTCAACTCAA
*
58600125 TGACCTCGGATGCC
65 CGACCTCGGATGCC
58600139 CAAATATCCT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
92 44 0.65
93 24 0.35
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
AACTCAGACTCAACCCAACGAGCTCAGGAATTCGCATCCATAAGTGAATTCGGACTCAACTCAAC
GACCTCGGATGCCTAGTTACATCTCACG
Found at i:58626181 original size:43 final size:43
Alignment explanation
Indices: 58626128--58626211 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
58626118 AAGATATGTG
* * * *
58626128 GCATCCGAGCTCGTTGAGAGGTTCGAGTTCATTATGGATGCAT
1 GCATCAGAGCTAGTTGAGAGGTCCGAGTTCATGATGGATGCAT
*
58626171 GCATCAGAGCTAGTTGAGTGGTCCGAGTTCATGATGGATGC
1 GCATCAGAGCTAGTTGAGAGGTCCGAGTTCATGATGGATGC
58626212 GATTCATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
GCATCAGAGCTAGTTGAGAGGTCCGAGTTCATGATGGATGCAT
Found at i:58630564 original size:28 final size:28
Alignment explanation
Indices: 58630499--58630624 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
58630489 ATATTAAGTC
* * *
58630499 CGCACACTCAATGCTATATAATCAA-CT
1 CGCACACTTAGTGCTACATAATCAAGCT
58630526 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
58630554 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
*
58630582 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
58630610 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58630625 GTACAATTTA
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.23
28 72 0.77
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAGCT
Found at i:58630647 original size:29 final size:28
Alignment explanation
Indices: 58630498--58630649 Score: 173
Period size: 28 Copynumber: 5.4 Consensus size: 28
58630488 TATATTAAGT
* * *
58630498 CCGCACACTCAATGCTATATAATC-AAC
1 CCGCACACTTAGTGCTACATAATCAAAC
* *
58630525 TCGCACACTTAGTGCTACATAATCAAGC
1 CCGCACACTTAGTGCTACATAATCAAAC
* *
58630553 TCGCACACTTAGTGCTACATAATCAAGC
1 CCGCACACTTAGTGCTACATAATCAAAC
*
58630581 TCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAATCAAAC
* * *
58630609 TCGCACACTTAGTGCTGTACA-ATTTAAAC
1 CCGCACACTTAGTGC--TACATAATCAAAC
58630638 CCGCACACTTAG
1 CCGCACACTTAG
58630650 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.18
28 72 0.64
29 17 0.15
30 4 0.04
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (28 bp):
CCGCACACTTAGTGCTACATAATCAAAC
Found at i:58637517 original size:22 final size:22
Alignment explanation
Indices: 58637489--58637533 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
58637479 GTGGATACTT
58637489 ATTCTTCCAGTCAGTTTATTCA
1 ATTCTTCCAGTCAGTTTATTCA
58637511 ATTCTTCCAGTCAGTTTATTCA
1 ATTCTTCCAGTCAGTTTATTCA
58637533 A
1 A
58637534 CTACCGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.44
Consensus pattern (22 bp):
ATTCTTCCAGTCAGTTTATTCA
Found at i:58644913 original size:27 final size:27
Alignment explanation
Indices: 58644883--58644963 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
58644873 AATCTCATAT
* *
58644883 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
** *
58644910 CTGTAGGGTAGAATTACTGAAATGTCA
1 CTGTAGGGTAGAATTACTGAAATACCC
*
58644937 TTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
58644964 TTGGTTTACA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:58645002 original size:27 final size:26
Alignment explanation
Indices: 58644973--58645125 Score: 146
Period size: 27 Copynumber: 5.7 Consensus size: 26
58644963 CTTGGTTTAC
* *
58644973 AAAATTACCAAAATACCCTCGATTAGC
1 AAAATTACCAAAATACCCT-GATTTGT
* *
58645000 AAAGTTACCAAAATATCCCTGGTTTGT
1 AAAATTACCAAAATA-CCCTGATTTGT
58645027 AAAATTACCAAAATATCCCT-AGTTTGT
1 AAAATTACCAAAATA-CCCTGA-TTTGT
* *
58645054 AGAATTATCAAAATACCACTGATTTGT
1 AAAATTACCAAAATACC-CTGATTTGT
* **
58645081 GAAATTACCAAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCT-GATTTGT
* *
58645108 AAAATTATCGAAATACCC
1 AAAATTACCAAAATACCC
58645126 AAAATACCCT
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
26 4 0.04
27 96 0.91
28 5 0.05
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.28
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGATTTGT
Found at i:58645014 original size:54 final size:53
Alignment explanation
Indices: 58644946--58645102 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 53
58644936 ATTGTAGGGT
** **
58644946 AGAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGC
1 AGAATTACCAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCTCGATTAGC
* * *
58645000 A-AAGTTACCAAAATATCCCTGGTTTGTAAAATTACCAAAATATCCCTAG-TTTGT
1 AGAA-TTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATA-CCCTCGATTAGC
* * *
58645054 AGAATTATCAAAATACCACTGATTTGTGAAATTACCAAAATACCCTCGA
1 AGAATTACCAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTCGA
58645103 CCTGTAAAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
53 9 0.10
54 67 0.78
55 10 0.12
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.29
Consensus pattern (53 bp):
AGAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTCGATTAGC
Found at i:58645114 original size:54 final size:52
Alignment explanation
Indices: 58644973--58645125 Score: 171
Period size: 54 Copynumber: 2.8 Consensus size: 52
58644963 CTTGGTTTAC
* * * *
58644973 AAAATTACCAAAATACCCTCGATTAGCAAAGTTACCAAAATATCCCTGGTTTGT
1 AAAATTACCAAAATACCCTCGATT-GTAAAATTATCAAAATA-CCCTGATTTGT
* * *
58645027 AAAATTACCAAAATATCCCTAGTTTGTAGAATTATCAAAATACCACTGATTTGT
1 AAAATTACCAAAATA-CCCTCGATTGTAAAATTATCAAAATACC-CTGATTTGT
* * *
58645081 GAAATTACCAAAATACCCTCGACCTGTAAAATTATCGAAATACCC
1 AAAATTACCAAAATACCCTCGA-TTGTAAAATTATCAAAATACCC
58645126 AAAATACCCT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
53 8 0.10
54 68 0.82
55 7 0.08
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.28
Consensus pattern (52 bp):
AAAATTACCAAAATACCCTCGATTGTAAAATTATCAAAATACCCTGATTTGT
Found at i:58645174 original size:27 final size:27
Alignment explanation
Indices: 58645144--58645259 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 27
58645134 CTTAAATTGT
*
58645144 AAAATTACCAAAATACCCCTGATTTGG
1 AAAATTACCAAAATACCCCTGATTTAG
* **
58645171 AAAATTATCAAAATACCATTGATTTAG
1 AAAATTACCAAAATACCCCTGATTTAG
* * *
58645198 AAAATTA-TAGAATTACCCCTGATTTAC
1 AAAATTACCA-AAATACCCCTGATTTAG
* *
58645225 AAAATTACAAAAATACCCTTGACTTTCA-
1 AAAATTACCAAAATACCCCTGA-TTT-AG
58645253 AAAATTA
1 AAAATTA
58645260 TAGAAATACC
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 60 0.82
28 11 0.15
29 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTAG
Found at i:58645184 original size:54 final size:53
Alignment explanation
Indices: 58645125--58645244 Score: 127
Period size: 54 Copynumber: 2.2 Consensus size: 53
58645115 TCGAAATACC
**
58645125 CAAAATACCCTTAAATT-GTAAAATTACCA-AAATACCCCTGATTTGGAAAATTA
1 CAAAATACCCTTAAATTAG-AAAATTA-CAGAAATACCCCTGATTTACAAAATTA
* * * * *
58645178 TCAAAATACCATTGATTTAGAAAATTATAGAATTACCCCTGATTTACAAAATTA
1 -CAAAATACCCTTAAATTAGAAAATTACAGAAATACCCCTGATTTACAAAATTA
58645232 CAAAAATACCCTT
1 C-AAAATACCCTT
58645245 GACTTTCAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
53 2 0.04
54 52 0.95
55 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (53 bp):
CAAAATACCCTTAAATTAGAAAATTACAGAAATACCCCTGATTTACAAAATTA
Found at i:58645202 original size:90 final size:90
Alignment explanation
Indices: 58645050--58645215 Score: 210
Period size: 90 Copynumber: 1.8 Consensus size: 90
58645040 TATCCCTAGT
* * *
58645050 TTGTAGAATTATCAAAATACCACTGATTTGTGAAATTACCAAAATACCCTCGACCTGTAAAATTA
1 TTGTAAAATTACCAAAATACCACTGATTTGTGAAATTACCAAAATACCATCGACCTGTAAAATTA
*
58645115 TCGAAATACCCAAAATACCCTTAAA
66 TAGAAATACCCAAAATACCCTTAAA
* * * **
58645140 TTGTAAAATTACCAAAATACCCCTGATTTG-GAAAATTATCAAAATACCATTGATTTAG-AAAAT
1 TTGTAAAATTACCAAAATACCACTGATTTGTG-AAATTACCAAAATACCATCGACCT-GTAAAAT
*
58645203 TATAGAATTACCC
64 TATAGAAATACCC
58645216 CTGATTTACA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
89 1 0.02
90 62 0.97
91 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (90 bp):
TTGTAAAATTACCAAAATACCACTGATTTGTGAAATTACCAAAATACCATCGACCTGTAAAATTA
TAGAAATACCCAAAATACCCTTAAA
Found at i:58645283 original size:55 final size:54
Alignment explanation
Indices: 58645154--58645296 Score: 139
Period size: 55 Copynumber: 2.6 Consensus size: 54
58645144 AAAATTACCA
* **
58645154 AAATACCCCTGATTTGGAAAATTATCAAAATACCATTGATTTAGAAAATTATAG
1 AAATACCACTGATTTACAAAATTATCAAAATACCATTGATTTAGAAAATTATAG
* * *
58645208 AATTACCCCTGATTTACAAAATTA-CAAAAATACCCTTGACTTTCA-AAAATTATAG
1 AAATACCACTGATTTACAAAATTATC-AAAATACCATTGA-TTT-AGAAAATTATAG
* * **
58645263 AAATACCA-TTAGTTTTCAAAATTATTGAAATACC
1 AAATACCACTGA-TTTACAAAATTATCAAAATACC
58645297 CTTAGTTTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
53 1 0.01
54 35 0.47
55 37 0.50
56 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATACCACTGATTTACAAAATTATCAAAATACCATTGATTTAGAAAATTATAG
Found at i:58645292 original size:27 final size:28
Alignment explanation
Indices: 58645248--58645304 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
58645238 TACCCTTGAC
58645248 TTTCAAAAATTATAGAAATACCATTAGT
1 TTTCAAAAATTATAGAAATACCATTAGT
* *
58645276 TTTC-AAAATTATTGAAATACCCTTAGT
1 TTTCAAAAATTATAGAAATACCATTAGT
58645303 TT
1 TT
58645305 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (28 bp):
TTTCAAAAATTATAGAAATACCATTAGT
Found at i:58645623 original size:41 final size:41
Alignment explanation
Indices: 58645566--58645689 Score: 167
Period size: 41 Copynumber: 3.0 Consensus size: 41
58645556 GAGGGAGAAA
*
58645566 TTGAGGATCGTATGGTTGCTTGGCGACCGTGGATCCACCGG
1 TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCGG
* * ** * *
58645607 TTGAGGATCGCATGGTTGTTTGATAACCGTGGACCCACCGA
1 TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCGG
* *
58645648 TTAAGGATCGTATGGTTGCTTGACGACTGTGGATCCACCGG
1 TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCGG
58645689 T
1 T
58645690 GGCTTTTAAG
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.28
Consensus pattern (41 bp):
TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCGG
Found at i:58645881 original size:22 final size:22
Alignment explanation
Indices: 58645829--58645893 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
58645819 GCCAATTATT
* * *
58645829 CTGATTATGGTTTTGCGCCAAC
1 CTGATTATGGCTCTGAGCCAAC
*
58645851 CT-ACATATGGCTCTGAGCCAAC
1 CTGA-TTATGGCTCTGAGCCAAC
* *
58645873 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGAGCCAA
58645894 GCGTATTTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGAGCCAAC
Found at i:58646121 original size:22 final size:22
Alignment explanation
Indices: 58646096--58646143 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
58646086 GTTGCTGCGA
* *
58646096 TGTTTACGGCTATGTGCTGTCC
1 TGTTTACGGCCATGAGCTGTCC
*
58646118 TGTTTACGGCCATGAGCTGTTC
1 TGTTTACGGCCATGAGCTGTCC
58646140 TGTT
1 TGTT
58646144 GACTTAGTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.10, C:0.21, G:0.27, T:0.42
Consensus pattern (22 bp):
TGTTTACGGCCATGAGCTGTCC
Found at i:58651928 original size:27 final size:26
Alignment explanation
Indices: 58651898--58652023 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 26
58651888 AAATTGTACA
58651898 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
58651925 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
58651952 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
* *
58651979 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
58652007 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
58652024 TGATTGTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 59 0.70
28 23 0.27
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:58651962 original size:54 final size:54
Alignment explanation
Indices: 58651897--58652023 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 54
58651887 TAAATTGTAC
* **
58651897 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAA-TATG-
1 AGCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCG-AATCGAACTATGT
* *
58651950 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
58652006 AGCACTAAGTGTGCGATT
1 AGCACTAAGTGTGCGATT
58652024 TGATTGTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
53 3 0.05
54 39 0.61
55 21 0.33
56 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
Found at i:58659938 original size:27 final size:26
Alignment explanation
Indices: 58659908--58660033 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 26
58659898 AAATTGTACA
58659908 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
58659935 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
58659962 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
* *
58659989 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
58660017 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
58660034 TGATTGTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 59 0.70
28 23 0.27
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:58659972 original size:54 final size:54
Alignment explanation
Indices: 58659907--58660033 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 54
58659897 TAAATTGTAC
* **
58659907 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAA-TATG-
1 AGCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCG-AATCGAACTATGT
* *
58659960 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
58660016 AGCACTAAGTGTGCGATT
1 AGCACTAAGTGTGCGATT
58660034 TGATTGTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
53 3 0.05
54 39 0.61
55 21 0.33
56 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
Found at i:58672414 original size:13 final size:13
Alignment explanation
Indices: 58672376--58672405 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
58672366 TCACCAATCA
58672376 AATTGTAATAATT
1 AATTGTAATAATT
58672389 AATTGTAATAATT
1 AATTGTAATAATT
58672402 AATT
1 AATT
58672406 TTCAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
AATTGTAATAATT
Found at i:58675359 original size:30 final size:30
Alignment explanation
Indices: 58675325--58675383 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
58675315 TCCGCCGCCA
58675325 AAGCCAGCACCC-CCACCTCCACCTCCACCG
1 AAGCCA-CACCCACCACCTCCACCTCCACCG
* * *
58675355 AAGCCACCCCCACCCCCTCCACCTGCACC
1 AAGCCACACCCACCACCTCCACCTCCACC
58675384 CCCACCAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.22, C:0.63, G:0.08, T:0.07
Consensus pattern (30 bp):
AAGCCACACCCACCACCTCCACCTCCACCG
Found at i:58675433 original size:18 final size:18
Alignment explanation
Indices: 58675412--58675463 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
58675402 TCCACCTTTG
58675412 CCAAATCCACCACCAACT
1 CCAAATCCACCACCAACT
* *
58675430 CCAAATCCTCCCCCAACT
1 CCAAATCCACCACCAACT
*
58675448 CCACCA-CCACCACCAA
1 CCA-AATCCACCACCAA
58675464 ATCCTCCACC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.35, C:0.56, G:0.00, T:0.10
Consensus pattern (18 bp):
CCAAATCCACCACCAACT
Found at i:58675453 original size:30 final size:30
Alignment explanation
Indices: 58675412--58675470 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
58675402 TCCACCTTTG
*
58675412 CCAAATCCACCACCAACTCCAAATCCTCCC
1 CCAAATCCACCACCAACACCAAATCCTCCC
* *
58675442 CCAACTCCACCACCACCACCAAATCCTCC
1 CCAAATCCACCACCAACACCAAATCCTCC
58675471 ACCTCCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.56, G:0.00, T:0.12
Consensus pattern (30 bp):
CCAAATCCACCACCAACACCAAATCCTCCC
Found at i:58675478 original size:15 final size:15
Alignment explanation
Indices: 58675454--58675489 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
58675444 AACTCCACCA
*
58675454 CCACCACCAAATCCT
1 CCACCACCAAAACCT
*
58675469 CCACCTCCAAAACCT
1 CCACCACCAAAACCT
58675484 CCACCA
1 CCACCA
58675490 GCACCACCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.56, G:0.00, T:0.11
Consensus pattern (15 bp):
CCACCACCAAAACCT
Found at i:58675505 original size:18 final size:18
Alignment explanation
Indices: 58675418--58675507 Score: 76
Period size: 18 Copynumber: 5.0 Consensus size: 18
58675408 TTTGCCAAAT
*
58675418 CCACCACCAACTCCA-AA
1 CCACCACCAACTCCACCA
* *
58675435 TCCTCCCCCAACTCCACCA
1 -CCACCACCAACTCCACCA
* *
58675454 CCACCACCAAATCCTCCA
1 CCACCACCAACTCCACCA
* *
58675472 CCTCCA-AAACCTCCACCA
1 CCACCACCAA-CTCCACCA
*
58675490 GCACCACCAACTCCACCA
1 CCACCACCAACTCCACCA
58675508 AGCCCTCCTC
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
17 2 0.04
18 50 0.91
19 3 0.05
ACGTcount: A:0.32, C:0.57, G:0.01, T:0.10
Consensus pattern (18 bp):
CCACCACCAACTCCACCA
Found at i:58675518 original size:42 final size:42
Alignment explanation
Indices: 58675472--58675561 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
58675462 AAATCCTCCA
58675472 CCTCCAAAACCTCCACCAGCACCACCAACTCCACCAAGCCCT
1 CCTCCAAAACCTCCACCAGCACCACCAACTCCACCAAGCCCT
*** * * *
58675514 CCTCCAGCTCCTCCTCCAGCACCACCACCTCCACCGAGCCCT
1 CCTCCAAAACCTCCACCAGCACCACCAACTCCACCAAGCCCT
*
58675556 ACTCCA
1 CCTCCA
58675562 CCTCCACCAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.24, C:0.57, G:0.07, T:0.12
Consensus pattern (42 bp):
CCTCCAAAACCTCCACCAGCACCACCAACTCCACCAAGCCCT
Found at i:58675578 original size:42 final size:42
Alignment explanation
Indices: 58675484--58675585 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
58675474 TCCAAAACCT
* * * *
58675484 CCACCAGCACCACCAACTCCACCAAGCCCTCCTCCAGCTCCT
1 CCACCAGCACCACCACCTCCACCAAGCCCTACTCCACCTCCA
* *
58675526 CCTCCAGCACCACCACCTCCACCGAGCCCTACTCCACCTCCA
1 CCACCAGCACCACCACCTCCACCAAGCCCTACTCCACCTCCA
*
58675568 CCACCTGCACCACCACCT
1 CCACCAGCACCACCACCT
58675586 AATCCGCCTC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.23, C:0.59, G:0.07, T:0.12
Consensus pattern (42 bp):
CCACCAGCACCACCACCTCCACCAAGCCCTACTCCACCTCCA
Found at i:58675596 original size:30 final size:30
Alignment explanation
Indices: 58675535--58675599 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
58675525 TCCTCCAGCA
* *
58675535 CCACCACCTCCACCGAGCCCTACTCCACCT
1 CCACCACCTCCACCGACCCCTAATCCACCT
* *
58675565 CCACCACCTGCACC-ACCACCTAATCCGCCT
1 CCACCACCTCCACCGACC-CCTAATCCACCT
58675595 CCACC
1 CCACC
58675600 TCCCAGCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.22, C:0.60, G:0.06, T:0.12
Consensus pattern (30 bp):
CCACCACCTCCACCGACCCCTAATCCACCT
Found at i:58675680 original size:60 final size:60
Alignment explanation
Indices: 58675601--58675960 Score: 549
Period size: 60 Copynumber: 6.0 Consensus size: 60
58675591 GCCTCCACCT
* * * * * *
58675601 CCCAGCCCATGGCCACCACCTAGTCCTCCACCCCCTCCTAGTCCACCTCCTGCACCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
* * * * *
58675661 CCAAGCCCATGGCCCCCACCGAGTCCTCCACCACCACCCAATCCACCTCCTGCACCCCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
*
58675721 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCACTCCACCTCCTGCACCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
* *
58675781 CCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCT
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
* *
58675841 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCTACCTTCTGCACCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
* * *
58675901 CCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCGCCCAATCCACCTCCTGCTCCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
58675961 AGCTTGTGAC
Statistics
Matches: 274, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 274 1.00
ACGTcount: A:0.20, C:0.57, G:0.10, T:0.13
Consensus pattern (60 bp):
CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
Found at i:58675722 original size:30 final size:30
Alignment explanation
Indices: 58675685--58675960 Score: 111
Period size: 30 Copynumber: 9.2 Consensus size: 30
58675675 CCCACCGAGT
58675685 CCTCCACCACCACCCAATCCACCTCCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* * * *
58675715 CCCCCA-C-CCAGCCC-ATGGCCACCGCCAAG-T
1 CCTCCACCACCA-CCCAAT--CCACCTCC-TGCA
*
58675745 CCTCCACCACCACCCACTCCACCTCCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* *
58675775 CCTCCA-C-CCAGCCC-ATGGCCA-CTGCCAAG-T
1 CCTCCACCACCA-CCCAAT--CCACCT-CC-TGCA
58675805 CCTCCACCACCACCCAATCCACCTCCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* * * *
58675835 CCTCC-TC-CCAGCCC-ATGGCCACCGCCAAG-T
1 CCTCCACCACCA-CCCAAT--CCACCTCC-TGCA
* *
58675865 CCTCCACCACCACCCAATCTACCTTCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* *
58675895 CCTCCA-C-CCAGCCC-ATGGCCACCGCCAAGTC-
1 CCTCCACCACCA-CCCAAT--CCACCTCC-TG-CA
* *
58675926 CC-CCACCACCGCCCAATCCACCTCCTGCT
1 CCTCCACCACCACCCAATCCACCTCCTGCA
58675955 CCTCCA
1 CCTCCA
58675961 AGCTTGTGAC
Statistics
Matches: 179, Mismatches: 31, Indels: 72
0.63 0.11 0.26
Matches are distributed among these distances:
28 20 0.11
29 24 0.13
30 92 0.51
31 24 0.13
32 19 0.11
ACGTcount: A:0.20, C:0.57, G:0.09, T:0.13
Consensus pattern (30 bp):
CCTCCACCACCACCCAATCCACCTCCTGCA
Done.