Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 280 of 310
Found at i:92149386 original size:24 final size:25
Alignment explanation
Indices: 92149359--92149425 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
92149349 TCCCGATATT
**
92149359 GGCTCACATGAGCTTCCTGTTA-AC
1 GGCTCACATGAGCTTCCCATTACAC
** *
92149383 GGCTCTTATGAGCTTCCCATTACAT
1 GGCTCACATGAGCTTCCCATTACAC
*
92149408 GGCCCACATGAGCTTCCC
1 GGCTCACATGAGCTTCCC
92149426 GTTTCATGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.28
Consensus pattern (25 bp):
GGCTCACATGAGCTTCCCATTACAC
Found at i:92149421 original size:99 final size:101
Alignment explanation
Indices: 92149248--92149436 Score: 242
Period size: 99 Copynumber: 1.9 Consensus size: 101
92149238 CTTATGAGAA
* * ** *
92149248 TCCCAATATATGGCTCTCTTGAGCTTCCTGTTATTTGGCTCTTACGAGCTTCCCGATAATTGGCT
1 TCCCAATATATGGCTCACATGAGCTTCCTGTTATACGGCTCTTACGAGCTTCCCGATAATTGGCC
*
92149313 CTCATGAGCTTCCCGATTAATGGCTCTAAAGAGCTT
66 CACATGAGCTTCCCGATTAATGGCTCTAAAGAGCTT
* *
92149349 TCCCGATAT-TGGCTCACATGAGCTTCCTGTTA-ACGGCTCTTATGAGCTTCCC-ATTACA-TGG
1 TCCCAATATATGGCTCACATGAGCTTCCTGTTATACGGCTCTTACGAGCTTCCCGA-TA-ATTGG
* *
92149410 CCCACATGAGCTTCCCGTTTCATGGCT
64 CCCACATGAGCTTCCCGATTAATGGCT
92149437 TGAAAAAGCT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
98 1 0.01
99 45 0.59
100 22 0.29
101 8 0.11
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (101 bp):
TCCCAATATATGGCTCACATGAGCTTCCTGTTATACGGCTCTTACGAGCTTCCCGATAATTGGCC
CACATGAGCTTCCCGATTAATGGCTCTAAAGAGCTT
Found at i:92150619 original size:467 final size:467
Alignment explanation
Indices: 92149773--92150704 Score: 1767
Period size: 467 Copynumber: 2.0 Consensus size: 467
92149763 TTAGGGCTTT
*
92149773 TGGCCAATTTGTTTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAAT
1 TGGCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAAT
92149838 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
66 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
*
92149903 AACTTGGAAGCTCGTTAAGGTTGGAATCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
131 AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
92149968 CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACA
196 CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACA
*
92150033 TATAAATATTTTGTTAATATTAGCCATTTGTTTGGCTTTTATATGGTATGTATATATATATGGCC
261 TATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGCC
*
92150098 TTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTCTAGGTATGTGATGATATG
326 TTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATATG
*
92150163 TTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTGTGGCTTGTTGATGTGTTAATG
391 TTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAATG
92150228 TGTTAATATATA
456 TGTTAATATATA
*
92150240 TGGCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAATGGTAAGTTAAAT
1 TGGCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAAT
92150305 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
66 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
92150370 AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
131 AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
*
92150435 CGGTATATATAGTAAATTATTTTGATTATAATGGCATGTATAGGCTAAATTGGCCTA-TGCTGAC
196 CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCC-ACTGCTGAC
92150499 ATATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGC
260 ATATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGC
* *
92150564 CTTGTTATGGTTTATATGTGTTGATAAGGTTAAATGATGGTAACATTATAGGTATGTGATGATAT
325 CTTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATAT
92150629 GTTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAAT
390 GTTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAAT
92150694 GTGTTAATATA
455 GTGTTAATATA
92150705 GGTGGAAGGA
Statistics
Matches: 455, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
467 454 1.00
468 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.41
Consensus pattern (467 bp):
TGGCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAAT
TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACA
TATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGCC
TTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATATG
TTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAATG
TGTTAATATATA
Found at i:92152465 original size:10 final size:10
Alignment explanation
Indices: 92152446--92152475 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
92152436 AGTGTCCACT
92152446 AGCA-ATTTA
1 AGCACATTTA
92152455 AGCACATTTA
1 AGCACATTTA
92152465 AGCACATTTA
1 AGCACATTTA
92152475 A
1 A
92152476 CTCAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (10 bp):
AGCACATTTA
Found at i:92153577 original size:5 final size:5
Alignment explanation
Indices: 92153567--92153605 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
92153557 GTAGATGAAG
*
92153567 AGAAA AGAAA AGAAA AGAAA AG-AA GGAAA AGAAGA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAA
92153606 GAAAGGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
4 3 0.10
5 22 0.73
6 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:92153606 original size:15 final size:14
Alignment explanation
Indices: 92153540--92153614 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
92153530 GGCTATGGAG
92153540 GAAAAGAAGAAG-A
1 GAAAAGAAGAAGAA
* *
92153553 G-AAAGTAGATGAA
1 GAAAAGAAGAAGAA
*
92153566 GAGAA-AAGAA-AA
1 GAAAAGAAGAAGAA
92153578 GAAAAGAA-AAGAA
1 GAAAAGAAGAAGAA
92153591 GGAAAAGAAGAAGAA
1 -GAAAAGAAGAAGAA
*
92153606 GAAAGGAAG
1 GAAAAGAAG
92153615 TAAATGAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
12 16 0.33
13 10 0.20
14 18 0.37
15 5 0.10
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.03
Consensus pattern (14 bp):
GAAAAGAAGAAGAA
Found at i:92154629 original size:18 final size:18
Alignment explanation
Indices: 92154592--92154626 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
92154582 CTTTCCTATC
92154592 TAATAATAATTATTATAA
1 TAATAATAATTATTATAA
92154610 TAATAATAATT-TTATAA
1 TAATAATAATTATTATAA
92154627 ATATGTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATAATTATTATAA
Found at i:92154752 original size:19 final size:18
Alignment explanation
Indices: 92154715--92154758 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
92154705 ATACATACAG
92154715 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
92154732 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
92154751 TACTAATT
1 TAATAATT
92154759 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:92156819 original size:17 final size:19
Alignment explanation
Indices: 92156799--92156842 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
92156789 ACACATACAG
92156799 TAAT-ATTTT-TCTAATAA
1 TAATAATTTTATCTAATAA
*
92156816 TAATAATTTTATCTCATAA
1 TAATAATTTTATCTAATAA
*
92156835 TACTAATT
1 TAATAATT
92156843 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAATTTTATCTAATAA
Found at i:92160375 original size:150 final size:148
Alignment explanation
Indices: 92160104--92160590 Score: 565
Period size: 150 Copynumber: 3.3 Consensus size: 148
92160094 TGCTAAGGAG
* *
92160104 ATATGAGAGCTAGTGTAAGACCATGTTGGGGACATGGCATCGGTCTCGATATATGAGAGCTAGTG
1 ATATGAGAGCTAGTGTAAGACTATGTT-GGGACATGGCATCGGCCTCGATATATGAGAGCTAGTG
* * * * *
92160169 TAAGACCATGTCTAGGACATGGCATCGGCCTCGAGACATGAGAGTTAGTGTAAGACCTTGTCTGG
65 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTAG
*
92160234 GATATGGCATCAGCCTCGAA
130 GACATGGCAT-AGCCTCGAA
*
92160254 ATATGAGAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGCTAGTG
1 ATATGAGAGCTAGTGTAAGACTATGT-TGGGACATGGCATCGGCCTCGATATATGAGAGCTAGTG
* *
92160319 TAAGACCATGTTTGGGACATGGCATCGGCCTCGAGATATGAGAGCCAGTGTAAGACCATGTCTAG
65 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTAG
* * * *
92160384 GACATGGCATTGGCTTGAT
130 GACATGGCATAGCCTCGAA
* *
92160403 ATAT--G-TC-AGTGTAAGACTATGTTTGGGACATGGCATCGGCAC-CGATAGATGAGAGCTAGT
1 ATATGAGAGCTAGTGTAAGACTATG-TTGGGACATGGCATCGGC-CTCGATATATGAGAGCTAGT
* * * * * * *
92160463 GTAAGACCATGTCTGGGACATGGCATCGACCTCAATATACGAGAGTCAATGTAAGACCATGTTTC
64 GTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTA
* * * *
92160528 GGACACGGCATCGACTTTG--
129 GGACATGGCATAG-CCTCGAA
* * * * *
92160547 ATGTGTGAGCCAATGTAAGACTATGTTCGGGACATGGCGTCGGC
1 ATATGAGAGCTAGTGTAAGACTATGTT-GGGACATGGCATCGGC
92160591 ACCTTACCCT
Statistics
Matches: 293, Mismatches: 35, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
144 3 0.01
145 114 0.39
146 7 0.02
147 4 0.01
148 28 0.10
149 9 0.03
150 127 0.43
151 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (148 bp):
ATATGAGAGCTAGTGTAAGACTATGTTGGGACATGGCATCGGCCTCGATATATGAGAGCTAGTGT
AAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTAGG
ACATGGCATAGCCTCGAA
Found at i:92160542 original size:50 final size:50
Alignment explanation
Indices: 92160104--92160540 Score: 539
Period size: 50 Copynumber: 8.8 Consensus size: 50
92160094 TGCTAAGGAG
*
92160104 ATATGAGAGCTAGTGTAAGACCATGT-TGGGGACATGGCATCGGTCTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCCTCGAT
* *
92160154 ATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * * * *
92160204 ACATGAGAGTTAGTGTAAGACCTTGTCTGGGATATGGCATCAGCCTCGAA
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* *
92160254 ATATGAGAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* *
92160304 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * *
92160354 ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGG-CTTGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * *
92160403 ATAT--G-TC-AGTGTAAGACTATGTTTGGGACATGGCATCGGCAC-CGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT
* * *
92160449 AGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * * *
92160499 ATACGAGAG-TCAATGTAAGACCATGTTTCGGACACGGCATCG
1 ATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
92160541 ACTTTGATGT
Statistics
Matches: 335, Mismatches: 43, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
45 28 0.08
46 7 0.02
47 2 0.01
48 1 0.00
49 11 0.03
50 285 0.85
51 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
Found at i:92161313 original size:17 final size:17
Alignment explanation
Indices: 92161291--92161324 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
92161281 TTGATGTGAG
92161291 ATAGAGTCAGAATGATT
1 ATAGAGTCAGAATGATT
92161308 ATAGAGTCAGAATGATT
1 ATAGAGTCAGAATGATT
92161325 TCAAAATCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
ATAGAGTCAGAATGATT
Found at i:92163582 original size:27 final size:28
Alignment explanation
Indices: 92163537--92163655 Score: 122
Period size: 27 Copynumber: 4.4 Consensus size: 28
92163527 CGAGATGTAA
* *
92163537 AAGTACAAGCCAAAATGGCAGATAGTCC
1 AAGTACAAGCCAAAGTGGCAGACAGTCC
* *
92163565 AAGTGCAAGCC-AAGTGGC-GAACAATCC
1 AAGTACAAGCCAAAGTGGCAG-ACAGTCC
*
92163592 AAGTACAAGCC-AAGTGGCAGACAGTCT
1 AAGTACAAGCCAAAGTGGCAGACAGTCC
*
92163619 AAGTACAAGCCAAAG-GG-AGGATAGTCC
1 AAGTACAAGCCAAAGTGGCA-GACAGTCC
*
92163646 AAGTGCAAGC
1 AAGTACAAGC
92163656 TAAAATGGTG
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
26 2 0.03
27 61 0.79
28 14 0.18
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.13
Consensus pattern (28 bp):
AAGTACAAGCCAAAGTGGCAGACAGTCC
Found at i:92163647 original size:54 final size:55
Alignment explanation
Indices: 92163537--92163663 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 55
92163527 CGAGATGTAA
* * *
92163537 AAGTACAAGCCAAAATGGCAGATAGTCCAAGTGCAAGCCAAGTGGCGAACAATCC
1 AAGTACAAGCCAAAATGGCAGACAGTCCAAGTACAAGCCAAGTGGAGAACAATCC
* * * * *
92163592 AAGTACAAGCC-AAGTGGCAGACAGTCTAAGTACAAGCCAAAG-GGAGGATAGTCC
1 AAGTACAAGCCAAAATGGCAGACAGTCCAAGTACAAGCC-AAGTGGAGAACAATCC
* *
92163646 AAGTGCAAGCTAAAATGG
1 AAGTACAAGCCAAAATGG
92163664 TGAACACTCA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 40 0.68
55 19 0.32
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.13
Consensus pattern (55 bp):
AAGTACAAGCCAAAATGGCAGACAGTCCAAGTACAAGCCAAGTGGAGAACAATCC
Found at i:92165294 original size:54 final size:55
Alignment explanation
Indices: 92165208--92165336 Score: 136
Period size: 56 Copynumber: 2.3 Consensus size: 55
92165198 ACTTTTGAAG
* * * * * *
92165208 TTGGGACACATGGCCGTGTCCCAGCTCGTG-TCTCTGCCCGTGTAACTCATTTAC
1 TTGGGACACACGGCCGTGTCCCAACCCATGCTCTCTGCCCGTGTAACTCACTAAC
* * *
92165262 TTGGGACACACGGGCGTGTCCCAACCCATGTCTCTCTGCCTGTGTAGCTCACTAAC
1 TTGGGACACACGGCCGTGTCCCAACCCATG-CTCTCTGCCCGTGTAACTCACTAAC
*
92165318 TTGGGTA-ACACGGTCGTGT
1 TTGGG-ACACACGGCCGTGT
92165337 GTCAGCAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 25 0.40
56 36 0.58
57 1 0.02
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (55 bp):
TTGGGACACACGGCCGTGTCCCAACCCATGCTCTCTGCCCGTGTAACTCACTAAC
Found at i:92165408 original size:12 final size:12
Alignment explanation
Indices: 92165391--92165415 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92165381 TTAGGGCACA
92165391 TGCCCATGTGTG
1 TGCCCATGTGTG
92165403 TGCCCATGTGTG
1 TGCCCATGTGTG
92165415 T
1 T
92165416 CACACGGCCG
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:0.08, C:0.24, G:0.32, T:0.36
Consensus pattern (12 bp):
TGCCCATGTGTG
Found at i:92165752 original size:24 final size:26
Alignment explanation
Indices: 92165725--92165773 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
92165715 TGCTAGCAAG
*
92165725 CATTAAGCTAAAC-A-CATACCAAAA
1 CATTAAACTAAACTACCATACCAAAA
*
92165749 CATTAAACTAAGCTACCATACCAAA
1 CATTAAACTAAACTACCATACCAAA
92165774 CATAGTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 1 0.05
26 9 0.43
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (26 bp):
CATTAAACTAAACTACCATACCAAAA
Found at i:92166293 original size:27 final size:27
Alignment explanation
Indices: 92166239--92166293 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
92166229 ATATATGACT
* *
92166239 TCATTTCAATATTCATATCTCATTTCA
1 TCATTTCAATATTCATATCCCATCTCA
*
92166266 TCATTTC-ATATTTCATTTCCCATCTCA
1 TCATTTCAATA-TTCATATCCCATCTCA
92166293 T
1 T
92166294 ATCCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.49
Consensus pattern (27 bp):
TCATTTCAATATTCATATCCCATCTCA
Found at i:92167463 original size:16 final size:16
Alignment explanation
Indices: 92167442--92167475 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
92167432 TCCTTTTAAT
*
92167442 TTATTTTAATCTATAA
1 TTATTTCAATCTATAA
92167458 TTATTTCAATCTATAA
1 TTATTTCAATCTATAA
92167474 TT
1 TT
92167476 CAACTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTTCAATCTATAA
Found at i:92169886 original size:44 final size:44
Alignment explanation
Indices: 92169836--92169925 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
92169826 TAAATTTAAT
* * *
92169836 TTAAATTCTAATTATTTTTAAATGTGTAGTTATCACAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
*
92169880 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTTTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
92169924 TT
1 TT
92169926 TATTTCAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
Found at i:92170385 original size:17 final size:17
Alignment explanation
Indices: 92170363--92170407 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
92170353 TGCTAACTTG
92170363 TTAAAA-TAGTATTAAAA
1 TTAAAATTA-TATTAAAA
92170380 TTAAAATTATATT-AAA
1 TTAAAATTATATTAAAA
92170396 TTATAAATTATA
1 TTA-AAATTATA
92170408 AAAGTAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.23
17 18 0.69
18 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAAAATTATATTAAAA
Found at i:92172433 original size:20 final size:20
Alignment explanation
Indices: 92172410--92172454 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
92172400 TGATATTGGT
92172410 TAGAATGCATATAAGGCATA
1 TAGAATGCATATAAGGCATA
92172430 TAGAATGCATATAAGGCATA
1 TAGAATGCATATAAGGCATA
92172450 T-GAAT
1 TAGAAT
92172455 TGGTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (20 bp):
TAGAATGCATATAAGGCATA
Found at i:92177811 original size:2 final size:2
Alignment explanation
Indices: 92177806--92177834 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
92177796 AATATATATA
92177806 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
92177835 ATCTACGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:92178898 original size:70 final size:70
Alignment explanation
Indices: 92178785--92178923 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
92178775 TTAGTAGAAC
*
92178785 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATCAACTTTAACATAAAAGAAACATGTTAA
1 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
92178850 GCAAT
66 GCAAT
*
92178855 AAAGTAAAAAGGTACTAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
1 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
92178920 GCAA
66 GCAA
92178924 AACATTAAGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.25
Consensus pattern (70 bp):
AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
GCAAT
Found at i:92179181 original size:48 final size:48
Alignment explanation
Indices: 92179110--92179207 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
92179100 CTCAAGTCAA
92179110 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
1 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
92179158 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
1 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
92179206 AT
1 AT
92179208 CCATCTATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.19
Consensus pattern (48 bp):
ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
Found at i:92183293 original size:69 final size:69
Alignment explanation
Indices: 92183182--92183320 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
92183172 GATAGGAAAA
*
92183182 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
92183247 GCTG
66 GCTG
92183251 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
92183316 GCTG
66 GCTG
92183320 A
1 A
92183321 TAGAGTCTTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:92185677 original size:30 final size:31
Alignment explanation
Indices: 92185637--92185694 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
92185627 AATCGATGAT
92185637 TTGTGATTATAAGAGAAGAGTTAAGGTCACC
1 TTGTGATTATAAGAGAAGAGTTAAGGTCACC
92185668 TTGTG-TTATAAGAGAAGAGTTAAGGTC
1 TTGTGATTATAAGAGAAGAGTTAAGGTC
92185695 CCCCTGTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (31 bp):
TTGTGATTATAAGAGAAGAGTTAAGGTCACC
Found at i:92192424 original size:43 final size:43
Alignment explanation
Indices: 92192329--92192425 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
92192319 ACACATTGCA
* *
92192329 TTATGGATAAACCACCAGTAATTACAAATAAACTGCTACTAAG
1 TTATAGATAAACCACCAGGAATTACAAATAAACTGCTACTAAG
* * *
92192372 TTATGGATAAACCACCAGGAATTGCAAATAAACTG-TCAGTAAG
1 TTATAGATAAACCACCAGGAATTACAAATAAACTGCT-ACTAAG
*
92192415 TTGTAGATAAA
1 TTATAGATAAA
92192426 TTGGTAGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (43 bp):
TTATAGATAAACCACCAGGAATTACAAATAAACTGCTACTAAG
Found at i:92192499 original size:22 final size:21
Alignment explanation
Indices: 92192430--92192555 Score: 71
Period size: 21 Copynumber: 5.9 Consensus size: 21
92192420 GATAAATTGG
*
92192430 TAGTAAGTTGTGGATAAACCATC
1 TAGTAA-TTGTGAATAAACCA-C
* *
92192453 T-GTAATTGCAGAA-AAACTA-
1 TAGTAATTG-TGAATAAACCAC
92192472 TCAGTAAGTTGTGAATAAACCAC
1 T-AGTAA-TTGTGAATAAACCAC
* **
92192495 TAGTAATTAT-AGATAAACTGC
1 TAGTAATTGTGA-ATAAACCAC
*
92192516 TAGTAATTTATGAATAAACCAC
1 TAGTAA-TTGTGAATAAACCAC
* **
92192538 TAATAATTGCAAATAAAC
1 TAGTAATTGTGAATAAAC
92192556 TGTCAGTAAC
Statistics
Matches: 80, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 40 0.50
22 35 0.44
23 3 0.04
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (21 bp):
TAGTAATTGTGAATAAACCAC
Found at i:92192499 original size:65 final size:65
Alignment explanation
Indices: 92192368--92192512 Score: 161
Period size: 65 Copynumber: 2.2 Consensus size: 65
92192358 AAACTGCTAC
* ****
92192368 TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTGTCAGTAAGTTGTAGATAAATTGGTAG
1 TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTATCAGTAAGTTGTAGATAAACCACTAG
* * * *
92192433 TAAGTTGTGGATAAACCATCTGTAATTGCAGAA-AAACTATCAGTAAGTTGT-GAATAAACCACT
1 TAAGTTATGGATAAACCACCAGGAATTGCA-AATAAACTATCAGTAAGTTGTAG-ATAAACCACT
92192496 AG
64 AG
*
92192498 TAA-TTATAGATAAAC
1 TAAGTTATGGATAAAC
92192513 TGCTAGTAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
64 11 0.16
65 54 0.81
66 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (65 bp):
TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTATCAGTAAGTTGTAGATAAACCACTAG
Found at i:92192512 original size:21 final size:22
Alignment explanation
Indices: 92192474--92192545 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
92192464 AAAAACTATC
* *
92192474 AGTAAGTTGTGAATAAACCACT
1 AGTAATTTATGAATAAACCACT
**
92192496 AGTAA-TTAT-AGATAAACTGCT
1 AGTAATTTATGA-ATAAACCACT
92192517 AGTAATTTATGAATAAACCACT
1 AGTAATTTATGAATAAACCACT
*
92192539 AATAATT
1 AGTAATT
92192546 GCAAATAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 16 0.39
22 23 0.56
23 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.32
Consensus pattern (22 bp):
AGTAATTTATGAATAAACCACT
Found at i:92192513 original size:43 final size:42
Alignment explanation
Indices: 92192431--92192564 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 42
92192421 ATAAATTGGT
* *
92192431 AGTAAGTTGTGGATAAACCATCT-GTAATTGCAGAAAAACTATC
1 AGTAAGTTGTGAATAAACCA-CTAGTAATTGCAGATAAACT-TC
** *
92192474 AGTAAGTTGTGAATAAACCACTAGTAATTATAGATAAACTGC
1 AGTAAGTTGTGAATAAACCACTAGTAATTGCAGATAAACTTC
* * * *
92192516 TAGTAATTTATGAATAAACCACTAATAATTGCAAATAAACTGTC
1 -AGTAAGTTGTGAATAAACCACTAGTAATTGCAGATAAACT-TC
92192560 AGTAA
1 AGTAA
92192565 CTTCTTCTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 3 0.04
43 72 0.95
44 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (42 bp):
AGTAAGTTGTGAATAAACCACTAGTAATTGCAGATAAACTTC
Found at i:92194666 original size:2 final size:2
Alignment explanation
Indices: 92194659--92194721 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
92194649 GAATAAGAAT
92194659 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
92194701 CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA C
92194722 TCATAGCGCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:92197396 original size:6 final size:6
Alignment explanation
Indices: 92197380--92197431 Score: 77
Period size: 6 Copynumber: 8.5 Consensus size: 6
92197370 TGGGTTTCCA
* *
92197380 AAAATG GAAATA AAAATG AAAATG AAAATG AAAATG AAAATG AAAATAG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G
92197429 AAA
1 AAA
92197432 CTTGCAATCC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
6 37 0.90
7 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:92199172 original size:28 final size:28
Alignment explanation
Indices: 92199129--92199184 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
92199119 AACAAACCAA
* *
92199129 AAGGAAATTGGTGCTCAGCTTTCACTTG
1 AAGGAAATTGGCGCTCAACTTTCACTTG
92199157 AAGGAAATTGGCGCTCAACTTTCACTTG
1 AAGGAAATTGGCGCTCAACTTTCACTTG
92199185 TTGGCACATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (28 bp):
AAGGAAATTGGCGCTCAACTTTCACTTG
Found at i:92206649 original size:40 final size:40
Alignment explanation
Indices: 92206551--92206813 Score: 300
Period size: 40 Copynumber: 6.6 Consensus size: 40
92206541 TCCTCGTTCA
* * * ** *
92206551 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
92206590 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
92206630 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
92206670 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
92206710 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
92206750 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
92206790 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
92206814 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:92212566 original size:30 final size:30
Alignment explanation
Indices: 92212530--92212589 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
92212520 GGCATTTAGA
92212530 CTTAGATAAGTCTTTTGGATTTCTGGTTCT
1 CTTAGATAAGTCTTTTGGATTTCTGGTTCT
92212560 CTTAGATAAGTCTTTTGGATTTCTGGTTCT
1 CTTAGATAAGTCTTTTGGATTTCTGGTTCT
92212590 ATTCCTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.50
Consensus pattern (30 bp):
CTTAGATAAGTCTTTTGGATTTCTGGTTCT
Found at i:92217209 original size:20 final size:20
Alignment explanation
Indices: 92217184--92217227 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
92217174 ACGAGGTAAG
*
92217184 TTCATATGTTATAATTTTAT
1 TTCATATGTTATAAGTTTAT
92217204 TTCATATGTTATAAGTTTAT
1 TTCATATGTTATAAGTTTAT
92217224 TTCA
1 TTCA
92217228 AATTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (20 bp):
TTCATATGTTATAAGTTTAT
Found at i:92231654 original size:40 final size:40
Alignment explanation
Indices: 92231623--92231914 Score: 412
Period size: 40 Copynumber: 7.3 Consensus size: 40
92231613 GGACTAAGAT
92231623 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
92231663 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
92231703 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
92231743 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
92231783 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * * * *
92231823 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
* * * * * *
92231863 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
92231902 CCGAAGGCATTTG
1 CCGAAGGCATTTG
92231915 AACGAGGAGC
Statistics
Matches: 236, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
39 33 0.14
40 200 0.85
41 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:92231932 original size:79 final size:80
Alignment explanation
Indices: 92231571--92231947 Score: 238
Period size: 80 Copynumber: 4.7 Consensus size: 80
92231561 TGAATGCTGT
* ** * * * ** **
92231571 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCCAT
*
92231634 TGTGCGAGATAC-AAATT
64 TGTGCGAGATACTAAA-A
* * * ** *
92231651 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGAT-AC-AAATTCCGGGTTAAGCCCCGAAGG-CAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAA-TCCGGGTTAAGTCCCGAAGGCCA-
*
92231713 TTGTGCGAGATAC-AAATT
63 TTGTGCGAGATACTAAA-A
* * * ** * *
92231731 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGAT-AC-AAATTCCGGGTTAAGCCCCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAA-TCCGGGTTAAGTCCCGAAGGCCAT
*
92231794 TGTGCGAGATACTAAAT
64 TGTGCGAGATACTAAAA
* ** * * *
92231811 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGG-CATTG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCCATTG
* *
92231875 TGTGAGTTACTAAAA
66 TGCGAGATACTAAAA
* * * *
92231890 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
92231948 TACGTGATTT
Statistics
Matches: 257, Mismatches: 30, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
78 15 0.06
79 51 0.20
80 176 0.68
81 15 0.06
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCCATTG
TGCGAGATACTAAAA
Found at i:92239446 original size:28 final size:27
Alignment explanation
Indices: 92239414--92239509 Score: 104
Period size: 27 Copynumber: 3.5 Consensus size: 27
92239404 TTAGTTTACC
** *
92239414 AAATTACTGAAATACCCTCTGACTTGTA
1 AAATTACCCAAATACCCTC-GATTTGTA
* *
92239442 AAATTA-CCAAAGTACCCCCGATTTATA
1 AAATTACCCAAA-TACCCTCGATTTGTA
*
92239469 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCCAAATACCCTCGATTTGTA
*
92239496 AAATTACCGAAATA
1 AAATTACCCAAATA
92239510 AGATAGAATT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 40 0.70
28 17 0.30
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACCCAAATACCCTCGATTTGTA
Found at i:92239476 original size:27 final size:26
Alignment explanation
Indices: 92239440--92239746 Score: 92
Period size: 27 Copynumber: 11.7 Consensus size: 26
92239430 CTCTGACTTG
92239440 TAAAATTACCAAAGTACCCCCGATTTA
1 TAAAATTACCAAA-TACCCCCGATTTA
* * *
92239467 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCCCGATTTA
*
92239494 TAAAATTACCGAAATA------A--GA
1 TAAAATTACC-AAATACCCCCGATTTA
* ** *
92239513 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCCCGATTTA
* * ** *
92239540 CAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCCCGATTTA
*** ** *
92239567 CGGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCCCGATTTA
* ** *
92239594 -CAAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCCCGATTTA
* * ** *
92239620 CAAAATTACTGAAATACCCTTGGTTTA
1 TAAAATTAC-CAAATACCCCCGATTTA
* * **
92239647 CAAAATTACCAAAATACCCTCGATCAA
1 TAAAATTACC-AAATACCCCCGATTTA
* * * *
92239674 TAAAATTAGCAAAATACCCCTGGTTTG
1 TAAAATTA-CCAAATACCCCCGATTTA
* *
92239701 TAAAATTACCAAAATACCCCTGATTTG
1 TAAAATTACC-AAATACCCCCGATTTA
*
92239728 TGAAATTACCGAAATACCC
1 TAAAATTACC-AAATACCC
92239747 TTGTAGGGTA
Statistics
Matches: 228, Mismatches: 36, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
18 1 0.00
19 11 0.05
21 1 0.00
25 1 0.00
26 27 0.12
27 180 0.79
28 7 0.03
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.31
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCCGATTTA
Found at i:92239573 original size:54 final size:53
Alignment explanation
Indices: 92239515--92239620 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 53
92239505 AAATAAGATA
92239515 GAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACG
1 GAATTACCATTTTACCCTCGATTTACA-AATTACCATTTTACCCTCGATTTACG
92239569 GAATTACCATTTTACCCTCGATTTACAAATTACCATTTTACCCTCGATTTAC
1 GAATTACCATTTTACCCTCGATTTACAAATTACCATTTTACCCTCGATTTAC
92239621 AAAATTACTG
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 25 0.48
54 27 0.52
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (53 bp):
GAATTACCATTTTACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACG
Found at i:92239627 original size:53 final size:54
Alignment explanation
Indices: 92239516--92239628 Score: 201
Period size: 53 Copynumber: 2.1 Consensus size: 54
92239506 AATAAGATAG
**
92239516 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACGG
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAA
92239570 AATTACCATTTTACCCTCGATTTACA-AATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAA
92239623 AATTAC
1 AATTAC
92239629 TGAAATACCC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 31 0.54
54 26 0.46
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAA
Found at i:92239638 original size:53 final size:53
Alignment explanation
Indices: 92239516--92239657 Score: 169
Period size: 53 Copynumber: 2.6 Consensus size: 53
92239506 AATAAGATAG
** **
92239516 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACGG
1 AATTACCATAATACCCTCGATTTACA-AATTACCATTTTACCCTCGATTTACAA
**
92239570 AATTACCATTTTACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACAA
1 AATTACCATAATACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACAA
* * *
92239623 AATTACTGA-AATACCCTTGGTTTACAAAATTACCA
1 AATTAC-CATAATACCCTCGATTTAC-AAATTACCA
92239658 AAATACCCTC
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 43 0.54
54 36 0.46
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (53 bp):
AATTACCATAATACCCTCGATTTACAAATTACCATTTTACCCTCGATTTACAA
Found at i:92239665 original size:80 final size:80
Alignment explanation
Indices: 92239516--92239670 Score: 195
Period size: 80 Copynumber: 1.9 Consensus size: 80
92239506 AATAAGATAG
* ** ** ***
92239516 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACGGAATTACCATTT
1 AATTACCATTTTACCCTCGATTTACAAAATTACCATAATACCCTCGATTTACAAAATTACCAAAA
92239581 TACCCTCGATTTACA
66 TACCCTCGATTTACA
* * *
92239596 AATTACCATTTTACCCTCGATTTACAAAATTACTGA-AATACCCTTGGTTTACAAAATTACCAAA
1 AATTACCATTTTACCCTCGATTTACAAAATTAC-CATAATACCCTCGATTTACAAAATTACCAAA
92239660 ATACCCTCGAT
65 ATACCCTCGAT
92239671 CAATAAAATT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 62 0.98
81 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (80 bp):
AATTACCATTTTACCCTCGATTTACAAAATTACCATAATACCCTCGATTTACAAAATTACCAAAA
TACCCTCGATTTACA
Found at i:92239743 original size:54 final size:54
Alignment explanation
Indices: 92239590--92239746 Score: 147
Period size: 54 Copynumber: 2.9 Consensus size: 54
92239580 TTACCCTCGA
*** ** * * *
92239590 TTTAC-AAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCGAAATACCCCTGG
* *
92239643 TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTAGCAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCGAAATACCCCTGG
** *** *
92239697 TTTGTAAAATTACCAAAATACCC-CTGATTTGTGAAATTACCGAAATACCC
1 TTTACAAAATTACCAAAATACCCTC-GATCAATAAAATTACCGAAATACCC
92239747 TTGTAGGGTA
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCGAAATACCCCTGG
Found at i:92239761 original size:27 final size:27
Alignment explanation
Indices: 92239731--92239878 Score: 179
Period size: 27 Copynumber: 5.3 Consensus size: 27
92239721 TGATTTGTGA
92239731 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
92239758 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
92239785 AATTACTGAAATACCCCTGTAGAGTAGGAGTAG
1 AATTACCGAAATA-CCCT-T---GTAGG-GTAG
* *
92239818 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
92239845 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
92239872 AATTACC
1 AATTACC
92239879 ATTTTGCCCC
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
27 71 0.68
28 9 0.09
29 1 0.01
31 1 0.01
32 8 0.08
33 15 0.14
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:92239818 original size:33 final size:31
Alignment explanation
Indices: 92239749--92239840 Score: 113
Period size: 33 Copynumber: 3.0 Consensus size: 31
92239739 AAATACCCTT
*
92239749 GTAGGGTAGAATTACCGAAATA-CCCT-T--
1 GTAGGGTAGAATTACTGAAATACCCCTGTAG
92239776 GTAGGGTAGAATTACTGAAATACCCCTGTAG
1 GTAGGGTAGAATTACTGAAATACCCCTGTAG
92239807 AGTAGGAGTAGAATTA-TCGAAATACCCCTGTAG
1 -GTAGG-GTAGAATTACT-GAAATACCCCTGTAG
92239840 G
1 G
92239841 GTAGAATTAC
Statistics
Matches: 57, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
27 21 0.37
28 4 0.07
29 1 0.02
32 7 0.12
33 24 0.42
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (31 bp):
GTAGGGTAGAATTACTGAAATACCCCTGTAG
Found at i:92239828 original size:60 final size:59
Alignment explanation
Indices: 92239731--92239860 Score: 180
Period size: 60 Copynumber: 2.3 Consensus size: 59
92239721 TGATTTGTGA
*
92239731 AATTACCGAAATA-CCCT-T---GTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGAGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
92239785 AATTACTGAAATACCCCTGTAGAGTAGGAGTAGAATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGAGTAGG-GTAGAATTACCGAAATACCCCTGTAGGGTAG
*
92239845 AATTACCGAGATACCC
1 AATTACCGAAATACCC
92239861 TTATGGGGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
54 12 0.18
55 4 0.06
56 1 0.02
59 5 0.08
60 43 0.66
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (59 bp):
AATTACCGAAATACCCCTGTAGAGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:92240578 original size:31 final size:31
Alignment explanation
Indices: 92240543--92240622 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
92240533 TTGCATTCAC
* *
92240543 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
* *
92240574 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
92240605 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
92240623 ATTCTAGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTA
Found at i:92240585 original size:6 final size:6
Alignment explanation
Indices: 92240543--92240627 Score: 84
Period size: 6 Copynumber: 13.8 Consensus size: 6
92240533 TTGCATTCAC
* * *
92240543 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
92240592 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
92240628 AGTTTTGATA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
5 3 0.05
6 54 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:92240636 original size:18 final size:18
Alignment explanation
Indices: 92240543--92240627 Score: 84
Period size: 19 Copynumber: 4.6 Consensus size: 18
92240533 TTGCATTCAC
*
92240543 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
* *
92240561 -TTACCTGATACTAATTCTG
1 ATT--CTGATTCTGATTCTG
*
92240580 ATTCTGATTCTG-TCACCTG
1 ATTCTGATTCTGAT--TCTG
92240599 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
92240617 ATTCTGATTCT
1 ATTCTGATTCT
92240628 AGTTTTGATA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
17 3 0.06
18 21 0.39
19 27 0.50
20 3 0.06
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:92246583 original size:18 final size:20
Alignment explanation
Indices: 92246560--92246603 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
92246550 GTAATACATG
92246560 TATTTAATTA-T-TAAAAGA
1 TATTTAATTATTATAAAAGA
92246578 TATTT-ATTATTTATAAAAGA
1 TATTTAATTA-TTATAAAAGA
92246598 TATTTA
1 TATTTA
92246604 TATGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 1 0.05
20 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTAATTATTATAAAAGA
Found at i:92246959 original size:13 final size:13
Alignment explanation
Indices: 92246939--92246973 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
92246929 CAAGGGGGGA
92246939 AAAG-AAAGAAAG
1 AAAGAAAAGAAAG
92246951 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
*
92246964 GAAGAAAAGA
1 AAAGAAAAGA
92246974 GAAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:92246959 original size:17 final size:17
Alignment explanation
Indices: 92246937--92246970 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
92246927 AGCAAGGGGG
92246937 GAAAAGAAAGAAAGAAA
1 GAAAAGAAAGAAAGAAA
*
92246954 GAAAAGAAAGGAAGAAA
1 GAAAAGAAAGAAAGAAA
92246971 AGAGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAAAGAAAGAAAGAAA
Found at i:92248970 original size:20 final size:22
Alignment explanation
Indices: 92248945--92248993 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
92248935 GGGCTAAGGG
*
92248945 CACGGGCGTG-T-CCTAAGCCA
1 CACGGGCGTGATACATAAGCCA
92248965 CACGGGCGTGATACATAAGCCA
1 CACGGGCGTGATACATAAGCCA
*
92248987 TACGGGC
1 CACGGGC
92248994 CTGTGGTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 1 0.04
22 14 0.56
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.14
Consensus pattern (22 bp):
CACGGGCGTGATACATAAGCCA
Found at i:92250727 original size:97 final size:97
Alignment explanation
Indices: 92250561--92250754 Score: 361
Period size: 97 Copynumber: 2.0 Consensus size: 97
92250551 TATGTTAGTG
* *
92250561 ATTTAATTGTAGGCAGTTCGTGCGTGGATCTCGACAACAAATCGTCGCAAAACAGGTGTGTAACT
1 ATTTAATTGTAGGCAGTTCGTGCGTGGATCTCGAAAACAAATCGTCACAAAACAGGTGTGTAACT
92250626 GACACCCTCTCATAGACTAGATCGGCAAAAGC
66 GACACCCTCTCATAGACTAGATCGGCAAAAGC
*
92250658 ATTTAATTGTAGGCAGTTCGTGCGTGGATCTCGAAAACGAATCGTCACAAAACAGGTGTGTAACT
1 ATTTAATTGTAGGCAGTTCGTGCGTGGATCTCGAAAACAAATCGTCACAAAACAGGTGTGTAACT
92250723 GACACCCTCTCATAGACTAGATCGGCAAAAGC
66 GACACCCTCTCATAGACTAGATCGGCAAAAGC
92250755 CGAAAAGCCA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (97 bp):
ATTTAATTGTAGGCAGTTCGTGCGTGGATCTCGAAAACAAATCGTCACAAAACAGGTGTGTAACT
GACACCCTCTCATAGACTAGATCGGCAAAAGC
Found at i:92258229 original size:27 final size:27
Alignment explanation
Indices: 92258189--92258300 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
92258179 AGGAAGCGTC
*
92258189 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
92258216 CTGGTGGCTCTGCCACATATT-TCT-ATT
1 CTGGTGGCTCTGCCACA-ATTATCTGA-T
* *
92258243 CTGGTAGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
92258271 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
92258297 CTGG
1 CTGG
92258301 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
26 9 0.12
27 46 0.63
28 17 0.23
29 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:92258299 original size:54 final size:54
Alignment explanation
Indices: 92258189--92258309 Score: 145
Period size: 54 Copynumber: 2.2 Consensus size: 54
92258179 AGGAAGCGTC
* * *
92258189 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTATT
1 CTGGTAGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
92258243 CTGGTAGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTAGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
* *
92258297 CTGGCAGCCATGC
1 CTGGTAGCTATGC
92258310 TGCATAATTC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 38 0.68
55 18 0.32
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (54 bp):
CTGGTAGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:92262348 original size:55 final size:54
Alignment explanation
Indices: 92262261--92262515 Score: 278
Period size: 55 Copynumber: 4.8 Consensus size: 54
92262251 ATTAGGGTTT
*
92262261 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
92262316 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
92262371 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
92262424 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
92262473 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
92262516 GTACCCGTGT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:92262467 original size:108 final size:110
Alignment explanation
Indices: 92262268--92262468 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
92262258 TTTAAGGATA
*
92262268 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
92262333 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
92262378 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
92262440 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
92262469 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:92262728 original size:16 final size:16
Alignment explanation
Indices: 92262707--92262737 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92262697 ATAAATTTGA
92262707 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
92262723 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
92262738 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:92267220 original size:27 final size:27
Alignment explanation
Indices: 92267178--92267285 Score: 162
Period size: 27 Copynumber: 4.0 Consensus size: 27
92267168 AATCTCATAT
* * *
92267178 CTGTAGGCTAGTATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
92267205 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
92267232 CTATAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
92267259 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
92267286 TTGGTATACA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:92267301 original size:54 final size:54
Alignment explanation
Indices: 92267190--92267311 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
92267180 GTAGGCTAGT
* * * *
92267190 ATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATGCCCCTATAGGGTAGA
1 ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGGATAAA
*
92267244 ATTACTGAAATGCCCCTGTAGGGTAGAATTACTGAAAT-ACCCT-T-GGTATACAAA
1 ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGG-AT--AAA
92267298 ATTACTG-AATACCC
1 ATTACTGAAATACCC
92267312 TTGGTTTAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
51 2 0.03
52 2 0.03
53 10 0.17
54 45 0.76
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (54 bp):
ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGGATAAA
Found at i:92267308 original size:26 final size:27
Alignment explanation
Indices: 92267270--92267337 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 27
92267260 TGTAGGGTAG
92267270 AATTACTGAAATACCCTTGGTATACAA
1 AATTACTGAAATACCCTTGGTATACAA
* *
92267297 AATTACTG-AATACCCTTGGTTTAGAA
1 AATTACTGAAATACCCTTGGTATACAA
**
92267323 AATTACCAAAATACC
1 AATTACTGAAATACC
92267338 TCTGGTTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGGTATACAA
Found at i:92267343 original size:27 final size:26
Alignment explanation
Indices: 92267321--92267821 Score: 350
Period size: 27 Copynumber: 18.5 Consensus size: 26
92267311 CTTGGTTTAG
*
92267321 AAAATTACCAAAATACCTCTGGTTTGT
1 AAAATTACCAAAATACC-CTGATTTGT
92267348 AAAATTACCAAAATACCCCTTG-TTTGT
1 AAAATTACCAAAATA-CCC-TGATTTGT
* *
92267375 AAAATTTCTAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
* * * *
92267402 GAAATTATCGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCT-GATTTGT
* *
92267429 AAAATTACTAAAATACCCTCGATTGGT
1 AAAATTACCAAAATACCCT-GATTTGT
92267456 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
** * *
92267483 AAAATTTTCAAAATACCCCTAATTTGG
1 AAAATTACCAAAATA-CCCTGATTTGT
* * *
92267510 AAAATTATCGAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCC-TGATTTGT
**
92267537 AAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTACCA-AAATA-CCCTGATTTGT
** *
92267564 AAAATTATAAAAATACCATTGACTTTCG-
1 AAAATTACCAAAATACC-CTGA-TTT-GT
* *
92267592 AAAATTA-CAGAAATACCATTGGTTTGT
1 AAAATTACCA-AAATACC-CTGATTTGT
92267619 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
** * *
92267646 AAAATTTTCAAAATACCCCTAATTTGG
1 AAAATTACCAAAATA-CCCTGATTTGT
* * *
92267673 AAAATTATCGAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCC-TGATTTGT
**
92267700 AAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTACCA-AAATA-CCCTGATTTGT
** *
92267727 AAAATTATAAAAATACCATTGACTTTCG-
1 AAAATTACCAAAATACC-CTGA-TTT-GT
* *
92267755 AAAATTA-CAGAAATACCATTGGTTTGT
1 AAAATTACCA-AAATACC-CTGATTTGT
*
92267782 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
* *
92267809 AGATTTACCAAAA
1 AAAATTACCAAAA
92267822 CACCTTATAG
Statistics
Matches: 394, Mismatches: 51, Indels: 58
0.78 0.10 0.12
Matches are distributed among these distances:
26 21 0.05
27 308 0.78
28 65 0.16
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGATTTGT
Found at i:92267388 original size:54 final size:53
Alignment explanation
Indices: 92267305--92267809 Score: 480
Period size: 54 Copynumber: 9.3 Consensus size: 53
92267295 AAAATTACTG
* * * *
92267305 AATACCCTTGGTTTAG-AAAATTACCAAAATACCTCTGGTTTGTAAAATTACCAA
1 AATACCCTTGATTT-GTAAAATTA-CAAAATACCCCTGATTTGTAAAATTATCAA
* * * *
92267359 AATACCCCTTG-TTTGTAAAATTTCTAAAATACCCTTGATTTGTGAAATTATCGA
1 AATA-CCCTTGATTTGTAAAATTAC-AAAATACCCCTGATTTGTAAAATTATCAA
* * * *
92267413 AATACCCTCGACTTGTAAAATTACTAAAATA-CCCTCGATTGGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTAC-AAAATACCCCT-GATTTGTAAAATTATCAA
* * * *
92267467 AATACCCTTGATTTGTAAAATTTTCAAAATACCCCTAATTTGGAAAATTATCGA
1 AATACCCTTGATTTGTAAAA-TTACAAAATACCCCTGATTTGTAAAATTATCAA
* ** *
92267521 AATACCCTTGATTTGGAAAATTACAGAAATACCCCTGATTTACAAAATTATAAA
1 AATACCCTTGATTTGTAAAATTACA-AAATACCCCTGATTTGTAAAATTATCAA
* ** * *
92267575 AATACCATTGACTTTCG-AAAATTACAGAAATACCATTGGTTTGTAAAATTACCAA
1 AATACCCTTGA-TTT-GTAAAATTACA-AAATACCCCTGATTTGTAAAATTATCAA
* * * *
92267630 AATACCCTTGATTTGTAAAATTTTCAAAATACCCCTAATTTGGAAAATTATCGA
1 AATACCCTTGATTTGTAAAA-TTACAAAATACCCCTGATTTGTAAAATTATCAA
* ** *
92267684 AATACCCTTGATTTGGAAAATTACAGAAATACCCCTGATTTACAAAATTATAAA
1 AATACCCTTGATTTGTAAAATTACA-AAATACCCCTGATTTGTAAAATTATCAA
* ** * *
92267738 AATACCATTGACTTTCG-AAAATTACAGAAATACCATTGGTTTGTAAAATTACCAA
1 AATACCCTTGA-TTT-GTAAAATTACA-AAATACCCCTGATTTGTAAAATTATCAA
*
92267793 AATACCCTTGGTTTGTA
1 AATACCCTTGATTTGTA
92267810 GATTTACCAA
Statistics
Matches: 371, Mismatches: 64, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
53 20 0.05
54 245 0.66
55 104 0.28
56 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.32
Consensus pattern (53 bp):
AATACCCTTGATTTGTAAAATTACAAAATACCCCTGATTTGTAAAATTATCAA
Found at i:92267647 original size:163 final size:163
Alignment explanation
Indices: 92267270--92267809 Score: 707
Period size: 163 Copynumber: 3.3 Consensus size: 163
92267260 TGTAGGGTAG
* * * ** ** * **
92267270 AATTACTGAAATACCCTTGGTATACAAAATTA-CTGAATACCCTTGGTTTAG-AAAATTACCAAA
1 AATTACAGAAATACCATTGGTTTGTAAAATTACCAAAATACCCTTGATTT-GTAAAATTTTCAAA
* ** * * * * * *
92267333 ATACCTCTGGTTTGTAAAATTACCAAAATACCCCTTG-TTTGTAAAATTTCTA-AAATACCCTTG
65 ATACCCCTAATTTGGAAAATTATCGAAATA-CCCTTGATTTGGAAAATTAC-AGAAATACCCCTG
*** ** * *
92267396 ATTTGTGAAATTATCGAAATACCCTCGAC-TT-GTAA
128 ATTTACAAAATTATAAAAATACCATTGACTTTCG-AA
* * * *
92267431 AATTACTA-AAATACCCTCGATTGGTAAAATTACCAAAATACCCTTGATTTGTAAAATTTTCAAA
1 AATTAC-AGAAATACCATTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTTTCAAA
92267495 ATACCCCTAATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTACAGAAATACCCCTGAT
65 ATACCCCTAATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTACAGAAATACCCCTGAT
92267560 TTACAAAATTATAAAAATACCATTGACTTTCGAA
130 TTACAAAATTATAAAAATACCATTGACTTTCGAA
92267594 AATTACAGAAATACCATTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTTTCAAAA
1 AATTACAGAAATACCATTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTTTCAAAA
92267659 TACCCCTAATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTACAGAAATACCCCTGATT
66 TACCCCTAATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTACAGAAATACCCCTGATT
92267724 TACAAAATTATAAAAATACCATTGACTTTCGAA
131 TACAAAATTATAAAAATACCATTGACTTTCGAA
*
92267757 AATTACAGAAATACCATTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
1 AATTACAGAAATACCATTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTA
92267810 GATTTACCAA
Statistics
Matches: 338, Mismatches: 33, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
161 32 0.09
162 92 0.27
163 213 0.63
164 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.32
Consensus pattern (163 bp):
AATTACAGAAATACCATTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTTTCAAAA
TACCCCTAATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTACAGAAATACCCCTGATT
TACAAAATTATAAAAATACCATTGACTTTCGAA
Found at i:92268111 original size:41 final size:41
Alignment explanation
Indices: 92268065--92268188 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 41
92268055 CGGAGGAAGA
* * *
92268065 AATTGAGGATCGCATGGTCGCTTGACAACTGTGAATCCACC
1 AATTGAGGATCGTATGGTTGCTTGACAACCGTGAATCCACC
* * * *
92268106 GATTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACT
1 AATTGAGGATCGTATGGTTGCTTGACAACCGTGAATCCACC
* * *
92268147 AATT-ATGGATCGTATGGTTGCTTGACGATCGTGGATCCACC
1 AATTGA-GGATCGTATGGTTGCTTGACAACCGTGAATCCACC
92268188 A
1 A
92268189 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 71 0.99
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
AATTGAGGATCGTATGGTTGCTTGACAACCGTGAATCCACC
Found at i:92268382 original size:22 final size:22
Alignment explanation
Indices: 92268330--92268391 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
92268320 GCCAATTATT
* *
92268330 CTGATTATGGCTTTGCGCTAAC
1 CTGATTATGGCTCTGTGCTAAC
*
92268352 CT-ACATATGGCTCTGTGCTAAC
1 CTGA-TTATGGCTCTGTGCTAAC
*
92268374 CTGATTATGGCTGTGTGC
1 CTGATTATGGCTCTGTGC
92268392 CAAACGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCTAAC
Found at i:92276495 original size:46 final size:47
Alignment explanation
Indices: 92276364--92276532 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 47
92276354 TTTGTGTGCT
* *
92276364 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATA-ATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC-TAGATGTAGAACC
* * *
92276410 AGTGTAAGACATGTCTAGGACATGCATTGGCCT-CGAGATGTA-AACC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACTAGATGTAGAACC
* *
92276456 AGTGTAAGACATGTCTGGGACATACATCGGCTACTAGATGT-G--TC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACTAGATGTAGAACC
* *
92276500 AGTGCAAGACCATGTTTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
92276533 ACGGATATGC
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 9 0.09
45 16 0.16
46 76 0.74
47 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACTAGATGTAGAACC
Found at i:92276562 original size:50 final size:49
Alignment explanation
Indices: 92276364--92276630 Score: 169
Period size: 46 Copynumber: 5.7 Consensus size: 49
92276354 TTTGTGTGCT
* *
92276364 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATAAT-GA-GAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CACATGATGGATGAGCC
* * * *
92276410 AGTGTAAGA-CATGTCTAGGACAT-GCATTGGC-C-TCGA--GATGTAAACC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAT-GATGGATG--AGCC
* * * *
92276456 AGTGTAAGA-CATGTCTGGGACAT-ACATCGGCTAC-T-A--GATGTGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACATGATGGATGAGCC
* *
92276500 AGTGCAAGACCATGTTTGGGACATGGCATCGGCACGGAT-ATGCGA-GAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAC--ATGATG-GATGAGCC
* * * *
92276550 AGTGTAAGACCATATTTAGGACATGGCATC--AACTTGATGGATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACATGATGGATGAGCC
*
92276597 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCA
92276631 TTTTACCCCA
Statistics
Matches: 177, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
43 3 0.02
44 12 0.07
45 16 0.09
46 74 0.42
47 34 0.19
48 6 0.03
49 1 0.01
50 29 0.16
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCACATGATGGATGAGCC
Found at i:92281198 original size:13 final size:13
Alignment explanation
Indices: 92281180--92281213 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
92281170 TTGATAGTTT
92281180 GAAATTTCGAGAC
1 GAAATTTCGAGAC
92281193 GAAATTTCGAGAC
1 GAAATTTCGAGAC
*
92281206 AAAATTTC
1 GAAATTTC
92281214 TTTAAGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (13 bp):
GAAATTTCGAGAC
Found at i:92281325 original size:3 final size:3
Alignment explanation
Indices: 92281312--92281343 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
92281302 AATTCGGATG
*
92281312 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
92281344 TCGTATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:92292050 original size:15 final size:16
Alignment explanation
Indices: 92292017--92292057 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
92292007 CTCATCACCC
*
92292017 TTCCATTATTCTCCCTT
1 TTCCATT-TTCTCCATT
92292034 TTCCATTTTCT-CATT
1 TTCCATTTTCTCCATT
92292049 TTCC-TTTTC
1 TTCCATTTTC
92292058 AGTTCCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 7 0.30
16 4 0.17
17 7 0.30
ACGTcount: A:0.10, C:0.32, G:0.00, T:0.59
Consensus pattern (16 bp):
TTCCATTTTCTCCATT
Found at i:92295633 original size:29 final size:29
Alignment explanation
Indices: 92295600--92295657 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
92295590 ATCAAAGAGA
92295600 TAGAATGTACTAGAAATAACATCAGGCGC
1 TAGAATGTACTAGAAATAACATCAGGCGC
92295629 TAGAATGTACTAGAAATAACATCAGGCGC
1 TAGAATGTACTAGAAATAACATCAGGCGC
92295658 GGTAGCTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (29 bp):
TAGAATGTACTAGAAATAACATCAGGCGC
Found at i:92299080 original size:44 final size:44
Alignment explanation
Indices: 92299015--92299101 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
92299005 TTGATATCTC
* *
92299015 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
* *
92299059 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGCAATTAAGGAAGAATTGACGG
92299102 TTAAGGATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 3 0.08
44 35 0.92
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:92299296 original size:47 final size:47
Alignment explanation
Indices: 92299237--92299359 Score: 201
Period size: 47 Copynumber: 2.6 Consensus size: 47
92299227 GGCATTGGCA
92299237 CTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTG
1 CTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTG
*
92299284 CTAAGACAAGGATACCATGTAAGACCATGTTTGGATCATGGCATTTG
1 CTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTG
* * * *
92299331 GTATGATAAGGATATCATGTAAGACCATG
1 CTAAGACAAGGATACCATGTAAGACCATG
92299360 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (47 bp):
CTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTG
Found at i:92299302 original size:95 final size:92
Alignment explanation
Indices: 92299104--92299373 Score: 231
Period size: 95 Copynumber: 2.9 Consensus size: 92
92299094 ATTGACGGTT
** * * *
92299104 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCA
1 AAGGATACCATGTAAGACCACATCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGACCA
* *
92299169 TGTCAAGACATGGCATCGGCATTGATT
66 TGTCAAGACATGGCATCGGCATAGATC
**
92299196 AAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATACCATGTAAG
1 AAGGA-TACCATGTAAGACCACATCAAGACATGGCATTGG---TAAGACAAGGATACCATGTAAG
*** **
92299260 ACCATGTTTGGAACATGGCATTTGC-TAAGA-C
62 ACCATGTCAAG-ACATGGCATCGGCAT-AGATC
** *** * * *
92299291 AAGGATACCATGTAAGACCATGTTTGGATCATGGCATTTGGTATGATAAGGATATCATGTAAGAC
1 AAGGATACCATGTAAGACCACATCAAGA-CATGGCA-TTGGTAAGACAAGGATACCATGTAAGAC
* *
92299356 CATGCCAAGGCATGGCAT
64 CATGTCAAGACATGGCAT
92299374 TGATAAGTTC
Statistics
Matches: 140, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
92 33 0.24
93 9 0.06
94 27 0.19
95 49 0.35
96 18 0.13
97 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (92 bp):
AAGGATACCATGTAAGACCACATCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATCGGCATAGATC
Found at i:92300064 original size:22 final size:23
Alignment explanation
Indices: 92300039--92300084 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
92300029 CAACAAAATC
92300039 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
92300061 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
92300084 A
1 A
92300085 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:92300090 original size:23 final size:23
Alignment explanation
Indices: 92300046--92300090 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
92300036 ATCAATTCAA
*
92300046 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
92300069 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
92300091 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:92301863 original size:15 final size:16
Alignment explanation
Indices: 92301822--92301863 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
92301812 TGCTACTGTC
92301822 CAAACTGTTTTAGTGTA
1 CAAACTGTTTTAGTG-A
92301839 CAAACTGTTTTAGTG-
1 CAAACTGTTTTAGTGA
*
92301854 CAAGCTGTTT
1 CAAACTGTTT
92301864 ATTACCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.38
17 15 0.62
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (16 bp):
CAAACTGTTTTAGTGA
Found at i:92314269 original size:92 final size:92
Alignment explanation
Indices: 92314112--92314291 Score: 342
Period size: 92 Copynumber: 2.0 Consensus size: 92
92314102 TGCTCTAGAG
92314112 TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
1 TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
92314177 CATCTACTAACAAAATCAGCTACATCC
66 CATCTACTAACAAAATCAGCTACATCC
*
92314204 TCCTGATTGGCTGAAGTAACCTAGGCGGACTTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
1 TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
*
92314269 CATTTACTAACAAAATCAGCTAC
66 CATCTACTAACAAAATCAGCTAC
92314292 GTTCTTCTTC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (92 bp):
TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
CATCTACTAACAAAATCAGCTACATCC
Found at i:92317821 original size:10 final size:10
Alignment explanation
Indices: 92317807--92317842 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
92317797 TAAGCTCGGT
92317807 TGAGCTCAAA
1 TGAGCTCAAA
* *
92317817 CGAGCTGAAA
1 TGAGCTCAAA
92317827 TGAGCTCAAA
1 TGAGCTCAAA
92317837 TGAGCT
1 TGAGCT
92317843 GAATTAAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:92317830 original size:20 final size:20
Alignment explanation
Indices: 92317807--92317845 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
92317797 TAAGCTCGGT
92317807 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
*
92317827 TGAGCTCAAATGAGCTGAA
1 TGAGCTCAAACGAGCTGAA
92317846 TTAAGCTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:92317852 original size:20 final size:20
Alignment explanation
Indices: 92317809--92317852 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
92317799 AGCTCGGTTG
*
92317809 AGCTCAAACGAGCTGAAATG
1 AGCTCAAACGAGCTGAAATA
* *
92317829 AGCTCAAATGAGCTGAATTA
1 AGCTCAAACGAGCTGAAATA
92317849 AGCT
1 AGCT
92317853 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (20 bp):
AGCTCAAACGAGCTGAAATA
Found at i:92327827 original size:15 final size:15
Alignment explanation
Indices: 92327807--92327849 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
92327797 AAATTCATGC
92327807 TTCAATCACCATGTT
1 TTCAATCACCATGTT
*
92327822 TTCAATAACCATGTT
1 TTCAATCACCATGTT
92327837 TTCAATCACCATG
1 TTCAATCACCATG
92327850 ACATCACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (15 bp):
TTCAATCACCATGTT
Found at i:92340967 original size:20 final size:22
Alignment explanation
Indices: 92340928--92340967 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
92340918 CTGAAAGCCT
92340928 TTGATACAAGCTCGATTTAGTG
1 TTGATACAAGCTCGATTTAGTG
*
92340950 TTGATTCAAG-TC-ATTTAG
1 TTGATACAAGCTCGATTTAG
92340968 ATTGCCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (22 bp):
TTGATACAAGCTCGATTTAGTG
Found at i:92343138 original size:17 final size:17
Alignment explanation
Indices: 92343118--92343151 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
92343108 CTATAAGCCC
92343118 AATTAAACAAGTTAAAT
1 AATTAAACAAGTTAAAT
*
92343135 AATTAAGCAAGTTAAAT
1 AATTAAACAAGTTAAAT
92343152 GGCTGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (17 bp):
AATTAAACAAGTTAAAT
Found at i:92358509 original size:5 final size:5
Alignment explanation
Indices: 92358499--92358526 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
92358489 ATGCTCATGA
92358499 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
92358527 TATCATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:92361182 original size:2 final size:2
Alignment explanation
Indices: 92361175--92361203 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
92361165 CCTCTCATTT
92361175 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
92361204 TTCCATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:92365300 original size:46 final size:46
Alignment explanation
Indices: 92365207--92365327 Score: 158
Period size: 46 Copynumber: 2.6 Consensus size: 46
92365197 TGTAACCCGC
* *
92365207 CCATAAGTGAACTCGGACTCAAA-TCAACGATCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACT-AAACTCAACGATCTCAGGCATTCACAT
*
92365253 CCATAAGTGAACTCGGACTAAACTCAATGAGT-TC-GGACATTCACAT
1 CCATAAGTGAACTCGGACTAAACTCAACGA-TCTCAGG-CATTCACAT
*
92365299 CCATAAGTGAACTCGGACTGAACTCAACG
1 CCATAAGTGAACTCGGACTAAACTCAACG
92365328 CGAGTTCGGA
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
45 5 0.07
46 61 0.91
47 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTAAACTCAACGATCTCAGGCATTCACAT
Found at i:92367235 original size:30 final size:30
Alignment explanation
Indices: 92367200--92367279 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
92367190 CAAGAAAATC
*
92367200 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
92367230 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
92367260 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
92367280 CGATACTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:92367239 original size:15 final size:15
Alignment explanation
Indices: 92367200--92367270 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
92367190 CAAGAAAATC
92367200 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
92367215 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
92367230 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
92367245 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
92367260 GGATAAAGAAA
1 GAATAAAGAAA
92367271 CCCAAGATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 45 0.96
16 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:92367279 original size:15 final size:15
Alignment explanation
Indices: 92367202--92367279 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
92367192 AGAAAATCGA
92367202 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
92367217 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
92367231 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
92367246 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
92367262 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
92367277 ATA
1 ATA
92367280 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:92370312 original size:93 final size:93
Alignment explanation
Indices: 92370200--92370371 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
92370190 GCCCATAAGT
* *
92370200 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
92370265 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
92370293 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
92370358 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
92370372 CAAACATCCT
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:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:92370367 original size:46 final size:46
Alignment explanation
Indices: 92370192--92370367 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
92370182 TGTAACCCGC
* *
92370192 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
92370238 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
92370288 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
92370331 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
92370368 TGCCCAAACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 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 65 0.58
47 28 0.25
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):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:92371726 original size:28 final size:29
Alignment explanation
Indices: 92371667--92371759 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
92371657 CACAATTTCT
92371667 TTCATATGGCCCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
*
92371696 TTCATATGGCCCATTAGG-CCAAATCAAA
1 TTCATATGGCCCATTAGGCCCAAATCACA
92371724 TTCATATGGCCCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
*
92371753 TCCATAT
1 TTCATAT
92371760 TCATGCTTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 27 0.45
29 33 0.55
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (29 bp):
TTCATATGGCCCATTAGGCCCAAATCACA
Found at i:92387687 original size:26 final size:26
Alignment explanation
Indices: 92387651--92387702 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
92387641 TGAGAGTTAA
92387651 GGCAGTCTGTACTTCGGGAAGCTTAT
1 GGCAGTCTGTACTTCGGGAAGCTTAT
92387677 GGCAGTCTGTACTTCGGGAAGCTTAT
1 GGCAGTCTGTACTTCGGGAAGCTTAT
92387703 AGTAGCCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (26 bp):
GGCAGTCTGTACTTCGGGAAGCTTAT
Found at i:92394323 original size:21 final size:21
Alignment explanation
Indices: 92394297--92394339 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
92394287 CTGGGCAATA
*
92394297 GTTGACAGACTGACTAAATCG
1 GTTGACAGACTAACTAAATCG
92394318 GTTGACAGACTAACTAAATCG
1 GTTGACAGACTAACTAAATCG
92394339 G
1 G
92394340 CTCATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (21 bp):
GTTGACAGACTAACTAAATCG
Found at i:92396185 original size:46 final size:46
Alignment explanation
Indices: 92396135--92396310 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
92396125 TGGTTGAGCA
92396135 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
92396181 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
92396226 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
92396274 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92396311 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:92396291 original size:93 final size:93
Alignment explanation
Indices: 92396132--92396303 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
92396122 GGATGGTTGA
* *
92396132 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
92396197 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
92396225 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
92396290 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
92396304 CTTATGGGCG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:92403766 original size:46 final size:46
Alignment explanation
Indices: 92403716--92403891 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
92403706 TGGTTGAGCA
92403716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
92403762 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
92403807 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
92403855 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92403892 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:92403872 original size:93 final size:93
Alignment explanation
Indices: 92403713--92403883 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
92403703 GGATGGTTGA
* *
92403713 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
92403778 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
92403806 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
92403871 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
92403884 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:92411709 original size:40 final size:39
Alignment explanation
Indices: 92411617--92411749 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 39
92411607 CTCGAATGAT
*
92411617 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGT-CCGAAGGCATTTGTGCT-AGCGACTAC
* * *
92411658 ATCCGGACTAAGATCTGAAGGCATTTGTGCTAGCGACTAT
1 ATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACTAC
* * *
92411698 ATCCGGGCTAAGTCACGAAGGCATTTATGCTAGTGACCAC
1 ATCCGGGCTAAGTC-CGAAGGCATTTGTGCTAGCGACTAC
92411738 ATCCGGGCTAAG
1 ATCCGGGCTAAG
92411750 ACCCAAAGAC
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.03
40 51 0.64
41 26 0.32
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACTAC
Found at i:92438371 original size:46 final size:46
Alignment explanation
Indices: 92438292--92438463 Score: 129
Period size: 46 Copynumber: 3.7 Consensus size: 46
92438282 TATAACCCGC
* * *
92438292 CCATAAGCAAACTCAGACTCAACTGAA-GAAGCTCGGCCGTTCGCAT
1 CCATAAGCGAACTCTGACTCAACTCAACG-AGCTCGGCCGTTCGCAT
* *
92438338 CCATAAGTGAACTCTGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCTGACTCAACTCAACGAGCTC-G--GCC--GTTCGCAT
* * * * * * *
92438388 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGAAT
1 CCATAAGCGAACTCTGACTCAACTCAACGAGCTCGGCCGTTCGCAT
* *
92438431 CCATAAGTGAACTCTGACTCAACTAAACGAGCT
1 CCATAAGCGAACTCTGACTCAACTCAACGAGCT
92438464 TAAATGCCTA
Statistics
Matches: 97, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 3 0.03
45 2 0.02
46 51 0.53
47 25 0.26
48 2 0.02
49 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCTGACTCAACTCAACGAGCTCGGCCGTTCGCAT
Found at i:92438460 original size:93 final size:93
Alignment explanation
Indices: 92438301--92438562 Score: 339
Period size: 93 Copynumber: 2.8 Consensus size: 93
92438291 CCCATAAGCA
* * * *
92438301 AACTCAGACTCAACTGAA-GAAGCTCGGCCGTTCGCATCCATAAGTGAACTCTGACTCAACTCAA
1 AACTCAGACTCAACTCAACG-AGTTCGGACATTCGCATCCATAAGTGAACTCTGACTCAACTCAA
92438365 CGAGCTCGGATGCCTAGTTACATCTCACG
65 CGAGCTCGGATGCCTAGTTACATCTCACG
* * * *
92438394 AACTCGGACTCAACTCAACGAGTTTGGACATTCGAATCCATAAGTGAACTCTGACTCAACTAAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCTGACTCAACTCAAC
*** *
92438459 GAGCTTAAATGCCTAGTTACGTCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
* * *
92438487 AACTTAGACTCAACTCAAGGAGTTCGGACGTTCGCATCCATAAGTGAACTC-GAACTCAACTCAA
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCTG-ACTCAACTCAA
* *
92438551 TGAGTTCGGATG
65 CGAGCTCGGATG
92438563 TCCAAATATC
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
92 1 0.01
93 141 0.99
94 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCTGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:92440691 original size:6 final size:6
Alignment explanation
Indices: 92440658--92440722 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
92440648 AAGCATAAGC
* * **
92440658 AAAATA GAAAATA ACAAATA ACAAATA AAAATA ACAATA ATAATA ATAAAGG
1 AAAATA -AAAATA A-AAATA A-AAATA AAAATA AAAATA AAAATA A-AAATA
92440710 AAAAT- AAAATA AA
1 AAAATA AAAATA AA
92440723 TAGCTAACTA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
5 5 0.10
6 22 0.45
7 22 0.45
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:92440873 original size:22 final size:22
Alignment explanation
Indices: 92440834--92440878 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
92440824 CTGAGTGAAA
* *
92440834 GGGGTGTGGGTGAGGAGAGGGT
1 GGGGTGGGGGTGAGGAGACGGT
92440856 GGGGTGGGGGTG-GTGAGACGGT
1 GGGGTGGGGGTGAG-GAGACGGT
92440878 G
1 G
92440879 ATGGAAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.11, C:0.02, G:0.69, T:0.18
Consensus pattern (22 bp):
GGGGTGGGGGTGAGGAGACGGT
Found at i:92441022 original size:12 final size:13
Alignment explanation
Indices: 92441005--92441034 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
92440995 TCCAACAGGA
92441005 AAAAGGGAA-GGG
1 AAAAGGGAATGGG
92441017 AAAAGGGAATGGG
1 AAAAGGGAATGGG
92441030 AAAAG
1 AAAAG
92441035 CCGAAGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.43, T:0.03
Consensus pattern (13 bp):
AAAAGGGAATGGG
Found at i:92443513 original size:40 final size:40
Alignment explanation
Indices: 92443466--92443599 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 40
92443456 CTCGCACTAG
* * *
92443466 GCCTTCGGGTCTTAGCCCGGATATGGTC-TCTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAAT
*
92443506 GCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAAT
* * * *
92443546 GCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACCAAT
1 GCCTTCGGGTCTTAGCCCGGATA-TAGCAACTAGCACAAAT
*
92443586 GCCTTCGGGACTTA
1 GCCTTCGGGTCTTA
92443600 ACCCCGTTAG
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.02
40 83 0.98
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAAT
Found at i:92443587 original size:80 final size:78
Alignment explanation
Indices: 92443430--92443599 Score: 182
Period size: 80 Copynumber: 2.2 Consensus size: 78
92443420 ACCCAAGTAT
* * * * *
92443430 CTTCGGGAT-TTAGCCGGATATAACCACTCGCACTAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGG-TCTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGGACTTAGCCCGGATATAGTA
* *
92443494 TCTAGCATAAATGC
65 ACTAGCACAAATGC
* *
92443508 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAG
1 CTTCGGGTCTTAG-CCGGATATAACAACTCGCAC-AAGGCCTTCGGGACTTAGCCCGGATA-TAG
* *
92443572 TAACTCGCACCAATGC
63 TAACTAGCACAAATGC
*
92443588 CTTCGGGACTTA
1 CTTCGGGTCTTA
92443600 ACCCCGTTAG
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
77 1 0.01
78 11 0.14
79 19 0.25
80 45 0.59
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (78 bp):
CTTCGGGTCTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGGACTTAGCCCGGATATAGTAA
CTAGCACAAATGC
Found at i:92451553 original size:40 final size:40
Alignment explanation
Indices: 92451464--92451575 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
92451454 CGAGATTTAA
* *
92451464 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGC
*
92451504 CCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGC
* * *
92451544 CCGGATATAGTC-ACTAGCATAAAAGCCTTCGG
1 CCGGATATAG-CAACTCGCACAAATGCCTTCGG
92451576 GACTAAGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 64 0.98
41 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGC
Found at i:92451589 original size:40 final size:40
Alignment explanation
Indices: 92451465--92451591 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 40
92451455 GAGATTTAAC
* * * * *
92451465 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAGCAACTAGCACAAAAGCCTTCGGGACTTAGCT
* *
92451505 CGGATATAGCAACTCGCACAAATGCCTTC-GGATCTTAG-T
1 CGGATATAGCAACTAGCACAAAAGCCTTCGGGA-CTTAGCT
* *
92451544 CCGGATATAGTC-ACTAGCATAAAAGCCTTCGGGACTAAGCT
1 -CGGATATAG-CAACTAGCACAAAAGCCTTCGGGACTTAGCT
92451585 CGGATAT
1 CGGATAT
92451592 CATTCGAATA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
39 2 0.03
40 68 0.91
41 5 0.07
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CGGATATAGCAACTAGCACAAAAGCCTTCGGGACTTAGCT
Found at i:92461131 original size:40 final size:40
Alignment explanation
Indices: 92461076--92461253 Score: 297
Period size: 40 Copynumber: 4.5 Consensus size: 40
92461066 CGGATGATAA
92461076 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
92461116 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
92461156 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
92461196 CCGGGCTAAGTCCCAAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
92461236 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
92461254 TACTTGGTTT
Statistics
Matches: 132, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 16 0.12
40 116 0.88
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:92473894 original size:40 final size:40
Alignment explanation
Indices: 92473796--92474058 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
92473786 TCCTCGTTCA
* * * ** *
92473796 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
92473835 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
92473875 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
92473915 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
92473955 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
92473995 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
92474035 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
92474059 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:92475337 original size:24 final size:24
Alignment explanation
Indices: 92475309--92475371 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
92475299 AATTGTATAA
92475309 GATAGTGAAATGCATAAATTAG-T
1 GATAGTGAAATGCATAAATTAGCT
*
92475332 GCATAG-G-AATGTCATATATTAGCT
1 G-ATAGTGAAATG-CATAAATTAGCT
*
92475356 GAAAGTGAAATGCATA
1 GATAGTGAAATGCATA
92475372 TGTTTGGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
22 4 0.12
23 14 0.42
24 11 0.33
25 4 0.12
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (24 bp):
GATAGTGAAATGCATAAATTAGCT
Found at i:92476895 original size:37 final size:37
Alignment explanation
Indices: 92476845--92476958 Score: 158
Period size: 37 Copynumber: 3.1 Consensus size: 37
92476835 ACCTTTAGCT
* * *
92476845 CAGACGAAATCTCCACACAAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACATAGTCATCGGGTCTTACC
*
92476882 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACATAGTCATCGGGTCTTACC
* * *
92476919 CGGACATAATCTCCACACATAGTCATC-GGTCTTACT
1 CAGACAAAATCTCCACACATAGTCATCGGGTCTTACC
92476955 CAGA
1 CAGA
92476959 ATATATTTCC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
36 11 0.16
37 57 0.84
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (37 bp):
CAGACAAAATCTCCACACATAGTCATCGGGTCTTACC
Found at i:92477233 original size:48 final size:48
Alignment explanation
Indices: 92477104--92477288 Score: 307
Period size: 48 Copynumber: 3.8 Consensus size: 48
92477094 GCACATCGCC
*
92477104 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * * *
92477152 TATATATATCTCACATTAACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATAT-T-TCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
92477202 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
92477250 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
92477289 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
48 82 0.65
49 2 0.02
50 42 0.33
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Done.