Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 288 of 318
Found at i:90959239 original size:2 final size:2
Alignment explanation
Indices: 90959232--90959400 Score: 68
Period size: 2 Copynumber: 89.0 Consensus size: 2
90959222 GGGGGAGGGG
* * * * *
90959232 GA GA GA GA GA GA CA GA GA G- GA -A GA GG GA GA GG GG GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
90959272 GA GG GA GG GG GA GA GG GA GA GG GA GA GA GA GA GG GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * * * *
90959314 GG GG GA GG GG GA G- GG GA GA G- GG GG GA -A G- GG GA G- GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * *
90959351 GA GA GA GA -A G- GA GA GG GA AA GG GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
90959391 GA GA GA GA GA
1 GA GA GA GA GA
90959401 TTCGTAAGCC
Statistics
Matches: 126, Mismatches: 32, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
1 9 0.07
2 117 0.93
ACGTcount: A:0.37, C:0.01, G:0.62, T:0.00
Consensus pattern (2 bp):
GA
Found at i:90959376 original size:18 final size:18
Alignment explanation
Indices: 90959212--90959400 Score: 145
Period size: 18 Copynumber: 10.7 Consensus size: 18
90959202 CCTCGTAAGG
* * *
90959212 GGGAGGGGGAGGGGGAGG
1 GGGAGAGGGAGAGGGAGA
**
90959230 GGGAGAGAGAGAGACAGAGA
1 GGGAGAG-G-GAGAGGGAGA
* *
90959250 GGAAGAGGGAGAGGGGGA
1 GGGAGAGGGAGAGGGAGA
*
90959268 GGGAGAGGGAGGGGGAGA
1 GGGAGAGGGAGAGGGAGA
*
90959286 GGGAGAGGGAGAGAGAGA
1 GGGAGAGGGAGAGGGAGA
* * *
90959304 GGGAGAGAGAGGGGGAGG
1 GGGAGAGGGAGAGGGAGA
90959322 GGGAG-GGGAGAGGG-G-
1 GGGAGAGGGAGAGGGAGA
*
90959337 GGAAG-GGGAG-GGGAGA
1 GGGAGAGGGAGAGGGAGA
* * *
90959353 GAGAGAAGGAGAGGGAAA
1 GGGAGAGGGAGAGGGAGA
* *
90959371 GGGAGAGAGAGAGAGAGA
1 GGGAGAGGGAGAGGGAGA
* *
90959389 GAGAGAGAGAGA
1 GGGAGAGGGAGA
90959401 TTCGTAAGCC
Statistics
Matches: 134, Mismatches: 31, Indels: 12
0.76 0.18 0.07
Matches are distributed among these distances:
14 3 0.02
15 10 0.07
16 4 0.03
17 11 0.08
18 92 0.69
19 2 0.01
20 12 0.09
ACGTcount: A:0.35, C:0.01, G:0.65, T:0.00
Consensus pattern (18 bp):
GGGAGAGGGAGAGGGAGA
Found at i:90959397 original size:12 final size:12
Alignment explanation
Indices: 90959230--90959400 Score: 129
Period size: 12 Copynumber: 14.5 Consensus size: 12
90959220 GAGGGGGAGG
90959230 GGGAGAGAGAGA
1 GGGAGAGAGAGA
**
90959242 GACAGAGAGGAAGA
1 GGGAGAGA-G-AGA
* *
90959256 GGGAGAGGGGGA
1 GGGAGAGAGAGA
* *
90959268 GGGAGAGGGAGG
1 GGGAGAGAGAGA
*
90959280 GGGAGAGGGAGA
1 GGGAGAGAGAGA
90959292 GGGAGAGAGAGA
1 GGGAGAGAGAGA
90959304 GGGAGAGAGAG-
1 GGGAGAGAGAGA
* *
90959315 GGG-GAGGGGGA
1 GGGAGAGAGAGA
*
90959326 GGG-GAGAG-GG
1 GGGAGAGAGAGA
*
90959336 GGGA-AG-GGGA
1 GGGAGAGAGAGA
90959346 GGGGAGAGAGAGA
1 -GGGAGAGAGAGA
* * *
90959359 AGGAGAGGGAAA
1 GGGAGAGAGAGA
90959371 GGGAGAGAGAGA
1 GGGAGAGAGAGA
*
90959383 GAGAGAGAGAGA
1 GGGAGAGAGAGA
*
90959395 GAGAGA
1 GGGAGA
90959401 TTCGTAAGCC
Statistics
Matches: 128, Mismatches: 23, Indels: 16
0.77 0.14 0.10
Matches are distributed among these distances:
9 1 0.01
10 12 0.09
11 14 0.11
12 88 0.69
13 5 0.04
14 8 0.06
ACGTcount: A:0.37, C:0.01, G:0.63, T:0.00
Consensus pattern (12 bp):
GGGAGAGAGAGA
Found at i:90971171 original size:16 final size:16
Alignment explanation
Indices: 90971150--90971180 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90971140 TGATCTAATT
*
90971150 TTTTTATTTTGTTATA
1 TTTTTAATTTGTTATA
90971166 TTTTTAATTTGTTAT
1 TTTTTAATTTGTTAT
90971181 TAAATTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTTAATTTGTTATA
Found at i:90972293 original size:18 final size:20
Alignment explanation
Indices: 90972258--90972323 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 20
90972248 ATATAATACA
90972258 AATAAAATATGATATTTAAT
1 AATAAAATATGATATTTAAT
90972278 AATAAAATA-G-TATTTAAT
1 AATAAAATATGATATTTAAT
* *
90972296 -ATACAATATATAATATATAAT
1 AATA-AA-ATATGATATTTAAT
*
90972317 AACAAAA
1 AATAAAA
90972324 ATTTATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
17 3 0.08
18 10 0.26
19 4 0.11
20 10 0.26
21 9 0.24
22 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (20 bp):
AATAAAATATGATATTTAAT
Found at i:90972569 original size:23 final size:25
Alignment explanation
Indices: 90972540--90972588 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
90972530 TAATAATAGA
*
90972540 ATATAAATAAAG-TAATTAT-TAAT
1 ATATAAATAAAGATAAGTATATAAT
90972563 ATATAAATAAAGATAAGTATATAAT
1 ATATAAATAAAGATAAGTATATAAT
90972588 A
1 A
90972589 CAAGTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.52
24 6 0.26
25 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (25 bp):
ATATAAATAAAGATAAGTATATAAT
Found at i:90972758 original size:13 final size:13
Alignment explanation
Indices: 90972708--90972770 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
90972698 AGTATATACA
*
90972708 AATATAATATAAGT
1 AATATAAAATAA-T
* * *
90972722 AAAATATAATAAC
1 AATATAAAATAAT
*
90972735 CATAT-AAATAAT
1 AATATAAAATAAT
*
90972747 AATGTAAAATAAT
1 AATATAAAATAAT
90972760 AATATAAAATA
1 AATATAAAATA
90972771 TCATATTGTT
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
12 8 0.22
13 20 0.54
14 9 0.24
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (13 bp):
AATATAAAATAAT
Found at i:90972884 original size:24 final size:21
Alignment explanation
Indices: 90972854--90972897 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
90972844 TATAGAGGAA
90972854 AATAATATAAGTAGTATTTTTAAT
1 AATAATAT-A-TA-TATTTTTAAT
90972878 AATAATATATATATTTTTAA
1 AATAATATATATATTTTTAA
90972898 GGAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 1 0.05
24 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
AATAATATATATATTTTTAAT
Found at i:90973460 original size:18 final size:18
Alignment explanation
Indices: 90973434--90973478 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
90973424 AGTTTTGGCC
* *
90973434 TTCGGCCACTGGGCCTTA
1 TTCGCCCACTAGGCCTTA
90973452 TTCGCCCACTAGGCCTTA
1 TTCGCCCACTAGGCCTTA
90973470 TTCGCCCAC
1 TTCGCCCAC
90973479 GCGCCTCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.40, G:0.20, T:0.27
Consensus pattern (18 bp):
TTCGCCCACTAGGCCTTA
Found at i:90977018 original size:30 final size:30
Alignment explanation
Indices: 90976982--90977044 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
90976972 ACTTATTTTA
90976982 TTGTTAATTTTGTTATTATTTTAAAGGCAG
1 TTGTTAATTTTGTTATTATTTTAAAGGCAG
*
90977012 TTGTTAATTTTGTTATTATTTTAGAGGCAG
1 TTGTTAATTTTGTTATTATTTTAAAGGCAG
90977042 TTG
1 TTG
90977045 CTTATTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.54
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAG
Found at i:90977181 original size:11 final size:11
Alignment explanation
Indices: 90977165--90977195 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
90977155 TATATATATT
90977165 TAAAAATTATA
1 TAAAAATTATA
*
90977176 TAAAAATAATA
1 TAAAAATTATA
90977187 TAAAAATTA
1 TAAAAATTA
90977196 ATACGGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:90983520 original size:26 final size:24
Alignment explanation
Indices: 90983480--90983539 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
90983470 TTATTTCATT
* * *
90983480 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
90983504 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
90983530 AAATAAATAT
1 AAATAAATAT
90983540 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:90983551 original size:22 final size:22
Alignment explanation
Indices: 90983510--90983567 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
90983500 ATAATAAATC
* *
90983510 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
90983530 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
90983552 AAAT-AATACTAAAACA
1 AAATAAATATTAAAACA
90983568 TTTCTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 17 0.52
22 9 0.27
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:90987519 original size:13 final size:13
Alignment explanation
Indices: 90987501--90987526 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90987491 AGTTATACAT
90987501 AACCAAAATATAA
1 AACCAAAATATAA
90987514 AACCAAAATATAA
1 AACCAAAATATAA
90987527 CATTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
AACCAAAATATAA
Found at i:90991126 original size:18 final size:18
Alignment explanation
Indices: 90991103--90991142 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
90991093 AAAACATAAA
* *
90991103 CAAATACTACATTCAAAT
1 CAAATACAAAATTCAAAT
*
90991121 CAAATACAAAATTCAATT
1 CAAATACAAAATTCAAAT
90991139 CAAA
1 CAAA
90991143 CATGTTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (18 bp):
CAAATACAAAATTCAAAT
Found at i:90996622 original size:26 final size:26
Alignment explanation
Indices: 90996586--90996825 Score: 399
Period size: 26 Copynumber: 9.2 Consensus size: 26
90996576 TGATACAAAT
90996586 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90996612 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
90996638 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90996664 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90996690 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
90996716 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90996742 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
90996768 TAATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90996794 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
90996820 TGATAA
1 TGATAA
90996826 GAATTTCATG
Statistics
Matches: 207, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 207 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:90998309 original size:28 final size:26
Alignment explanation
Indices: 90998278--90998341 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
90998268 AATTACTACA
*
90998278 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGGAAAATTACCGTT
* *
90998306 ATACCCCTAGGTGTAAAATTACCGTT
1 ATACCCCTAGATGGAAAATTACCGTT
90998332 ATACCCCTAG
1 ATACCCCTAG
90998342 GGTTAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 23 0.70
27 1 0.03
28 9 0.27
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (26 bp):
ATACCCCTAGATGGAAAATTACCGTT
Found at i:90998486 original size:27 final size:27
Alignment explanation
Indices: 90998445--90998584 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
90998435 GAGGAAGCAT
*
90998445 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
90998472 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
90998499 TCTGATGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
90998526 TCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
90998554 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
90998580 TCTGG
1 TCTGG
90998585 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.05
27 79 0.81
28 14 0.14
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:90998532 original size:54 final size:55
Alignment explanation
Indices: 90998445--90998584 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
90998435 GAGGAAGCAT
* * * *
90998445 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* * *
90998499 TCTGATGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* *
90998554 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
90998585 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 58 0.77
55 17 0.23
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
Found at i:91003478 original size:46 final size:46
Alignment explanation
Indices: 91003426--91003653 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
91003416 AGTGTGTTTT
*
91003426 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
91003472 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
91003518 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
91003564 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
91003610 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
91003654 TCATGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:91005080 original size:21 final size:21
Alignment explanation
Indices: 91005056--91005121 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
91005046 CTAATGCAAT
91005056 AGAACAAATAGAATTAATAAG
1 AGAACAAATAGAATTAATAAG
*
91005077 AG---AAA-A-AA-T-ATAAT
1 AGAACAAATAGAATTAATAAG
91005091 AGAACAAATAGAATTAATAAG
1 AGAACAAATAGAATTAATAAG
*
91005112 AGAAAAAATA
1 AGAACAAATA
91005122 TAATAACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
16 2 0.06
17 4 0.11
18 4 0.11
19 2 0.06
20 1 0.03
21 15 0.43
ACGTcount: A:0.67, C:0.03, G:0.12, T:0.18
Consensus pattern (21 bp):
AGAACAAATAGAATTAATAAG
Found at i:91005099 original size:35 final size:35
Alignment explanation
Indices: 91005053--91005126 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
91005043 TCACTAATGC
91005053 AATAGAACAAATAGAATTAATAAGAGAAAAAATAT
1 AATAGAACAAATAGAATTAATAAGAGAAAAAATAT
91005088 AATAGAACAAATAGAATTAATAAGAGAAAAAATAT
1 AATAGAACAAATAGAATTAATAAGAGAAAAAATAT
91005123 AATA
1 AATA
91005127 ACATAGCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (35 bp):
AATAGAACAAATAGAATTAATAAGAGAAAAAATAT
Found at i:91006307 original size:27 final size:27
Alignment explanation
Indices: 91006269--91006335 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
91006259 GAGGGGGTTT
*
91006269 GCCAGTTTGTTTGACGAACTAGAGTTC
1 GCCAGTCTGTTTGACGAACTAGAGTTC
* * *
91006296 GCCAGTCTGTTTGATGAATTGGAGTTC
1 GCCAGTCTGTTTGACGAACTAGAGTTC
*
91006323 GCCAATCTGTTTG
1 GCCAGTCTGTTTG
91006336 GCAAGCTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (27 bp):
GCCAGTCTGTTTGACGAACTAGAGTTC
Found at i:91008892 original size:109 final size:106
Alignment explanation
Indices: 91008704--91008919 Score: 360
Period size: 109 Copynumber: 2.0 Consensus size: 106
91008694 AAATATTATA
* * *
91008704 TACTTATTGAGTAGTTTATGTTGGTAATGCAAAGGGTTGTTAATGGGTGTATCTTACATTGGTTA
1 TACTTACTCAGTAGTTTATGTTGGTAATGCAAAGGGTTGTTAATGGGTGTATCTTACATTGGCTA
91008769 AGTACAAGCTATCAAGAAAGTTTTTATATAGCTTTACTTCT
66 AGTACAAGCTATCAAGAAAGTTTTTATATAGCTTTACTTCT
91008810 TACTTACTCAGTAGTTTATGTTGGTAATGCAAAGGGTTGTTGTTAATGGGTGTATCTTACATTGG
1 TACTTACTCAGTAGTTTATGTTGGTAATGCAAA-GG--GTTGTTAATGGGTGTATCTTACATTGG
* *
91008875 CTAAGTACAAGTTATCAAGAAAGTTTTTATATAGCTTTTCTTCT
63 CTAAGTACAAGCTATCAAGAAAGTTTTTATATAGCTTTACTTCT
91008919 T
1 T
91008920 GCTCTCATTG
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
106 31 0.30
107 2 0.02
109 69 0.68
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.42
Consensus pattern (106 bp):
TACTTACTCAGTAGTTTATGTTGGTAATGCAAAGGGTTGTTAATGGGTGTATCTTACATTGGCTA
AGTACAAGCTATCAAGAAAGTTTTTATATAGCTTTACTTCT
Found at i:91009379 original size:121 final size:122
Alignment explanation
Indices: 91009165--91009411 Score: 356
Period size: 121 Copynumber: 2.0 Consensus size: 122
91009155 TGCATTTTTT
* * ** *
91009165 ACTCTTTTGCCCCTGCCTATTTATCGTTTTGTCCTTCTGTTACTAGTATAAATAGAAGGTTGATT
1 ACTCTTTTACCCCTGCCTATTTATCATTTTGTCCTTCCATTACTAGTATAAATAGAAGATTGATT
* * * *
91009230 TCCTCAATTTTCACACAAAACAAAAAACACAACCTTTTCT-GAAAAACTCTTTTCTC
66 TCCTCAATTTTCACACAAAACAAAAAACACAACCCTCTCTAAAAAAACACTTTTCTC
91009286 ACTCTTTTACCCCTGCCTATTTATCATTTTGTCCTTCCATTACTAGTATAAATA-AATGATTGAT
1 ACTCTTTTACCCCTGCCTATTTATCATTTTGTCCTTCCATTACTAGTATAAATAGAA-GATTGAT
* * *
91009350 TTCCTCATTTTTCACACAGAACAGAAAACACAACCCTCTCTAAAAAAACACTTTTCTC
65 TTCCTCAATTTTCACACAAAACAAAAAACACAACCCTCTCTAAAAAAACACTTTTCTC
91009408 -CTCT
1 ACTCT
91009412 GCCTTGCTTT
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
120 2 0.02
121 96 0.86
122 14 0.12
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (122 bp):
ACTCTTTTACCCCTGCCTATTTATCATTTTGTCCTTCCATTACTAGTATAAATAGAAGATTGATT
TCCTCAATTTTCACACAAAACAAAAAACACAACCCTCTCTAAAAAAACACTTTTCTC
Found at i:91010714 original size:7 final size:7
Alignment explanation
Indices: 91010702--91010729 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
91010692 AAGATTCATC
91010702 CAAGGTT
1 CAAGGTT
91010709 CAAGGTT
1 CAAGGTT
91010716 CAAGGTT
1 CAAGGTT
91010723 CAAGGTT
1 CAAGGTT
91010730 TAGGATCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (7 bp):
CAAGGTT
Found at i:91011047 original size:28 final size:28
Alignment explanation
Indices: 91011006--91011071 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
91010996 TCCACCACTA
* *
91011006 CAAGGTCCAGTGTTCAAGGTCTAGGGTC
1 CAAGGTCCAATGTTCAAGATCTAGGGTC
* * *
91011034 CAAGGTCCAATGTTTAAGATTTATGGTC
1 CAAGGTCCAATGTTCAAGATCTAGGGTC
91011062 CAAGGTCCAA
1 CAAGGTCCAA
91011072 CGTTTAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (28 bp):
CAAGGTCCAATGTTCAAGATCTAGGGTC
Found at i:91017878 original size:25 final size:25
Alignment explanation
Indices: 91017850--91018011 Score: 110
Period size: 25 Copynumber: 6.1 Consensus size: 25
91017840 AAGTATAAAC
*
91017850 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
** *
91017875 ATAGCGTTAAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
*
91017900 ATAGTTTTTAAAATATATATACATAAGAT
1 ATAG-TATTAAAA-ATATATACAT-A-AT
* ** *
91017929 AATATGCAAGAAAAAAATATATAAATAAT
1 -ATA-G-TA-TTAAAAATATATACATAAT
*
91017958 ATAGTATTAAAGATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
** *
91017983 ATA-TAAAAAAATCATATATACATGAT
1 ATAGTATTAAAA--ATATATACATAAT
91018009 ATA
1 ATA
91018012 TATATATATT
Statistics
Matches: 106, Mismatches: 22, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
24 5 0.05
25 43 0.41
26 22 0.21
27 10 0.09
28 4 0.04
29 4 0.04
30 4 0.04
31 10 0.09
32 4 0.04
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.33
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:91018136 original size:25 final size:26
Alignment explanation
Indices: 91018082--91018162 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 26
91018072 GTACATATAT
*
91018082 ATATATA-AATAATAATGGTATTAG-A
1 ATATATACAATAAT-ATAGTATTAGAA
91018107 A-ATATACAAT-ATATAGTATTAGAA
1 ATATATACAATAATATAGTATTAGAA
* * *
91018131 ATATATAC-ATAAAATAGTATAAAAA
1 ATATATACAATAATATAGTATTAGAA
91018156 ATATATA
1 ATATATA
91018163 ACTAATGATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
23 9 0.19
24 11 0.23
25 28 0.58
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (26 bp):
ATATATACAATAATATAGTATTAGAA
Found at i:91019621 original size:19 final size:19
Alignment explanation
Indices: 91019597--91019684 Score: 137
Period size: 19 Copynumber: 4.8 Consensus size: 19
91019587 AATCATATCT
*
91019597 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
91019616 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
91019634 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
91019651 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
91019670 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
91019685 TATTGAAGAT
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 32 0.50
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:91019655 original size:35 final size:37
Alignment explanation
Indices: 91019597--91019684 Score: 135
Period size: 35 Copynumber: 2.4 Consensus size: 37
91019587 AATCATATCT
*
91019597 TCTAAGATTGTATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
91019634 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
91019670 TCTAAGATTGCATAT
1 TCTAAGATTG-ATAT
91019685 TATTGAAGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.40
36 15 0.32
37 10 0.21
38 3 0.06
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:91019666 original size:14 final size:15
Alignment explanation
Indices: 91019611--91019666 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
91019601 AGATTGTATA
91019611 TCATATCTAAGATTG
1 TCATATCTAAGATTG
91019626 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
91019644 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
91019661 -CATATC
1 TCATATC
91019667 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:91019913 original size:26 final size:25
Alignment explanation
Indices: 91019870--91019957 Score: 110
Period size: 24 Copynumber: 3.5 Consensus size: 25
91019860 GTCTATAATA
91019870 TACATAATAATATATAAAAAATATAT
1 TACATAAT-ATATATAAAAAATATAT
*
91019896 GTACATAACATATATAAAAAATATA-
1 -TACATAATATATATAAAAAATATAT
*
91019921 TACATAATATAGTAT-TAAAATAT-T
1 TACATAATATA-TATAAAAAATATAT
91019945 TACATAATATATA
1 TACATAATATATA
91019958 CATATTAGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.04
24 28 0.50
25 3 0.05
26 16 0.29
27 7 0.12
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (25 bp):
TACATAATATATATAAAAAATATAT
Found at i:91019921 original size:13 final size:13
Alignment explanation
Indices: 91019879--91019922 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
91019869 ATACATAATA
91019879 ATATATAAAAAAT
1 ATATATAAAAAAT
* * * *
91019892 ATATGTACATAAC
1 ATATATAAAAAAT
91019905 ATATATAAAAAAT
1 ATATATAAAAAAT
91019918 ATATA
1 ATATA
91019923 CATAATATAG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (13 bp):
ATATATAAAAAAT
Found at i:91019929 original size:11 final size:11
Alignment explanation
Indices: 91019876--91019961 Score: 55
Period size: 11 Copynumber: 7.3 Consensus size: 11
91019866 AATATACATA
*
91019876 ATAATATATAA
1 ATAATATATAC
*
91019887 AAAATATATGTAC
1 ATAATATA--TAC
*
91019900 ATAACATATATAA
1 AT-A-ATATATAC
*
91019913 AAAATATATAC
1 ATAATATATAC
*
91019924 ATAATATAGTATT
1 ATAATATA-TA-C
* *
91019937 AAAATATTTAC
1 ATAATATATAC
91019948 ATAATATATAC
1 ATAATATATAC
91019959 ATA
1 ATA
91019962 TTAGAAATAA
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
11 33 0.59
12 5 0.09
13 12 0.21
14 1 0.02
15 5 0.09
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (11 bp):
ATAATATATAC
Found at i:91020713 original size:21 final size:21
Alignment explanation
Indices: 91020671--91020713 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
91020661 TCAAAAAAGG
* *
91020671 TATTTTTTTACTTTATTTTTT
1 TATTTTTTTACTGTATTATTT
91020692 TATTTTTTTA-TGTATATATTT
1 TATTTTTTTACTGTAT-TATTT
91020713 T
1 T
91020714 GATATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TATTTTTTTACTGTATTATTT
Found at i:91020743 original size:15 final size:15
Alignment explanation
Indices: 91020695--91020746 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
91020685 ATTTTTTTAT
91020695 TTTTTTATGTATATA
1 TTTTTTATGTATATA
91020710 TTTTGATATAT-TAATATA
1 TTTT--T-TATGT-ATATA
91020728 TTTTTTATGTATATA
1 TTTTTTATGTATATA
91020743 TTTT
1 TTTT
91020747 GATATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 16 0.50
16 2 0.06
17 2 0.06
18 12 0.38
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTTATGTATATA
Found at i:91020743 original size:35 final size:34
Alignment explanation
Indices: 91020695--91020763 Score: 122
Period size: 33 Copynumber: 2.0 Consensus size: 34
91020685 ATTTTTTTAT
91020695 TTTTTTATGTATATATTTTGATATA-TTAATATA
1 TTTTTTATGTATATATTTTGATATATTTAATATA
91020728 TTTTTTATGTATATATTTTGATATATTTTAATATA
1 TTTTTTATGTATATATTTTGATATA-TTTAATATA
91020763 T
1 T
91020764 GAATGAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 25 0.74
35 9 0.26
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (34 bp):
TTTTTTATGTATATATTTTGATATATTTAATATA
Found at i:91022023 original size:81 final size:82
Alignment explanation
Indices: 91021929--91022569 Score: 461
Period size: 77 Copynumber: 7.8 Consensus size: 82
91021919 TTGAAAAGGT
* * *
91021929 AAAAATTGAAAATACCTTAGTGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AAAAATTAAAAATACCTCAG-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
91021994 TTTTTT-T-TTGAAAAAC
65 TTTTTTATATTGAAAAAC
* * *
91022010 AAAAATTAAAAATACCTCA-GCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAATTGAT
1 AAAAATTAAAAATACCTCAGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
91022074 TTTTTTTGAAACATAAATTGAAGAAT
64 TTTTTTT-----AT--ATTGAAAAAC
* * *
91022100 AGAAATTAAAATTACCTCA-GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAAAATTAAAAATACCTCAGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
**** *
91022164 TGACGAACAGAAATTGAAAAAC
66 T-----TTTTATATTGAAAAAC
* * ** *
91022186 AGAAATTGAAAATACCTCAGTATGTGA-CTGAGGCTCAACTCACCTCTCGCAATATGAGTT-AAT
1 AAAAATTAAAAATACCTCAG-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * *
91022249 GTTTTT-GA-TG---AAT
65 TTTTTTATATTGAAAAAC
* * * *
91022262 AGAAATTAAAATTACCTCA-GCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAAAATTAAAAATACCTCAGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
**** *
91022326 TGACGAACAGAAATTGAAAAAC
66 T-----TTTTATATTGAAAAAC
* * *
91022348 AGAAATTGAAAATACCTCA-GCATGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AAAAATTAAAAATACCTCAGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
91022411 ---TTTT-T-TTGAAAGAC
64 TTTTTTTATATTGAAAAAC
* * *
91022425 AGAAATTGAAAATACCTCA-GCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTTA
1 AAAAATTAAAAATACCTCAGGC--GTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
91022488 TTTTTTTTTTA-TG---AAT
63 TTTTTTTTATATTGAAAAAC
* * *
91022504 AGAAATTAAAAATACCTCA-GCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAAAATTAAAAATACCTCAGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
91022568 TT
66 TT
91022570 GAAAACAGAA
Statistics
Matches: 453, Mismatches: 67, Indels: 84
0.75 0.11 0.14
Matches are distributed among these distances:
74 3 0.01
75 32 0.07
76 23 0.05
77 107 0.24
78 1 0.00
79 25 0.06
80 1 0.00
81 65 0.14
82 4 0.01
83 2 0.00
86 49 0.11
87 34 0.08
88 81 0.18
90 26 0.06
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (82 bp):
AAAAATTAAAAATACCTCAGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTTATATTGAAAAAC
Found at i:91022145 original size:88 final size:85
Alignment explanation
Indices: 91022001--91022414 Score: 404
Period size: 88 Copynumber: 4.9 Consensus size: 85
91021991 ATTTTTTTTT
* * * *
91022001 TTGAAAAACAAAAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATT-AAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*** *
91022066 GAATTGATTTTTTTTGAAACATAAA
63 GAATTGA-TTTTGACG-AACAGAAA
* *
91022091 TTGAAGAATAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
91022156 GTTGATTTTGACGAACAGAAA
65 ATTGATTTTGACGAACAGAAA
** *
91022177 TTGAAAAACAGAAATTGAAAATACCTCAGTATGTGACTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATT-AAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
* * * *
91022242 AGTTAATGTTTTTGATGAATAGAAA
64 A---ATTGATTTTGACGAACAGAAA
* *
91022267 TT-------A-AAA-T----TACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAAACAGAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAA
91022319 TTGATTTTGACGAACAGAAA
66 TTGATTTTGACGAACAGAAA
**
91022339 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATT-AAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
91022404 GAGTTGATTTT
63 GAATTGATTTT
91022415 TTTGAAAGAC
Statistics
Matches: 269, Mismatches: 33, Indels: 46
0.77 0.09 0.13
Matches are distributed among these distances:
72 18 0.07
75 29 0.11
76 11 0.04
79 1 0.00
80 3 0.01
81 2 0.01
82 3 0.01
83 1 0.00
86 41 0.15
87 39 0.14
88 77 0.29
89 4 0.01
90 40 0.15
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (85 bp):
TTGAAAAACAGAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAA
TTGATTTTGACGAACAGAAA
Found at i:91022186 original size:14 final size:14
Alignment explanation
Indices: 91022169--91022197 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
91022159 GATTTTGACG
91022169 AACAGAAATTGAAA
1 AACAGAAATTGAAA
91022183 AACAGAAATTGAAA
1 AACAGAAATTGAAA
91022197 A
1 A
91022198 TACCTCAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:91022234 original size:87 final size:88
Alignment explanation
Indices: 91022001--91022245 Score: 316
Period size: 87 Copynumber: 2.8 Consensus size: 88
91021991 ATTTTTTTTT
* * *
91022001 TTGAAAAACAAAAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATT-AAAATACCTCAGCATGTGA-CTGAGGCTCAACTCACCTCTCGCAATAT
* *** *
91022066 GAATTGATTTTTTTTGAAACATAAA
64 GAGTTGATTTTTGACGAAACAGAAA
* * * *
91022091 TTGAAGAATAGAAATTAAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTAAAA-TACCTCAGCATGTGACTGAGGCTCAACTCACCTCTCGCAATATG
91022155 AGTTGA-TTTTGACG-AACAGAAA
65 AGTTGATTTTTGACGAAACAGAAA
*
91022177 TTGAAAAACAGAAATTGAAAATACCTCAGTATGTGACTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATT-AAAATACCTCAGCATGTGACTGAGGCTCAACTCACCTCTCGCAATATG
91022242 AGTT
65 AGTT
91022246 AATGTTTTTG
Statistics
Matches: 135, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
86 32 0.24
87 42 0.31
88 32 0.24
89 4 0.03
90 25 0.19
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (88 bp):
TTGAAAAACAGAAATTAAAATACCTCAGCATGTGACTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGACGAAACAGAAA
Found at i:91022297 original size:162 final size:162
Alignment explanation
Indices: 91022095--91022491 Score: 647
Period size: 162 Copynumber: 2.4 Consensus size: 162
91022085 CATAAATTGA
91022095 AGAATAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AGAATAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
91022160 ATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGTATGTGA-CTGAGGCTCAA
66 ATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGCTGAGGCTCAA
91022224 CTCACCTCTCGCAATATGAGTTAATGTTTTTG
131 CTCACCTCTCGCAATATGAGTTAATGTTTTTG
*
91022256 ATGAATAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-GAATAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
91022321 GATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGCTGAGGCTCA
65 GATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGCTGAGGCTCA
* *
91022386 ACTCACCTCTCGCAATATGAGTTGATTTTTTTG
130 ACTCACCTCTCGCAATATGAGTTAATGTTTTTG
* * *
91022419 AAAGACAGAAATTGAAAA-TACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATG
1 AGA-ATAGAAATT-AAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
*
91022482 AGTTTATTTT
61 AGTTGATTTT
91022492 TTTTTTATGA
Statistics
Matches: 220, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
161 1 0.00
162 116 0.53
163 59 0.27
164 4 0.02
165 38 0.17
166 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (162 bp):
AGAATAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGCTGAGGCTCAA
CTCACCTCTCGCAATATGAGTTAATGTTTTTG
Found at i:91022348 original size:14 final size:14
Alignment explanation
Indices: 91022331--91022359 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
91022321 GATTTTGACG
91022331 AACAGAAATTGAAA
1 AACAGAAATTGAAA
91022345 AACAGAAATTGAAA
1 AACAGAAATTGAAA
91022359 A
1 A
91022360 TACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:91022558 original size:242 final size:240
Alignment explanation
Indices: 91021931--91022588 Score: 785
Period size: 242 Copynumber: 2.7 Consensus size: 240
91021921 GAAAAGGTAA
* *** * *
91021931 AAATTGAAAATACCTTAGTGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTT
* * * * *
91021996 TTTTTT-TGAAAAACAAAAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCA
65 TTTTTTATG---AATAGAAATTAAAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCG
* * * *
91022060 CAATATGAATTGATTTTTTTTGA-AACATAAATTGAAGAATAGAAATTAAAATTACCTCAGCGTG
125 CAATATGAGTTGA---TTTTTGAGAACAGAAATTGAAAAACAGAAATTAAAATTACCTCAGCGTG
*
91022124 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAG
187 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT----------AATTGAAAAACAG
* * * *
91022188 AAATTGAAAATACCTCAGTATGTGACTGAGGCTCAACTCACCTCTCGCAATATGAG-TTA-ATGT
1 AAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTT
* * *
91022251 TTTTGATGAATAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATAT
66 TTTTTATGAATAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
91022316 GAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAA-TACCTCAGCATGTGAGCTG
131 GAGTTGATTTTTGA-GAACAGAAATTGAAAAACAGAAATT-AAAATTACCTCAGC--GTGACCTG
* *
91022379 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTTGAAAGACAG
192 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAATTGAAAAACAG
91022427 AAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTT
1 AAATTGAAAATACCTCAGCATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTT
*
91022492 TTTTTTATGAATAGAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
65 TTTTTTATGAATAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
91022557 TGAGTTGATTTTTGAAAACAGAAA-T-AAAAACA
130 TGAGTTGATTTTTGAGAACAGAAATTGAAAAACA
91022589 TCAGAATACC
Statistics
Matches: 358, Mismatches: 33, Indels: 37
0.84 0.08 0.09
Matches are distributed among these distances:
239 34 0.09
240 37 0.10
241 4 0.01
242 78 0.22
243 6 0.02
246 6 0.02
248 30 0.08
249 4 0.01
250 77 0.22
252 21 0.06
254 6 0.02
255 4 0.01
256 28 0.08
257 23 0.06
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (240 bp):
AAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTT
TTTTTATGAATAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAGAACAGAAATTGAAAAACAGAAATTAAAATTACCTCAGCGTGACCTGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTAATTGAAAAACAG
Found at i:91034725 original size:25 final size:25
Alignment explanation
Indices: 91034697--91034832 Score: 119
Period size: 25 Copynumber: 5.1 Consensus size: 25
91034687 AAGTATAAAC
*
91034697 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
** *
91034722 ATAGCGTTAAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
91034747 ATAGTTATTAAAAAATATATACATAAGAT
1 ATAG-TATT-AAAAATATATACAT-A-AT
* ** *
91034776 AATATGCAAGAAAAAAATATATAAATAAT
1 -ATA-G-TA-TTAAAAATATATACATAAT
*
91034805 ATAGTATTAAAGATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
91034830 ATA
1 ATA
91034833 TAAAAAAAAT
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
25 43 0.49
26 3 0.03
27 14 0.16
28 4 0.05
29 4 0.05
30 4 0.05
31 15 0.17
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:91034847 original size:25 final size:25
Alignment explanation
Indices: 91034786--91034848 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
91034776 AATATGCAAG
91034786 AAAAAAATATATAAATAATATAGTA
1 AAAAAAATATATAAATAATATAGTA
** * *
91034811 TTAAAGATATATACATAATATA-TA
1 AAAAAAATATATAAATAATATAGTA
91034835 AAAAAAATCATATA
1 AAAAAAAT-ATATA
91034849 TACATGATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 7 0.23
25 23 0.77
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (25 bp):
AAAAAAATATATAAATAATATAGTA
Found at i:91034990 original size:25 final size:24
Alignment explanation
Indices: 91034925--91035011 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
91034915 ACGTACATAT
*
91034925 ATATATAAATAATAATGGTATTAGAA
1 ATATAT-AATAA-AATAGTATTAGAA
* * *
91034951 ATATACAAT-ATATAGTATTCGAA
1 ATATATAATAAAATAGTATTAGAA
* *
91034974 ATATATACATAAAATAGTATAAAAA
1 ATATATA-ATAAAATAGTATTAGAA
91034999 ATATATAACTAAA
1 ATATATAA-TAAA
91035012 TATATGTACA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
23 16 0.33
24 4 0.08
25 24 0.49
26 5 0.10
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (24 bp):
ATATATAATAAAATAGTATTAGAA
Found at i:91035051 original size:11 final size:11
Alignment explanation
Indices: 91035026--91035081 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
91035016 TGTACATAAC
*
91035026 ATATATA-AAA
1 ATATATACATA
91035036 ATATATACATA
1 ATATATACATA
* *
91035047 ATATAGTATTAAA
1 ATATA-TA-CATA
*
91035060 ATATTTACATA
1 ATATATACATA
91035071 ATATATACATA
1 ATATATACATA
91035082 TTAGAAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
10 7 0.19
11 19 0.53
12 4 0.11
13 6 0.17
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (11 bp):
ATATATACATA
Found at i:91035068 original size:24 final size:23
Alignment explanation
Indices: 91034973--91035077 Score: 93
Period size: 24 Copynumber: 4.3 Consensus size: 23
91034963 TAGTATTCGA
* * *
91034973 AATATATACATAAAATAGTATAAAA
1 AATATATA-TTAAAATA-TATACAT
* *
91034998 AATATATAACTAAATATATGTACAT
1 AATATAT-ATTAAA-ATATATACAT
* *
91035023 AACATATATAAAAATATATACAT
1 AATATATATTAAAATATATACAT
*
91035046 AATATAGTATTAAAATATTTACAT
1 AATATA-TATTAAAATATATACAT
91035070 AATATATA
1 AATATATA
91035078 CATATTAGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
23 16 0.24
24 25 0.38
25 21 0.32
26 4 0.06
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (23 bp):
AATATATATTAAAATATATACAT
Found at i:91035177 original size:14 final size:14
Alignment explanation
Indices: 91035158--91035187 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
91035148 AACATTAATA
91035158 ATAATAATAATATT
1 ATAATAATAATATT
91035172 ATAATAATAATATT
1 ATAATAATAATATT
91035186 AT
1 AT
91035188 TATTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATAATAATATT
Found at i:91035177 original size:17 final size:17
Alignment explanation
Indices: 91035155--91035190 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
91035145 ACTAACATTA
91035155 ATAATAATAATAATATT
1 ATAATAATAATAATATT
*
91035172 ATAATAATAATATTATT
1 ATAATAATAATAATATT
91035189 AT
1 AT
91035191 TATTAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAATAATAATAATATT
Found at i:91035825 original size:21 final size:21
Alignment explanation
Indices: 91035783--91035825 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
91035773 CTTCAAAAGG
* *
91035783 TATTTTTTTACTTTATTTTTT
1 TATTTTTTTACTGTATTATTT
91035804 TATTTTTTTA-TGTATATATTT
1 TATTTTTTTACTGTAT-TATTT
91035825 T
1 T
91035826 GATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TATTTTTTTACTGTATTATTT
Found at i:91035907 original size:19 final size:18
Alignment explanation
Indices: 91035871--91035911 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
91035861 TCGAATAAAT
*
91035871 AAAATAAAAAAAAAAAGA
1 AAAAGAAAAAAAAAAAGA
*
91035889 AAAAGAAAAGAAAAGAAGA
1 AAAAGAAAA-AAAAAAAGA
91035908 AAAA
1 AAAA
91035912 ACTTAACCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAAAAAAGA
Found at i:91048395 original size:15 final size:16
Alignment explanation
Indices: 91048361--91048422 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
91048351 ATATTTTAAC
*
91048361 ATTTA-TATTACAAAAT
1 ATTTATTATTA-ATAAT
91048377 ATTTATTATTAAT-AT
1 ATTTATTATTAATAAT
*
91048392 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT-AAT
91048411 ATTTATTATTAA
1 ATTTATTATTAA
91048423 ATAAAATTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 9 0.24
16 7 0.18
17 12 0.32
18 1 0.03
19 9 0.24
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTTATTATTAATAAT
Found at i:91051118 original size:3 final size:3
Alignment explanation
Indices: 91051102--91051297 Score: 121
Period size: 3 Copynumber: 65.7 Consensus size: 3
91051092 TTTTAAAAAA
* * * * *
91051102 AAT AAT TAT TAT AAT AAA AAT AAT GAT AAT AAA AAT AA- AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* * * ** *
91051147 AAT AAT ACT AAT AAT ACT -AT AAT AAT AAT GAT GGT AGT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * * * *
91051193 AAT AAT AGT GGT AAT AAT ACT AAT AAT AGT AAT AAC AAT ACT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
91051241 AAT AAT AGT AAT AGT AAT AAC AGA- AAT AAT AAT ACT AAA AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT
91051287 AAT AAT AAT AA
1 AAT AAT AAT AA
91051298 ATATAAAACT
Statistics
Matches: 147, Mismatches: 39, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
2 6 0.04
3 135 0.92
4 6 0.04
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:91051187 original size:26 final size:26
Alignment explanation
Indices: 91051155--91051226 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 26
91051145 ATAATAATAC
91051155 TAATAATACTATAATAATAAT-GATGG
1 TAATAATACTATAATAATAATAG-TGG
*
91051181 TAGTAATA--A-AATAATAATAGTGG
1 TAATAATACTATAATAATAATAGTGG
*
91051204 TAATAATACTAATAATAGTAATA
1 TAATAATACT-ATAATAATAATA
91051227 ACAATACTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 19 0.50
24 2 0.05
26 8 0.21
27 9 0.24
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.33
Consensus pattern (26 bp):
TAATAATACTATAATAATAATAGTGG
Found at i:91051799 original size:115 final size:116
Alignment explanation
Indices: 91051590--91051820 Score: 383
Period size: 115 Copynumber: 2.0 Consensus size: 116
91051580 GGGACTAAAC
* * * * *
91051590 TGGCAATTAGACCATTGCTAAAAAAATATGCGGATCTCAAGCTGGAGCGGGTCGGGTCGCTGGTC
1 TGGCAATTAGACCATTGCTAAAAAAAGACGCGGATCTCAAGATGGAGCGGGTCAGGTCGCGGGTC
91051655 AAAGGCTCAAAACGACGTCATTTTCGCCTCTGAACTTAAAAATCAAAACGG
66 AAAGGCTCAAAACGACGTCATTTTCGCCTCTGAACTTAAAAATCAAAACGG
*
91051706 TGGCAATTAGACCATTGCTAAAAAAAGACG-GGATCTCATGATGGAGCGGGTCAGGTCGCGGGTC
1 TGGCAATTAGACCATTGCTAAAAAAAGACGCGGATCTCAAGATGGAGCGGGTCAGGTCGCGGGTC
* *
91051770 AAAGGCTCAAAACGACGTCGTTTTGGCCTCTGAACTTAAAAATCAAAACGG
66 AAAGGCTCAAAACGACGTCATTTTCGCCTCTGAACTTAAAAATCAAAACGG
91051821 CACCGTTTTG
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
115 79 0.74
116 28 0.26
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (116 bp):
TGGCAATTAGACCATTGCTAAAAAAAGACGCGGATCTCAAGATGGAGCGGGTCAGGTCGCGGGTC
AAAGGCTCAAAACGACGTCATTTTCGCCTCTGAACTTAAAAATCAAAACGG
Found at i:91051915 original size:16 final size:17
Alignment explanation
Indices: 91051889--91051921 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
91051879 TCTTTCAGAA
91051889 AAAACAAAAAACCCTTC
1 AAAACAAAAAACCCTTC
*
91051906 AAAA-AAAAAACTCTTC
1 AAAACAAAAAACCCTTC
91051922 CCATCTCCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAACAAAAAACCCTTC
Found at i:91053016 original size:44 final size:44
Alignment explanation
Indices: 91052946--91053064 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
91052936 AATGGTTTAA
* * *
91052946 ATCTGCTCCATTGCTACCTCATGGAGATAAGATTCGTTG-TC-TCTG
1 ATCTGCTCCATTGCT-GCTCAGGGAGATAAGA-TC-TAGATCTTCTG
*
91052991 ATCTGCTCCATTGCTGCTTAGGGAGATAAGATCTAGAATCTTCTG
1 ATCTGCTCCATTGCTGCTCAGGGAGATAAGATCTAG-ATCTTCTG
* *
91053036 CT-TGCTCCACTGCTGCTCAGGGAGATAAG
1 ATCTGCTCCATTGCTGCTCAGGGAGATAAG
91053065 GCTAGTGGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 40 0.62
45 20 0.31
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCATTGCTGCTCAGGGAGATAAGATCTAGATCTTCTG
Found at i:91053157 original size:132 final size:134
Alignment explanation
Indices: 91052924--91053645 Score: 722
Period size: 134 Copynumber: 5.4 Consensus size: 134
91052914 GTAACTTCAG
* * * * *
91052924 GGAGATAAGCCTAATGGTTTAAATCTGCTCCATTGCTACCTCATGGAGATAAGATTCGTTGTCTC
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCTACCTCATGAAGATAAGATTCGTCGTCTC
* * * * * * * *
91052989 TGATCTGCTCCATTGCT-GCTTAGGGAGATAAGATCTAGAATCTTCTGCTTGCTCCACTGCT-GC
66 TGATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCATTGCTACC
*
91053052 TCAG
131 TCAA
* * * *
91053056 GGAGATAAGGCTAGTGGCTTAAATCTGCTCAATTGCTGCTTCATGAAGATAAGATTCGTCATCTC
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCTACCTCATGAAGATAAGATTCGTCGTCTC
* * * * * * * * **
91053121 CGATCTGTTCTACTGCTA-CTCAGGGAAATAAGATCTACAATATTCAGCCTGCCCCACT-ATTGC
66 TGATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCATTGCTACC
91053184 TCAA
131 TCAA
* * ** * * * * *
91053188 GGAGATAAGGCTAGTAGCTTAAATCTACTTTATTGCTGCTTCATGGAGATGAGATTCGCCGTC-C
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCTACCTCATGAAGATAAGATTCGTCGTCTC
* * * * *
91053252 TTGATCTGCTCCACTGCTATCTAAAGGAGATAAGATCTACAATCTTCAACCTACTCCTTTGCTAC
66 -TGATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCATTGCTAC
91053317 CTCAA
130 CTCAA
* * * * ** *
91053322 TGAGATAAGGCTGGTGGCTTAAATCTACTCTC-CTGCTACCTCGGGAAGATAAGATTTGTCGTCT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTC-CATTGCTACCTCATGAAGATAAGATTCGTCGTCT
* * * *
91053386 -TCGATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAGTCAGCTCCTTTACTA
65 CT-GATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCATTGCTA
91053450 CCTCAA
129 CCTCAA
* * * ** ** * *
91053456 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCTTTGCTACATCGGGAAGATAAGATTTATCATCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCTACCTCATGAAGATAAGATTCGTCGTCTC
* *
91053521 TGATCTGCTCCACTGCTATCTTAGGGAGATAAGATCTACAATCTTCAGCCTACT-CATTTGCTAC
66 TGATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCA-TTGCTAC
91053585 CTCAA
130 CTCAA
* ** * **
91053590 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCCCTACTACCTCGGGAAGATAAGATT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCTACCTCATGAAGATAAGATT
91053646 TGTGAATTCA
Statistics
Matches: 497, Mismatches: 82, Indels: 20
0.83 0.14 0.03
Matches are distributed among these distances:
131 2 0.00
132 177 0.36
133 34 0.07
134 283 0.57
135 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (134 bp):
GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCTACCTCATGAAGATAAGATTCGTCGTCTC
TGATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCATTGCTACC
TCAA
Found at i:91053417 original size:45 final size:45
Alignment explanation
Indices: 91053354--91053555 Score: 126
Period size: 45 Copynumber: 4.5 Consensus size: 45
91053344 ATCTACTCTC
*
91053354 CTGCTACCTC-GGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCA
1 CTGCTACCTCAGGG-AGATAAGATTTGTCATCTTCGATCTGCTCCA
* * * * *
91053399 CTGCTATCTCAGGGAGATAAGATCT-ACAATCTTC-AGTCAGCTCCT
1 CTGCTACCTCAGGGAGATAAGATTTGTC-ATCTTCGA-TCTGCTCCA
* * * ** * ** ** *
91053444 TTACTACCTCAAGGAGATAAGGCTGGT-GGCTTAAATCTGCTCCT
1 CTGCTACCTCAGGGAGATAAGATTTGTCATCTTCGATCTGCTCCA
* * * *
91053488 TTGCTACATC-GGGAAGATAAGATTTATCATCTTTGATCTGCTCCA
1 CTGCTACCTCAGGG-AGATAAGATTTGTCATCTTCGATCTGCTCCA
* *
91053533 CTGCTATCTTAGGGAGATAAGAT
1 CTGCTACCTCAGGGAGATAAGAT
91053556 CTACAATCTT
Statistics
Matches: 114, Mismatches: 35, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
43 2 0.02
44 30 0.26
45 76 0.67
46 6 0.05
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (45 bp):
CTGCTACCTCAGGGAGATAAGATTTGTCATCTTCGATCTGCTCCA
Found at i:91053551 original size:268 final size:266
Alignment explanation
Indices: 91052924--91053648 Score: 846
Period size: 268 Copynumber: 2.7 Consensus size: 266
91052914 GTAACTTCAG
* * * * * * *
91052924 GGAGATAAGCCTAATGGTTTAAATCTGCTCCATTGCTACCTCATGGAGATAAGATTCGTTGTCTC
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCTTTGCTACATCATGGAGATAAGATTCGTCGTCTT
* * * * * * ** *
91052989 TGATCTGCTCCATTGCT-GCTTAGGGAGATAAGATCTAGAATCTTCTGCTTGCTCCACTGCT-GC
66 TGATCTGCTCCACTGCTATCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCTTTGCTACC
* * ** * * ** *
91053052 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCAATTGCTGCTTCATGAAGATAAGATTCGTCA
131 TCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTCACCTGCTACCTCGGGAAGATAAGATTTGTCA
* * * *
91053117 TCTCCGATCTGTTCTACTGCTACTCAGGGAAATAAGATCTACAATATTCAGCCTGCCCCACTATT
196 TCTCCGATCTGCTCCACTGCTACTCAGGGAAATAAGATCTACAATATTCAGCCAGCCCCACTATA
*
91053182 GCTCAA
261 CCTCAA
* * * * * * * *
91053188 GGAGATAAGGCTAGTAGCTTAAATCTACT-TTATTGCTGCTTCATGGAGATGAGATTCGCCGTCC
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCT-TTGCTACATCATGGAGATAAGATTCGTCGTCT
* * *
91053252 TTGATCTGCTCCACTGCTATCTAAAGGAGATAAGATCTACAATCTTCAACCTACTCCTTTGCTAC
65 TTGATCTGCTCCACTGCTATCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCTTTGCTAC
* * *
91053317 CTCAATGAGATAAGGCTGGTGGCTTAAATCTACTCTCCTGCTACCTCGGGAAGATAAGATTTGTC
130 CTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTCACCTGCTACCTCGGGAAGATAAGATTTGTC
* * * * * * **
91053382 GTCTTCGATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAGTCAGCTCCTTTA
195 ATCTCCGATCTGCTCCACTGCTA-CTCAGGGAAATAAGATCTACAATATTCAGCCAGCCCCACTA
91053447 CTACCTCAA
259 -TACCTCAA
* * ** *
91053456 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCTTTGCTACATC-GGGAAGATAAGATTTATCATCT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCTTTGCTACATCATGG-AGATAAGATTCGTCGTCT
*
91053520 TTGATCTGCTCCACTGCTATCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCATTTGCTAC
65 TTGATCTGCTCCACTGCTATCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCTTTGCTAC
* *
91053585 CTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTCCCCTACTACCTCGGGAAGATAAGATTTGT
130 CTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTCACCTGCTACCTCGGGAAGATAAGATTTGT
91053649 GAATTCACCG
Statistics
Matches: 382, Mismatches: 72, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
264 66 0.17
265 34 0.09
266 72 0.19
267 36 0.09
268 173 0.45
269 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (266 bp):
GGAGATAAGGCTAGTGGCTTAAATCTGCTCCTTTGCTACATCATGGAGATAAGATTCGTCGTCTT
TGATCTGCTCCACTGCTATCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCTTTGCTACC
TCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTCACCTGCTACCTCGGGAAGATAAGATTTGTCA
TCTCCGATCTGCTCCACTGCTACTCAGGGAAATAAGATCTACAATATTCAGCCAGCCCCACTATA
CCTCAA
Found at i:91065490 original size:21 final size:20
Alignment explanation
Indices: 91065455--91065494 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
91065445 AGGACAAAAA
91065455 TAAAATAAAAATGAAATAAG
1 TAAAATAAAAATGAAATAAG
*
91065475 TAAAATAATGAATGAAATAA
1 TAAAATAA-AAATGAAATAA
91065495 CAAAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATGAAATAAG
Found at i:91065595 original size:3 final size:3
Alignment explanation
Indices: 91065587--91065770 Score: 88
Period size: 3 Copynumber: 61.7 Consensus size: 3
91065577 GTTTTTAAAA
* * *
91065587 AAT AAT AAT AAT TAT AAT AAA AAT AA- AAGT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
* * * ** * * * **
91065632 AAT ACT -AT AAC AAT AAT GAT GGT AGT AAT AA- AAT AAT AGT AGT GGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
91065678 AAT AAT ACT ACT AAT AGT AAT AAC AAT ACT AAT AAA AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
91065726 AGT AAT AAC AGA- AAT TAT AAT ACT AAA AAT AAAT AAT AAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
91065771 ATATAAAACT
Statistics
Matches: 135, Mismatches: 39, Indels: 14
0.72 0.21 0.07
Matches are distributed among these distances:
2 6 0.04
3 123 0.91
4 6 0.04
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:91065759 original size:19 final size:19
Alignment explanation
Indices: 91065702--91065777 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
91065692 TAGTAATAAC
*
91065702 AATACTAATAAAAATAATATT
1 AATAATAATAAAAATAA-A-T
* * *
91065723 AATAGTAAT-AACAGAAAT
1 AATAATAATAAAAATAAAT
* *
91065741 TATAATACTAAAAATAAAT
1 AATAATAATAAAAATAAAT
*
91065760 AATAATAATAAATATAAA
1 AATAATAATAAAAATAAA
91065778 ACTCAAATTA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
18 7 0.16
19 23 0.53
20 5 0.12
21 8 0.19
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (19 bp):
AATAATAATAAAAATAAAT
Found at i:91068993 original size:27 final size:26
Alignment explanation
Indices: 91068963--91069018 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
91068953 ACAAATTAAG
*
91068963 AAAAAAAAAACCGTAAAGGCAGACATT
1 AAAAAAAAAA-CATAAAGGCAGACATT
*
91068990 AAAAGAAAAACATAAAGGCAGACATT
1 AAAAAAAAAACATAAAGGCAGACATT
91069016 AAA
1 AAA
91069019 CAACAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.11
Consensus pattern (26 bp):
AAAAAAAAAACATAAAGGCAGACATT
Found at i:91073695 original size:21 final size:21
Alignment explanation
Indices: 91073669--91073748 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
91073659 AAATGTAGAA
* *
91073669 GCAGTGAAGCAAGGTGAAAAG
1 GCAGTGAACCAAAGTGAAAAG
91073690 GCAGTGAACCAAAGTGAAAAG
1 GCAGTGAACCAAAGTGAAAAG
* *
91073711 GCTGTGAACCAAAATG-AAAG
1 GCAGTGAACCAAAGTGAAAAG
**
91073731 AATAGTGAACCAAAGTGA
1 -GCAGTGAACCAAAGTGA
91073749 GGAAGCGTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 4 0.08
21 45 0.92
ACGTcount: A:0.46, C:0.12, G:0.29, T:0.12
Consensus pattern (21 bp):
GCAGTGAACCAAAGTGAAAAG
Found at i:91076727 original size:24 final size:24
Alignment explanation
Indices: 91076684--91076729 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
91076674 CATAGCCCCA
* *
91076684 AAACACAAAAAGCAGGCATCTAAG
1 AAACACAAAAAGAACGCATCTAAG
*
91076708 AAACACAAAAAGAACTCATCTA
1 AAACACAAAAAGAACGCATCTA
91076730 CAGGTCCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.22, G:0.11, T:0.11
Consensus pattern (24 bp):
AAACACAAAAAGAACGCATCTAAG
Found at i:91086991 original size:32 final size:32
Alignment explanation
Indices: 91086955--91087018 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
91086945 CTATCAAAAC
*
91086955 GTTAAAATTTTCTGACAAAACTTTAATACTAA
1 GTTAAAATTTTCTGAAAAAACTTTAATACTAA
91086987 GTTAAAATTTTCTGAAAAAACTTTAATACTAA
1 GTTAAAATTTTCTGAAAAAACTTTAATACTAA
91087019 CTCAATAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (32 bp):
GTTAAAATTTTCTGAAAAAACTTTAATACTAA
Found at i:91090124 original size:26 final size:26
Alignment explanation
Indices: 91090055--91090189 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
91090045 TGATACAAAT
*
91090055 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
91090081 TGGTAGT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
91090106 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
91090132 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
91090158 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
91090184 TGATAA
1 TGATAA
91090190 GAATTCATGT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 22 0.22
26 78 0.78
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:91095930 original size:26 final size:26
Alignment explanation
Indices: 91095862--91095994 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
91095852 TGATACAAAT
*
91095862 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
91095888 TG-TAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
91095912 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
91095938 TGATAATGGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
91095963 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
91095989 TGATAA
1 TGATAA
91095995 GAATTCATGT
Statistics
Matches: 100, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
24 19 0.19
25 32 0.32
26 49 0.49
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:91095967 original size:51 final size:51
Alignment explanation
Indices: 91095862--91095994 Score: 225
Period size: 51 Copynumber: 2.6 Consensus size: 51
91095852 TGATACAAAT
91095862 TGATAATAGGTTAGGTAAATGTTCCATG-TAATGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
91095912 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTTCA
* *
91095963 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
91095995 GAATTCATGT
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
50 28 0.35
51 38 0.48
52 13 0.16
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
Found at i:91098902 original size:80 final size:80
Alignment explanation
Indices: 91098749--91098894 Score: 183
Period size: 78 Copynumber: 1.9 Consensus size: 80
91098739 TTTCCAATTA
* * * **
91098749 AATTCAAATCACTAATTACTTTTCAATCAATATACATTTCAAATACTCACATATTTTCTTCGTTC
1 AATTCAAATCACTAATTACTTTTCAATAAATATACATTTCAAATACTCACATATATTCATAATTC
91098814 AATTTAATTTTATTC
66 AATTTAATTTTATTC
* * *
91098829 AATTCAAATCACT-TTTAGTTTAT-AATAAATATAC-TTTCAAATATTCACATA-ATTCATAATT
1 AATTCAAATCACTAATTACTTT-TCAATAAATATACATTTCAAATACTCACATATATTCATAATT
91098890 CAATT
65 CAATT
91098895 ACTTAATTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
77 11 0.19
78 16 0.28
79 16 0.28
80 14 0.25
ACGTcount: A:0.38, C:0.16, G:0.01, T:0.44
Consensus pattern (80 bp):
AATTCAAATCACTAATTACTTTTCAATAAATATACATTTCAAATACTCACATATATTCATAATTC
AATTTAATTTTATTC
Found at i:91099303 original size:3 final size:3
Alignment explanation
Indices: 91099295--91099341 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
91099285 TATATTAGTT
91099295 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
91099342 TAATAATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:91099357 original size:5 final size:5
Alignment explanation
Indices: 91099341--91099378 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
91099331 AACAACAACA
91099341 ATAAT AATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
91099379 CTATTTACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:91099785 original size:5 final size:5
Alignment explanation
Indices: 91099777--91099841 Score: 69
Period size: 5 Copynumber: 13.0 Consensus size: 5
91099767 TATTTATTTC
* * *
91099777 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATGATT ATAAC ATAAT -TATT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT
* *
91099827 ATAAT TTAAC ATAAT
1 ATAAT ATAAT ATAAT
91099842 TAAATTTATA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
4 3 0.06
5 41 0.85
6 4 0.08
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:91102789 original size:16 final size:16
Alignment explanation
Indices: 91102764--91102813 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
91102754 ATATTTAATC
*
91102764 ATATAGTAAATTATTA
1 ATATAATAAATTATTA
91102780 ATATAATAAA-TA-TA
1 ATATAATAAATTATTA
*
91102794 AT-TTATAAATTATTTA
1 ATATAATAAATTA-TTA
91102810 ATAT
1 ATAT
91102814 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 2 0.07
16 13 0.46
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:91102824 original size:18 final size:19
Alignment explanation
Indices: 91102794--91102831 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
91102784 AATAAATATA
91102794 ATTTATAAATTA-TTTAAT
1 ATTTATAAATTATTTTAAT
91102812 ATTTA-AAATTTATTTTAAT
1 ATTTATAAA-TTATTTTAAT
91102831 A
1 A
91102832 AATTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 8 0.44
19 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTATAAATTATTTTAAT
Found at i:91102848 original size:16 final size:16
Alignment explanation
Indices: 91102827--91102860 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
91102817 AAATTTATTT
91102827 TAATAAATTTTAAA-AA
1 TAAT-AATTTTAAATAA
91102843 TAATAATTTTAAATAA
1 TAATAATTTTAAATAA
91102859 TA
1 TA
91102861 TTATTCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:91103402 original size:15 final size:15
Alignment explanation
Indices: 91103382--91103411 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
91103372 TAAATGTGTT
91103382 AGTATAATTTTTTCC
1 AGTATAATTTTTTCC
91103397 AGTATAATTTTTTCC
1 AGTATAATTTTTTCC
91103412 CACCCATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
AGTATAATTTTTTCC
Found at i:91107796 original size:17 final size:18
Alignment explanation
Indices: 91107774--91107807 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
91107764 GAAACTTATA
*
91107774 TTTATATAAT-TAATTTT
1 TTTATACAATATAATTTT
91107791 TTTATACAATATAATTT
1 TTTATACAATATAATTT
91107808 CAAATTCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATACAATATAATTTT
Found at i:91113256 original size:23 final size:24
Alignment explanation
Indices: 91113223--91113267 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
91113213 TGTCTTTTTC
*
91113223 TTTTATTTTTTTTCTT-TTTTAAG
1 TTTTATATTTTTTCTTATTTTAAG
91113246 TTTTATATTTTTTCTTATTTTA
1 TTTTATATTTTTTCTTATTTTA
91113268 TTTTGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTATATTTTTTCTTATTTTAAG
Found at i:91113388 original size:11 final size:11
Alignment explanation
Indices: 91113360--91113393 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
91113350 TTTTTTAAAA
*
91113360 TTTTAAATATTA
1 TTTTAAAT-TTT
91113372 TTTTAAATTTT
1 TTTTAAATTTT
91113383 TTTTAAATTTT
1 TTTTAAATTTT
91113394 AAATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTAAATTTT
Found at i:91113406 original size:36 final size:35
Alignment explanation
Indices: 91113348--91113445 Score: 138
Period size: 36 Copynumber: 3.0 Consensus size: 35
91113338 TTATAATATA
91113348 TATTTTTTAAAATTTT-AA-ATAT-TATTTTAAAT
1 TATTTTTTAAAATTTTAAATATATATATTTTAAAT
91113380 T-TTTTTT-AAATTTTAAATATATATATTTTAAAT
1 TATTTTTTAAAATTTTAAATATATATATTTTAAAT
91113413 TAATTTTTTAAAATTTTAAATAT-TAT-TTTTAAA
1 T-ATTTTTTAAAATTTTAAATATATATATTTTAAA
91113446 AAAATTAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
30 7 0.12
31 8 0.13
32 5 0.08
33 11 0.18
34 7 0.12
35 9 0.15
36 13 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TATTTTTTAAAATTTTAAATATATATATTTTAAAT
Found at i:91113440 original size:22 final size:22
Alignment explanation
Indices: 91113336--91113465 Score: 79
Period size: 22 Copynumber: 5.8 Consensus size: 22
91113326 ATTTGAAATG
91113336 TTTTATAATATATATTTTTTAAAA
1 TTTTA-AATAT-TATTTTTTAAAA
*
91113360 TTTTAAATATTA--TTTTAAATTTT
1 TTTTAAATATTATTTTTTAAA---A
* ** * *
91113383 TTTTAAATTTTA-AATATATATA
1 TTTTAAATATTATTTTTTA-AAA
*
91113405 TTTTAAAT-TAATTTTTTAAAA
1 TTTTAAATATTATTTTTTAAAA
*
91113426 TTTTAAATATTATTTTTAAAAA
1 TTTTAAATATTATTTTTTAAAA
**
91113448 AATTAAATATATATTTTT
1 TTTTAAATAT-TATTTTT
91113466 AATAATATGA
Statistics
Matches: 83, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
20 7 0.08
21 12 0.14
22 32 0.39
23 23 0.28
24 8 0.10
25 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTAAATATTATTTTTTAAAA
Found at i:91113588 original size:13 final size:13
Alignment explanation
Indices: 91113559--91113587 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
91113549 TTAAACATTC
91113559 AAAATTTTTAAAT
1 AAAATTTTTAAAT
91113572 AAAATTTTT-AAT
1 AAAATTTTTAAAT
91113584 AAAA
1 AAAA
91113588 AACTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATTTTTAAAT
Found at i:91113778 original size:35 final size:34
Alignment explanation
Indices: 91113735--91113872 Score: 147
Period size: 36 Copynumber: 4.0 Consensus size: 34
91113725 TATACTTAAT
* * *
91113735 ATTTAAAAAATA-ATATTTACAATTTAGAAAATTA
1 ATTTCAAAAATATATATTTAAAATTTA-AAAAATA
* * *
91113769 CTTTCAAAAATATATTTTTAAAATTTATAAGAAACA
1 ATTTCAAAAATATATATTTAAAATTTA-AA-AAATA
91113805 ATTTCAAAAATATATATTTAAAATTTTAAAAAATA
1 ATTTCAAAAATATATATTTAAAA-TTTAAAAAATA
*
91113840 ATTT-TAAAATA-ATATTTAAAATTTTAAAAAATA
1 ATTTCAAAAATATATATTTAAAA-TTTAAAAAATA
91113873 TATATTATAA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
33 22 0.24
34 16 0.18
35 22 0.24
36 26 0.29
37 4 0.04
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (34 bp):
ATTTCAAAAATATATATTTAAAATTTAAAAAATA
Found at i:91113829 original size:22 final size:21
Alignment explanation
Indices: 91113804--91113849 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
91113794 TATAAGAAAC
91113804 AATTTC-AAAAATATATATTTAA
1 AATTTCAAAAAATA-AT-TTTAA
*
91113826 AATTTTAAAAAATAATTTTAA
1 AATTTCAAAAAATAATTTTAA
91113847 AAT
1 AAT
91113850 AATATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 7 0.32
23 7 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTCAAAAAATAATTTTAA
Found at i:91113842 original size:13 final size:14
Alignment explanation
Indices: 91113826--91113861 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
91113816 ATATATTTAA
91113826 AATTTTAAAA-AAT
1 AATTTTAAAATAAT
91113839 AATTTTAAAATAAT
1 AATTTTAAAATAAT
91113853 -A-TTTAAAAT
1 AATTTTAAAAT
91113862 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.36
13 11 0.50
14 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTTTAAAATAAT
Found at i:91113946 original size:13 final size:13
Alignment explanation
Indices: 91113914--91113969 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 13
91113904 AAATTTTTTA
* *
91113914 AAATTAATAACAAG
1 AAATAAATAA-AAT
91113928 AAATAAATAAAAT
1 AAATAAATAAAAT
*
91113941 AAATAAACAAAAT
1 AAATAAATAAAAT
*
91113954 AAACAAAATAAAAT
1 AAA-TAAATAAAAT
91113968 AA
1 AA
91113970 GAAAAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
13 17 0.47
14 19 0.53
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:91113974 original size:13 final size:12
Alignment explanation
Indices: 91113932--91114035 Score: 54
Period size: 13 Copynumber: 8.2 Consensus size: 12
91113922 AACAAGAAAT
91113932 AAATAAAATAAA
1 AAATAAAATAAA
*
91113944 TAAACAAAATAAACA
1 -AAATAAAAT-AA-A
91113959 AAATAAAATAAGA
1 AAATAAAATAA-A
91113972 AAA-AAATATAAA
1 AAATAAA-ATAAA
**
91113984 ACTTAAAA-AAA
1 AAATAAAATAAA
*
91113995 AATTAAAA-AAA
1 AAATAAAATAAA
*
91114006 AAGACAAAAGTAAA
1 AA-ATAAAA-TAAA
91114020 AAA-AAAGAGTAAA
1 AAATAAA-A-TAAA
91114033 AAA
1 AAA
91114036 ATCAGAAGCA
Statistics
Matches: 75, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
11 15 0.20
12 13 0.17
13 31 0.41
14 15 0.20
15 1 0.01
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.13
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:91113982 original size:18 final size:18
Alignment explanation
Indices: 91113961--91114002 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
91113951 AATAAACAAA
91113961 ATAAAA-TAAGAAAAAAAT
1 ATAAAACTAA-AAAAAAAT
91113979 ATAAAACTTAAAAAAAAAT
1 ATAAAAC-TAAAAAAAAAT
91113998 -TAAAA
1 ATAAAA
91114003 AAAAAGACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 11 0.50
19 8 0.36
20 3 0.14
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (18 bp):
ATAAAACTAAAAAAAAAT
Found at i:91113984 original size:9 final size:8
Alignment explanation
Indices: 91113932--91113994 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 8
91113922 AACAAGAAAT
91113932 AAATAAAA
1 AAATAAAA
91113940 TAAATAAACA
1 -AAATAAA-A
91113950 AAATAAACA
1 AAATAAA-A
91113959 AAATAAAA
1 AAATAAAA
* *
91113967 TAAGAAAA
1 AAATAAAA
91113975 AAATATAAA
1 AAATA-AAA
**
91113984 ACTTAAAA
1 AAATAAAA
91113992 AAA
1 AAA
91113995 AATTAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
8 14 0.32
9 29 0.66
10 1 0.02
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.16
Consensus pattern (8 bp):
AAATAAAA
Found at i:91114005 original size:30 final size:29
Alignment explanation
Indices: 91113932--91114036 Score: 79
Period size: 32 Copynumber: 3.4 Consensus size: 29
91113922 AACAAGAAAT
91113932 AAATAAAATAAATAA-ACAAAA-TAAACAAAATA
1 AAATAAAA-AAA-AAGACAAAACT-AA-AAAA-A
* *
91113964 AAATAAGAAAAAAATATAAAACTTAAAAAAA
1 AAATAA-AAAAAAAGACAAAAC-TAAAAAAA
* *
91113995 AATTAAAAAAAAAGACAAAAGTAAAAAAA
1 AAATAAAAAAAAAGACAAAACTAAAAAAA
91114024 AAGAGTAAAAAAA
1 AA-A-TAAAAAAA
91114037 TCAGAAGCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
29 10 0.16
30 12 0.20
31 16 0.26
32 18 0.30
33 4 0.07
34 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.13
Consensus pattern (29 bp):
AAATAAAAAAAAAGACAAAACTAAAAAAA
Found at i:91114033 original size:19 final size:18
Alignment explanation
Indices: 91113993--91114027 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
91113983 AACTTAAAAA
*
91113993 AAAATTAAAAAAAAAGAC
1 AAAAGTAAAAAAAAAGAC
91114011 AAAAGTAAAAAAAAAGA
1 AAAAGTAAAAAAAAAGA
91114028 GTAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAAGTAAAAAAAAAGAC
Found at i:91115089 original size:23 final size:22
Alignment explanation
Indices: 91115063--91115122 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
91115053 AAATGCCTCT
** *
91115063 AAAATAGTAATAAAATTAACAAG
1 AAAATAGTAA-AAAAACAACAAA
* * *
91115086 AAAATAATAACAAAACAATAAA
1 AAAATAGTAAAAAAACAACAAA
91115108 AAAATAGTAAAAAAA
1 AAAATAGTAAAAAAA
91115123 AGCAACTGTC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAATAGTAAAAAAACAACAAA
Found at i:91123737 original size:31 final size:31
Alignment explanation
Indices: 91123702--91123762 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
91123692 AATAATACAT
**
91123702 TGACTTAAAT-AAAATCTTTTGAATAATTTAG
1 TGACTTAAATGAAAA-CTTTCAAATAATTTAG
91123733 TGACTTAAATGAAAACTTTCAAATAATTTA
1 TGACTTAAATGAAAACTTTCAAATAATTTA
91123763 CCAAATTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTCAAATAATTTAG
Found at i:91127026 original size:28 final size:28
Alignment explanation
Indices: 91127001--91127057 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
91126991 AAATTATGTT
91127001 ACCAAAATTTACCAACACAAAATATGAC
1 ACCAAAATTTACCAACACAAAATATGAC
* *
91127029 ACCAAAATTTACCCACACAAGATATGAC
1 ACCAAAATTTACCAACACAAAATATGAC
91127057 A
1 A
91127058 AATTTTTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.51, C:0.26, G:0.05, T:0.18
Consensus pattern (28 bp):
ACCAAAATTTACCAACACAAAATATGAC
Found at i:91127692 original size:17 final size:17
Alignment explanation
Indices: 91127660--91127694 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
91127650 TTTTTGTATT
*
91127660 TTTTAAAATTTTTTAAA
1 TTTTAAAATTTATTAAA
91127677 TTTTAAAATTTATTAAA
1 TTTTAAAATTTATTAAA
91127694 T
1 T
91127695 GCTAATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTAAAATTTATTAAA
Found at i:91128825 original size:2 final size:2
Alignment explanation
Indices: 91128818--91128844 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
91128808 GACTAAAGTG
91128818 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
91128845 GTATGTATGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:91129360 original size:2 final size:2
Alignment explanation
Indices: 91129353--91129380 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
91129343 AGTGAGAATC
91129353 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
91129381 GCAACTCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91135161 original size:135 final size:135
Alignment explanation
Indices: 91134952--91135235 Score: 473
Period size: 135 Copynumber: 2.1 Consensus size: 135
91134942 CCATTGGGCC
** * *
91134952 TAAGCCCATTCAGGTAAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 TAAGCCCATTTGGGTAAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
91135017 GCCCCTTATTCAGACAACAGTATGGCCCATA-GCCCATTTCAAAATACATGCAACATCAAT-AAC
66 GCCCCTTATTCAGACAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
91135080 ATATG
131 ATATG
91135085 TAAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCT
1 TAAGCCCATTTGGGT-A-AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCT
* *
91135150 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
64 TAGCCCCTTATTCAGACAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
91135215 ACATATG
129 ACATATG
*
91135222 CAAGCCCATTTGGG
1 TAAGCCCATTTGGG
91135236 GAGACTACTC
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
133 13 0.09
134 1 0.01
135 77 0.55
136 28 0.20
137 21 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (135 bp):
TAAGCCCATTTGGGTAAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGACAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATG
Found at i:91137088 original size:50 final size:52
Alignment explanation
Indices: 91137013--91137120 Score: 202
Period size: 50 Copynumber: 2.1 Consensus size: 52
91137003 ACATGAATTC
91137013 TTATCATGAAACATTTACCTAACCCATTATCAT-GAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
91137063 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
91137115 TTATCA
1 TTATCA
91137121 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
50 33 0.59
51 16 0.29
52 7 0.12
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:91137096 original size:26 final size:26
Alignment explanation
Indices: 91137013--91137120 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
91137003 ACATGAATTC
91137013 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91137039 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
91137063 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91137089 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91137115 TTATCA
1 TTATCA
91137121 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
24 11 0.14
25 26 0.33
26 41 0.53
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91140957 original size:133 final size:136
Alignment explanation
Indices: 91140784--91141066 Score: 500
Period size: 133 Copynumber: 2.1 Consensus size: 136
91140774 TATTGGGCCT
** *
91140784 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGT-GTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
91140849 AGCCCCTTATTCAGA-AACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
91140912 CATATGC
130 CATATGC
91140919 AAGCCCATTTGGGTAACAGT-TACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
*
91140983 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
91141048 ATATGC
131 ATATGC
91141054 AAGCCCATTTGGG
1 AAGCCCATTTGGG
91141067 GAGACTACTC
Statistics
Matches: 142, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
133 57 0.40
134 45 0.32
135 40 0.28
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:91142891 original size:25 final size:25
Alignment explanation
Indices: 91142848--91142954 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 25
91142838 ACATGAATTC
91142848 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
91142874 TTATCATG-AACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
91142898 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
*
91142923 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
91142949 TTATCA
1 TTATCA
91142955 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
24 11 0.14
25 52 0.67
26 15 0.19
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:91145967 original size:22 final size:22
Alignment explanation
Indices: 91145939--91145985 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
91145929 AGGCTCTGAT
91145939 ACCACTAAATGTAGCACCCCAA
1 ACCACTAAATGTAGCACCCCAA
91145961 ACCACTAAATGTAGCACCCCAA
1 ACCACTAAATGTAGCACCCCAA
91145983 ACC
1 ACC
91145986 CGACCAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.38, G:0.09, T:0.13
Consensus pattern (22 bp):
ACCACTAAATGTAGCACCCCAA
Found at i:91146926 original size:136 final size:137
Alignment explanation
Indices: 91146682--91146968 Score: 486
Period size: 136 Copynumber: 2.1 Consensus size: 137
91146672 CCATTGGGCC
** * * *
91146682 TAAGCCCATTCAGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCT
1 TAAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCT
91146747 TAGCCCCTTATTCAGACAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAAT-A
66 TAGCCCCTTATTCAGACAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAATAA
91146811 ACATATG
131 ACATATG
91146818 TAAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCT
1 TAAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCT
* * *
91146883 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
66 TAGCCCCTTATTCAGACAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAATAA
91146948 ACATATG
131 ACATATG
*
91146955 CAAGCCCATTTGGG
1 TAAGCCCATTTGGG
91146969 GAGACTACTC
Statistics
Matches: 141, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
136 120 0.85
137 21 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
TAAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCT
TAGCCCCTTATTCAGACAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAATAA
ACATATG
Found at i:91148792 original size:26 final size:26
Alignment explanation
Indices: 91148754--91148863 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
91148744 CATGATATTC
91148754 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91148780 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91148806 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91148832 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91148858 TTATCA
1 TTATCA
91148864 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91148832 original size:52 final size:52
Alignment explanation
Indices: 91148754--91148863 Score: 220
Period size: 52 Copynumber: 2.1 Consensus size: 52
91148744 CATGATATTC
91148754 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
91148806 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
91148858 TTATCA
1 TTATCA
91148864 ATTTGTATCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:91150940 original size:130 final size:128
Alignment explanation
Indices: 91150693--91151021 Score: 464
Period size: 130 Copynumber: 2.5 Consensus size: 128
91150683 CTATTCATTC
* *
91150693 AAAAATTCTTTAAAACGAAGGCAACGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCGTG
1 AAAAATTC-TTAAAA-GAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
**
91150758 CTGGGTTGCAATTTCCCGTTTGATCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTCTT
64 CTGGGTTGCAATTTCCCGTTTGATCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGT-TT
91150823 T
128 T
* *
91150824 AAAAATTCTTCAAAATGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTTCCCTATC-TG
1 AAAAATTCTT-AAAA-GAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
* *
91150888 CTGGGTTGCAATTTCCTGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
64 CTGGGTTGCAATTTCCCGTTTGATCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
** * * * * *
91150953 CTAAATT-TTAAAACAAGGCAATGTTCAATGTTTGGAAATTTGGGGAATCGTGCCCTACCGTGCT
1 AAAAATTCTTAAAAGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCT
91151017 GGGTT
66 GGGTT
91151022 TCGATTTTTC
Statistics
Matches: 178, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
126 39 0.22
127 13 0.07
128 2 0.01
129 8 0.04
130 62 0.35
131 54 0.30
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (128 bp):
AAAAATTCTTAAAAGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCT
GGGTTGCAATTTCCCGTTTGATCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
Found at i:91152938 original size:41 final size:42
Alignment explanation
Indices: 91152875--91152954 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
91152865 ATGCAGGGGA
* * *
91152875 CACACGGTCTATCAACATGCCCGTGTG-CAAGCCGTGTGTCT
1 CACACGGTATATCAACACGCCCGTGGGACAAGCCGTGTGTCT
91152916 CACACGGTATGATC-ACACGCCCGTGGGACAAGCCGTGTG
1 CACACGGTAT-ATCAACACGCCCGTGGGACAAGCCGTGTG
91152955 GACTCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 20 0.59
42 14 0.41
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.20
Consensus pattern (42 bp):
CACACGGTATATCAACACGCCCGTGGGACAAGCCGTGTGTCT
Found at i:91158450 original size:47 final size:47
Alignment explanation
Indices: 91158386--91158496 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
91158376 GACATTGAGT
*
91158386 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
91158433 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
91158480 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
91158497 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:91160373 original size:20 final size:18
Alignment explanation
Indices: 91160335--91160373 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
91160325 ACTTTATATT
*
91160335 ATTATATTATATTTTTTA
1 ATTATATTATATTTCTTA
91160353 ATTATAATTATTATTTCTTA
1 ATTAT-ATTA-TATTTCTTA
91160373 A
1 A
91160374 AAATAAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATTATATTTCTTA
Found at i:91167689 original size:6 final size:6
Alignment explanation
Indices: 91167673--91167705 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
91167663 CAAAACCCTA
*
91167673 TTTTTC CTTTTC TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT
91167706 CTTTCTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:91167818 original size:13 final size:13
Alignment explanation
Indices: 91167800--91167837 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
91167790 TTATTTTACT
91167800 TTATATTATTATA
1 TTATATTATTATA
*
91167813 TTATATTTTTA-A
1 TTATATTATTATA
91167825 TTATAATTATTAT
1 TTAT-ATTATTAT
91167838 TTCTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATTATTATA
Found at i:91168843 original size:31 final size:30
Alignment explanation
Indices: 91168784--91168844 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
91168774 TCTTCAGTTT
* *
91168784 TATTTGTTGATTTTGAAACAACAGAAAGAG
1 TATTTGCTGATTTTGAAACAACAAAAAGAG
* *
91168814 TATTTGCTGATTTTTGATATAACAAAAAGAG
1 TATTTGCTGA-TTTTGAAACAACAAAAAGAG
91168845 GAGAAGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (30 bp):
TATTTGCTGATTTTGAAACAACAAAAAGAG
Found at i:91170292 original size:23 final size:23
Alignment explanation
Indices: 91170259--91170302 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
91170249 TGACCATTAT
*
91170259 ATAAAAAAGATCAAATTAGGTTG
1 ATAAAAAAGATCAAATCAGGTTG
*
91170282 ATAAAAGAGATCAAATCAGGT
1 ATAAAAAAGATCAAATCAGGT
91170303 GAATAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.18, T:0.23
Consensus pattern (23 bp):
ATAAAAAAGATCAAATCAGGTTG
Found at i:91172644 original size:3 final size:3
Alignment explanation
Indices: 91172638--91172688 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
91172628 ACACACTACT
91172638 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91172686 ATA
1 ATA
91172689 TAGAAATACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.