Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 102 of 427
Found at i:26958508 original size:29 final size:28
Alignment explanation
Indices: 26958454--26958518 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
26958444 TTATTAATAA
26958454 TAATATAATATAATAACATACTTATTTAT
1 TAAT-TAATATAATAACATACTTATTTAT
*
26958483 TAAGTTAATATAATATA-ATA-TATATTTTT
1 TAA-TTAATATAATA-ACATACT-TATTTAT
26958512 TAATTAA
1 TAATTAA
26958519 AAATATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
28 5 0.16
29 25 0.78
30 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (28 bp):
TAATTAATATAATAACATACTTATTTAT
Found at i:26970615 original size:6 final size:6
Alignment explanation
Indices: 26970604--26970630 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
26970594 CACACAAAAG
26970604 AAGAAA AAGAAA AAGAAA AAGAAA AAG
1 AAGAAA AAGAAA AAGAAA AAGAAA AAG
26970631 TAATGAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:26972597 original size:58 final size:58
Alignment explanation
Indices: 26972505--26972643 Score: 176
Period size: 58 Copynumber: 2.4 Consensus size: 58
26972495 TATTGTTATT
* *
26972505 AAATT-TTAATAAGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACT-
1 AAATTCTTAACAAAATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAA-TA
* * * *
26972563 ATATT-TTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTCTTAACAAAATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATA
*
26972620 AAATTCTTAATAAAATTATTATTA
1 AAATTCTTAACAAAATTATTATTA
26972644 TATGAATAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
56 1 0.01
57 22 0.31
58 47 0.67
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (58 bp):
AAATTCTTAACAAAATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATA
Found at i:26972652 original size:32 final size:32
Alignment explanation
Indices: 26972594--26972654 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
26972584 TAAATATAAT
*
26972594 TTAATAAAATAATATATAATTTAATAAAATTC
1 TTAATAAAATAATATATAATTGAATAAAATTC
* *
26972626 TTAATAAAATTAT-TATTATATGAATAAAA
1 TTAATAAAATAATATATAAT-TGAATAAAA
26972655 AATCATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 5 0.20
32 20 0.80
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (32 bp):
TTAATAAAATAATATATAATTGAATAAAATTC
Found at i:26972656 original size:22 final size:20
Alignment explanation
Indices: 26972631--26972671 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
26972621 AATTCTTAAT
*
26972631 AAAATTATTATTATATGAATAA
1 AAAATCATTA-TATAT-AATAA
26972653 AAAATCATTATATATAATA
1 AAAATCATTATATATAATA
26972672 CTATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATCATTATATATAATAA
Found at i:26973196 original size:74 final size:74
Alignment explanation
Indices: 26973109--26973256 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
26973099 GATGATCTAG
*
26973109 AATTTTGTTCAATGCGCGATAGCGCTCATCTTCAGTTAAACCTTCTACTTCACATAATGTTGGAT
1 AATTTTGTTCAATGCGCGATAGCGCTCATCTTCAGTTAAACCTTCTACTTCACATAATGTGGGAT
26973174 ATAATTTTA
66 ATAATTTTA
*
26973183 AATTTTGTTCAATGCGCGATAGCGCTCATCTTCAGTTAAACCTTCTATTTCACATAATGTGGGAT
1 AATTTTGTTCAATGCGCGATAGCGCTCATCTTCAGTTAAACCTTCTACTTCACATAATGTGGGAT
26973248 ATAATTTTA
66 ATAATTTTA
26973257 GAGCACTTTC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (74 bp):
AATTTTGTTCAATGCGCGATAGCGCTCATCTTCAGTTAAACCTTCTACTTCACATAATGTGGGAT
ATAATTTTA
Found at i:26974739 original size:11 final size:12
Alignment explanation
Indices: 26974711--26974739 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26974701 GTTATTAATA
26974711 TAATTTAGTTCT
1 TAATTTAGTTCT
26974723 TAATTTAGTTC-
1 TAATTTAGTTCT
26974734 TAATTT
1 TAATTT
26974740 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:26974841 original size:12 final size:12
Alignment explanation
Indices: 26974824--26974850 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26974814 TTTTATTTTT
26974824 TTTGTTTTAATA
1 TTTGTTTTAATA
26974836 TTTGTTTTAATA
1 TTTGTTTTAATA
26974848 TTT
1 TTT
26974851 TAAATGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTGTTTTAATA
Found at i:26980887 original size:13 final size:13
Alignment explanation
Indices: 26980869--26980893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26980859 AACAAAGTAT
26980869 AAACTGAAAATTC
1 AAACTGAAAATTC
26980882 AAACTGAAAATT
1 AAACTGAAAATT
26980894 TATTTCCCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (13 bp):
AAACTGAAAATTC
Found at i:26981997 original size:21 final size:21
Alignment explanation
Indices: 26981922--26981998 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
26981912 GAGAAGGGGT
* *
26981922 ACACGCCCGTGTGGCTAAGGC
1 ACACGCCCGTGTGACTAAAGC
* * *
26981943 ACATGCTCGTGTGA-AAAGAGGC
1 ACACGCCCGTGTGACTAA-A-GC
* *
26981965 ATACGACCGTGTGACTAAAGC
1 ACACGCCCGTGTGACTAAAGC
26981986 ACACGCCCGTGTG
1 ACACGCCCGTGTG
26981999 GACCAAGTAC
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
20 2 0.05
21 24 0.59
22 13 0.32
23 2 0.05
ACGTcount: A:0.26, C:0.27, G:0.30, T:0.17
Consensus pattern (21 bp):
ACACGCCCGTGTGACTAAAGC
Found at i:26985539 original size:31 final size:31
Alignment explanation
Indices: 26985504--26985562 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
26985494 CATATGACTA
26985504 AACTAAAATAACTCAAGCAAGTAGTGCATAT
1 AACTAAAATAACTCAAGCAAGTAGTGCATAT
26985535 AACTAAAATAACTCAAGCAAGTAGTGCA
1 AACTAAAATAACTCAAGCAAGTAGTGCA
26985563 ACACCGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (31 bp):
AACTAAAATAACTCAAGCAAGTAGTGCATAT
Found at i:26988627 original size:19 final size:17
Alignment explanation
Indices: 26988584--26988616 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26988574 GCAAATGAAT
*
26988584 TTAAACTTAAAAAATAA
1 TTAAAATTAAAAAATAA
26988601 TTAAAATTAAAAAATA
1 TTAAAATTAAAAAATA
26988617 TTTAGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
TTAAAATTAAAAAATAA
Found at i:26988658 original size:9 final size:9
Alignment explanation
Indices: 26988644--26988669 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
26988634 GTTTACCCAC
26988644 AATTAAAAA
1 AATTAAAAA
26988653 AATTAAAAA
1 AATTAAAAA
26988662 AATTAAAA
1 AATTAAAA
26988670 CATGTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATTAAAAA
Found at i:26990123 original size:30 final size:30
Alignment explanation
Indices: 26990082--26990141 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
26990072 AAGCGAAGTA
26990082 AGGGTTATGTTAGGCTTTTAGTCGAGTTCC
1 AGGGTTATGTTAGGCTTTTAGTCGAGTTCC
*
26990112 AGGGTTTTGTTAGGCTTTTAGTCGAGTTCC
1 AGGGTTATGTTAGGCTTTTAGTCGAGTTCC
26990142 TGCCGAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.15, C:0.13, G:0.30, T:0.42
Consensus pattern (30 bp):
AGGGTTATGTTAGGCTTTTAGTCGAGTTCC
Found at i:26996513 original size:158 final size:157
Alignment explanation
Indices: 26996235--26996693 Score: 498
Period size: 158 Copynumber: 2.9 Consensus size: 157
26996225 AAAAGATCAT
* * * * * * *
26996235 GCATTCAACCTAACACAACAGGAACACAGGTATATCGTAAACACTTTTTTCATTTTTTATTTCCA
1 GCATTCAACCTAACACAACTGGATCACAGGTATATCGTAAACACTTTTTT-A-ATGTAAATTCAA
* * *
26996300 AAATATTAAAATCTAATTTGGGTTCTGATTTTTTTTGGTTTTAGTCTAGTACGAGTACGAGAACT
64 AAATATTTAAATCTAATTTGGGTTCTGA--TTTTTTGGTTTTAGTTTGGTACGAGTACGAGAACT
* * *
26996365 CGAAGCCCAAAAAATAACAA-CGTAACACCAA
127 AGAAGCCCAAAAAAGAACAATAG-AACACCAA
* * * *
26996396 GCATTCAGCCTAATACAACTGGATCACAGGTATATCGTATACACTATTTTAATGTAAATTCAAAA
1 GCATTCAACCTAACACAACTGGATCACAGGTATATCGTAAACACTTTTTTAATGTAAATTCAAAA
* * *
26996461 ATATTTTAATCTAATTTGGGTTCTGATTTTTTAGGTTTTAGTTTGGTACGAGTAC-ACGAATTAA
66 ATATTTAAATCTAATTTGGGTTCTGATTTTTT-GGTTTTAGTTTGGTACGAGTACGA-GAACTAG
* * *
26996525 AAGCCAAAAAAAGAACAATAGAATACCAT
129 AAGCCCAAAAAAGAACAATAGAACACCAA
* *
26996554 GCATTCAACCTAACACAGCTGGATCACAGGTATATCGTAAACACTTTTTTAATGTCAATT-ACAA
1 GCATTCAACCTAACACAACTGGATCACAGGTATATCGTAAACACTTTTTTAATGTAAATTCA-AA
* * * * * * *
26996618 ATTATTTAAATTTAATTTAGGGTTCT-AATTTTT-GTTCTCAGTTTGGTACAAGTATGACAACTA
65 AATATTTAAATCTAATTT-GGGTTCTGATTTTTTGGTT-TTAGTTTGGTACGAGTACGAGAACTA
26996681 GAAG-CCAAAAAAG
128 GAAGCCCAAAAAAG
26996694 GATGGCATAT
Statistics
Matches: 251, Mismatches: 40, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
156 11 0.04
157 30 0.12
158 124 0.49
159 41 0.16
160 1 0.00
161 44 0.18
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (157 bp):
GCATTCAACCTAACACAACTGGATCACAGGTATATCGTAAACACTTTTTTAATGTAAATTCAAAA
ATATTTAAATCTAATTTGGGTTCTGATTTTTTGGTTTTAGTTTGGTACGAGTACGAGAACTAGAA
GCCCAAAAAAGAACAATAGAACACCAA
Found at i:27000365 original size:40 final size:40
Alignment explanation
Indices: 27000320--27000486 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
27000310 CGGAATATAA
27000320 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
27000360 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
27000400 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
27000440 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
27000479 CCGGATAT
1 CCGGATAT
27000487 CATTCAATTT
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
39 14 0.13
40 95 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:27001331 original size:17 final size:19
Alignment explanation
Indices: 27001308--27001353 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
27001298 AAGAAGCATG
27001308 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
27001326 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
27001344 AATCATGCTC
1 AATCATGCTC
27001354 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:27008334 original size:40 final size:40
Alignment explanation
Indices: 27008289--27008454 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
27008279 CGGAATATAA
27008289 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
27008329 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
27008369 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
27008408 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
27008447 CCGGATAT
1 CCGGATAT
27008455 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 47 0.44
40 60 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:27008411 original size:39 final size:38
Alignment explanation
Indices: 27008305--27008416 Score: 143
Period size: 39 Copynumber: 2.8 Consensus size: 38
27008295 ATAATCACGT
* * *
27008305 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
*
27008345 GCACGAATGCCTTCGGGTCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
27008384 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
27008417 ATTTCCAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.03
39 33 0.51
40 30 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:27008438 original size:79 final size:78
Alignment explanation
Indices: 27008305--27008454 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
27008295 ATAATCACGT
*
27008305 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
27008370 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
27008384 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
27008447 CCGGATAT
64 CCGGATAT
27008455 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:27009297 original size:17 final size:19
Alignment explanation
Indices: 27009274--27009319 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
27009264 AAGAAGCATG
27009274 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
27009292 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
27009310 AATCATGCTC
1 AATCATGCTC
27009320 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:27011155 original size:20 final size:21
Alignment explanation
Indices: 27011132--27011173 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
27011122 GTTATATACG
*
27011132 TATATAGTATGTGTATT-TTA
1 TATATAGTATGTATATTATTA
*
27011152 TATATATTATGTATATTATTA
1 TATATAGTATGTATATTATTA
27011173 T
1 T
27011174 TTTTACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TATATAGTATGTATATTATTA
Found at i:27011248 original size:21 final size:21
Alignment explanation
Indices: 27011223--27011262 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27011213 ATCCGTGTAT
27011223 TTTAATATATATGTATATATC
1 TTTAATATATATGTATATATC
*
27011244 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
27011263 AGTATATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:27011362 original size:24 final size:25
Alignment explanation
Indices: 27011335--27011385 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
27011325 ATGTGTGTAC
27011335 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATGTAAATGTTTTATATATT
**
27011359 ATATTATGTGTATGTTTTATATATT
1 ATATTATGTAAATGTTTTATATATT
27011384 AT
1 AT
27011386 GAACATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (25 bp):
ATATTATGTAAATGTTTTATATATT
Found at i:27023702 original size:74 final size:74
Alignment explanation
Indices: 27023619--27023759 Score: 239
Period size: 74 Copynumber: 1.9 Consensus size: 74
27023609 TCATTTCTGT
* *
27023619 TTTC-AAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
1 TTTCAAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTT
27023683 CAAATTCTAC
65 CAAATTCTAC
*
27023693 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTC
27023758 AA
66 AA
27023760 TTGATGTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
74 48 0.76
75 15 0.24
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (74 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTC
AAATTCTAC
Found at i:27023929 original size:89 final size:88
Alignment explanation
Indices: 27023679--27024040 Score: 455
Period size: 89 Copynumber: 4.1 Consensus size: 88
27023669 CGCCGAGGTA
* *
27023679 TTTTCAAATTCTAC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
27023743 CGCTGAGGTATTTTCAATTGATGTT
66 CGCTGAGGTATTTTCAATT-ATG-T
* *
27023768 TTTTCAATTTAC-GC-TTTCAAAAAAAATCAACTCATAATTGCGAAAGGTGAGTTTAGCCTCAGG
1 TTTTCAATTT-CTGCTTTTC-AAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGG
* * * *
27023831 GCACGCTGAGGTAGTTTCAATGTCTGC
63 ACACGCTGAGGTATTTTCAAT-TATGT
*
27023858 TTTCCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * *
27023923 CACTGAGGTATTTTCGATTTTCGT
66 CGCTGAGGTATTTTCAATTAT-GT
* * * * *
27023947 TTTTCAATTTATGTTTTTC--AAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
27024010 CGCTGAGGTATTTTCAATTGATGT
66 CGCTGAGGTATTTTCAATT-ATGT
*
27024034 TTGTCAA
1 TTTTCAA
27024041 AAATCAACTT
Statistics
Matches: 238, Mismatches: 27, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
87 66 0.28
88 3 0.01
89 74 0.31
90 44 0.18
91 50 0.21
92 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (88 bp):
TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTTCAATTATGT
Found at i:27024109 original size:74 final size:73
Alignment explanation
Indices: 27023947--27024097 Score: 221
Period size: 74 Copynumber: 2.1 Consensus size: 73
27023937 CGATTTTCGT
* * * * * *
27023947 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTCAATTGATGTTTGTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACG
27024012 CTGAGGTA
66 CTGAGGTA
* *
27024020 TTTTCAATTGATGTTTGTCAAAAATCAACTTATAATTGAGAGATGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTGATGTTTGTCAAAAATCAACTCAT-ATTGAGAGAGGTGAGTTGAGCCTCAGGACAC
27024085 GCTGAGGTA
65 GCTGAGGTA
27024094 TTTT
1 TTTT
27024098 TGGTTTCTGT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 30 0.43
74 39 0.57
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (73 bp):
TTTTCAATTGATGTTTGTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTA
Found at i:27024142 original size:162 final size:160
Alignment explanation
Indices: 27023879--27024197 Score: 478
Period size: 162 Copynumber: 2.0 Consensus size: 160
27023869 TGCTTTTCAA
*
27023879 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCGATTTT
1 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCGATTTT
* * * ** * *
27023944 CGTTTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGC
66 CGTTTTTCAATTTACGCTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCGAGGA
*
27024009 ACGCTGAGGTATTTTCAATTGATGTTTGTC
131 ACGCTGAGGTATTTTCAATTAATGTTTGTC
* * * * *
27024039 AAAAATCAACTTATAATTGAGAGATGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTG-GTT
1 AAAAATCAACTCAT-ATTGAGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCGATTT
27024103 TCTGTTTTTTCAATTTACGCTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCGA
65 TC-G-TTTTTCAATTTACGCTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCGA
27024168 GGAACGCTGAGGTATTTTCAATTAATGTTT
128 GGAACGCTGAGGTATTTTCAATTAATGTTT
27024198 TTTTCAATTT
Statistics
Matches: 142, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
160 17 0.12
161 43 0.30
162 82 0.58
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (160 bp):
AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCGATTTT
CGTTTTTCAATTTACGCTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCGAGGA
ACGCTGAGGTATTTTCAATTAATGTTTGTC
Found at i:27024178 original size:88 final size:89
Alignment explanation
Indices: 27024020--27024258 Score: 324
Period size: 89 Copynumber: 2.7 Consensus size: 89
27024010 CGCTGAGGTA
* * *
27024020 TTTTCAATTGATG-TTTGTCAAAAATCAACTTATAATTGA-GAGATGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTATGCTTT-TCAAAAATCAACTCAT-ATT-ACGAGAGGTGAGTTGAGCCTCAGGAC
*** **
27024083 ACGCTGAGGTATTTTTGGTTTCTG-TT
63 ACGCTGAGGTATTTTCAATTAATGTTT
* *
27024109 TTTTCAATTTACGCTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCGAGGA-AC
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-AGGACAC
27024173 GCTGAGGTATTTTCAATTAATGTTT
65 GCTGAGGTATTTTCAATTAATGTTT
27024198 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
27024259 TCACATGCCA
Statistics
Matches: 134, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
87 1 0.01
88 43 0.32
89 87 0.65
90 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (89 bp):
TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTAATGTTT
Found at i:27024215 original size:16 final size:16
Alignment explanation
Indices: 27024182--27024215 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27024172 CGCTGAGGTA
*
27024182 TTTTCAATTAATGTTT
1 TTTTCAATTAATGCTT
*
27024198 TTTTCAATTTATGCTT
1 TTTTCAATTAATGCTT
27024214 TT
1 TT
27024216 CAAAAATCAA
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:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTCAATTAATGCTT
Found at i:27026237 original size:20 final size:21
Alignment explanation
Indices: 27026214--27026255 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
27026204 GTTATATACG
*
27026214 TATATAGTATGTGTATT-TTA
1 TATATAGTATGTATATTATTA
*
27026234 TATATATTATGTATATTATTA
1 TATATAGTATGTATATTATTA
27026255 T
1 T
27026256 TTTTACTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TATATAGTATGTATATTATTA
Found at i:27026309 original size:27 final size:27
Alignment explanation
Indices: 27026273--27026324 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
27026263 ACACATATTA
27026273 TGTATATATTAAATATCGTAT-TATCCG
1 TGTATATATTAAATAT-GTATATATCCG
* *
27026300 TGTATTTATTATATATGTATATATC
1 TGTATATATTAAATATGTATATATC
27026325 TTTAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (27 bp):
TGTATATATTAAATATGTATATATCCG
Found at i:27026333 original size:21 final size:21
Alignment explanation
Indices: 27026304--27026343 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27026294 TATCCGTGTA
*
27026304 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
27026325 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
27026344 AGTATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:27026443 original size:24 final size:25
Alignment explanation
Indices: 27026416--27026466 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
27026406 ATGTGTGTAC
27026416 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATGTAAATGTTTTATATATT
**
27026440 ATATTATGTGTATGTTTTATATATT
1 ATATTATGTAAATGTTTTATATATT
27026465 AT
1 AT
27026467 GAACATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (25 bp):
ATATTATGTAAATGTTTTATATATT
Found at i:27027916 original size:18 final size:19
Alignment explanation
Indices: 27027893--27027933 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
27027883 TAAGGTTTTA
* *
27027893 ATTTTTTTAATTTTAATT-
1 ATTTTTTAAATTTAAATTC
27027911 ATTTTTTAAATTTAAATTC
1 ATTTTTTAAATTTAAATTC
27027930 ATTT
1 ATTT
27027934 ATTGACATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTTAAATTTAAATTC
Found at i:27034085 original size:18 final size:18
Alignment explanation
Indices: 27034046--27034081 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27034036 AATCTCACAT
*
27034046 GCCCGTGTGGACCCACAC
1 GCCCGTGTGGACCAACAC
27034064 GCCCGTGTGG-CCAACAC
1 GCCCGTGTGGACCAACAC
27034081 G
1 G
27034082 GCCCAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.17, C:0.42, G:0.31, T:0.11
Consensus pattern (18 bp):
GCCCGTGTGGACCAACAC
Found at i:27036463 original size:19 final size:20
Alignment explanation
Indices: 27036402--27036466 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 20
27036392 AAAAAAAATC
* *
27036402 TTAAAACAATTTATTTATAT
1 TTAAAATAAGTTATTTATAT
* **
27036422 TTAAAAATAAGGTAAAT-TA-
1 TT-AAAATAAGTTATTTATAT
27036441 TTAAAATAA-TTATTTATAT
1 TTAAAATAAGTTATTTATAT
27036460 TTAAAAT
1 TTAAAAT
27036467 GTTACGTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 3 0.09
18 9 0.26
19 9 0.26
20 4 0.12
21 9 0.26
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (20 bp):
TTAAAATAAGTTATTTATAT
Found at i:27038150 original size:2 final size:2
Alignment explanation
Indices: 27038143--27038182 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
27038133 ATTGACTCTC
27038143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27038183 TGAAAAAGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27043494 original size:13 final size:13
Alignment explanation
Indices: 27043476--27043500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27043466 TAGATTGGAC
27043476 TTGATTATGTAAA
1 TTGATTATGTAAA
27043489 TTGATTATGTAA
1 TTGATTATGTAA
27043501 TCTTGTGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:27048015 original size:15 final size:16
Alignment explanation
Indices: 27047988--27048017 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27047978 AGATATTCCA
27047988 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
27048004 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
27048018 GGAATTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:27048891 original size:38 final size:38
Alignment explanation
Indices: 27048848--27048925 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
27048838 GCTCACATAA
27048848 TTTGTATATTACTCAATAATAACCACAAAGCATAATAT
1 TTTGTATATTACTCAATAATAACCACAAAGCATAATAT
*
27048886 TTTGTATGTTACTCAATAATAACCACAAAGCATAATAT
1 TTTGTATATTACTCAATAATAACCACAAAGCATAATAT
27048924 TT
1 TT
27048926 CATGATAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (38 bp):
TTTGTATATTACTCAATAATAACCACAAAGCATAATAT
Found at i:27051635 original size:47 final size:49
Alignment explanation
Indices: 27051520--27051693 Score: 183
Period size: 44 Copynumber: 3.8 Consensus size: 49
27051510 AACCCGCCCC
* * *
27051520 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-TT-GCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
27051564 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
27051612 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
27051657 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
27051694 TCAACCATCC
Statistics
Matches: 110, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 34 0.31
45 2 0.02
46 30 0.27
47 30 0.27
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:27051682 original size:93 final size:91
Alignment explanation
Indices: 27051525--27051693 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 91
27051515 GCCCCTAAGT
*
27051525 GAACTCGGACTCAACTCAACGAGCTCGGGCTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 GAACTCGGACTCAACTCAACGAGCTCGGACTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
27051590 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
*
27051616 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-TT-GCATCCATAAGTGAACTCGGACTCAACTCAA
27051681 CGAGTTCGGATGC
64 CGAGTTCGGATGC
27051694 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 28 0.38
92 2 0.03
93 44 0.59
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:27059119 original size:93 final size:93
Alignment explanation
Indices: 27059014--27059184 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
27059004 GCCCCTAAGT
* *
27059014 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27059079 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
27059107 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27059172 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27059185 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:27059181 original size:46 final size:46
Alignment explanation
Indices: 27059009--27059181 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
27058999 AACCCGCCCC
* * *
27059009 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
27059055 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
27059103 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
27059148 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27059182 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:27062609 original size:25 final size:25
Alignment explanation
Indices: 27062575--27062631 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
27062565 ACTTTTGTGA
* *
27062575 AGGGATTTCTCATGAAATCCCTAAT
1 AGGGACTTCTCATGAAAACCCTAAT
27062600 AGGGACTTCTCATGAAAACCCTAAT
1 AGGGACTTCTCATGAAAACCCTAAT
27062625 AGGGACT
1 AGGGACT
27062632 ATTTTGTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (25 bp):
AGGGACTTCTCATGAAAACCCTAAT
Found at i:27070501 original size:68 final size:64
Alignment explanation
Indices: 27070384--27070636 Score: 219
Period size: 68 Copynumber: 3.9 Consensus size: 64
27070374 ATACAGATGG
* * * * *
27070384 TATGTAGCTAGGTCATATGTATGGTGCTGA-GTGCACATCATGTGTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCACATGGATGGTACT-ATGTGTACACCATGTGTACAAGAGAGCTACGAG--A
27070448 TTA
63 -TA
* *
27070451 TGATGTAGCTAGGTCACATGGATGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGATGGTACTATGTGTACACCATGT-GTACAAGAGAGCTACGAGAT
27070515 A
64 A
* * * * *
27070516 TATGTAGCTAGGTCGCATGTG-TGGTTCCAGGTGAAGGACACCATGTAG-ACAAGAGAGCTACGA
1 TATGTAGCTAGGTCACATG-GATGGTACTA--TG-TGTACACCATGT-GTACAAGAGAGCTACGA
27070579 GATA
61 GATA
** * * *
27070583 -AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 TATGTAGCTAGGTCACATGGATGGTACTATGTGTACACCATGTGTACAAGAGAGC
27070637 CAAAATTATG
Statistics
Matches: 154, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 23 0.15
65 5 0.03
66 24 0.16
67 32 0.21
68 49 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGGTACTATGTGTACACCATGTGTACAAGAGAGCTACGAGATA
Found at i:27080475 original size:2 final size:2
Alignment explanation
Indices: 27080468--27080500 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27080458 TAAAAGCTTA
27080468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27080501 AGTCGGCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27085015 original size:10 final size:11
Alignment explanation
Indices: 27084958--27085018 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 11
27084948 TTTGCAATAA
27084958 AATTGATATTG
1 AATTGATATTG
27084969 AA-TGATATTG
1 AATTGATATTG
27084979 AATGTGA-ATTTG
1 AAT-TGATA-TTG
*
27084991 AAATTGGACATTG
1 -AATT-GATATTG
27085004 AATTGA-ATTG
1 AATTGATATTG
27085014 AATTG
1 AATTG
27085019 TATAAATGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
10 19 0.43
11 5 0.11
12 11 0.25
13 8 0.18
14 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (11 bp):
AATTGATATTG
Found at i:27095058 original size:29 final size:29
Alignment explanation
Indices: 27095047--27095148 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
27095037 TTTCCAGTTT
* *
27095047 GCACACTTAGTGCCAAATATTTCCAGTAC
1 GCACACTTAGTGCCATATATTTCCAGCAC
27095076 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCATATATTTCCAGCAC
27095105 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCATATATTTCCAGCAC
27095134 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
27095149 ATCTCGTCAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAC
Found at i:27095079 original size:58 final size:58
Alignment explanation
Indices: 27095017--27095148 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 58
27095007 CCTCCGAACT
* * *** *
27095017 CGCACACCCAGTGCCGTATTTTTCCAGTTTGCACACTTAGTGCCAAATATTTCCAGTA
1 CGCACACCCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAAATATTTCCAGCA
** *
27095075 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAAATATTTCCAGCA
**
27095133 CGCACACTTAGTGCCA
1 CGCACACCCAGTGCCA
27095149 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 65 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (58 bp):
CGCACACCCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAAATATTTCCAGCA
Found at i:27102854 original size:13 final size:13
Alignment explanation
Indices: 27102836--27102860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27102826 TAGATTGGAT
27102836 TTGATTATGTAAA
1 TTGATTATGTAAA
27102849 TTGATTATGTAA
1 TTGATTATGTAA
27102861 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:27105403 original size:20 final size:23
Alignment explanation
Indices: 27105378--27105421 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
27105368 AAATTGCTCA
27105378 ACTTTAA-TT-TTAT-TCAAAAC
1 ACTTTAATTTGTTATATCAAAAC
27105398 ACTTTAATTTGTTATATCAAAAC
1 ACTTTAATTTGTTATATCAAAAC
27105421 A
1 A
27105422 TATTATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 2 0.10
22 4 0.19
23 8 0.38
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (23 bp):
ACTTTAATTTGTTATATCAAAAC
Found at i:27108560 original size:31 final size:31
Alignment explanation
Indices: 27108510--27108568 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
27108500 AATTGTACTT
*
27108510 ATGAAAATTTGATTGTGATTCAACTATATAA
1 ATGAAAATTTCATTGTGATTCAACTATATAA
* * *
27108541 ATGAAACTTTCATTTTGATTCAATTATA
1 ATGAAAATTTCATTGTGATTCAACTATA
27108569 CACATTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (31 bp):
ATGAAAATTTCATTGTGATTCAACTATATAA
Found at i:27111213 original size:12 final size:12
Alignment explanation
Indices: 27111185--27111219 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
27111175 TTTAGATTTA
27111185 AATAT-AAAATT
1 AATATAAAAATT
27111196 -ATATAAAAATT
1 AATATAAAAATT
27111207 AATATAAAAATT
1 AATATAAAAATT
27111219 A
1 A
27111220 TTATTATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.18
11 6 0.27
12 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATATAAAAATT
Found at i:27115612 original size:30 final size:29
Alignment explanation
Indices: 27115544--27115617 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
27115534 AAATCCGCCT
*
27115544 TTTTTTAATTTGCTTCCAGATTGCTTTTTA
1 TTTTTT-ATTTGCTTCCAGATTGCTTTTCA
* *
27115574 TTTATTTATTTGCTTTCAGTTTGCTTTTACA
1 TTT-TTTATTTGCTTCCAGATTGCTTTT-CA
*
27115605 TTTTTTATATGCT
1 TTTTTTATTTGCT
27115618 CATGATGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 31 0.82
31 7 0.18
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.62
Consensus pattern (29 bp):
TTTTTTATTTGCTTCCAGATTGCTTTTCA
Found at i:27121342 original size:26 final size:25
Alignment explanation
Indices: 27121294--27121353 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
27121284 GGGGAGAGGG
*
27121294 GAAAAAGAGGTAGAAAGGAGAAAGA
1 GAAAAAGAGGGAGAAAGGAGAAAGA
27121319 GAAAAGAGAGGGAG-AAGGAGGAAAGAA
1 GAAAA-AGAGGGAGAAAGGA-GAAAG-A
27121346 GAGAAAAG
1 GA-AAAAG
27121354 GAAAAGAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 10 0.33
26 12 0.40
27 5 0.17
28 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (25 bp):
GAAAAAGAGGGAGAAAGGAGAAAGA
Found at i:27131875 original size:40 final size:40
Alignment explanation
Indices: 27131826--27131953 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
27131816 TCTTCGGAAT
* * *
27131826 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
27131865 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
27131905 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
27131945 TTAGCCCGG
1 TTAGCCCGG
27131954 GTATCATTCA
Statistics
Matches: 71, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
39 3 0.04
40 68 0.96
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:27137695 original size:40 final size:40
Alignment explanation
Indices: 27137650--27137777 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
27137640 CGGAATATAA
27137650 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
* *
27137690 CCGGATA-GA--ATGTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCATGT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
27137728 CCGGATGTAGCCACT-AGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
27137768 CCGGATATAA
1 CCGGATATAA
27137778 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
37 4 0.06
38 29 0.40
39 1 0.01
40 36 0.50
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:27137715 original size:38 final size:37
Alignment explanation
Indices: 27137662--27137774 Score: 129
Period size: 38 Copynumber: 2.9 Consensus size: 37
27137652 GGATATAACC
27137662 ATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
1 ATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
*
27137699 ATGTCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCA
1 ATGT-GCACAAATGCCTTCGGGTCTTAGCCCGGA--TAG--A
* * * *
27137741 CT-AGCACAATTGCCTTCGGGTCTTAACCCGGATA
1 ATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATA
27137775 TAATTTCCAG
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
37 4 0.06
38 30 0.46
40 29 0.45
42 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (37 bp):
ATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
Found at i:27137792 original size:40 final size:40
Alignment explanation
Indices: 27137666--27137814 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
27137656 ATAACCATGT
* * *
27137666 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGT-C-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* ** * *
27137704 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
27137744 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
27137784 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
27137815 CATTCAATTT
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
38 28 0.31
39 16 0.18
40 45 0.51
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:27145676 original size:40 final size:39
Alignment explanation
Indices: 27145631--27145757 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
27145621 CGGAACATAA
27145631 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
27145671 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
27145711 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
27145751 CCGGATA
1 CCGGATA
27145758 AATTTCCAGC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:27149564 original size:21 final size:21
Alignment explanation
Indices: 27149538--27149577 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27149528 TTGGGGTGGA
*
27149538 TCAGCTCTTGTCAGCTTCTGT
1 TCAGCTCTTATCAGCTTCTGT
*
27149559 TCAGCTCTTATGAGCTTCT
1 TCAGCTCTTATCAGCTTCT
27149578 ATTTGGCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.28, G:0.17, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTATCAGCTTCTGT
Found at i:27152691 original size:26 final size:26
Alignment explanation
Indices: 27152662--27152719 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
27152652 CTAATTGTAG
*
27152662 TAACTGATTTGACCAACTGGTTCTAT
1 TAACTGATTTGACCAACTAGTTCTAT
*
27152688 TAACTGATTTGACCAATTAGTTCTAT
1 TAACTGATTTGACCAACTAGTTCTAT
27152714 TAACTG
1 TAACTG
27152720 TTTATTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (26 bp):
TAACTGATTTGACCAACTAGTTCTAT
Found at i:27158238 original size:34 final size:34
Alignment explanation
Indices: 27158196--27158263 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
27158186 GCATATTTGA
27158196 TACTGTACCGAGAA-AGGCTAAGGCCC-AAACTGT
1 TACTGTACCGA-AAGAGGCTAAGGCCCGAAACTGT
*
27158229 TACTGGTACCGAAAGAGGCTTAGGCCCGAAACTGT
1 TACT-GTACCGAAAGAGGCTAAGGCCCGAAACTGT
27158264 ATTTGATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 6 0.19
34 18 0.58
35 7 0.23
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (34 bp):
TACTGTACCGAAAGAGGCTAAGGCCCGAAACTGT
Found at i:27158364 original size:351 final size:351
Alignment explanation
Indices: 27157720--27158773 Score: 2018
Period size: 351 Copynumber: 3.0 Consensus size: 351
27157710 TGGGTGGTTG
*
27157720 ATTTAATCCCCACATGGAGTGTAGGGTTGGACGGAGATGGTGTGTAGAGGCTGGTTGGGTAGGAC
1 ATTTAATCCCCATATGGAGTGTAGGGTTGGACGGAGATGGTGTGTAGAGGCTGGTTGGGTAGGAC
*
27157785 CTTGTTACTGAATAATGCATACTGATATTGTGATGGGCTAAGGCCCTACTGCATATTTGATCCTG
66 CTTGTTACTGAATAATGCATACTGATATTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTG
* *
27157850 TACCGAGATAGGCTAAGGCCCAAACTGTTACTGGTACCGAAAAAGGCTTAGGCCCGATACTGTAT
131 TACCGAGATAGGCTAAGGCCCAAACTGTTACTGGTACCGAAAGAGGCTTAGGCCCGAAACTGTAT
27157915 TTGATTATGCACTGTGTTTACTGTTGTTTGTTTTCTGTGGGATTACACACTGAGTTTACGTAAAC
196 TTGATTATGCACTGTGTTTACTGTTGTTTGTTTTCTGTGGGATTACACACTGAGTTTACGTAAAC
*
27157980 TCACCCCTCTCTATTTAATGTGCACAGGTAATCCCCAGACTTGATAGATCGGTACAGCGGAGGAC
261 TCACCCCTCTCTATTTAATGTGCACAAGTAATCCCCAGACTTGATAGATCGGTACAGCGGAGGAC
27158045 TCGACGGTGGCCATACATATTATTAA
326 TCGACGGTGGCCATACATATTATTAA
27158071 ATTTAATCCCCATATGGAGTGTAGGGTTGGACGGAGATGGTGTGTAGAGGCTGGTTGGGTAGGAC
1 ATTTAATCCCCATATGGAGTGTAGGGTTGGACGGAGATGGTGTGTAGAGGCTGGTTGGGTAGGAC
27158136 CTTGTTACTGAATAATGCATACTGATATTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTG
66 CTTGTTACTGAATAATGCATACTGATATTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTG
*
27158201 TACCGAGAAAGGCTAAGGCCCAAACTGTTACTGGTACCGAAAGAGGCTTAGGCCCGAAACTGTAT
131 TACCGAGATAGGCTAAGGCCCAAACTGTTACTGGTACCGAAAGAGGCTTAGGCCCGAAACTGTAT
*
27158266 TTGATTATGCACTGTGTTTACTGTTGTTTGTTTTCTGTGGGATTACACACTGAGTTTATGTAAAC
196 TTGATTATGCACTGTGTTTACTGTTGTTTGTTTTCTGTGGGATTACACACTGAGTTTACGTAAAC
27158331 TCACCCCTCTCTATTTAATGTGCACAAGTAATCCCCAGACTTGATAGATCGGTACAGCGGAGGAC
261 TCACCCCTCTCTATTTAATGTGCACAAGTAATCCCCAGACTTGATAGATCGGTACAGCGGAGGAC
27158396 TCGACGGTGGCCATACATATTATTAA
326 TCGACGGTGGCCATACATATTATTAA
*
27158422 ATTTAATCCCCATATGGAGTGTAGGGTTGGATGGAGATGGTGTGTAGAGGCTGGTTGGGTAGGAC
1 ATTTAATCCCCATATGGAGTGTAGGGTTGGACGGAGATGGTGTGTAGAGGCTGGTTGGGTAGGAC
27158487 CTTGTTACTGAATAATGCATACTGATATTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTG
66 CTTGTTACTGAATAATGCATACTGATATTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTG
*
27158552 TACCGAGATAGGCTAAGGCCCAAACTGTTACTGGTACCGAAAGAGGCTTAGGCCCAAAACTGTAT
131 TACCGAGATAGGCTAAGGCCCAAACTGTTACTGGTACCGAAAGAGGCTTAGGCCCGAAACTGTAT
*
27158617 TTGATTATGCACTGTGTTTACTATTGTTTGTTTTCTGTGGGATTACACACTGAGTTTACGTAAAC
196 TTGATTATGCACTGTGTTTACTGTTGTTTGTTTTCTGTGGGATTACACACTGAGTTTACGTAAAC
27158682 TCACCCCTCTCTATTTAATGTGCACAAGTAATCCCCAGACTTGATAGATCGGTACAGCGGAGGAC
261 TCACCCCTCTCTATTTAATGTGCACAAGTAATCCCCAGACTTGATAGATCGGTACAGCGGAGGAC
27158747 TCGACGGTGGCCATACATATTATTAA
326 TCGACGGTGGCCATACATATTATTAA
27158773 A
1 A
27158774 CCGTTTTAAT
Statistics
Matches: 691, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
351 691 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (351 bp):
ATTTAATCCCCATATGGAGTGTAGGGTTGGACGGAGATGGTGTGTAGAGGCTGGTTGGGTAGGAC
CTTGTTACTGAATAATGCATACTGATATTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTG
TACCGAGATAGGCTAAGGCCCAAACTGTTACTGGTACCGAAAGAGGCTTAGGCCCGAAACTGTAT
TTGATTATGCACTGTGTTTACTGTTGTTTGTTTTCTGTGGGATTACACACTGAGTTTACGTAAAC
TCACCCCTCTCTATTTAATGTGCACAAGTAATCCCCAGACTTGATAGATCGGTACAGCGGAGGAC
TCGACGGTGGCCATACATATTATTAA
Found at i:27158589 original size:34 final size:34
Alignment explanation
Indices: 27158547--27158614 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
27158537 GCATATTTGA
* *
27158547 TACTGTACCGAGATAGGCTAAGGCCC-AAACTGT
1 TACTGTACCGAAAGAGGCTAAGGCCCAAAACTGT
*
27158580 TACTGGTACCGAAAGAGGCTTAGGCCCAAAACTGT
1 TACT-GTACCGAAAGAGGCTAAGGCCCAAAACTGT
27158615 ATTTGATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 4 0.13
34 19 0.63
35 7 0.23
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.21
Consensus pattern (34 bp):
TACTGTACCGAAAGAGGCTAAGGCCCAAAACTGT
Found at i:27158928 original size:19 final size:19
Alignment explanation
Indices: 27158904--27158942 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
27158894 TGAACTCAAC
27158904 AAAC-AAACGGTTTTCTCTA
1 AAACAAAACGGTTTT-TCTA
*
27158923 AAACAAAAGGGTTTTTCTA
1 AAACAAAACGGTTTTTCTA
27158942 A
1 A
27158943 GATGGACGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (19 bp):
AAACAAAACGGTTTTTCTA
Found at i:27159650 original size:3 final size:3
Alignment explanation
Indices: 27159642--27159687 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
27159632 TTTAATTTAG
27159642 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
27159688 GAAATAAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:27160570 original size:25 final size:25
Alignment explanation
Indices: 27160542--27160590 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27160532 AGACAATAGA
*
27160542 AAAGAAAAACAGGG-GAGAAAGAAAG
1 AAAGAAAAA-AGGGAAAGAAAGAAAG
*
27160567 AAAGGAAAAAGGGAAAGAAAGAAA
1 AAAGAAAAAAGGGAAAGAAAGAAA
27160591 AGGGAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (25 bp):
AAAGAAAAAAGGGAAAGAAAGAAAG
Found at i:27160582 original size:17 final size:15
Alignment explanation
Indices: 27160562--27160595 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
27160552 AGGGGAGAAA
27160562 GAAAGAAAGGAAAAAGG
1 GAAAGAAA-G-AAAAGG
27160579 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
27160594 GA
1 GA
27160596 GAAATAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:27160599 original size:17 final size:18
Alignment explanation
Indices: 27160561--27160599 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
27160551 CAGGGGAGAA
27160561 AGAAAGAAAGGAAAAAGG
1 AGAAAGAAAGGAAAAAGG
*
27160579 -GAAAGAAA-GAAAAGGG
1 AGAAAGAAAGGAAAAAGG
27160595 AGAAA
1 AGAAA
27160600 TAGGGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGGAAAAAGG
Found at i:27161750 original size:60 final size:54
Alignment explanation
Indices: 27161624--27161745 Score: 199
Period size: 54 Copynumber: 2.3 Consensus size: 54
27161614 AAGTGTTGCC
***
27161624 TTACTGTTACTGTTCTGGATTTATTCCGATGAGGTACTCTGTCTACCGCTACTG
1 TTACTGTTACTGTTCCAAATTTATTCCGATGAGGTACTCTGTCTACCGCTACTG
* *
27161678 TTACTGTTACTGTTCCAAATTTATTCCGATGAGGTACTCTGTGTACCGCTACTA
1 TTACTGTTACTGTTCCAAATTTATTCCGATGAGGTACTCTGTCTACCGCTACTG
27161732 TTACTGTTACTGTT
1 TTACTGTTACTGTT
27161746 ACTGTTATGG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (54 bp):
TTACTGTTACTGTTCCAAATTTATTCCGATGAGGTACTCTGTCTACCGCTACTG
Found at i:27161990 original size:18 final size:18
Alignment explanation
Indices: 27161861--27161990 Score: 75
Period size: 18 Copynumber: 7.1 Consensus size: 18
27161851 TAAATAAAGG
* * *
27161861 TACTGAATAATTAATTGC
1 TACTGAATAATTGACTGT
*
27161879 TACTGAATAACTGACTGT
1 TACTGAATAATTGACTGT
* * *
27161897 TACTGGATAACTGACTGC
1 TACTGAATAATTGACTGT
*** *
27161915 TACTGCGTAA-AAAAAATTGT
1 TACT--G-AATAATTGACTGT
* *
27161935 TACTGAATAATTGATTAT
1 TACTGAATAATTGACTGT
* *
27161953 TACTAAATAATTTA-TCGT
1 TACTGAATAATTGACT-GT
27161971 TACTGAATAATTGACTGT
1 TACTGAATAATTGACTGT
27161989 TA
1 TA
27161991 AAGAGTGACT
Statistics
Matches: 85, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
17 3 0.04
18 70 0.82
19 1 0.01
20 10 0.12
21 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (18 bp):
TACTGAATAATTGACTGT
Found at i:27170030 original size:2 final size:2
Alignment explanation
Indices: 27170023--27170057 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
27170013 TCAAATATTC
27170023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27170058 GGAATATACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27170349 original size:51 final size:51
Alignment explanation
Indices: 27170294--27170436 Score: 158
Period size: 51 Copynumber: 3.0 Consensus size: 51
27170284 CTACATCATA
*
27170294 ACATGTAACACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGTT
1 ACATGTAACACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGTT
* * * *
27170345 ACATGTATCCCATCCATTATGAACTCGGACCACTCAACGAGCTCGGATG--
1 ACATGTAACACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGTT
* * *
27170394 -C---T--CGCATCCATAATAAACTCGGACCACTCAACGAGCTCGGATG
1 ACATGTAACACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATG
27170437 CTATAGATAT
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
43 38 0.45
45 1 0.01
48 1 0.01
51 44 0.52
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (51 bp):
ACATGTAACACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGTT
Found at i:27170416 original size:43 final size:43
Alignment explanation
Indices: 27170355--27170438 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
27170345 ACATGTATCC
* *
27170355 CATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGCTCG
1 CATCCATAATAAACTCGGACCACTCAACGAGCTCGGATGCTCG
27170398 CATCCATAATAAACTCGGACCACTCAACGAGCTCGGATGCT
1 CATCCATAATAAACTCGGACCACTCAACGAGCTCGGATGCT
27170439 ATAGATATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (43 bp):
CATCCATAATAAACTCGGACCACTCAACGAGCTCGGATGCTCG
Found at i:27174681 original size:28 final size:28
Alignment explanation
Indices: 27174649--27174717 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
27174639 GCGTAGATCA
27174649 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
27174677 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
27174705 CGATA-TACCCCTA
1 CGAAATTACCCCTA
27174718 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:27178794 original size:40 final size:40
Alignment explanation
Indices: 27178739--27178987 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
27178729 AACATTGGAA
27178739 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
27178779 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
27178819 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
27178859 ATATATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
27178898 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
27178937 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
27178978 CTATATCCGG
1 ATATATCCGG
27178988 TTAAATCCCG
Statistics
Matches: 189, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 41 0.22
40 148 0.78
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:27178999 original size:119 final size:119
Alignment explanation
Indices: 27178739--27178987 Score: 374
Period size: 119 Copynumber: 2.1 Consensus size: 119
27178729 AACATTGGAA
27178739 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * * * *
27178804 CATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65 CATTCGTGCAAGTTCACAAATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCG
27178859 ATATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
* * * *
27178924 CTTTGTGCAAG-TCACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
66 ATTCGTGCAAGTTCA-CAAATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCG
*
27178978 CTATATCCGG
1 ATATATCCGG
27178988 TTAAATCCCG
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
118 2 0.02
119 107 0.91
120 8 0.07
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (119 bp):
ATATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
ATTCGTGCAAGTTCACAAATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCG
Found at i:27181804 original size:28 final size:28
Alignment explanation
Indices: 27181772--27181840 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
27181762 GCGTAGATCA
*
27181772 CGAAATTACCCCTAAAGAGCAAAATTAT
1 CGAAATTACCCCTAAAGAGCAAAATTAC
27181800 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
27181828 CGATA-TACCCCTA
1 CGAAATTACCCCTA
27181841 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:27183536 original size:15 final size:15
Alignment explanation
Indices: 27183486--27183555 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
27183476 AAAGTCGACT
* *
27183486 AGAAAGCCAAATTAA
1 AGAAATCCAAAATAA
* * *
27183501 AAAAATCCAAGACTGA
1 AGAAATCCAA-AATAA
*
27183517 A-AAATCCATAATAA
1 AGAAATCCAAAATAA
*
27183531 AGAAATCCAAAATAC
1 AGAAATCCAAAATAA
*
27183546 AGAAACCCAA
1 AGAAATCCAA
27183556 TATACATTGC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
14 4 0.09
15 35 0.81
16 4 0.09
ACGTcount: A:0.60, C:0.19, G:0.09, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAAATAA
Found at i:27186793 original size:2 final size:2
Alignment explanation
Indices: 27186758--27186784 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27186748 TCAAATATTC
27186758 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27186785 GGAATATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27187145 original size:43 final size:43
Alignment explanation
Indices: 27187084--27187165 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
27187074 CCTATATCGT
* *
27187084 ATCCATTATGAACTCGGACCACTCAACGAGCTCAGATGCTCGC
1 ATCCATAATAAACTCGGACCACTCAACGAGCTCAGATGCTCGC
*
27187127 ATCCATAATAAACTCGGACCACTCAACGAGCTCGGATGC
1 ATCCATAATAAACTCGGACCACTCAACGAGCTCAGATGC
27187166 CATGTATATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (43 bp):
ATCCATAATAAACTCGGACCACTCAACGAGCTCAGATGCTCGC
Found at i:27188508 original size:38 final size:38
Alignment explanation
Indices: 27188457--27188532 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
27188447 AACTTACTAC
27188457 CATGCCACACATTCATCCCAAGCCATGACCACCTCGAA
1 CATGCCACACATTCATCCCAAGCCATGACCACCTCGAA
27188495 CATGCCACACATTCATCCCAAGCCATGACCACCTCGAA
1 CATGCCACACATTCATCCCAAGCCATGACCACCTCGAA
27188533 TGGTCCTAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.42, G:0.11, T:0.16
Consensus pattern (38 bp):
CATGCCACACATTCATCCCAAGCCATGACCACCTCGAA
Found at i:27203485 original size:84 final size:84
Alignment explanation
Indices: 27203340--27203513 Score: 285
Period size: 84 Copynumber: 2.1 Consensus size: 84
27203330 TCGAGCCTAA
* * * * *
27203340 CAGGCTATAATGCCGGTGAGTTAATATCGGGCTTCGAGCCTAGTAGGCGTAATGTCAGTGAATGA
1 CAGGCTATAATACCGGTGACTTAATATCAGGCTTCGAGCCTAGCAGGCGTAATGCCAGTGAATGA
27203405 GTTCAGACTTAAAGTCTAG
66 GTTCAGACTTAAAGTCTAG
* *
27203424 CAGGCTATAATACCGGTGACTTAATATTAGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAATGA
1 CAGGCTATAATACCGGTGACTTAATATCAGGCTTCGAGCCTAGCAGGCGTAATGCCAGTGAATGA
27203489 GTTCAGACTTAAAGTCTAG
66 GTTCAGACTTAAAGTCTAG
27203508 CAGGCT
1 CAGGCT
27203514 TCGTGCCGGT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (84 bp):
CAGGCTATAATACCGGTGACTTAATATCAGGCTTCGAGCCTAGCAGGCGTAATGCCAGTGAATGA
GTTCAGACTTAAAGTCTAG
Found at i:27203512 original size:41 final size:41
Alignment explanation
Indices: 27203379--27203512 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 41
27203369 GGCTTCGAGC
* * *
27203379 CTAGTAGGCGTAATGTCAGTGAATGAGTTCAGACTTAAAGT
1 CTAGCAGGCGTAATGCCGGTGAATGAGTTCAGACTTAAAGT
* * * * * * * ** *
27203420 CTAGCAGGCTATAATACCGGTGACTTAATATTAGGCTTCGAGC
1 CTAGCAGGC-GTAATGCCGGTGAATGAGT-TCAGACTTAAAGT
27203463 CTAGCAGGCGTAATGCCGGTGAATGAGTTCAGACTTAAAGT
1 CTAGCAGGCGTAATGCCGGTGAATGAGTTCAGACTTAAAGT
27203504 CTAGCAGGC
1 CTAGCAGGC
27203513 TTCGTGCCGG
Statistics
Matches: 68, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
41 25 0.37
42 26 0.38
43 17 0.25
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCGTAATGCCGGTGAATGAGTTCAGACTTAAAGT
Found at i:27203521 original size:41 final size:41
Alignment explanation
Indices: 27203379--27203525 Score: 132
Period size: 41 Copynumber: 3.5 Consensus size: 41
27203369 GGCTTCGAGC
* * * *
27203379 CTAGTAGGCGTAATGTCAGTGAATGAGTTCAGACTTAAAGT
1 CTAGCAGGCTTAATGCCGGTGAATGAGTTCAGACTTAAAGT
* * * * * * ** *
27203420 CTAGCAGGCTATAATACCGGTGACTTAATATTAGGCTTCGAGC
1 CTAGCAGGCT-TAATGCCGGTGAATGAGT-TCAGACTTAAAGT
*
27203463 CTAGCAGGCGTAATGCCGGTGAATGAGTTCAGACTTAAAGT
1 CTAGCAGGCTTAATGCCGGTGAATGAGTTCAGACTTAAAGT
**
27203504 CTAGCAGGCTTCGTGCCGGTGA
1 CTAGCAGGCTTAATGCCGGTGA
27203526 TGAATTCGGG
Statistics
Matches: 78, Mismatches: 26, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
41 35 0.45
42 26 0.33
43 17 0.22
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAATGAGTTCAGACTTAAAGT
Found at i:27211890 original size:26 final size:26
Alignment explanation
Indices: 27211861--27212020 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
27211851 TGGTACAAAT
27211861 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
27211887 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27211913 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
27211939 TGATAATGGATCAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27211965 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27211991 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27212017 TGAT
1 TGAT
27212021 GGGCATTTCA
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 121 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27211923 original size:52 final size:52
Alignment explanation
Indices: 27211861--27212020 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
27211851 TGGTACAAAT
*
27211861 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
27211913 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATCAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
27211965 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
27212017 TGAT
1 TGAT
27212021 GGGCATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:27213540 original size:26 final size:26
Alignment explanation
Indices: 27213506--27213558 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
27213496 TTTATAGTTT
*
27213506 TACCTCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
27213532 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
27213558 T
1 T
27213559 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:27219995 original size:21 final size:21
Alignment explanation
Indices: 27219971--27220031 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
27219961 GTTCTGCTCT
27219971 GCCTCCCTCGCTGCTGCCTCC
1 GCCTCCCTCGCTGCTGCCTCC
*
27219992 GCCTCCCTCGCTACTGCCTCC
1 GCCTCCCTCGCTGCTGCCTCC
*
27220013 GCCTCCCGCGCTGCTGCCT
1 GCCTCCCTCGCTGCTGCCT
27220032 TCGCTCTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.02, C:0.56, G:0.20, T:0.23
Consensus pattern (21 bp):
GCCTCCCTCGCTGCTGCCTCC
Found at i:27225596 original size:39 final size:39
Alignment explanation
Indices: 27225477--27225597 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
27225467 ATGCAAGACA
27225477 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
27225516 CTAGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
27225555 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
27225594 CTGG
1 CTGG
27225598 TAATATAATT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:27234313 original size:114 final size:114
Alignment explanation
Indices: 27234113--27234340 Score: 447
Period size: 114 Copynumber: 2.0 Consensus size: 114
27234103 TTATTTTTCA
*
27234113 CAATAATCATATAACAGTCTTATTGCTTTACTCACATGTACATCACATAACGACCTTGTGATTTA
1 CAATAATCATAGAACAGTCTTATTGCTTTACTCACATGTACATCACATAACGACCTTGTGATTTA
27234178 GTCCAAATCAAGCTTAAATATAATCTCAAAATACATACCTGACCAACTT
66 GTCCAAATCAAGCTTAAATATAATCTCAAAATACATACCTGACCAACTT
27234227 CAATAATCATAGAACAGTCTTATTGCTTTACTCACATGTACATCACATAACGACCTTGTGATTTA
1 CAATAATCATAGAACAGTCTTATTGCTTTACTCACATGTACATCACATAACGACCTTGTGATTTA
27234292 GTCCAAATCAAGCTTAAATATAATCTCAAAATACATACCTGACCAACTT
66 GTCCAAATCAAGCTTAAATATAATCTCAAAATACATACCTGACCAACTT
27234341 AACGCATTGA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (114 bp):
CAATAATCATAGAACAGTCTTATTGCTTTACTCACATGTACATCACATAACGACCTTGTGATTTA
GTCCAAATCAAGCTTAAATATAATCTCAAAATACATACCTGACCAACTT
Found at i:27234493 original size:37 final size:37
Alignment explanation
Indices: 27234438--27234537 Score: 146
Period size: 37 Copynumber: 2.7 Consensus size: 37
27234428 CGAATAGTCC
* * * *
27234438 CCACTCGTAGTTAGCGGGTCTCACCCGAACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGAACAAAATCT
* *
27234475 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGAACAAAATCT
27234512 CCACACGTAGTCATCGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
27234538 AGAATATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGAACAAAATCT
Found at i:27234739 original size:48 final size:48
Alignment explanation
Indices: 27234681--27235161 Score: 770
Period size: 48 Copynumber: 10.0 Consensus size: 48
27234671 ATATACACAC
* * * *
27234681 ATCTCCTACATATTTCGCATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
27234729 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
27234777 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
27234825 ATCCCATACATATTTCACACTAGCCATTCGGCTTTACCACATAAACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
27234873 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
27234921 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
27234969 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
27235017 AACTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * * *
27235065 ATCTCATATATATTTCAC-CTTAGCCATACAGATTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
*
27235113 ATCTCA-ACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
27235160 AT
1 AT
27235162 TTGTCTTGTA
Statistics
Matches: 402, Mismatches: 27, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
47 39 0.10
48 362 0.90
49 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:27239159 original size:9 final size:9
Alignment explanation
Indices: 27239145--27239272 Score: 96
Period size: 9 Copynumber: 13.6 Consensus size: 9
27239135 ATGTATTAGT
27239145 TAAGTTATG
1 TAAGTTATG
27239154 TAAGTTGTTATG
1 TAA---GTTATG
*
27239166 TACGTTATG
1 TAAGTTATG
*
27239175 TGAGTTATG
1 TAAGTTATG
*
27239184 TAAATTATG
1 TAAGTTATG
27239193 TAAGTTATG
1 TAAGTTATG
*
27239202 TGAGTTATG
1 TAAGTTATG
27239211 TAAGTTGTTATG
1 TAA---GTTATG
* *
27239223 TAAATTGT-
1 TAAGTTATG
*
27239231 TCAAGTTATA
1 T-AAGTTATG
*
27239241 TGAGTTATG
1 TAAGTTATG
27239250 TAAGTTATG
1 TAAGTTATG
* *
27239259 TAATTTATT
1 TAAGTTATG
27239268 TAAGT
1 TAAGT
27239273 AATGATCAGT
Statistics
Matches: 93, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
8 1 0.01
9 74 0.80
10 1 0.01
12 17 0.18
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:27239221 original size:39 final size:39
Alignment explanation
Indices: 27239178--27239255 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
27239168 CGTTATGTGA
*
27239178 GTTATGTAAATTATGT-AAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTAT-TCAAGTTATATGAGTTATGTAAGTT
*
27239217 GTTATGTAAATTGTTCAAGTTATATGAGTTATGTAAGTT
1 GTTATGTAAATTATTCAAGTTATATGAGTTATGTAAGTT
27239256 ATGTAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.03
39 35 0.97
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (39 bp):
GTTATGTAAATTATTCAAGTTATATGAGTTATGTAAGTT
Found at i:27239238 original size:57 final size:57
Alignment explanation
Indices: 27239147--27239259 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
27239137 GTATTAGTTA
** * *
27239147 AGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
* * *
27239204 AGTTATGTAAGTTGTTATGTAAATTGT-TCAAGTTATATGAGTTATGTAAGTTATGT
1 AGTTATGTAAGTTGTTATGTAAATTATGT-AAGTTATATAAATTATGTAAGTTATGT
27239260 AATTTATTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 1 0.02
57 47 0.98
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
Found at i:27241736 original size:39 final size:39
Alignment explanation
Indices: 27241682--27241849 Score: 219
Period size: 39 Copynumber: 4.3 Consensus size: 39
27241672 ATGAGATTGA
*
27241682 AAATATATCCGGACATGAGGTCTGCAGGCTATATGCTAG
1 AAATATATCCGGACATGAGGTCCGCAGGCTATATGCTAG
** *
27241721 AAATATATCCGGACATGAGGTCCATAGGCTATATGCTGG
1 AAATATATCCGGACATGAGGTCCGCAGGCTATATGCTAG
* * * *
27241760 AAAAATTTCCGGACATGAGATCCGCAAGCTATATGCTAG
1 AAATATATCCGGACATGAGGTCCGCAGGCTATATGCTAG
* ** *
27241799 AAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGG
1 AAATATATCCGGACATGAGGTCCGCAGGCTATATGCTAG
*
27241838 AAAAATATCCGG
1 AAATATATCCGG
27241850 GTTAAAGACC
Statistics
Matches: 109, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (39 bp):
AAATATATCCGGACATGAGGTCCGCAGGCTATATGCTAG
Found at i:27241818 original size:78 final size:78
Alignment explanation
Indices: 27241680--27241849 Score: 250
Period size: 78 Copynumber: 2.2 Consensus size: 78
27241670 GTATGAGATT
* * *
27241680 GAAAATATATCCGGACATGAGGTCTGCAGGCTATATGCTAGAAATATATCCGGACATGAGGTCCA
1 GAAAA-ATATCCGGACATGAGATCCGCAAGCTATATGCTAGAAATATATCCGGACATGAGGTCCA
* *
27241745 TAGGCTATATGCTG
65 CAGGCTACATGCTG
* * *
27241759 GAAAAATTTCCGGACATGAGATCCGCAAGCTATATGCTAGAAATATATCCGGACTTGAGGTCCGC
1 GAAAAATATCCGGACATGAGATCCGCAAGCTATATGCTAGAAATATATCCGGACATGAGGTCCAC
*
27241824 AGGCTACGTGCTG
66 AGGCTACATGCTG
27241837 GAAAAATATCCGG
1 GAAAAATATCCGG
27241850 GTTAAAGACC
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 76 0.94
79 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (78 bp):
GAAAAATATCCGGACATGAGATCCGCAAGCTATATGCTAGAAATATATCCGGACATGAGGTCCAC
AGGCTACATGCTG
Found at i:27243549 original size:26 final size:25
Alignment explanation
Indices: 27243495--27243566 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 25
27243485 GGATATCTGT
* *
27243495 GAAATCAATTGAAACGGTGCGTGGTG
1 GAAA-CAATTGAAATGGTGAGTGGTG
27243521 GAAACAATTGAAATGGTGAGTGGTG
1 GAAACAATTGAAATGGTGAGTGGTG
*
27243546 GGAACAATTGAAATGGTGAGT
1 GAAACAATTGAAATGGTGAGT
27243567 TTTGAATTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
25 39 0.91
26 4 0.09
ACGTcount: A:0.35, C:0.07, G:0.35, T:0.24
Consensus pattern (25 bp):
GAAACAATTGAAATGGTGAGTGGTG
Found at i:27244527 original size:11 final size:11
Alignment explanation
Indices: 27244511--27244535 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27244501 ATGGGCCATG
27244511 AAACATCAGTA
1 AAACATCAGTA
27244522 AAACATCAGTA
1 AAACATCAGTA
27244533 AAA
1 AAA
27244536 AGTATGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (11 bp):
AAACATCAGTA
Found at i:27244679 original size:24 final size:24
Alignment explanation
Indices: 27244647--27244692 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
27244637 TTGTATTTGT
27244647 AAACAGAGACTTAGAAATTAAAAG
1 AAACAGAGACTTAGAAATTAAAAG
27244671 AAACAGAGACTTAGAAATTAAA
1 AAACAGAGACTTAGAAATTAAA
27244693 GTTACTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.17
Consensus pattern (24 bp):
AAACAGAGACTTAGAAATTAAAAG
Found at i:27245618 original size:7 final size:7
Alignment explanation
Indices: 27245603--27245663 Score: 59
Period size: 7 Copynumber: 8.7 Consensus size: 7
27245593 TTCCAAAATT
27245603 AAACCCC
1 AAACCCC
*
27245610 AAACTCC
1 AAACCCC
*
27245617 AAACTCC
1 AAACCCC
* *
27245624 AAACTCT
1 AAACCCC
27245631 AAACCCC
1 AAACCCC
*
27245638 AAACACC
1 AAACCCC
* *
27245645 AAACGCT
1 AAACCCC
27245652 AAACCCC
1 AAACCCC
27245659 AAACC
1 AAACC
27245664 ATAAACCACA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.46, C:0.44, G:0.02, T:0.08
Consensus pattern (7 bp):
AAACCCC
Found at i:27245625 original size:14 final size:14
Alignment explanation
Indices: 27245603--27245663 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
27245593 TTCCAAAATT
27245603 AAACCCCAAACTCC
1 AAACCCCAAACTCC
* *
27245617 AAACTCCAAACTCT
1 AAACCCCAAACTCC
*
27245631 AAACCCCAAACACC
1 AAACCCCAAACTCC
* * *
27245645 AAACGCTAAACCCC
1 AAACCCCAAACTCC
27245659 AAACC
1 AAACC
27245664 ATAAACCACA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.46, C:0.44, G:0.02, T:0.08
Consensus pattern (14 bp):
AAACCCCAAACTCC
Found at i:27245669 original size:21 final size:21
Alignment explanation
Indices: 27245610--27245662 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
27245600 ATTAAACCCC
* * *
27245610 AAACTCCAAACTCCAAACTCT
1 AAACCCCAAACACCAAACGCT
27245631 AAACCCCAAACACCAAACGCT
1 AAACCCCAAACACCAAACGCT
27245652 AAACCCCAAAC
1 AAACCCCAAAC
27245663 CATAAACCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.47, C:0.42, G:0.02, T:0.09
Consensus pattern (21 bp):
AAACCCCAAACACCAAACGCT
Found at i:27245810 original size:14 final size:14
Alignment explanation
Indices: 27245788--27245823 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
27245778 CATTAAATAT
*
27245788 AACCCTAAACTTTA
1 AACCCTAAACCTTA
*
27245802 AACCTTAAACCTTA
1 AACCCTAAACCTTA
27245816 AACCCTAA
1 AACCCTAA
27245824 CACCCTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (14 bp):
AACCCTAAACCTTA
Found at i:27245948 original size:14 final size:14
Alignment explanation
Indices: 27245937--27245979 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
27245927 TGACCCTATT
27245937 CCATAAACCCTAAA
1 CCATAAACCCTAAA
27245951 CCATAAACTCC-AAA
1 CCATAAAC-CCTAAA
*
27245965 CCATAAACCCCAAA
1 CCATAAACCCTAAA
27245979 C
1 C
27245980 ACTAGACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.07
14 23 0.85
15 2 0.07
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.12
Consensus pattern (14 bp):
CCATAAACCCTAAA
Found at i:27246403 original size:14 final size:13
Alignment explanation
Indices: 27246353--27246418 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 13
27246343 ATAAACCTCA
27246353 AACCCTAAATCAT
1 AACCCTAAATCAT
* *
27246366 AAAACATAAATCAT
1 -AACCCTAAATCAT
27246380 CAACCCTAAATCAT
1 -AACCCTAAATCAT
*
27246394 AACCCTTAAACCCAT
1 AACCC-TAAA-TCAT
27246409 AACCCCTAAA
1 AA-CCCTAAA
27246419 CCTATAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
13 5 0.12
14 26 0.60
15 9 0.21
16 3 0.07
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (13 bp):
AACCCTAAATCAT
Found at i:27246411 original size:15 final size:15
Alignment explanation
Indices: 27246391--27246425 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27246381 AACCCTAAAT
*
27246391 CATAACCCTTAAACC
1 CATAACCCCTAAACC
27246406 CATAACCCCTAAACC
1 CATAACCCCTAAACC
*
27246421 TATAA
1 CATAA
27246426 AAATATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAACCCCTAAACC
Found at i:27246412 original size:28 final size:28
Alignment explanation
Indices: 27246343--27246427 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 28
27246333 ATTCTAAATT
27246343 ATAAACCTCA-AACCCTAAATCATAAAAC
1 ATAAACC-CATAACCCTAAATCATAAAAC
* **
27246371 ATAAA-TCATCAACCCTAAATCATAACCC
1 ATAAACCCAT-AACCCTAAATCATAAAAC
* *
27246399 TTAAACCCATAACCCCTAAACCTATAAAA
1 ATAAACCCATAA-CCCTAAATC-ATAAAA
27246428 ATATTAAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
26 2 0.05
28 27 0.61
29 11 0.25
30 4 0.09
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (28 bp):
ATAAACCCATAACCCTAAATCATAAAAC
Found at i:27247371 original size:74 final size:74
Alignment explanation
Indices: 27247250--27247417 Score: 185
Period size: 74 Copynumber: 2.3 Consensus size: 74
27247240 TATTACGGCA
* * * * * ***
27247250 TTTTTAGGAAAGCGCCGCTAATATCATTGAAGCTCATATAAAACGACGTTGTTTTGCTTAACATT
1 TTTTTGGGAAAACGCCGCTAATACCAATGAAACTCATATAAAACGACGCCATTTTGCTTAACATT
27247315 TTAGCGACG
66 TTAGCGACG
* * * * *
27247324 TTTTTGGGAAAACGCCGCTACTGCCAATGAAACTCATGTAAAACGACGCCATTTTTCTTAACCTT
1 TTTTTGGGAAAACGCCGCTAATACCAATGAAACTCATATAAAACGACGCCATTTTGCTTAACATT
*
27247389 TTAGCGGCG
66 TTAGCGACG
* *
27247398 -TTTTGGTAAAACGCCACTAA
1 TTTTTGGGAAAACGCCGCTAA
27247418 AGGTCGACTT
Statistics
Matches: 77, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
73 17 0.22
74 60 0.78
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (74 bp):
TTTTTGGGAAAACGCCGCTAATACCAATGAAACTCATATAAAACGACGCCATTTTGCTTAACATT
TTAGCGACG
Found at i:27251311 original size:48 final size:48
Alignment explanation
Indices: 27251238--27251507 Score: 282
Period size: 48 Copynumber: 5.6 Consensus size: 48
27251228 TGTGTGCTAA
27251238 TGTAAGACCATGTC-GGGACATGGCATCGGCCACATCATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCCAG
* * * ** * * *
27251285 TGTAAGATCATGTTTGGGACATGGCATCAG-CATTTAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACAT-CATGAGAGCCAG
* * ** * * *
27251333 TGTATGACCATGTCTGGGACATGGCATTGGCCTTGA-CGTGTGAACCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCC-ACATCATGAGAGCCAG
* *
27251381 TGTAAGACCATGTCTGGGACATGGCATCGG-CAC-TGAGATGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACAT--CATGAGAGCCAG
* *
27251429 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATCATGAGAGCCAG
27251477 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
27251508 AAGTTTCCCT
Statistics
Matches: 178, Mismatches: 35, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
47 16 0.09
48 159 0.89
49 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCCAG
Found at i:27251424 original size:96 final size:96
Alignment explanation
Indices: 27251233--27251508 Score: 394
Period size: 96 Copynumber: 2.9 Consensus size: 96
27251223 TCATATGTGT
* * * *
27251233 GCTAATGTAAGACCATGTC-GGGACATGGCATCGGCC-ACATCATGAGAGCCAGTGTAAGATCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGA-CATGTGAGCCAGTGTAAGACCAT
* * * *
27251296 GTTTGGGACATGGCATCAGCATTTAGACGAGA
65 GTCTGGGACATGGCATCGGCACTGAGACGAGA
* * * * *
27251328 GCTAGTGTATGACCATGTCTGGGACATGGCATTGGCCTTGACGTGTGAACCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGACATGTGAGCCAGTGTAAGACCATG
*
27251393 TCTGGGACATGGCATCGGCACTGAGATGAGA
66 TCTGGGACATGGCATCGGCACTGAGACGAGA
*
27251424 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGACATGTGAGCCAGTGTAAGACCATG
27251489 TCTGGGACATGGCATCGGCA
66 TCTGGGACATGGCATCGGCA
27251509 AGTTTCCCTT
Statistics
Matches: 160, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
95 17 0.11
96 142 0.89
97 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGACATGTGAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCACTGAGACGAGA
Found at i:27254568 original size:16 final size:16
Alignment explanation
Indices: 27254547--27254579 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27254537 AGACATATTT
27254547 AATACTCACTTACTTA
1 AATACTCACTTACTTA
*
27254563 AATACTTACTTACTTA
1 AATACTCACTTACTTA
27254579 A
1 A
27254580 TCAAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (16 bp):
AATACTCACTTACTTA
Found at i:27254961 original size:55 final size:53
Alignment explanation
Indices: 27254771--27255024 Score: 234
Period size: 53 Copynumber: 4.8 Consensus size: 53
27254761 ACACGGGTAC
* * * * *
27254771 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
27254820 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
27254873 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
27254928 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * * *
27254981 CCTTACCAATTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
27255025 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 39 0.23
55 41 0.24
56 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:27254962 original size:108 final size:109
Alignment explanation
Indices: 27254818--27255014 Score: 317
Period size: 108 Copynumber: 1.8 Consensus size: 109
27254808 ATCCTTTTGA
* *
27254818 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
27254881 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
27254926 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
27254991 TCCATGCCTTGGCATGGTCTTACA
66 GCCATGCCTTGGCATGGTCTTACA
27255015 CGGTATCCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 31 0.38
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:27262124 original size:40 final size:40
Alignment explanation
Indices: 27262080--27262193 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
27262070 GTTATAATAG
*
27262080 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGGAA
* * * **
27262120 CTCGCACAAATGCCTTCGGGAATTGACCCGAATTTAGTCA
1 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGGAA
* * *
27262160 CTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 C-TCGCACAAATGCCTTCGGGACTTAACCCGGAT
27262194 ACCATTCGAA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 35 0.57
41 26 0.43
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGGAA
Found at i:27265301 original size:16 final size:16
Alignment explanation
Indices: 27265280--27265312 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27265270 AGACATATTT
27265280 AATACTCACTTACTTA
1 AATACTCACTTACTTA
*
27265296 AATACTTACTTACTTA
1 AATACTCACTTACTTA
27265312 A
1 A
27265313 TCAAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (16 bp):
AATACTCACTTACTTA
Done.