Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 78 of 320
Found at i:24525567 original size:81 final size:82
Alignment explanation
Indices: 24525412--24525569 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 82
24525402 TGGCGTTTTA
* *
24525412 CCAAAAATGTCACTATTGCTCTGTTTCTTAGCGGCGCTTTCCCAAAAACGCCGCTATCGCTCTGT
1 CCAAAAATGTCACTATTGCTCTGTTTCTTAGCGGCGCTTTACCAAAAACGCCGCTATCGCTCTAT
**
24525477 TTTTTAGTAGCGCTTTG
66 TTTCCAGTAGCGCTTTG
*
24525494 CCAAAAATG-CAGCTATTGCTCTGTTT-TTAGCGGCGTTTTACCAAAAACGCCGCTAAATC-C-C
1 CCAAAAATGTCA-CTATTGCTCTGTTTCTTAGCGGCGCTTTACCAAAAACGCCGCT--ATCGCTC
24525555 TATTTTCCAGTAGCG
63 TATTTTCCAGTAGCG
24525570 TATGTTTGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
81 41 0.60
82 24 0.35
83 3 0.04
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.33
Consensus pattern (82 bp):
CCAAAAATGTCACTATTGCTCTGTTTCTTAGCGGCGCTTTACCAAAAACGCCGCTATCGCTCTAT
TTTCCAGTAGCGCTTTG
Found at i:24528986 original size:21 final size:20
Alignment explanation
Indices: 24528952--24528992 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
24528942 TTTATGAGAA
24528952 CTATGATTATATATA-ATGG
1 CTATGATTATATATACATGG
24528971 CTATGATTAAATATATACATGG
1 CTATGATT--ATATATACATGG
24528993 TTTTTGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (20 bp):
CTATGATTATATATACATGG
Found at i:24534354 original size:30 final size:30
Alignment explanation
Indices: 24534320--24534409 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
24534310 CGGGCAGAGT
*
24534320 CACGGGCGTGTGTCTCTGTTATGTGTGACA
1 CACGGGCGTGTGTCTCAGTTATGTGTGACA
*
24534350 CACGGGCGTGTGTCCCAGTTATGTGTGACA
1 CACGGGCGTGTGTCTCAGTTATGTGTGACA
* * *
24534380 CACGGGCATGTGTCTCAGCTGTGTGTGACA
1 CACGGGCGTGTGTCTCAGTTATGTGTGACA
24534410 TAATCAAGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (30 bp):
CACGGGCGTGTGTCTCAGTTATGTGTGACA
Found at i:24534692 original size:13 final size:13
Alignment explanation
Indices: 24534674--24534698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24534664 ATGTCTACAC
24534674 GGATTGGTCACAT
1 GGATTGGTCACAT
24534687 GGATTGGTCACA
1 GGATTGGTCACA
24534699 CGAGCATTTG
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:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (13 bp):
GGATTGGTCACAT
Found at i:24535021 original size:26 final size:26
Alignment explanation
Indices: 24534985--24535038 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
24534975 AGCAAAAAAT
24534985 GTTCTGGTTGAATTAAGTTTTTGGAA
1 GTTCTGGTTGAATTAAGTTTTTGGAA
24535011 GTTCTGGTTGAATTAAGTTTTTGGAA
1 GTTCTGGTTGAATTAAGTTTTTGGAA
24535037 GT
1 GT
24535039 CATGAGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.46
Consensus pattern (26 bp):
GTTCTGGTTGAATTAAGTTTTTGGAA
Found at i:24541526 original size:26 final size:27
Alignment explanation
Indices: 24541472--24541526 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
24541462 GTACATAGTA
* * *
24541472 CCTGCTAAATAAAACATCAGCATAGAG
1 CCTGCTAAATAAAACACCAGCACAAAG
*
24541499 CCTGCT-AATATAACACCAGCACAAAG
1 CCTGCTAAATAAAACACCAGCACAAAG
24541525 CC
1 CC
24541527 GACTACGCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.42, C:0.29, G:0.13, T:0.16
Consensus pattern (27 bp):
CCTGCTAAATAAAACACCAGCACAAAG
Found at i:24553184 original size:46 final size:46
Alignment explanation
Indices: 24553134--24553306 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
24553124 TGGTTGAGCA
24553134 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
24553180 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
24553225 CATCCGGACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
24553273 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24553307 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.57
47 26 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24553290 original size:93 final size:93
Alignment explanation
Indices: 24553131--24553301 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
24553121 GGATGGTTGA
* *
24553131 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24553196 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCTGAGTTCGTGAAATGTAACTAG
* * *
24553224 GCATCCGGACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24553289 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
24553302 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAAATGTAACTAG
Found at i:24557744 original size:93 final size:93
Alignment explanation
Indices: 24557631--24557802 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24557621 CACCCATAAG
* *
24557631 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24557696 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
24557724 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24557789 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
24557803 TCAATCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:24557799 original size:46 final size:46
Alignment explanation
Indices: 24557624--24557799 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
24557614 TGTAACCCAC
* * *
24557624 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
24557670 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
24557720 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
24557763 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
24557800 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 10, 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 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:24570259 original size:47 final size:47
Alignment explanation
Indices: 24570200--24570550 Score: 576
Period size: 47 Copynumber: 7.5 Consensus size: 47
24570190 ATTCAGCCAA
* *
24570200 GAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
24570247 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
24570294 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
24570341 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
24570388 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
24570435 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
24570482 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
24570529 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
24570551 TCCCGAAGGG
Statistics
Matches: 287, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 287 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:24570725 original size:37 final size:37
Alignment explanation
Indices: 24570669--24570747 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
24570659 CCGAGCTCTA
* *
24570669 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
24570706 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
24570743 AAGAC
1 AAGAC
24570748 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:24572619 original size:40 final size:40
Alignment explanation
Indices: 24572564--24572869 Score: 459
Period size: 40 Copynumber: 7.5 Consensus size: 40
24572554 GAGAATTGAG
* *
24572564 AGTGATATATACGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
24572604 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
24572644 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGA-G-G-A----GCATTCGTGCT
* *
24572691 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
24572731 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
24572771 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTTCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
24572811 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
24572851 AGTAATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
24572870 ACCTCGAAGA
Statistics
Matches: 245, Mismatches: 14, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
40 203 0.83
41 1 0.00
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 36 0.15
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:24572790 original size:127 final size:120
Alignment explanation
Indices: 24572564--24572869 Score: 477
Period size: 127 Copynumber: 2.5 Consensus size: 120
24572554 GAGAATTGAG
* * *
24572564 AGTGATATATACGGGCTAAGCCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
24572629 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGGCATTCGTGCT
66 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTC-G---T--T-CT
*
24572691 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
24572756 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTTCT
66 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTTCT
* * * *
24572811 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATATATCCGTGCTAA
1 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAA
24572870 ACCTCGAAGA
Statistics
Matches: 170, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
120 56 0.33
121 1 0.01
123 1 0.01
126 1 0.01
127 111 0.65
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (120 bp):
AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTTCT
Found at i:24576472 original size:47 final size:47
Alignment explanation
Indices: 24576413--24576706 Score: 401
Period size: 47 Copynumber: 6.5 Consensus size: 47
24576403 ATTCAGCCAA
*
24576413 GAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
24576460 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
24576507 GAAA--G------TGT-AT-AGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
24576544 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
24576591 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * * *
24576638 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
24576685 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
24576707 TCCCGAAGGG
Statistics
Matches: 222, Mismatches: 15, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
37 30 0.14
38 2 0.01
39 4 0.02
45 4 0.02
46 2 0.01
47 180 0.81
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:24576522 original size:37 final size:37
Alignment explanation
Indices: 24576480--24576601 Score: 145
Period size: 37 Copynumber: 3.0 Consensus size: 37
24576470 ATATGTGATA
*
24576480 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
24576517 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGGCCTAATAGCCGATGTGATGAATGTGAAA--G------TGT-AT
24576563 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 -AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
24576601 A
1 A
24576602 TATGTGATAA
Statistics
Matches: 74, Mismatches: 1, Indels: 20
0.78 0.01 0.21
Matches are distributed among these distances:
37 31 0.42
38 2 0.03
39 4 0.05
45 4 0.05
46 2 0.03
47 31 0.42
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (37 bp):
AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:24576532 original size:84 final size:86
Alignment explanation
Indices: 24576426--24576691 Score: 365
Period size: 84 Copynumber: 3.0 Consensus size: 86
24576416 AGTATATATA
24576426 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
24576491 CCGATGTGATGAATGTGAAAG
66 CCGATGTGATGAATGTGAAAG
*
24576512 TGT-AT-AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
24576575 CCGATGTGATGAATGTGAAAGTG
66 CCGATGTGATGAATGTGAAA--G
* * *
24576598 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 ------TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * *
24576663 GAGTGGCCAACGTGATGGATGTGAAAG
60 TAATGGCCGATGTGATGAATGTGAAAG
24576690 TG
1 TG
24576692 CATAAATGTG
Statistics
Matches: 160, Mismatches: 10, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
84 77 0.48
85 2 0.01
86 6 0.04
92 4 0.03
93 2 0.01
94 69 0.43
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.28
Consensus pattern (86 bp):
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAG
Found at i:24576647 original size:131 final size:131
Alignment explanation
Indices: 24576413--24576648 Score: 463
Period size: 131 Copynumber: 1.8 Consensus size: 131
24576403 ATTCAGCCAA
24576413 GAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
24576478 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAGGCCTAATAGCCGATGTGATGAATG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAGGCCTAATAGCCGATGTGATGAATG
24576543 T
131 T
*
24576544 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
24576609 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
24576649 TATGTGACAG
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 104 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (131 bp):
GAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAGGCCTAATAGCCGATGTGATGAATG
T
Found at i:24576881 original size:37 final size:37
Alignment explanation
Indices: 24576825--24576903 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
24576815 CCGAGCTTTA
* *
24576825 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
24576862 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
24576899 AAGAC
1 AAGAC
24576904 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:24583266 original size:46 final size:46
Alignment explanation
Indices: 24583216--24583388 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
24583206 TGGTTGAGCA
*
24583216 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
24583262 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
24583307 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
24583355 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24583389 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24583372 original size:93 final size:93
Alignment explanation
Indices: 24583213--24583383 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
24583203 GGATGGTTGA
* * * *
24583213 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24583278 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
24583306 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24583371 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24583384 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:24585163 original size:49 final size:49
Alignment explanation
Indices: 24585083--24585214 Score: 169
Period size: 49 Copynumber: 2.7 Consensus size: 49
24585073 CCACATCAAA
* * *
24585083 GTCGAT-CCATGTCCCAGATA-AGTCTTGCACTGACTTTCATATATCGAT
1 GTCGATGCCATGTCCCAGACAGA-TCTTACACTGACTCTCATATATCGAT
* * * *
24585131 GTCGATGCCATGTCCTAGACAGATCTTACACTGGCTCTCATCTATCGGT
1 GTCGATGCCATGTCCCAGACAGATCTTACACTGACTCTCATATATCGAT
*
24585180 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGACAGATCTTACACTGAC
24585215 ACACAACAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
48 6 0.08
49 65 0.90
50 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGATCTTACACTGACTCTCATATATCGAT
Found at i:24585298 original size:48 final size:48
Alignment explanation
Indices: 24585232--24585446 Score: 226
Period size: 46 Copynumber: 4.6 Consensus size: 48
24585222 AAACAGATGC
* * *
24585232 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCAAGGCCAATG
* * * **
24585280 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGTTG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCAAGGCCAATG
* * *
24585326 CATGTCCCAGACATGTCTTACAGTGGCTTGTACATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCAAGGCCAATG
* * *
24585374 CATATCCCAGACATGTCTTACACTAGCTCTCGTA-ATGT---GGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-GTACATCTCAAGGCCAATG
* *
24585420 CATGTCCTAGACATGTCTTATACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
24585447 ACACATATCA
Statistics
Matches: 139, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
46 67 0.48
47 4 0.03
48 61 0.44
49 4 0.03
50 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCAAGGCCAATG
Found at i:24585355 original size:94 final size:93
Alignment explanation
Indices: 24585227--24585446 Score: 300
Period size: 94 Copynumber: 2.3 Consensus size: 93
24585217 ACAACAAACA
* * *
24585227 GATGCCATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCCAATGCATGTCCCAGAC
1 GATG-CATGTCCTAGACATGTCTTACACTAGCTTGTACATCTCAAGGCCAATGCATATCCCAGAC
24585292 ATGTCTTACACTAGCTCTCGTCTCAA-T-GCC
65 ATGTCTTACACTAGCTCTCG--T-AAGTGGCC
* * * * *
24585322 GTTGCATGTCCCAGACATGTCTTACAGTGGCTTGTACATCTCGAGGCCAATGCATATCCCAGACA
1 GATGCATGTCCTAGACATGTCTTACACTAGCTTGTACATCTCAAGGCCAATGCATATCCCAGACA
24585387 TGTCTTACACTAGCTCTCGTAATGTGGCC
66 TGTCTTACACTAGCTCTCGTAA-GTGGCC
*
24585416 GATGCATGTCCTAGACATGTCTTATACTAGC
1 GATGCATGTCCTAGACATGTCTTACACTAGC
24585447 ACACATATCA
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 1 0.01
94 102 0.94
95 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (93 bp):
GATGCATGTCCTAGACATGTCTTACACTAGCTTGTACATCTCAAGGCCAATGCATATCCCAGACA
TGTCTTACACTAGCTCTCGTAAGTGGCC
Found at i:24586137 original size:20 final size:20
Alignment explanation
Indices: 24586112--24586150 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24586102 ACGATTTCAA
24586112 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
24586132 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
24586151 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:24587990 original size:24 final size:24
Alignment explanation
Indices: 24587963--24588018 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
24587953 ATATTATTTG
24587963 AATTAGATTAGATTAATCAAATTA
1 AATTAGATTAGATTAATCAAATTA
* *
24587987 AATTAAATTAGATTAATCAATTTA
1 AATTAGATTAGATTAATCAAATTA
24588011 AATT-GATT
1 AATTAGATT
24588019 GAATTGAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
AATTAGATTAGATTAATCAAATTA
Found at i:24592225 original size:11 final size:10
Alignment explanation
Indices: 24592209--24592234 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24592199 TTCTGTGAGG
24592209 TTTTTTTTTC
1 TTTTTTTTTC
24592219 TTTTTTTTTC
1 TTTTTTTTTC
24592229 TTTTTT
1 TTTTTT
24592235 ACCAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:24592774 original size:19 final size:19
Alignment explanation
Indices: 24592752--24592806 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
24592742 ATAAAAATTT
24592752 TAAAATATATTTAAAA-AAA
1 TAAAA-ATATTTAAAATAAA
*
24592771 TAAAAAT-TATGAAAATAAA
1 TAAAAATAT-TTAAAATAAA
24592790 TAAAAACTATTTAAAAT
1 TAAAAA-TATTTAAAAT
24592807 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 1 0.03
18 7 0.23
19 14 0.47
20 7 0.23
21 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAATATTTAAAATAAA
Found at i:24592795 original size:28 final size:27
Alignment explanation
Indices: 24592730--24592795 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
24592720 TTTCATATTT
* *
24592730 TAAATATAAAAAATAAAAATTTTAAAA
1 TAAATAAAAAAAATAAAAATTTGAAAA
* *
24592757 TATATTTAAAAAAATAAAAATTATGAAAA
1 TA-AATAAAAAAAATAAAAATT-TGAAAA
24592786 TAAATAAAAA
1 TAAATAAAAA
24592796 CTATTTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 2 0.06
28 22 0.71
29 7 0.23
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (27 bp):
TAAATAAAAAAAATAAAAATTTGAAAA
Found at i:24592820 original size:26 final size:28
Alignment explanation
Indices: 24592773--24592837 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 28
24592763 TAAAAAAATA
*
24592773 AAAATTATGAAAATAAATAAAA-ACTATTT
1 AAAATTA-AAAAATAAATAAAAGA-TATTT
*
24592802 AAAATTAAAAAAT-AA-AAAAGATTTTT
1 AAAATTAAAAAATAAATAAAAGATATTT
24592828 AAAATATAAA
1 AAAAT-TAAA
24592838 TAAAAATTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 13 0.41
27 7 0.22
28 5 0.16
29 7 0.22
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (28 bp):
AAAATTAAAAAATAAATAAAAGATATTT
Found at i:24595452 original size:11 final size:11
Alignment explanation
Indices: 24595436--24595474 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
24595426 AAACAGTAGG
24595436 AAACAACAACA
1 AAACAACAACA
* *
24595447 AAACAATAAAA
1 AAACAACAACA
24595458 AAACAACAACA
1 AAACAACAACA
24595469 AAACAA
1 AAACAA
24595475 TAGTTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.77, C:0.21, G:0.00, T:0.03
Consensus pattern (11 bp):
AAACAACAACA
Found at i:24596147 original size:18 final size:18
Alignment explanation
Indices: 24596120--24596175 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
24596110 TTTAAATTTT
*
24596120 ATTTAATATTTTTATAAA
1 ATTTATTATTTTTATAAA
*
24596138 ATTTATTATTGATTTA-CAA
1 ATTTATTATT--TTTATAAA
* *
24596157 ATTTATAATTTTTTTAAA
1 ATTTATTATTTTTATAAA
24596175 A
1 A
24596176 AATATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.10
18 12 0.40
19 11 0.37
20 4 0.13
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTTATTATTTTTATAAA
Found at i:24596172 original size:19 final size:18
Alignment explanation
Indices: 24596108--24596175 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 18
24596098 TATTTTGAAC
*
24596108 TTTTTAAATTTTATTTAATAT
1 TTTTTAAAATTTA--TAAT-T
*
24596129 TTTTATAAAATTTATTATT
1 TTTT-TAAAATTTATAATT
**
24596148 GATTTACAAATTTATAATT
1 TTTTTA-AAATTTATAATT
24596167 TTTTTAAAA
1 TTTTTAAAA
24596176 AATATTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
18 5 0.13
19 18 0.47
20 3 0.08
21 4 0.11
22 8 0.21
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (18 bp):
TTTTTAAAATTTATAATT
Found at i:24596206 original size:21 final size:21
Alignment explanation
Indices: 24596167--24596206 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24596157 ATTTATAATT
**
24596167 TTTTTAAAAAATATTTTTTAA
1 TTTTTAAAAAATAAGTTTTAA
24596188 TTTTTAAAAAATAAGTTTT
1 TTTTTAAAAAATAAGTTTT
24596207 GAAATAAATG
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTTAAAAAATAAGTTTTAA
Found at i:24603996 original size:20 final size:19
Alignment explanation
Indices: 24603951--24603988 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
24603941 GAGCGAAAGG
24603951 AACGAG-AAACGGGCCAAA
1 AACGAGAAAACGGGCCAAA
*
24603969 AACGGAGAAAATGGGCCAAA
1 AAC-GAGAAAACGGGCCAAA
24603989 GTACGAGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 3 0.18
20 11 0.65
ACGTcount: A:0.50, C:0.18, G:0.29, T:0.03
Consensus pattern (19 bp):
AACGAGAAAACGGGCCAAA
Found at i:24604396 original size:29 final size:29
Alignment explanation
Indices: 24604354--24604411 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
24604344 TCCCTCCAGG
24604354 AGTTTTAGGTTTTCTTTATGTGTTGTATT
1 AGTTTTAGGTTTTCTTTATGTGTTGTATT
* *
24604383 AGTTTTGGGTTTTCTTTATGTTTTGTATT
1 AGTTTTAGGTTTTCTTTATGTGTTGTATT
24604412 CTTTATTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.12, C:0.03, G:0.21, T:0.64
Consensus pattern (29 bp):
AGTTTTAGGTTTTCTTTATGTGTTGTATT
Found at i:24604553 original size:14 final size:13
Alignment explanation
Indices: 24604533--24604564 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
24604523 AATATTTAAC
24604533 TTGTTCTTAATTA
1 TTGTTCTTAATTA
24604546 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
24604560 TTGTT
1 TTGTT
24604565 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:24605700 original size:48 final size:48
Alignment explanation
Indices: 24605639--24605732 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
24605629 TGATGTACTC
* * * *
24605639 ATATCGATGCCAATGCCATGTCCCAGACATTGTCTTACATGGGATCAT
1 ATATCAATGCCAATGCCATATCCCAGACATGGTCTTACACGGGATCAT
* * *
24605687 ATATCAATTCCAATGCCATATCCCAGATATGGTCTTATACGGGATC
1 ATATCAATGCCAATGCCATATCCCAGACATGGTCTTACACGGGATC
24605733 TCATCAACCC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (48 bp):
ATATCAATGCCAATGCCATATCCCAGACATGGTCTTACACGGGATCAT
Found at i:24609144 original size:2 final size:2
Alignment explanation
Indices: 24609122--24609160 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
24609112 TAAATACCAA
* *
24609122 AT AT A- AT AT AT AC AT AC 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
24609161 GATTTAATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:24629873 original size:57 final size:58
Alignment explanation
Indices: 24629780--24629918 Score: 138
Period size: 57 Copynumber: 2.4 Consensus size: 58
24629770 AAAAACAATA
* ** ** * * *
24629780 GGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAA-GAGCTT-GATCT
1 GGATTACCCGTCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGGA-CTTAGATCC
* * *
24629837 GGATTACCCGTCCTGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTATATCC
1 GGATTACCCGTCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGGACTTAGATCC
* *
24629895 AGATTACCCGTCCGGGCTAAATCC
1 GGATTACCCGTCCAGGCTAAATCC
24629919 TTTCATAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
57 40 0.60
58 27 0.40
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (58 bp):
GGATTACCCGTCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGGACTTAGATCC
Found at i:24632831 original size:42 final size:42
Alignment explanation
Indices: 24632722--24632887 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 42
24632712 AGATATGTGT
* ** *
24632722 TTTCGTGTAAGACCATGTCTAGGATGTTGGCATTG-ATTTGAAA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATATG--A
* *
24632765 TTTACGTGTAAGACCATGTTTGGGACATTTGCATTGTATATGA
1 TTT-CGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGA
* * * * * *
24632808 TTTCGTGTAAGATCTTGTCTGGGATAGTGGCATCGATATTTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTG-TATATGA
* * *
24632851 TTACATGTAAGACCACGTCTGGGACATTGGCATTGTA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTA
24632888 CAAGTTTTTC
Statistics
Matches: 98, Mismatches: 22, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 27 0.28
43 40 0.41
44 27 0.28
45 4 0.04
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGA
Found at i:24636940 original size:7 final size:7
Alignment explanation
Indices: 24636883--24636940 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
24636873 CTAGTCAATA
24636883 GGTTTAG
1 GGTTTAG
*
24636890 GCTTTAG
1 GGTTTAG
24636897 GGTTTAG
1 GGTTTAG
* *
24636904 GGCTTAA
1 GGTTTAG
*
24636911 GGTTTAA
1 GGTTTAG
*
24636918 GGTTTAA
1 GGTTTAG
24636925 GGTTTAG
1 GGTTTAG
24636932 GGTTTAG
1 GGTTTAG
24636939 GG
1 GG
24636941 GTGAAACATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.19, C:0.03, G:0.38, T:0.40
Consensus pattern (7 bp):
GGTTTAG
Found at i:24642338 original size:39 final size:39
Alignment explanation
Indices: 24642291--24642422 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
24642281 TATATGAGAT
*
24642291 TGGAAATATATCAGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
24642330 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATAC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * **
24642369 TGGAAATAAATCCGGACTTGATGTCCGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
24642408 TGGAAAAATATCCGG
1 TGGAAATATATCCGG
24642423 GTTAAAGACC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:24642436 original size:78 final size:78
Alignment explanation
Indices: 24642291--24642440 Score: 176
Period size: 78 Copynumber: 1.9 Consensus size: 78
24642281 TATATGAGAT
* * * * **
24642291 TGGAAATATATCAGGACATGAGGTCCGCAGGCTATATGCTGGAAATATATCCGGACATGAGGTCC
1 TGGAAATAAATCAGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCC
24642356 GCAGGCTATATAC
66 GCAGGCTATATAC
* * * * **
24642369 TGGAAATAAATCCGGACTTGATGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACC
1 TGGAAATAAATCAGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACC
24642433 CGCAGGCT
65 CGCAGGCT
24642441 TACGCTAGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
77 1 0.02
78 58 0.98
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (78 bp):
TGGAAATAAATCAGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCC
GCAGGCTATATAC
Found at i:24650235 original size:39 final size:39
Alignment explanation
Indices: 24650189--24650320 Score: 228
Period size: 39 Copynumber: 3.4 Consensus size: 39
24650179 TATATGAGAT
24650189 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
24650228 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* **
24650267 TGGAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
24650306 TGGAAAAATATCCGG
1 TGGAAATATATCCGG
24650321 GTTAAAGACC
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:24653272 original size:79 final size:79
Alignment explanation
Indices: 24653137--24653317 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 79
24653127 CGGATGATAA
** *
24653137 CCGGGCTAAGCCCGAAGGCATTTGCGTTAGTGACTAGTTCCGGGCTAAGTCTCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGT
*
24653202 GCGAGTTACTATAT
66 GCGAGTTACTACAT
* * * *
24653216 CCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAGGTCCCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTTG
24653280 TGCGAGTTACTACAT
65 TGCGAGTTACTACAT
* *
24653295 CCGGGCTATGTCCTGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATT
24653318 CGAGTGAGTA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 1 0.01
79 77 0.87
80 11 0.12
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTACAT
Found at i:24653337 original size:40 final size:40
Alignment explanation
Indices: 24653137--24653352 Score: 244
Period size: 40 Copynumber: 5.5 Consensus size: 40
24653127 CGGATGATAA
* ** *
24653137 CCGGGCTAAG-CCCGAAGGCATTTGCGTTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
24653176 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
24653216 CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
24653255 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
24653295 CCGGGCTATGTCCTGAAGGCATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
24653335 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24653353 TACCTGGCTT
Statistics
Matches: 153, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 61 0.40
40 92 0.60
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:24653348 original size:79 final size:79
Alignment explanation
Indices: 24653137--24653352 Score: 231
Period size: 79 Copynumber: 2.7 Consensus size: 79
24653127 CGGATGATAA
* * ** * * *
24653137 CCGGGCTAAGCCCGAAGGCATTTGCGTTAGTGACTAGT-TCCGGGCTAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTCGAGCGAGTTACTA-TATCCGGGCTAAATCCCGAAGGCATTTG
*
24653201 TGCGAGTTACTATAT
65 TGCGAGTTACTACAT
* * * **
24653216 CCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAGGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTCGAGCGAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGT
24653281 GCGAGTTACTACAT
66 GCGAGTTACTACAT
* * * *
24653295 CCGGGCTATGTCCTGAAGGCATTCGAGTGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTCGAGCGAGTTA-CTATATCCGGGCTAAATCCCGAAGG
24653353 TACCTGGCTT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 92 0.79
80 24 0.21
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTCGAGCGAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGT
GCGAGTTACTACAT
Found at i:24655519 original size:30 final size:30
Alignment explanation
Indices: 24655483--24655544 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
24655473 TTATGTTTTG
24655483 TAATGTGTATATCATGCTATGTAATATGGC
1 TAATGTGTATATCATGCTATGTAATATGGC
*
24655513 TAATGTGTATATCATGCTATGTGATATGGC
1 TAATGTGTATATCATGCTATGTAATATGGC
24655543 TA
1 TA
24655545 GAATATGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (30 bp):
TAATGTGTATATCATGCTATGTAATATGGC
Found at i:24655534 original size:16 final size:16
Alignment explanation
Indices: 24655485--24655539 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
24655475 ATGTTTTGTA
24655485 ATGTGTATATCATGCT
1 ATGTGTATATCATGCT
24655501 A--TGTA-AT-ATGGCT
1 ATGTGTATATCAT-GCT
24655514 AATGTGTATATCATGCT
1 -ATGTGTATATCATGCT
24655531 ATGTG-ATAT
1 ATGTGTATAT
24655540 GGCTAGAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
12 2 0.06
13 5 0.15
14 5 0.15
15 4 0.12
16 10 0.30
17 5 0.15
18 2 0.06
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (16 bp):
ATGTGTATATCATGCT
Found at i:24661684 original size:28 final size:28
Alignment explanation
Indices: 24661644--24661772 Score: 204
Period size: 28 Copynumber: 4.6 Consensus size: 28
24661634 ATTGCATGAC
24661644 TATGAATGTGATTGGGGCCAATGGGCCA
1 TATGAATGTGATTGGGGCCAATGGGCCA
24661672 TATGAATGTGATTGGGGCCAATGGGCCA
1 TATGAATGTGATTGGGGCCAATGGGCCA
*
24661700 TATGAATGTGATTGGGGCCGATGGGCCA
1 TATGAATGTGATTGGGGCCAATGGGCCA
* **
24661728 TATGAATGTAATTTAGGCCTAATGGGCCA
1 TATGAATGTGATTGGGGCC-AATGGGCCA
*
24661757 TATGAATGAGATTGGG
1 TATGAATGTGATTGGG
24661773 TATAGTGGGC
Statistics
Matches: 91, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 71 0.78
29 20 0.22
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGGCCAATGGGCCA
Found at i:24661782 original size:57 final size:56
Alignment explanation
Indices: 24661644--24661794 Score: 171
Period size: 57 Copynumber: 2.7 Consensus size: 56
24661634 ATTGCATGAC
* * * *
24661644 TATGAATGTGATTGGGGCCA-ATGGGCCATATGAATGTGATTGGGGCCAATGGGCCA
1 TATGAATGAGATT-GGGACAGATGGGCCATATGAATGTAATTGAGGCCAATGGGCCA
* * * *
24661700 TATGAATGTGATTGGGGCCGATGGGCCATATGAATGTAATTTAGGCCTAATGGGCCA
1 TATGAATGAGATTGGGACAGATGGGCCATATGAATGTAATTGAGGCC-AATGGGCCA
* *
24661757 TATGAATGAGATTGGGTATAG-TGGGCCATATGCATGTA
1 TATGAATGAGATTGGG-ACAGATGGGCCATATGAATGTA
24661795 TGTAGACTTG
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
55 4 0.05
56 37 0.45
57 40 0.49
58 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.28
Consensus pattern (56 bp):
TATGAATGAGATTGGGACAGATGGGCCATATGAATGTAATTGAGGCCAATGGGCCA
Found at i:24665978 original size:15 final size:15
Alignment explanation
Indices: 24665958--24666011 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24665948 TAGGCCGTGT
24665958 GACACACACGGCTGA
1 GACACACACGGCTGA
* *
24665973 GACACATACTGG-TGT
1 GACACACAC-GGCTGA
*
24665988 GGCACACACGGCTGA
1 GACACACACGGCTGA
*
24666003 GACATACAC
1 GACACACAC
24666012 CCGTGCCTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 2 0.07
15 26 0.87
16 2 0.07
ACGTcount: A:0.31, C:0.30, G:0.26, T:0.13
Consensus pattern (15 bp):
GACACACACGGCTGA
Found at i:24677445 original size:46 final size:46
Alignment explanation
Indices: 24677392--24677564 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
24677382 TGGTTGAGCA
*
24677392 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
24677438 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
24677485 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
24677531 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24677565 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:24677548 original size:93 final size:93
Alignment explanation
Indices: 24677389--24677559 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
24677379 GGATGGTTGA
* * *
24677389 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
24677454 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
24677482 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
24677547 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24677560 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24680680 original size:17 final size:18
Alignment explanation
Indices: 24680643--24680681 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
24680633 AGTATAAATG
24680643 TTAATTTTATTACTAACT
1 TTAATTTTATTACTAACT
*
24680661 TTAATTTTATTA-TTACT
1 TTAATTTTATTACTAACT
24680678 TTAA
1 TTAA
24680682 GGTCTATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATTTTATTACTAACT
Found at i:24685074 original size:93 final size:93
Alignment explanation
Indices: 24684961--24685132 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
24684951 CGCCCATAAG
*
24684961 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24685026 ACGACCTCGGATGCCTAGTTACATCTCA
66 ACGACCTCGGATGCCTAGTTACATCTCA
*
24685054 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
**
24685119 ACGAGTTCGGATGC
66 ACGACCTCGGATGC
24685133 TCAATCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGACCTCGGATGCCTAGTTACATCTCA
Found at i:24685129 original size:46 final size:46
Alignment explanation
Indices: 24684954--24685129 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
24684944 TGTAACCCGC
*
24684954 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
24685000 CCATAAGTGAACTCGGACTCAACTCAACGACCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
24685050 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
24685093 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
24685130 TGCTCAATCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 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 63 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:24692602 original size:18 final size:18
Alignment explanation
Indices: 24692588--24692628 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24692578 CTCTATCACT
*
24692588 TCATATACATATATCTTA
1 TCATATACATATATCCTA
*
24692606 TCATATACATATAT-ATA
1 TCATATACATATATCCTA
24692623 TCATAT
1 TCATAT
24692629 CAATCCATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (18 bp):
TCATATACATATATCCTA
Found at i:24694060 original size:56 final size:56
Alignment explanation
Indices: 24694000--24694133 Score: 241
Period size: 56 Copynumber: 2.4 Consensus size: 56
24693990 TCCTAGATAG
*
24694000 GGTCTTACTCGCACACATATATCAGAGTCGCATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATAAAACGT
*
24694056 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAATGTATAAAACGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATAAAACGT
*
24694112 GGCCTTACTCGCACACATATAT
1 GGTCTTACTCGCACACATATAT
24694134 TGATGCCATG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATAAAACGT
Found at i:24705203 original size:42 final size:42
Alignment explanation
Indices: 24705095--24705220 Score: 121
Period size: 43 Copynumber: 3.0 Consensus size: 42
24705085 GCTCATACAG
* *
24705095 TGCCAACGTCCTAGACATGGTCTTACATGTAAACAAATATCAA
1 TGCCAATGTCCTAGACGTGGTCTTACATG-AAACAAATATCAA
* * * *
24705138 TTCCATTGTCCTAGGCAG-GGTCTTACATGAAATCAAATAT-GA
1 TGCCAATGTCCTAGAC-GTGGTCTTACATGAAA-CAAATATCAA
* * *
24705180 TGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATC
1 TGCCAATGTCCTAGACGTGGTCTTACATG-AAACAAATATC
24705221 GGATCCTATG
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.02
42 32 0.48
43 33 0.50
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
TGCCAATGTCCTAGACGTGGTCTTACATGAAACAAATATCAA
Found at i:24706307 original size:13 final size:13
Alignment explanation
Indices: 24706289--24706313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24706279 ACAAACGGTT
24706289 AAATTTTCACACG
1 AAATTTTCACACG
24706302 AAATTTTCACAC
1 AAATTTTCACAC
24706314 ATACTAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:24716310 original size:40 final size:40
Alignment explanation
Indices: 24716078--24716303 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
24716068 TGGAATGATG
* * * * *
24716078 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
24716118 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
24716158 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24716198 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
24716238 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
24716279 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
24716304 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 160 0.94
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24724280 original size:80 final size:79
Alignment explanation
Indices: 24724143--24724296 Score: 222
Period size: 80 Copynumber: 1.9 Consensus size: 79
24724133 ACTAAGATCT
* **
24724143 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAA
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAA
24724207 ATCCGGGTTAAGTCCC
65 ATCC-GGTTAAGTCCC
* *
24724223 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTAT
1 GAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAA
24724287 ATCCGGTTAA
65 ATCCGGTTAA
24724297 ATTTCGAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
79 8 0.12
80 57 0.85
81 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAA
TCCGGTTAAGTCCC
Found at i:24724287 original size:40 final size:40
Alignment explanation
Indices: 24724088--24724273 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
24724078 TTGAATGATG
* * * * *
24724088 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
24724128 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
24724168 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
24724208 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
24724249 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
24724274 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24727112 original size:40 final size:40
Alignment explanation
Indices: 24727055--24727236 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
24727045 AACCCAAGTA
* * *
24727055 CCTTCAGGATTTA-CCCGGATATAG-CAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCA-CTAGCACAAATG
* *
24727094 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
24727134 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
24727174 TCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
24727214 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
24727237 CATTCGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 10 0.08
40 117 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:24729804 original size:93 final size:93
Alignment explanation
Indices: 24729690--24729861 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
24729680 CGCCCATAAG
* *
24729690 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTAAAGTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
*
24729755 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* * *
24729783 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
24729848 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
24729862 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:24729858 original size:46 final size:46
Alignment explanation
Indices: 24729683--24729858 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
24729673 TGTAACCCGC
* *
24729683 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
** * *
24729729 CCATAAGTAAAGTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
24729779 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
24729822 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
24729859 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 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 59 0.56
47 26 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:24736770 original size:14 final size:14
Alignment explanation
Indices: 24736751--24736790 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
24736741 AATTAGTACA
24736751 GTTTTTCTAGAATT
1 GTTTTTCTAGAATT
24736765 GTTTTTCTAGAA-T
1 GTTTTTCTAGAATT
24736778 G-TTTTCTAGAATT
1 GTTTTTCTAGAATT
24736791 TTGGTCAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 12 0.48
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.55
Consensus pattern (14 bp):
GTTTTTCTAGAATT
Found at i:24737990 original size:40 final size:40
Alignment explanation
Indices: 24737916--24738097 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
24737906 AACCCAAGTA
* *
24737916 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
24737955 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
24737995 CCTTCGGGACTTGGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
24738035 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
24738075 CCTTCGGGACTTAGACCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
24738098 CATTCGAATA
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.09
40 116 0.89
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:24760013 original size:16 final size:16
Alignment explanation
Indices: 24759992--24760024 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24759982 AACTAAATTC
24759992 TCTGCTCATCTCTTCT
1 TCTGCTCATCTCTTCT
*
24760008 TCTGCTCATCTTTTCT
1 TCTGCTCATCTCTTCT
24760024 T
1 T
24760025 TTTCTTTTGG
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:0.06, C:0.33, G:0.06, T:0.55
Consensus pattern (16 bp):
TCTGCTCATCTCTTCT
Found at i:24761262 original size:27 final size:27
Alignment explanation
Indices: 24761222--24761332 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
24761212 AGGAAGCGTC
* *
24761222 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
*
24761249 CTGGTGGTTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
*
24761276 TTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* * *
24761303 CTGGTGACCCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
24761329 CTGG
1 CTGG
24761333 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 16 0.22
27 55 0.75
28 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:24766005 original size:46 final size:46
Alignment explanation
Indices: 24765931--24766058 Score: 184
Period size: 46 Copynumber: 2.8 Consensus size: 46
24765921 GTAACCCGCC
* * * *
24765931 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATA
* * * *
24765977 CATGAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATA
24766023 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24766059 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATA
Found at i:24766077 original size:46 final size:44
Alignment explanation
Indices: 24765938--24766077 Score: 115
Period size: 46 Copynumber: 3.0 Consensus size: 44
24765928 GCCCATAAGC
* ** *
24765938 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATACATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCAT-C-T-AGT
* *
24765984 GAACTCGGACTCAACTCAACGAGTTCAGACAT-TTGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTC-G-GATGTT-CA-CCATCTAGT
*
24766030 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCAT-CTAGT
24766076 GA
1 GA
24766078 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
44 7 0.09
45 3 0.04
46 59 0.78
47 3 0.04
48 1 0.01
50 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCTAGT
Found at i:24771834 original size:27 final size:27
Alignment explanation
Indices: 24771755--24771865 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
24771745 AGGAAGCGTC
* *
24771755 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
*
24771782 CTGGTGGCTCTGGCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
*
24771809 CTGGTGGCTCTGCCACAATTTTCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* * * * *
24771836 GTGGTGACCCTGTCA-GATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
24771862 CTGG
1 CTGG
24771866 CAGCCATGCA
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 14 0.20
27 54 0.77
28 2 0.03
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:24771841 original size:54 final size:53
Alignment explanation
Indices: 24771755--24771865 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 53
24771745 AGGAAGCGTC
* *
24771755 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGGCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACCCTGGCACAT-TATCTGTT
* * * * * *
24771809 CTGGTGGCTCTGCCACAATTTTCTGTTGTGGTGACCCTGTCAGATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACCCTGGCACATTATCTGTT
24771862 CTGG
1 CTGG
24771866 CAGCCATGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 12 0.24
54 37 0.76
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACCCTGGCACATTATCTGTT
Found at i:24778766 original size:23 final size:24
Alignment explanation
Indices: 24778729--24778773 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
24778719 ATGCTCGGAC
* *
24778729 TCATCATTCAAATAAATCAATATA
1 TCATCAATCAAATAAAACAATATA
24778753 TCATCAAT-AAATAAAACAATA
1 TCATCAATCAAATAAAACAATA
24778774 AATTTATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.29
Consensus pattern (24 bp):
TCATCAATCAAATAAAACAATATA
Found at i:24782721 original size:12 final size:12
Alignment explanation
Indices: 24782704--24782729 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24782694 GGTTTGGCAT
24782704 GGCCTAGCACAC
1 GGCCTAGCACAC
24782716 GGCCTAGCACAC
1 GGCCTAGCACAC
24782728 GG
1 GG
24782730 GTGTGTGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:24786464 original size:47 final size:47
Alignment explanation
Indices: 24786412--24786671 Score: 450
Period size: 47 Copynumber: 5.5 Consensus size: 47
24786402 GATTATTGTG
* * *
24786412 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24786459 ATGTGAAAGTGTATATATGTCATAAGG-CTGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
24786506 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24786555 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24786602 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24786649 ATGTGAAAGTGTATATATGTGAT
1 ATGTGAAAGTGTATATATGTGAT
24786672 GAATGTGAAA
Statistics
Matches: 204, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
46 2 0.01
47 157 0.77
49 43 0.21
50 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24786537 original size:96 final size:96
Alignment explanation
Indices: 24786412--24786668 Score: 452
Period size: 96 Copynumber: 2.7 Consensus size: 96
24786402 GATTATTGTG
*
24786412 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
24786475 ATGTCATAAGG-CTGAATGGCCGATGTGATGA
66 ATGTCATAAGGCCT-AATGGCCGATGTGATGA
24786506 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
24786571 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTCATAAGGCCTAATGGCCGATGTGATGA
24786602 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
24786665 ATGT
66 ATGT
24786669 GATGAATGTG
Statistics
Matches: 158, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
94 61 0.39
95 2 0.01
96 93 0.59
97 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTCATAAGGCCTAATGGCCGATGTGATGA
Found at i:24786698 original size:27 final size:25
Alignment explanation
Indices: 24786640--24786691 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
24786630 CTAATGGCCG
24786640 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
24786665 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
24786690 AT
1 AT
24786692 ATGTGATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:24786713 original size:74 final size:72
Alignment explanation
Indices: 24786593--24786740 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 72
24786583 CTAATGGCCG
*
24786593 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAG
24786658 TGTATAT
66 TGTATAT
24786665 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAA
24786730 AGTGTATAT
64 AGTGTATAT
24786739 AT
1 AT
24786741 ATGTGATAAG
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
72 20 0.27
74 53 0.73
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (72 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAG
TGTATAT
Found at i:24786720 original size:143 final size:139
Alignment explanation
Indices: 24786412--24786671 Score: 407
Period size: 143 Copynumber: 1.8 Consensus size: 139
24786402 GATTATTGTG
* * *
24786412 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24786477 GTCATAAGGCTGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTCATAAGGCTGAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGG-CTAAAG
*
24786542 GCCGATGTGATGA
129 G-CGATATGAT-A
24786555 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24786620 GTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGAT
66 GTCATAAGG-CTGAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGAT
24786672 GAATGTGAAA
Statistics
Matches: 112, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
141 12 0.11
143 98 0.88
144 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (139 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTCATAAGGCTGAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCTAAAGGC
GATATGATA
Found at i:24786783 original size:123 final size:119
Alignment explanation
Indices: 24786546--24786794 Score: 453
Period size: 123 Copynumber: 2.1 Consensus size: 119
24786536 CTAATGGCCG
*
24786546 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAG
24786611 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
24786665 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAA
24786730 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
64 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
24786788 ATGTGAT
1 ATGTGAT
24786795 AAGGCCTAAT
Statistics
Matches: 125, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
119 20 0.16
121 46 0.37
123 59 0.47
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (119 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:24786799 original size:170 final size:168
Alignment explanation
Indices: 24786497--24786843 Score: 658
Period size: 170 Copynumber: 2.1 Consensus size: 168
24786487 TGAATGGCCG
*
24786497 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAA
24786562 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
24786627 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
131 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
24786665 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAA
24786730 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
24786795 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
129 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
24786835 ATGTGATGA
1 ATGTGATGA
24786844 GGCCTAATGG
Statistics
Matches: 175, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
168 68 0.39
170 107 0.61
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (168 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAA
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:24786810 original size:47 final size:47
Alignment explanation
Indices: 24786665--24786938 Score: 413
Period size: 47 Copynumber: 5.7 Consensus size: 47
24786655 AAGTGTATAT
24786665 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
24786714 ATGTGATGAATGCGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
24786763 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
24786810 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
24786857 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
24786904 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
24786939 TCCCGAAGGG
Statistics
Matches: 209, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 142 0.68
49 67 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:24786824 original size:217 final size:215
Alignment explanation
Indices: 24786451--24786887 Score: 804
Period size: 217 Copynumber: 2.0 Consensus size: 215
24786441 TAATGGCCGG
*
24786451 TGTGATGAATGTGAAAGTGTATATATGTCATAAGGCTGAATGGCCGATGTGATGAATGTGAAAGT
1 TGTGATGAATGTGAAAGTGTATATATGTCATAAGGCTGAATGGCCGATGTGATGAATGCGAAAGT
24786516 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
24786581 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
131 GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
24786646 TGAATGTGAAAGTGTATATA
196 TGAATGTGAAAGTGTATATA
*
24786666 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGCGAA
1 TGTGATGAATGTGAAAGTG--TATATATGTCATAAGG-CTGAATGGCCGATGTGATGAATGCGAA
24786730 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
63 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
*
24786795 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATG
128 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
24786860 TGATGAATGTGAAAGTGTATATA
193 TGATGAATGTGAAAGTGTATATA
24786883 TGTGA
1 TGTGA
24786888 CAGGGCCGAG
Statistics
Matches: 215, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
215 19 0.09
217 194 0.90
218 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (215 bp):
TGTGATGAATGTGAAAGTGTATATATGTCATAAGGCTGAATGGCCGATGTGATGAATGCGAAAGT
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
TGAATGTGAAAGTGTATATA
Found at i:24786919 original size:264 final size:261
Alignment explanation
Indices: 24786412--24786935 Score: 863
Period size: 264 Copynumber: 2.0 Consensus size: 261
24786402 GATTATTGTG
* *
24786412 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATAT
*
24786477 GTCATAAGGCTGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTCATAAGGCTGAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATA
24786542 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
130 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * *
24786607 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
195 AAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGAT
24786672 GA
260 GA
24786674 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATAT
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTG--TAT
*
24786739 ATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCT
62 ATATGTCATAAGG-CTGAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCT
*
24786802 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAA
126 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
24786867 TGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
191 TGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATG
24786932 TGAT
256 TGAT
24786936 AAGTCCCGAA
Statistics
Matches: 244, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
262 5 0.02
263 2 0.01
264 192 0.79
266 43 0.18
267 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (261 bp):
ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATAT
GTCATAAGGCTGAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATG
A
Found at i:24789212 original size:40 final size:40
Alignment explanation
Indices: 24789151--24789551 Score: 583
Period size: 40 Copynumber: 10.1 Consensus size: 40
24789141 AGGTCTCAAC
24789151 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
24789190 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
24789230 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
24789270 GATGTACCCGAGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
24789310 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
24789350 GATGTA-CCTGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCC-GGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
24789390 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
24789430 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
24789470 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * *
24789510 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
24789550 GA
1 GA
24789552 CGTGTATTCG
Statistics
Matches: 329, Mismatches: 28, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
39 7 0.02
40 318 0.97
41 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:24792930 original size:47 final size:47
Alignment explanation
Indices: 24792878--24793441 Score: 898
Period size: 47 Copynumber: 11.8 Consensus size: 47
24792868 GATTATTGTG
* *
24792878 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24792925 ATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
24792972 ATGTGAAAGTGTATATATATGTGATAAGG-CTGAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
24793021 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24793070 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24793117 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24793166 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
24793213 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24793260 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24793309 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24793358 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24793405 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCC
24793442 AAAGCTGAGC
Statistics
Matches: 493, Mismatches: 16, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
46 2 0.00
47 259 0.53
49 230 0.47
50 2 0.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24792985 original size:96 final size:95
Alignment explanation
Indices: 24792878--24793441 Score: 949
Period size: 96 Copynumber: 5.9 Consensus size: 95
24792868 GATTATTGTG
* * *
24792878 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
24792942 TGTGATAAGG-CTGAATGGCCGATGTGATGA
66 TGTGATAAGGCCT-AATGGCCGATGTGATGA
24792972 ATGTGAAAGTGTATATATATGTGATAAGG-CTGAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG-ATA
24793036 TATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 TATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24793070 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATAT
24793135 ATGTGATAAGGCCTAATGGCCGATGTGATGA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGA
24793166 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
* *
24793230 TGTGATAAGGCCGAATGGCCAATGTGATGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGA
24793260 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATAT
24793325 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
63 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
24793358 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
*
24793422 TGTGATAAGGCCGAATGGCC
66 TGTGATAAGGCCTAATGGCC
24793442 AAAGCTGAGC
Statistics
Matches: 449, Mismatches: 10, Indels: 22
0.93 0.02 0.05
Matches are distributed among these distances:
94 79 0.18
95 2 0.00
96 276 0.61
97 1 0.00
98 89 0.20
99 2 0.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (95 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
TGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24801622 original size:48 final size:47
Alignment explanation
Indices: 24801571--24801732 Score: 218
Period size: 48 Copynumber: 3.4 Consensus size: 47
24801561 CATGTCTTGG
* * * *
24801571 ACATGGTGTTACACTAGCACACATATCATCGTCGATGTCATGTCCCAG
1 ACATGGTCTTACACTGGCACACATATCATCG-CGATGCCATGTCCCAA
*
24801619 ACATGGTCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGGCACACATATCATCG-CGATGCCATGTCCCAA
* *
24801667 ACATGGTCTTACATTGGCACACATATCAATACG-AATGCCATGTCCCAA
1 ACATGGTCTTACACTGGCACACATATC-AT-CGCGATGCCATGTCCCAA
24801715 ACATGGTCTTACACTGGC
1 ACATGGTCTTACACTGGC
24801733 TCCCATCTCT
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
48 99 0.97
49 1 0.01
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (47 bp):
ACATGGTCTTACACTGGCACACATATCATCGCGATGCCATGTCCCAA
Found at i:24806364 original size:51 final size:48
Alignment explanation
Indices: 24806192--24806378 Score: 178
Period size: 48 Copynumber: 3.8 Consensus size: 48
24806182 AGGCTATCTA
* * *
24806192 GTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATTAGCCG
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-CAATTATCCG
* * * * ** *
24806241 GTAC-AAGTAGTAGCCTGCAGTTAGTACTACACACATGGCAACCATCTG
1 GTACGCA-TAGTAGCCTGCACTTAGTACTACACACGTGACAATTATCCG
* * * *
24806289 ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGG
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-AA-TTATCCG
* *
24806340 GTACGCATAGTAGCCTGTAGTTAGTACTACACACGTGAC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGAC
24806379 CTCACAATAG
Statistics
Matches: 109, Mismatches: 24, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
48 38 0.35
49 31 0.28
50 3 0.03
51 37 0.34
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (48 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACAATTATCCG
Found at i:24809144 original size:15 final size:15
Alignment explanation
Indices: 24809126--24809158 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24809116 GAAGTCGAGA
24809126 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
24809141 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
24809156 ATA
1 ATA
24809159 CGAGAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:24812320 original size:49 final size:49
Alignment explanation
Indices: 24812261--24812492 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
24812251 CTAGTACGCA
* *
24812261 TAGTATCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
* ** ** *
24812310 TAGTAGCCTGCACTTAATACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCTGGTACACG
* * * * *
24812360 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCTGGTACACG
*
24812411 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
*
24812460 TAGTAGCGTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
24812493 TCACAATAGA
Statistics
Matches: 155, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
49 71 0.46
50 46 0.30
51 38 0.25
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
Found at i:24812484 original size:100 final size:99
Alignment explanation
Indices: 24812261--24812492 Score: 313
Period size: 100 Copynumber: 2.3 Consensus size: 99
24812251 CTAGTACGCA
* *
24812261 TAGTATCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
24812326 ATACTACACACATGACCTAACCATCTGATACACG
66 ATACTACACACACGACCTAACCATCTGATACACG
* * * *
24812360 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* ** ** *
24812425 TAGTACTACACATGCGACC-AATTATCTGGTACACG
64 TAATACTACACACACGACCTAACCATCTGATACACG
*
24812460 TAGTAGCGTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
24812493 TCACAATAGA
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 30 0.26
100 45 0.39
101 40 0.35
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
ATACTACACACACGACCTAACCATCTGATACACG
Found at i:24817032 original size:48 final size:48
Alignment explanation
Indices: 24816992--24817261 Score: 319
Period size: 48 Copynumber: 5.6 Consensus size: 48
24816982 TATCGGTGAT
* * * *
24816992 GATGCCATCTCCCAGACATGGTCTTATACTAGCACACATATC-ATCACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGA-C
* * *
24817040 GATGCCATGTCCCAGACATGGTCTTATACTGACACATATATCAAT-ACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGA-C
* * *
24817088 GATGCCATGTCCTAGACATGGTATTACACTGGCACACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGAC
* * *
24817136 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGAC
* * * * ** *
24817184 GATGTCATGTCCCAGACATGGTCTTACACTGGCTCCCATCTTGGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACAT-ATCAATGAC
24817233 GATGCCATGTCCCAGACATGGTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
24817262 GGGATCTCAT
Statistics
Matches: 198, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
48 163 0.82
49 35 0.18
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGAC
Found at i:24817092 original size:96 final size:95
Alignment explanation
Indices: 24816992--24817261 Score: 351
Period size: 96 Copynumber: 2.8 Consensus size: 95
24816982 TATCGGTGAT
* * * *
24816992 GATGCCATCTCCCAGACATGGTCTTATACTAGCACACATATCATCACCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAT-GCCGATGCCATGTCCCAGAC
* * *
24817057 ATGGTCTTATACTGACACATATATCAATACC
65 ATGGTCTTACACTGACACACATATCAACACC
* * *
24817088 GATGCCATGTCCTAGACATGGTATTACACTGGCACACATATCAATGCCGATGCCATGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-ATGCCGATGCCATGTCCCAGAC
* *
24817153 ATGGTCTTACACTGGCACACATATCAACGCC
65 ATGGTCTTACACTGACACACATATCAACACC
* * * * *
24817184 GATGTCATGTCCCAGACATGGTCTTACACTGGCTCCCATCTTGGATGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACAT-AT-CATGCCGATGCCATGTCCCAGA
24817249 CATGGTCTTACAC
64 CATGGTCTTACAC
24817262 GGGATCTCAT
Statistics
Matches: 151, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
96 115 0.76
97 36 0.24
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (95 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGACACACATATCAACACC
Found at i:24822682 original size:40 final size:40
Alignment explanation
Indices: 24822619--24822836 Score: 359
Period size: 40 Copynumber: 5.5 Consensus size: 40
24822609 CGGATGATAA
*
24822619 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
24822659 CCGGGCTAAGTCTCGAAGACATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
24822699 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
24822739 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
24822779 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
24822819 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24822837 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 17 0.10
40 151 0.90
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:24823104 original size:22 final size:22
Alignment explanation
Indices: 24823064--24823105 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24823054 GAATGTGCAT
*
24823064 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
24823086 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
24823106 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:24830803 original size:40 final size:40
Alignment explanation
Indices: 24830725--24830822 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
24830715 CAGATGATAA
* **
24830725 CCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACTATAT
*
24830765 CCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTA-CTATAT
* * *
24830805 -CTGGCTAAATCCTGAAGG
1 CCGGGCTAAGTCCCGAAGG
24830823 TACTTGGGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 17 0.34
40 33 0.66
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACTATAT
Found at i:24831090 original size:22 final size:22
Alignment explanation
Indices: 24831050--24831091 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24831040 GAATGTGCAT
*
24831050 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
24831072 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
24831092 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:24834438 original size:19 final size:20
Alignment explanation
Indices: 24834397--24834438 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
24834387 TTTTGTAAAG
* *
24834397 TTTGTAAAATAGATGGTACT
1 TTTGTAAAATAGATGGAAAT
*
24834417 TTTGTGAAATA-ATGGAAAT
1 TTTGTAAAATAGATGGAAAT
24834436 TTT
1 TTT
24834439 AGGTTTCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (20 bp):
TTTGTAAAATAGATGGAAAT
Found at i:24835065 original size:48 final size:46
Alignment explanation
Indices: 24834952--24835069 Score: 130
Period size: 46 Copynumber: 2.5 Consensus size: 46
24834942 TACGAGAGTC
* *
24834952 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACAAAAGCT
* * * *
24834998 AGTGTAAGGCATATCTGGGACATGCATCTGC-TTCGAGATATAAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATT-GAG--ACAAAAGCT
* *
24835046 AGTGTAAGACCTGTTTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
24835070 GCGTCAGCTT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 2 0.03
46 31 0.53
48 26 0.44
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACAAAAGCT
Found at i:24835137 original size:44 final size:46
Alignment explanation
Indices: 24835089--24835207 Score: 161
Period size: 44 Copynumber: 2.6 Consensus size: 46
24835079 TGTTGTGTGT
24835089 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGAT-AG-AGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATGAGCAGC
*** *
24835133 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATGAGC-AGC
*
24835180 CAGTGTAAGACCATGTCTAGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
24835208 GTCGGCATCT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 36 0.55
45 1 0.02
47 15 0.23
48 14 0.21
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATGAGCAGC
Found at i:24842930 original size:55 final size:54
Alignment explanation
Indices: 24842835--24842984 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
24842825 CTACTTTGTT
* ** * *
24842835 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
24842889 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
24842944 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
24842985 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:24842947 original size:27 final size:27
Alignment explanation
Indices: 24842807--24842984 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
24842797 TAAATTGTAC
24842807 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
24842834 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
24842860 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
24842888 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
24842916 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
24842943 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
24842970 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24842985 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:24842948 original size:82 final size:81
Alignment explanation
Indices: 24842808--24842963 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
24842798 AAATTGTACA
* * * *
24842808 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
24842873 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
24842889 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
24842952 TGTGCGAGTTGA
63 TGTGCGAATTGA
24842964 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:24859865 original size:40 final size:40
Alignment explanation
Indices: 24859782--24860124 Score: 467
Period size: 40 Copynumber: 8.6 Consensus size: 40
24859772 TTGAATGCTG
* * * * * *
24859782 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
24859822 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
24859862 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
24859902 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
24859942 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
24859982 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
24860022 TCCGGGTTAAGTCCCGAAGACATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
24860062 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
24860101 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24860125 TGAACGAGGA
Statistics
Matches: 277, Mismatches: 23, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
39 35 0.13
40 234 0.84
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:24878174 original size:20 final size:20
Alignment explanation
Indices: 24878112--24878175 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
24878102 TTTTAAACTT
*
24878112 TTTTAAAAATATAAATTTTGAA
1 TTTTAAAAA-AT-TATTTTGAA
* *
24878134 ATTTATATAAA-TATTTTGAA
1 TTTTA-AAAAATTATTTTGAA
24878154 TTTTAAAAAATTATTTTGAA
1 TTTTAAAAAATTATTTTGAA
24878174 TT
1 TT
24878176 ATTTTATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 4 0.11
20 23 0.66
22 5 0.14
23 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTAAAAAATTATTTTGAA
Found at i:24880002 original size:15 final size:15
Alignment explanation
Indices: 24879971--24880001 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24879961 TAGAATAACC
24879971 TTCTTTTTTTTCTTT
1 TTCTTTTTTTTCTTT
24879986 TTCTTTTTTTT-TTT
1 TTCTTTTTTTTCTTT
24880000 TT
1 TT
24880002 TTTGTGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTCTTTTTTTTCTTT
Found at i:24880684 original size:12 final size:12
Alignment explanation
Indices: 24880666--24880697 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24880656 ATTAAACCAA
24880666 AAAGGCTTGACC
1 AAAGGCTTGACC
*
24880678 CAAGGCTTGACC
1 AAAGGCTTGACC
24880690 AAAGGCTT
1 AAAGGCTT
24880698 CCCATATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (12 bp):
AAAGGCTTGACC
Found at i:24896679 original size:21 final size:20
Alignment explanation
Indices: 24896648--24896690 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
24896638 TTTATACTGA
24896648 AATTTTTTTA-TTCTATGATT
1 AATTTTTTTATTTCTAT-ATT
24896668 AATTTGTTTTATTTCTATATT
1 AATTT-TTTTATTTCTATATT
24896689 AA
1 AA
24896691 AGATGTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (20 bp):
AATTTTTTTATTTCTATATT
Found at i:24905683 original size:38 final size:38
Alignment explanation
Indices: 24905632--24905864 Score: 344
Period size: 38 Copynumber: 6.1 Consensus size: 38
24905622 ATATTCGATG
24905632 TATATCC-AGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGA-GTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
24905670 TATATCCGAGTTAAATCCCGCAAGCTTCGTGCTGGTAA
1 TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
24905708 TATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAA
1 TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAA
24905746 TATATCC-AGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGA-GTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * *
24905784 TATACCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * * *
24905822 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAA
24905860 TATAT
1 TATAT
24905865 TCGGGCCTTT
Statistics
Matches: 182, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 181 0.99
39 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (38 bp):
TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:24905832 original size:114 final size:114
Alignment explanation
Indices: 24905632--24905864 Score: 394
Period size: 114 Copynumber: 2.0 Consensus size: 114
24905622 ATATTCGATG
*
24905632 TATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGAGTTAAATCCCGCAAGCTT
1 TATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATACCCGAGTTAAATCCCGCAAGCTT
* *
24905697 CGTGCTGGTAATATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAA
66 CGTGCTGGTAATATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTAA
* *
24905746 TATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATACCCGGGTTAAATCCCGCAGGCTT
1 TATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATACCCGAGTTAAATCCCGCAAGCTT
* * *
24905811 CGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
66 CGTGCTGGTAATATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTAA
24905860 TATAT
1 TATAT
24905865 TCGGGCCTTT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (114 bp):
TATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATACCCGAGTTAAATCCCGCAAGCTT
CGTGCTGGTAATATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTAA
Found at i:24917997 original size:13 final size:13
Alignment explanation
Indices: 24917979--24918003 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24917969 TTCTCTATTT
24917979 TCACACGGCCGTA
1 TCACACGGCCGTA
24917992 TCACACGGCCGT
1 TCACACGGCCGT
24918004 GTTGCCCCCA
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
TCACACGGCCGTA
Found at i:24920576 original size:12 final size:12
Alignment explanation
Indices: 24920559--24920583 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24920549 TTGAATTGTG
24920559 TTAGGTTTTAGT
1 TTAGGTTTTAGT
24920571 TTAGGTTTTAGT
1 TTAGGTTTTAGT
24920583 T
1 T
24920584 CAAAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TTAGGTTTTAGT
Found at i:24924242 original size:14 final size:14
Alignment explanation
Indices: 24924223--24924251 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24924213 AGATGAGATT
24924223 GTGTATAGACTACC
1 GTGTATAGACTACC
24924237 GTGTATAGACTACC
1 GTGTATAGACTACC
24924251 G
1 G
24924252 ACAGCTCAAC
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:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (14 bp):
GTGTATAGACTACC
Found at i:24927691 original size:110 final size:110
Alignment explanation
Indices: 24927493--24927709 Score: 398
Period size: 110 Copynumber: 2.0 Consensus size: 110
24927483 GAAAATGAAT
* * *
24927493 CATAGTTATGAAATAAATAACTTTTTTGAAAAGATTTCTCATGAAAACCCTAAAAAGGACCATTT
1 CATAGTTATGAAATAAACAACTTTTGTGAAAAGATTTATCATGAAAACCCTAAAAAGGACCATTT
*
24927558 TGCATAAGTTGTAAAATAGGTGATAAAGATGTGAAATATTGAAAC
66 TGCATAAGTTGTAAAATAAGTGATAAAGATGTGAAATATTGAAAC
24927603 CATAGTTATGAAATAAACAACTTTTGTGAAAAGATTTATCATGAAAACCCTAAAAAGGACCATTT
1 CATAGTTATGAAATAAACAACTTTTGTGAAAAGATTTATCATGAAAACCCTAAAAAGGACCATTT
24927668 TGCATAAGTTGTAAAATAAGTGATAAAGATGTGAAATATTGA
66 TGCATAAGTTGTAAAATAAGTGATAAAGATGTGAAATATTGA
24927710 GAATTTTGGA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 103 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (110 bp):
CATAGTTATGAAATAAACAACTTTTGTGAAAAGATTTATCATGAAAACCCTAAAAAGGACCATTT
TGCATAAGTTGTAAAATAAGTGATAAAGATGTGAAATATTGAAAC
Found at i:24928219 original size:47 final size:47
Alignment explanation
Indices: 24928153--24928329 Score: 159
Period size: 47 Copynumber: 3.7 Consensus size: 47
24928143 TTTATGTGCT
*
24928153 AGTGTAAGA-CATGTTTGGGACATG-CATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGACATCGG-CACATTATGAGAGCC
* * *
24928199 AGTGTAAGACCATGTCTGGGACATGACATTGGCACGGA-TACGGGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCAC--ATTA--TGAGAGCC
* *
24928249 AGTGTAAGACCATGTTTGGGACATGATATC-G-AC-TTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCACATT-AT-GA-GAGCC
* * *
24928296 AGTGTAAGACCGTGTCTGGGACATGGCATTGGCA
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCA
24928330 TTATACCCAA
Statistics
Matches: 105, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
46 12 0.11
47 47 0.45
48 10 0.10
49 3 0.03
50 33 0.31
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGACATCGGCACATTATGAGAGCC
Done.