Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 321 of 433
Found at i:100356994 original size:30 final size:30
Alignment explanation
Indices: 100356958--100357058 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
100356948 GACAAGATTG
* * *
100356958 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
100356988 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
100357016 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
100357045 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
100357059 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:100357070 original size:29 final size:28
Alignment explanation
Indices: 100356987--100357062 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
100356977 AAAATTGTAC
* *
100356987 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
100357015 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
100357044 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
100357063 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:100360229 original size:29 final size:28
Alignment explanation
Indices: 100360187--100360289 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
100360177 GTGACGAGAT
* *
100360187 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
100360216 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
100360245 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
100360274 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
100360290 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:100363558 original size:79 final size:80
Alignment explanation
Indices: 100363422--100363613 Score: 248
Period size: 79 Copynumber: 2.4 Consensus size: 80
100363412 TCAAATGATG
* * *
100363422 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
100363486 CGTGCGAGTTACTA-A
65 CGTGCGAGTTACTATA
* *
100363501 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGCTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
100363564 TCGTGCGAGTTACTATA
64 TCGTGCGAGTTACTATA
* ** *
100363581 ACCGGGCTCTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
100363614 CGTTATATCC
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.60
80 39 0.39
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTATA
Found at i:100363612 original size:40 final size:39
Alignment explanation
Indices: 100363423--100363613 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 39
100363413 CAAATGATGT
* * * *
100363423 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTA-AA
* *
100363463 CCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA-A
*
100363503 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
100363541 CCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AA
** * *
100363582 CCGGGCTCTGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
100363614 CGTTATATCC
Statistics
Matches: 132, Mismatches: 12, Indels: 14
0.84 0.08 0.09
Matches are distributed among these distances:
39 36 0.27
40 87 0.66
41 9 0.07
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:100365444 original size:39 final size:39
Alignment explanation
Indices: 100365257--100365433 Score: 282
Period size: 39 Copynumber: 4.5 Consensus size: 39
100365247 ACAAAGCATG
100365257 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
**
100365298 CGGGACTTAGCCCGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* **
100365337 AGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
100365376 CAGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
100365415 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
100365434 TTTTCCAGCA
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 118 0.94
40 2 0.02
41 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:100365469 original size:39 final size:39
Alignment explanation
Indices: 100365426--100365518 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
100365416 GGGACTTAGC
* *
100365426 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATTTTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
*
100365465 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
100365504 CCGGATATTTTTCCA
1 CCGGATATTTTTCCA
100365519 ATACCATGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:100365469 original size:78 final size:78
Alignment explanation
Indices: 100365257--100365518 Score: 244
Period size: 78 Copynumber: 3.3 Consensus size: 78
100365247 ACAAAGCATG
** * * * **
100365257 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACGC
1 CGGGAC-TT-AGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGACTTAGCCCGGATATAATAC
100365322 CAGCACGAATGCCTT
64 CAGCACGAATGCCTT
* **** *
100365337 AGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATACCA
1 CGGGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGACTTAGCCCGGATATAATACCA
100365402 GCACGAATGCCTT
66 GCACGAATGCCTT
** * * *
100365415 CGGGACTTAGCCCGGATATTTTTCCAGCACTTA-GCCTGC-GGACTTTAAGTCCGGATATATTTC
1 CGGGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGAC-TT-AGCCCGGATATAATAC
* * *
100365478 CAGCA-TAAAGCCTG
64 CAGCACGAATGCCTT
*
100365492 C-GGACTTCAAGTCCGGATATTTTTCCA
1 CGGGACTT--AGCCCGGATATTTTTCCA
100365519 ATACCATGCA
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
76 10 0.06
77 14 0.09
78 126 0.80
79 2 0.01
80 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTGCAGGACTTAGCCCGGATATAATACCA
GCACGAATGCCTT
Found at i:100366189 original size:2 final size:2
Alignment explanation
Indices: 100366182--100366208 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
100366172 TAAGATACCT
100366182 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
100366209 GTGCATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100369431 original size:32 final size:33
Alignment explanation
Indices: 100369388--100369481 Score: 102
Period size: 32 Copynumber: 2.8 Consensus size: 33
100369378 TCAAGCCCAT
*
100369388 TGGGCCTAAGCCC-ATTCAGATAACAGTGATAC
1 TGGGCCTAAGCCCTATTCAGATAACAGTGAAAC
* * * *
100369420 TGGGCCAAAGCCCTTTTCAGATTACA-TTAAAC
1 TGGGCCTAAGCCCTATTCAGATAACAGTGAAAC
*
100369452 TGGGCCTTAGCCCCTTATTCAGATAACAGT
1 TGGGCCTAAG-CCC-TATTCAGATAACAGT
100369482 ATGACCCATA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
32 24 0.49
33 13 0.27
34 11 0.22
35 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (33 bp):
TGGGCCTAAGCCCTATTCAGATAACAGTGAAAC
Found at i:100375445 original size:49 final size:49
Alignment explanation
Indices: 100375385--100375622 Score: 435
Period size: 49 Copynumber: 4.9 Consensus size: 49
100375375 GTATGAGATA
*
100375385 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
100375434 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
100375483 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
100375532 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
100375579 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
100375623 TATATGTGTG
Statistics
Matches: 184, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 45 0.24
49 139 0.76
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:100375763 original size:37 final size:37
Alignment explanation
Indices: 100375709--100375799 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
100375699 AACTTGGAAA
*
100375709 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
100375747 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
100375784 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
100375800 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:100379259 original size:19 final size:21
Alignment explanation
Indices: 100379214--100379261 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
100379204 CAGTATACAA
*
100379214 TATCGATACTTATCATAAAGG
1 TATCAATACTTATCATAAAGG
100379235 -ATCAATACTT-T-ATAAAGG
1 TATCAATACTTATCATAAAGG
100379253 TATCAATAC
1 TATCAATAC
100379262 GAATTGACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 7 0.28
19 9 0.36
20 9 0.36
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
TATCAATACTTATCATAAAGG
Found at i:100382585 original size:35 final size:35
Alignment explanation
Indices: 100382473--100382586 Score: 142
Period size: 35 Copynumber: 3.3 Consensus size: 35
100382463 CATAGGTAAG
*
100382473 TACATGTGAGATTATATTGAACTTGTATATTCAGC
1 TACATGTGAGATTATATTGAACTTGTATATTCAGT
* * *
100382508 TGCATGTGAGGTTATATTGAACTTG-AGTATT-TGAT
1 TACATGTGAGATTATATTGAACTTGTA-TATTCAG-T
*
100382543 TACATGTGAGCTTATATTGAACTTGTATATTCAGT
1 TACATGTGAGATTATATTGAACTTGTATATTCAGT
*
100382578 TATATGTGA
1 TACATGTGA
100382587 AGTTATCTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
34 2 0.03
35 63 0.94
36 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (35 bp):
TACATGTGAGATTATATTGAACTTGTATATTCAGT
Found at i:100384330 original size:20 final size:20
Alignment explanation
Indices: 100384305--100384344 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
100384295 AAACGTAAAA
100384305 ATTAAAACTAATTCAGTGGT
1 ATTAAAACTAATTCAGTGGT
*
100384325 ATTAAAACTAATTTAGTGGT
1 ATTAAAACTAATTCAGTGGT
100384345 GTTGCCTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (20 bp):
ATTAAAACTAATTCAGTGGT
Found at i:100391896 original size:72 final size:71
Alignment explanation
Indices: 100391790--100391931 Score: 187
Period size: 72 Copynumber: 2.0 Consensus size: 71
100391780 AGATGACAGA
* * * *
100391790 AGCGGCAACGACAGGTGAGATGGCAATGGCGGTGTGCGG-AGACAATGTTAGTGCTTCGATAATC
1 AGCGGCAACAACAGGTGAGACGGCAATGGCGGTGTGCGGCA-ACAACGTTAGTGCTTCGACAATC
100391854 TTCTTGT
65 TTCTTGT
* * * *
100391861 AGCGGCAACAATAGCGTGAGACGGCAATGGTGGTGTGCGGCAACAACGTTGGTGCTTCGGCAATC
1 AGCGGCAACAACAG-GTGAGACGGCAATGGCGGTGTGCGGCAACAACGTTAGTGCTTCGACAATC
100391926 TTCTTG
65 TTCTTG
100391932 CAGCACAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
71 12 0.20
72 48 0.79
73 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (71 bp):
AGCGGCAACAACAGGTGAGACGGCAATGGCGGTGTGCGGCAACAACGTTAGTGCTTCGACAATCT
TCTTGT
Found at i:100401344 original size:15 final size:15
Alignment explanation
Indices: 100401324--100401356 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
100401314 ACAGGAACGT
100401324 GTTAGGTTTGAAATA
1 GTTAGGTTTGAAATA
*
100401339 GTTAGGTTTTAAATA
1 GTTAGGTTTGAAATA
100401354 GTT
1 GTT
100401357 TAATCACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (15 bp):
GTTAGGTTTGAAATA
Found at i:100407967 original size:27 final size:27
Alignment explanation
Indices: 100407625--100407966 Score: 400
Period size: 27 Copynumber: 12.7 Consensus size: 27
100407615 CCAAAGTACT
100407625 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
100407652 CTC-AGGTTATAGAATTACCGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
** *
100407679 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
100407706 CTCGATTTACAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
100407733 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
100407760 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * * *
100407787 CCCAATTTACATAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * **
100407814 CCCGATTTACATAATTATTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
100407841 CTCGATTTACAGAATTACCGTTTCACC
1 CTCGATTTACAGAATTACCGTTTTACC
* ** *
100407868 CTCAATTTATGGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
100407895 CTCGATTTATAGAATTACTGTTTCACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
100407922 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
100407949 CTCGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
100407967 TAAAATATCC
Statistics
Matches: 271, Mismatches: 40, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 267 0.99
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:100409238 original size:24 final size:24
Alignment explanation
Indices: 100409211--100409378 Score: 259
Period size: 24 Copynumber: 7.0 Consensus size: 24
100409201 GGAGGAAGTG
100409211 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
100409235 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
100409259 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
100409283 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
100409307 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
100409330 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
100409354 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
100409379 ATGATAAAGC
Statistics
Matches: 136, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 22 0.16
24 103 0.76
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:100409335 original size:47 final size:47
Alignment explanation
Indices: 100409213--100409357 Score: 254
Period size: 47 Copynumber: 3.1 Consensus size: 47
100409203 AGGAAGTGCA
*
100409213 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-T
100409261 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
100409308 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
100409355 AAA
1 AAA
100409358 AGAGGCTAGG
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
47 48 0.51
48 46 0.49
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:100409612 original size:31 final size:30
Alignment explanation
Indices: 100409572--100409634 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
100409562 TGTTTACCGT
*
100409572 AAAGGTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGTTCGGCCCAGTAATATGAAATATGA
**
100409602 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGG-TTCGGCCCAGTAATATGAAATATGA
100409633 AA
1 AA
100409635 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (30 bp):
AAAGGTTCGGCCCAGTAATATGAAATATGA
Found at i:100423581 original size:40 final size:40
Alignment explanation
Indices: 100423515--100423590 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
100423505 TATACATATA
*
100423515 TAGCCGAAGCTATCTCCAATCCCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCCAAGCCCACACCAAGTGCCACATT
* * *
100423555 TAGCCGAAGCTAT-TTCGAGCCGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCCAAGCC-CACACCAAGTGCCA
100423591 TTTTTTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 5 0.16
40 26 0.84
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCCAAGCCCACACCAAGTGCCACATT
Found at i:100425573 original size:42 final size:42
Alignment explanation
Indices: 100425487--100425822 Score: 200
Period size: 42 Copynumber: 7.7 Consensus size: 42
100425477 TCGTTTACTT
*
100425487 GATGCCATAGT-CC-AACTATGGTCTTACA-AAAATTCTCACT-TC
1 GATGCCATA-TCCCAAAC-ATGGTCTTACACGAAA-TCTCA-TATC
* * * *
100425529 GATGCCATGTCCCAGACATGGTCTTATACGAAATCACATATC
1 GATGCCATATCCCAAACATGGTCTTACACGAAATCTCATATC
* * ** *
100425571 GATGTCGTATCCCAAACACAGTCATACACGAAATCTCATA-C
1 GATGCCATATCCCAAACATGGTCTTACACGAAATCTCATATC
* * *
100425612 AGAAGCCATATCCCAAATATGGTCTTACACGAAATCTCATACC
1 -GATGCCATATCCCAAACATGGTCTTACACGAAATCTCATATC
* * * * *
100425655 AAAGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCTATGC
1 GATGCCATATCCCAAACATGGTCTTACACGAAATCTC--A--TAT-C
* * *
100425702 TGATGCCATATCCCAAATATGGTCTTACAC-AAGTTCCCATATC
1 -GATGCCATATCCCAAACATGGTCTTACACGAA-ATCTCATATC
* * * * *
100425745 GATGTTGATTCCATATCCCAGATATGGTCTTACA-TAGGATCTCATATT
1 GA---TG---CCATATCCCAAACATGGTCTTACACGA-AATCTCATATC
* *
100425793 GATGCCATGTCCCAGACATGGTCTTACACG
1 GATGCCATATCCCAAACATGGTCTTACACG
100425823 TATCACAATG
Statistics
Matches: 233, Mismatches: 39, Indels: 43
0.74 0.12 0.14
Matches are distributed among these distances:
41 3 0.01
42 148 0.64
43 7 0.03
44 4 0.02
45 4 0.02
46 3 0.01
47 2 0.01
48 62 0.27
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (42 bp):
GATGCCATATCCCAAACATGGTCTTACACGAAATCTCATATC
Found at i:100425729 original size:48 final size:46
Alignment explanation
Indices: 100425616--100425778 Score: 167
Period size: 48 Copynumber: 3.5 Consensus size: 46
100425606 TCATACAGAA
* *
100425616 GCCATATCCCAAATATGGTCTTACACGAAATCTCATA-C---C-AAA
1 GCCATATCCCAAATATGGTCTTACACG-AATCTCATATCATGCTGAT
*
100425658 GCCATATCCCAGATATGGTCTTACACGTAATCTCATATCTATGCTGAT
1 GCCATATCCCAAATATGGTCTTACACG-AATCTCATATC-ATGCTGAT
* *
100425706 GCCATATCCCAAATATGGTCTTACAC-AAGTTCCCATATCGATGTTGAT
1 GCCATATCCCAAATATGGTCTTACACGAA--TCTCATATC-ATGCTGAT
* *
100425754 TCCATATCCCAGATATGGTCTTACA
1 GCCATATCCCAAATATGGTCTTACA
100425779 TAGGATCTCA
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
42 35 0.34
43 1 0.01
46 2 0.02
47 1 0.01
48 64 0.62
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (46 bp):
GCCATATCCCAAATATGGTCTTACACGAATCTCATATCATGCTGAT
Found at i:100425791 original size:48 final size:47
Alignment explanation
Indices: 100425658--100425797 Score: 165
Period size: 48 Copynumber: 2.9 Consensus size: 47
100425648 TCATACCAAA
*
100425658 GCCATATCCCAGATATGGTCTTACACGTA-ATCTCATATCTATGCTGAT
1 GCCATATCCCAGATATGGTCTTACA--TAGATCTCATATCGATGCTGAT
* * * * *
100425706 GCCATATCCCAAATATGGTCTTACACAAGTTCCCATATCGATGTTGAT
1 GCCATATCCCAGATATGGTCTTACA-TAGATCTCATATCGATGCTGAT
* *
100425754 TCCATATCCCAGATATGGTCTTACATAGGATCTCATATTGATGC
1 GCCATATCCCAGATATGGTCTTACATA-GATCTCATATCGATGC
100425798 CATGTCCCAG
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 2 0.03
48 74 0.97
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (47 bp):
GCCATATCCCAGATATGGTCTTACATAGATCTCATATCGATGCTGAT
Found at i:100425887 original size:73 final size:72
Alignment explanation
Indices: 100425793--100426048 Score: 329
Period size: 73 Copynumber: 3.5 Consensus size: 72
100425783 ATCTCATATT
100425793 GATGCCAT-GTCCCAGAC-ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTCAC
1 GATGCCATAG-CCCAG-CTATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTCAC
100425856 GTGTCATCAC
64 -TGTCATCAC
* * * *
100425866 GATGCCATAGCCCAGCTATGGTCTTACACATATCACAATGCCATAACACAGCTATGGTCTTACAT
1 GATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTCAC-T
100425931 GTCATCAC
65 GTCATCAC
* * * *
100425939 GATGCCATAGCCCAGTTATGGTCTTGCACGTATCAAAATGCCATAGCCTAGCTATGGTCTTACAC
1 GATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTC-T-CAC
** *
100426004 ACT-ATTAC
64 TGTCATCAC
*
100426012 GATGCCATAGCCCAGCTATGGTCTTACACGTACCACA
1 GATGCCATAGCCCAGCTATGGTCTTACACGTATCACA
100426049 TGTATTGCCA
Statistics
Matches: 159, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
72 1 0.01
73 153 0.96
74 3 0.02
75 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (72 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTCACTG
TCATCAC
Found at i:100426036 original size:37 final size:36
Alignment explanation
Indices: 100425793--100426043 Score: 299
Period size: 37 Copynumber: 6.9 Consensus size: 36
100425783 ATCTCATATT
100425793 GATGCCAT-GTCCCAGAC-ATGGTCTTACACGTATCAC
1 GATGCCATAG-CCCAG-CTATGGTCTTACACGTATCAC
* * **
100425829 AATGCCATAGCCCAGCTATGGTCTCACGTGTCATCAC
1 GATGCCATAGCCCAGCTATGGTCTTACACGT-ATCAC
*
100425866 GATGCCATAGCCCAGCTATGGTCTTACACATATCAC
1 GATGCCATAGCCCAGCTATGGTCTTACACGTATCAC
* * * *
100425902 AATGCCATAACACAGCTATGGTCTTACATGTCATCAC
1 GATGCCATAGCCCAGCTATGGTCTTACACGT-ATCAC
* * *
100425939 GATGCCATAGCCCAGTTATGGTCTTGCACGTATCAA
1 GATGCCATAGCCCAGCTATGGTCTTACACGTATCAC
* * * *
100425975 AATGCCATAGCCTAGCTATGGTCTTACACACTATTAC
1 GATGCCATAGCCCAGCTATGGTCTTACAC-GTATCAC
100426012 GATGCCATAGCCCAGCTATGGTCTTACACGTA
1 GATGCCATAGCCCAGCTATGGTCTTACACGTA
100426044 CCACATGTAT
Statistics
Matches: 179, Mismatches: 31, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
35 1 0.01
36 85 0.47
37 93 0.52
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (36 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGTATCAC
Found at i:100428856 original size:27 final size:28
Alignment explanation
Indices: 100428805--100428880 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
100428795 ATCTTCGATG
100428805 TCTCGCACACTAAGTGCCATACTTAATA
1 TCTCGCACACTAAGTGCCATACTTAATA
* *
100428833 TCTCGCACAC-AAGTGCCATTCTTAATT
1 TCTCGCACACTAAGTGCCATACTTAATA
* * *
100428860 TTTTGCACACTAATTGCCATA
1 TCTCGCACACTAAGTGCCATA
100428881 TACATATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.33
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACTTAATA
Found at i:100429921 original size:24 final size:24
Alignment explanation
Indices: 100429821--100429913 Score: 159
Period size: 24 Copynumber: 3.9 Consensus size: 24
100429811 AAGGCTGTCA
* *
100429821 GGAGAAGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
100429845 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
100429869 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
100429893 GGAGAGGATTTAGGAGCTGAT
1 GGAGAGGATTTAGGAGCTGAT
100429914 TAGAGAGAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.33, C:0.03, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:100431422 original size:54 final size:53
Alignment explanation
Indices: 100431338--100431441 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 53
100431328 AGGAAGCGTC
*
100431338 TTGGTGGCTATGCCACAACTATCTGATCTGGTGGCACTGCCACATATATCTATT
1 TTGGTGGCTATGCCACAACTATCTGATCTGGTGACACTGCCACAT-TATCTATT
* * * *
100431392 TTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTGTCACATTATCT
1 TTGGTGGCTATGCCACAACTATCTGATCTGGTGACACTGCCACATTATCT
100431442 GTTCTGGTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 5 0.11
54 40 0.89
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (53 bp):
TTGGTGGCTATGCCACAACTATCTGATCTGGTGACACTGCCACATTATCTATT
Found at i:100431443 original size:26 final size:26
Alignment explanation
Indices: 100431339--100431449 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
100431329 GGAAGCGTCT
* *
100431339 TGGTGGCTA-TGCCACAACTATCTGATC
1 TGGTGGC-ACTGCCAC-ATTATCTGTTC
* *
100431366 TGGTGGCACTGCCACATATATCTATTT
1 TGGTGGCACTGCCACAT-TATCTGTTC
*
100431393 TGGTGGCTCTGCCACAATTATCTGTTC
1 TGGTGGCACTGCCAC-ATTATCTGTTC
* *
100431420 TGGTGACACTGTCACATTATCTGTTC
1 TGGTGGCACTGCCACATTATCTGTTC
100431446 TGGT
1 TGGT
100431450 AGCCATGCTG
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 17 0.24
27 52 0.73
28 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
TGGTGGCACTGCCACATTATCTGTTC
Found at i:100432974 original size:16 final size:16
Alignment explanation
Indices: 100432953--100432985 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
100432943 TATGGACTTG
100432953 CCTTTAGTTGAATTTT
1 CCTTTAGTTGAATTTT
100432969 CCTTTAGTTGAATTTT
1 CCTTTAGTTGAATTTT
100432985 C
1 C
100432986 TTCTAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (16 bp):
CCTTTAGTTGAATTTT
Found at i:100437920 original size:28 final size:28
Alignment explanation
Indices: 100437855--100437955 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
100437845 ATAGTGAATC
*
100437855 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
100437884 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
100437912 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
100437942 CGCACACTTAGTGC
1 CGCACACTTAGTGC
100437956 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:100441976 original size:17 final size:18
Alignment explanation
Indices: 100441949--100441984 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
100441939 AATCAAATAT
100441949 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
100441967 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
100441984 A
1 A
100441985 AACATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:100447110 original size:120 final size:120
Alignment explanation
Indices: 100446955--100447197 Score: 477
Period size: 120 Copynumber: 2.0 Consensus size: 120
100446945 GTGGCTGTGC
100446955 TGCAAAACTATTACACCCATTAGTAGTAAGATTTTTTAACATTGAGGACATTGATGACACCTGGG
1 TGCAAAACTATTACACCCATTAGTAGTAAGATTTTTTAACATTGAGGACATTGATGACACCTGGG
100447020 ATGCGAGTGAAGTAAGAACATCTACTTCATGTATTCCAGCAACTCGTCTTCCTGA
66 ATGCGAGTGAAGTAAGAACATCTACTTCATGTATTCCAGCAACTCGTCTTCCTGA
*
100447075 TGCAAAACTATTAGACCCATTAGTAGTAAGATTTTTTAACATTGAGGACATTGATGACACCTGGG
1 TGCAAAACTATTACACCCATTAGTAGTAAGATTTTTTAACATTGAGGACATTGATGACACCTGGG
100447140 ATGCGAGTGAAGTAAGAACATCTACTTCATGTATTCCAGCAACTCGTCTTCCTGA
66 ATGCGAGTGAAGTAAGAACATCTACTTCATGTATTCCAGCAACTCGTCTTCCTGA
100447195 TGC
1 TGC
100447198 TGCTTGATTG
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (120 bp):
TGCAAAACTATTACACCCATTAGTAGTAAGATTTTTTAACATTGAGGACATTGATGACACCTGGG
ATGCGAGTGAAGTAAGAACATCTACTTCATGTATTCCAGCAACTCGTCTTCCTGA
Found at i:100451665 original size:23 final size:23
Alignment explanation
Indices: 100451638--100452612 Score: 565
Period size: 23 Copynumber: 42.7 Consensus size: 23
100451628 TGGTGAATGC
100451638 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * **
100451661 TAATTG-AGATG-TTAAAGTGCTAC
1 AAATTGAAG-TGTTTAAA-TGTTGT
100451684 AAATTGAAGTGTTTAAATGCTT-T
1 AAATTGAAGTGTTTAAATG-TTGT
* *
100451707 AAATTAAAGTGCTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * ** *
100451730 AAATTAAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGTTGT
** * *
100451753 AAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAAATGTTGT
* *
100451776 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GTTGT
* *
100451799 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * * **
100451821 TAATTGATA-TG-TTAAAGCGCTAC
1 AAATTGA-AGTGTTTAAA-TGTTGT
*
100451844 AAATTGAAGTGTTTAAATGGTGT
1 AAATTGAAGTGTTTAAATGTTGT
* *
100451867 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGTTGT
* *
100451890 AAATTGAAGTGTTTGAATGTTGC
1 AAATTGAAGTGTTTAAATGTTGT
100451913 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* ** *
100451936 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGTTGT
** ** *
100451959 AAATTGAAGTGTTTAGTTACTGG
1 AAATTGAAGTGTTTAAATGTTGT
* *
100451982 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GTTGT
* **
100452005 -AATTGAGGTGTACAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* ** *
100452027 TAATTG-AGATG-TTAAAGTGCAGC
1 AAATTGAAG-TGTTTAAA-TGTTGT
* *
100452050 AAATTGAAGAG-TTAAAGTGTTGC
1 AAATTGAAGTGTTTAAA-TGTTGT
* *
100452073 AAATTGAAATG-TTAAAGTGCTAG-
1 AAATTGAAGTGTTTAAA-TG-TTGT
100452096 AAATTGAAGTG-TTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
*
100452118 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGTTGT
100452141 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
100452164 AAATTGAAGTGTTTAAGTATTGC
1 AAATTGAAGTGTTTAAATGTTGT
*
100452187 AAATTGAAGTGCTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
100452210 AAATTGAAGTGTTTAAGTATTGC
1 AAATTGAAGTGTTTAAATGTTGT
** ** *
100452233 AAATTGAAGTGTTTAGTTCCTGG
1 AAATTGAAGTGTTTAAATGTTGT
* **
100452256 AAATTG-AGATGTTT-TATCACTGT
1 AAATTGAAG-TGTTTAAAT-GTTGT
* *
100452279 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* * * **
100452301 TAATTGATA-TG-TTAAAGCGCTAC
1 AAATTGA-AGTGTTTAAA-TGTTGT
*
100452324 AAATTGAAGTGTTTAAATGGTGT
1 AAATTGAAGTGTTTAAATGTTGT
* *
100452347 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGTTGT
* *
100452370 AAATTGAAGTGTTTGAATGTTGC
1 AAATTGAAGTGTTTAAATGTTGT
100452393 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGTTGT
* ** *
100452416 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGTTGT
** ** *
100452439 AAATTGAAGTGTTTAGTTACTGG
1 AAATTGAAGTGTTTAAATGTTGT
* *
100452462 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GTTGT
* * * *
100452485 -AATTGAGGAGTATAAATGTGGT
1 AAATTGAAGTGTTTAAATGTTGT
* * *
100452507 TAATTG-AGATG-TTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAA-TGTTGT
* **
100452530 AAATTGAAATGTTTAAATACTGT
1 AAATTGAAGTGTTTAAATGTTGT
* *
100452553 AAATTG--GTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGTTGT
*
100452574 AAATTGAAGTGTTTAAATGGTGT
1 AAATTGAAGTGTTTAAATGTTGT
*
100452597 AAATTGAAGTTTTTAA
1 AAATTGAAGTGTTTAA
100452613 GTACTACAAA
Statistics
Matches: 749, Mismatches: 151, Indels: 104
0.75 0.15 0.10
Matches are distributed among these distances:
20 5 0.01
21 14 0.02
22 111 0.15
23 578 0.77
24 41 0.05
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGTTGT
Found at i:100451991 original size:206 final size:206
Alignment explanation
Indices: 100451636--100452178 Score: 819
Period size: 206 Copynumber: 2.6 Consensus size: 206
100451626 ATTGGTGAAT
* *
100451636 GCAAATTGAAGTGTTTAAATGTTGTTAATTG-AGATGTTAAAGTGCTACAAATTGAAGTGTTTAA
1 GCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAA
* * *
100451700 ATGCTT-TAAATTAAAGTGCTTAAATGTTGTAAATTAAAGTGTTTAAGTACTGCAAATTGAAGTG
65 ATG-TTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTG
* * *
100451764 TTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAT
129 TTTAGTTACTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTACAAATGTTGTTAATTGAG
100451829 ATGTTAAAGCGCTA
194 ATGTTAAAGCGC-A
* *
100451843 -CAAATTGAAGTGTTTAAATGGTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAA
1 GCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAA
*
100451907 TGTTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTT
66 TGTTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTT
100451972 TAGTTACTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTACAAATGTTGTTAATTGAGAT
131 TAGTTACTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTACAAATGTTGTTAATTGAGAT
*
100452037 GTTAAAGTGCA
196 GTTAAAGCGCA
* * *
100452048 GCAAATTGAAGAG-TTAAAGTGTTGCAAATTGAAATGTTAAAGTGCTAG-AAATTGAAGTG-TTA
1 GCAAATTGAAGTGTTTAAA-TGTTGTAAATTGAAGTGTTAAAGTGCT-GCAAATTGAAGTGTTTA
* * ** *
100452110 AATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTG
64 AATGTTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTG
100452175 TTTA
129 TTTA
100452179 AGTATTGCAA
Statistics
Matches: 308, Mismatches: 23, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
205 73 0.24
206 232 0.75
207 3 0.01
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (206 bp):
GCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAA
TGTTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTT
TAGTTACTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTACAAATGTTGTTAATTGAGAT
GTTAAAGCGCA
Found at i:100452052 original size:91 final size:89
Alignment explanation
Indices: 100451844--100452445 Score: 415
Period size: 91 Copynumber: 6.6 Consensus size: 89
100451834 AAAGCGCTAC
* * * * * *
100451844 AAATTGAAGTGTTTAAA-TGGTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGA-AGTGTTTGAA
1 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTT-TAGTTCTGGAAATTGAGA-TGTTT-TA
*
100451907 T-GTTGCAAATTGAAGTGTTTAAATGTTGT
62 TCGCTG-AAATTGAAGTG-TTAAATGTTGT
* *
100451936 AAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTACTGGAAATTGAGATGTTTTATCG
1 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAGTT-CTGGAAATTGAGATGTTTTATCG
* * *
100452001 CTGTAATTGAGGTGTACAAATGTTGT
65 CTGAAATTGAAGTGT-TAAATGTTGT
* * * * * * **
100452027 TAATTG-AGATGTTAAAGTGCAGCAAATTGAAGAGTTAAAGTGT-TGCAAATTGAAATGTTAAAG
1 AAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTT-TAGT-TCTGGAAATTGAGATGTTTTA-
100452090 T-GCTAGAAATTGAAGTGTTAAATGTTGT
62 TCGCT-GAAATTGAAGTGTTAAATGTTGT
* * *
100452118 AAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATGT-TGTAAATTGA-AGTGTTTAA
1 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTT-AGT-TCTGGAAATTGAGA-TGTTT--
*
100452180 GTATTGC--AAATTGAAGTGCTTAAATGTTGT
60 -TATCGCTGAAATTGAAGTG-TTAAATGTTGT
* ** *
100452210 AAATTGAAGTGTTTAAGTATTGCAAATTGAAGTGTTTAGTTCCTGGAAATTGAGATGTTTTATCA
1 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAGTT-CTGGAAATTGAGATGTTTTATCG
* *
100452275 CTGTAATTGAGGTGTATAAATGTTGT
65 CTGAAATTGAAGTGT-TAAATGTTGT
* * * * ** * **
100452301 TAATTGATA-TGTTAAAGCGCTACAAATTGAAGTGTTTAAATGGTGTAAATTGA-AGTGTTAAAG
1 AAATTGA-AGTGTTAAAGTGCTGCAAATTGAAGTGTTT-AGTTCTGGAAATTGAGA-TGTTTTA-
* *
100452364 T-GCTGCAAATTGAAGTGTTTGAATGTTGC
62 TCGCTG-AAATTGAAGTG-TTAAATGTTGT
* * * *
100452393 AAATTGAAGTGTTTAAA-TGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGA
1 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTT-AGTTCTGGAAATTGA
100452446 AGTGTTTAGT
Statistics
Matches: 406, Mismatches: 70, Indels: 68
0.75 0.13 0.12
Matches are distributed among these distances:
89 4 0.01
90 7 0.02
91 205 0.50
92 177 0.44
93 10 0.02
94 3 0.01
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (89 bp):
AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAGTTCTGGAAATTGAGATGTTTTATCGC
TGAAATTGAAGTGTTAAATGTTGT
Found at i:100452376 original size:206 final size:205
Alignment explanation
Indices: 100452118--100452606 Score: 761
Period size: 206 Copynumber: 2.4 Consensus size: 205
100452108 TAAATGTTGT
* *
100452118 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAA-TGTTGTAAATTGAAGTGTTTAAGT
1 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAA-T
*
100452182 ATTGCAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTATTGCAAATTGAAGTGTTT
64 ATTGCAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT
* * * *
100452247 AGTTCCTGGAAATTGAGATGTTTTATCACTGTAATTGAGGTGTATAAATGTTGTTAATTGATATG
129 AGTTACTGGAAATTGAGATGTTTTATCACTGTAATTGAGGAGTATAAATGTGGTTAATTGAGATG
100452312 TTAAAGCGCTAC
194 TTAAAGCGCTAC
* *
100452324 AAATTGAAGTGTTTAAATGGTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATG
1 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT-AATA
*
100452389 TTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTA
65 TTGCAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTA
*
100452454 GTTACTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGAGTATAAATGTGGTTAATTGAGATGT
130 GTTACTGGAAATTGAGATGTTTTATCACTGTAATTGAGGAGTATAAATGTGGTTAATTGAGATGT
* *
100452519 TAAAGTGCTGC
195 TAAAGCGCTAC
* *
100452530 AAATTGAAATGTTTAAATACTGTAAATTG--GTGTTAAAGTGCTGCAAATTGAAGTGTTTAA-AT
1 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAATAT
*
100452592 GGTGTAAATTGAAGT
66 --TGCAAATTGAAGT
100452607 TTTTAAGTAC
Statistics
Matches: 261, Mismatches: 18, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
202 1 0.00
203 2 0.01
204 41 0.16
205 5 0.02
206 210 0.80
207 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (205 bp):
AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAATAT
TGCAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
TTACTGGAAATTGAGATGTTTTATCACTGTAATTGAGGAGTATAAATGTGGTTAATTGAGATGTT
AAAGCGCTAC
Found at i:100455166 original size:49 final size:49
Alignment explanation
Indices: 100454990--100455441 Score: 745
Period size: 49 Copynumber: 9.3 Consensus size: 49
100454980 CCCTTCGGGA
* *
100454990 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
100455037 CCTATCAC--ATATATACACTTTCACATTCATCACGTTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
100455084 CTTATCAC--ATATATACACCTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
100455131 CTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100455180 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
100455229 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
100455278 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
100455327 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
100455376 CTTATCACATATATATACACTTTCACATTCATCACATCGTCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100455425 CTTATCACATATATATA
1 CTTATCACATATATATA
100455442 TCTCATACAT
Statistics
Matches: 386, Mismatches: 15, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 91 0.24
49 294 0.76
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:100457825 original size:28 final size:28
Alignment explanation
Indices: 100457760--100457831 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
100457750 ATAGTGAATC
* *
100457760 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
100457789 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
100457817 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100457832 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:100465730 original size:28 final size:28
Alignment explanation
Indices: 100465665--100465736 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
100465655 ATAGTGAATC
* *
100465665 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
100465694 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
100465722 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100465737 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:100468983 original size:43 final size:43
Alignment explanation
Indices: 100468869--100469114 Score: 266
Period size: 43 Copynumber: 5.7 Consensus size: 43
100468859 GGGTGTCACA
*
100468869 AAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTTTGG-G
1 AAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGAG
* * * *
100468911 AAAGCGTCGCTAAAAGTCAGGTTTTTTAGCGGCGTTTGTGGAG
1 AAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGAG
* * * *
100468954 AAAGAGCCGCTAAAGGTCATGTTCGTTAGCGGCGTTTTTAGGA-
1 AAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGT-GGAG
* * ** *
100468997 AAAGTGCCGGTAAAGGTCATGTTCTTTAGCGGTATTTCT-GAG
1 AAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGAG
* * *
100469039 AAAAGTGCCGCTAAAGGTCATGTTTTTTAGCAGCGTTTGTGG-G
1 -AAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGAG
* *
100469082 AAAAGCGCCGCTAAAAGTCATGTTCTATAGCGG
1 -AAAGTGCCGCTAAAAGTCATGTTCTTTAGCGG
100469115 TATTTTTTCA
Statistics
Matches: 170, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.01
42 36 0.21
43 128 0.75
44 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (43 bp):
AAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGAG
Found at i:100469062 original size:86 final size:84
Alignment explanation
Indices: 100468868--100469119 Score: 315
Period size: 86 Copynumber: 3.0 Consensus size: 84
100468858 GGGGTGTCAC
* * * *
100468868 AAAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTTTGGGAAAGCGTCGCTAAAAGTCAGGT
1 AAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAAGTCATGT
* ** *
100468933 TTTTTAGCGGCGTTTGTGG
66 TCTTTAGCGGTATTTCTGG
* * * * *
100468952 AGAAAGAGCCGCTAAAGGTCATGTTCGTTAGCGGCGTTTTTAGGAAAAGTGCCGGTAAAGGTCAT
1 A-AAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTT-GGAAAAGCGCCGCTAAAAGTCAT
100469017 GTTCTTTAGCGGTATTTCTGAG
64 GTTCTTTAGCGGTATTTCTG-G
* * *
100469039 AAAAGTGCCGCTAAAGGTCATGTTTTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATG
1 AAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT-TTGGAAAAGCGCCGCTAAAAGTCATG
*
100469104 TTCTATAGCGGTATTT
65 TTCTTTAGCGGTATTT
100469120 TTTCACAAAT
Statistics
Matches: 142, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
84 1 0.01
85 36 0.25
86 102 0.72
87 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (84 bp):
AAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAAGTCATGT
TCTTTAGCGGTATTTCTGG
Found at i:100469102 original size:129 final size:128
Alignment explanation
Indices: 100468868--100469114 Score: 336
Period size: 129 Copynumber: 1.9 Consensus size: 128
100468858 GGGGTGTCAC
* * * *
100468868 AAAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTTTGGGAAAGCGTCGCTAAAAGTCAGGT
1 AAAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCATTTCTGGAAAAGCGCCGCTAAAAGTCAGGT
* *
100468933 TTTTTAGCGGCGTTTGTGGAGAAAGAGCCGCTAAAGGTCATGTTCGT-TAGCGGCGTTTTTAGG
66 TTTTTAGCAGCGTTTGTGGAGAAAGAGCCGCTAAAAGTCATGTTC-TATAGCGGCGTTTTTAGG
* * * * * *
100468996 AAAAGTGCCGGTAAAGGTCATGTTCTTTAGCGGTATTTCTGAGAAAAGTGCCGCTAAAGGTCATG
1 AAAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCATTTCTG-GAAAAGCGCCGCTAAAAGTCAGG
*
100469061 TTTTTTAGCAGCGTTTGTGG-GAAAAGCGCCGCTAAAAGTCATGTTCTATAGCGG
65 TTTTTTAGCAGCGTTTGTGGAG-AAAGAGCCGCTAAAAGTCATGTTCTATAGCGG
100469115 TATTTTTTCA
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
128 38 0.37
129 65 0.63
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (128 bp):
AAAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCATTTCTGGAAAAGCGCCGCTAAAAGTCAGGT
TTTTTAGCAGCGTTTGTGGAGAAAGAGCCGCTAAAAGTCATGTTCTATAGCGGCGTTTTTAGG
Found at i:100483814 original size:43 final size:43
Alignment explanation
Indices: 100483760--100483914 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 43
100483750 ATGTCATAAA
100483760 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
100483803 ATGCCACTGTCCC-GAACAG-GGTCTTACATG-AATCAAATA-CG
1 ATGCCAATGTCCCAG-AC-GTGGTCTTACATGTAATCACATATCG
* * * *
100483844 ATGTCGATGTCCCAGACATGGTCTCACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
** *
100483887 ATGCCAAAATCCTAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
100483915 CGAGAACACA
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 24 0.26
42 18 0.20
43 48 0.53
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:100485987 original size:124 final size:121
Alignment explanation
Indices: 100485767--100485987 Score: 300
Period size: 124 Copynumber: 1.8 Consensus size: 121
100485757 AATTATGTGG
* * * *
100485767 AATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATGATACCGGGCTA
1 AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATGATACCGGGCTA
* * * **
100485832 AGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGAA
66 AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGAA
*
100485888 AATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCGG
1 AATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATGATA-CCGG
*
100485952 GCTAAGCCCCGAAGACAATTATGCTGGAAATTATAA
62 GCTAAGCCCCGAAGACAATTATGCTAGAAATTATAA
100485988 CCGGGTTAAG
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
121 15 0.18
123 33 0.39
124 37 0.44
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (121 bp):
AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATGATACCGGGCTA
AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGAA
Found at i:100486108 original size:40 final size:39
Alignment explanation
Indices: 100485944--100486116 Score: 136
Period size: 40 Copynumber: 4.4 Consensus size: 39
100485934 AAATTGAATG
* * *
100485944 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
100485984 ATAACCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * *
100486023 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
100486063 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
*
100486102 GATATCCGGGTTAAG
1 -ATATCCGGGCTAAG
100486117 TCCGTAGGCC
Statistics
Matches: 105, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
36 4 0.04
37 2 0.02
38 2 0.02
39 22 0.21
40 75 0.71
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:100494113 original size:40 final size:40
Alignment explanation
Indices: 100494022--100494207 Score: 169
Period size: 40 Copynumber: 4.7 Consensus size: 40
100494012 GAGAAATTGA
* * * * **
100494022 ATGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAA
1 ATGATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTC
* * * *
100494062 ATTATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATGATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTC
* *
100494102 GTGATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTC
1 ATGATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTC
** * *
100494142 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC
1 ATGATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTC
* * * *
100494181 GTGATATCCGGGTTAAGTCCCGTAGGC
1 ATGATATCCGGGCTAAGACCCGAAGGC
100494208 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 26, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
39 27 0.23
40 89 0.75
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATGATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTC
Found at i:100494233 original size:79 final size:81
Alignment explanation
Indices: 100494065--100494252 Score: 211
Period size: 79 Copynumber: 2.4 Consensus size: 81
100494055 GCTGGAAATT
* * * *
100494065 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTGATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGTGATATCCGGGCTAAGACCCGAAGGCA
*
100494130 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * *
100494146 -TATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATCGTGATATCCGGGTTAAGTCCCGTAGGCC
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGTGATATCCGGGCTAAGACCCGAAGGCA
* * *
100494209 TTGGTGCGGGTTA-CC
66 TTCGTGCGAGTCATCC
* * *
100494224 ATAACCGGGCTATGTCCCGAAGGCGTTTG
1 ATAACCGGGCTAAGACCCGAAGGCATTTG
100494253 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 1 0.01
79 60 0.67
80 28 0.31
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.24
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGTGATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:100497126 original size:21 final size:20
Alignment explanation
Indices: 100497092--100497131 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
100497082 ATGTTCAAGT
100497092 TCCACACGACCGTGTTGCCCA
1 TCCACACGACCGTG-TGCCCA
**
100497113 TCCACACGGGCGTGTGCCC
1 TCCACACGACCGTGTGCCC
100497132 TGTTTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.15, C:0.42, G:0.25, T:0.17
Consensus pattern (20 bp):
TCCACACGACCGTGTGCCCA
Found at i:100512044 original size:46 final size:46
Alignment explanation
Indices: 100511982--100512209 Score: 375
Period size: 46 Copynumber: 5.0 Consensus size: 46
100511972 TTCTGTCATA
* * *
100511982 TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTTACG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACG
100512028 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACG
100512074 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACG
** *
100512120 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACG
* **
100512166 TTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCA
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
100512210 GAGAGCACAC
Statistics
Matches: 175, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 175 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACG
Found at i:100512210 original size:46 final size:46
Alignment explanation
Indices: 100511935--100512209 Score: 372
Period size: 46 Copynumber: 5.9 Consensus size: 46
100511925 TTTGACATGA
* * * * **
100511935 TGCCATAGTGTCTTTCAACTATGGTCTTTTACTCATTTTC-TGTCATAT
1 TGCCATGGTATCTTTCAACCATGGTC--TTACTCA-TTTCATATCACGT
* * * *
100511983 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTTACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
100512029 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
100512075 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
100512121 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
100512167 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
100512210 GAGAGCACAC
Statistics
Matches: 211, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
45 4 0.02
46 184 0.87
48 23 0.11
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:100513871 original size:31 final size:31
Alignment explanation
Indices: 100513836--100513897 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
100513826 TTCAAAGTTA
100513836 GACTACTACTACTGTCCAAAACTGTTTTAGT
1 GACTACTACTACTGTCCAAAACTGTTTTAGT
* *
100513867 GACTACTATTGCTGTCCAAAACTGTTTTAGT
1 GACTACTACTACTGTCCAAAACTGTTTTAGT
100513898 ACAAGATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (31 bp):
GACTACTACTACTGTCCAAAACTGTTTTAGT
Found at i:100514386 original size:11 final size:11
Alignment explanation
Indices: 100514370--100514417 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
100514360 CTCTATATAC
100514370 TAATAAAATAA
1 TAATAAAATAA
100514381 TAATAAAATATA
1 TAATAAAATA-A
* *
100514393 TTATTAAAATAT
1 -TAATAAAATAA
100514405 TAATAAAATAA
1 TAATAAAATAA
100514416 TA
1 TA
100514418 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:100514400 original size:24 final size:24
Alignment explanation
Indices: 100514364--100514419 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
100514354 TTCTTTCTCT
*
100514364 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
100514388 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
100514412 ATAATATT
1 AT-ATATT
100514420 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:100525327 original size:34 final size:33
Alignment explanation
Indices: 100525268--100525333 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
100525258 TAGCCAAATA
*
100525268 AGTGTGGGCCTTAGCCCACTACAGTAATAGTATT
1 AGTGTGGGCCTTAGCCCAATACAGT-ATAGTATT
*
100525302 AGTGTGGGCCTTAGCCCAATTCAGTATAGTAT
1 AGTGTGGGCCTTAGCCCAATACAGTATAGTAT
100525334 CAAAAATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 7 0.23
34 23 0.77
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (33 bp):
AGTGTGGGCCTTAGCCCAATACAGTATAGTATT
Found at i:100526712 original size:24 final size:23
Alignment explanation
Indices: 100526667--100526712 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
100526657 ATTCCAACAT
*
100526667 GAAAAGAAAGGCATAGAGAAAAA
1 GAAAAGAAAGGCATAGAAAAAAA
100526690 GAAAAGAGAAGGCGA-AGAAAAAA
1 GAAAAGA-AAGGC-ATAGAAAAAA
100526713 GGTGCTCGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 12 0.60
25 1 0.05
ACGTcount: A:0.65, C:0.04, G:0.28, T:0.02
Consensus pattern (23 bp):
GAAAAGAAAGGCATAGAAAAAAA
Found at i:100527744 original size:11 final size:11
Alignment explanation
Indices: 100527717--100527750 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
100527707 CCAAGATAAG
100527717 AAGTTTTAAACA
1 AAGTTTTAAA-A
*
100527729 AAGTTTGAAAA
1 AAGTTTTAAAA
100527740 AAGTTTTAAAA
1 AAGTTTTAAAA
100527751 TTGACCGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (11 bp):
AAGTTTTAAAA
Found at i:100529922 original size:10 final size:10
Alignment explanation
Indices: 100529900--100529948 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
100529890 AAATTTGTCG
100529900 AAAA-TAATT
1 AAAATTAATT
*
100529909 AAAATTAATC
1 AAAATTAATT
*
100529919 AAAATTTGATAT
1 AAAA-TTAAT-T
100529931 AAAATTAATT
1 AAAATTAATT
100529941 AAAATTAA
1 AAAATTAA
100529949 ACATGTTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 4 0.12
10 17 0.52
11 8 0.24
12 4 0.12
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:100537040 original size:22 final size:24
Alignment explanation
Indices: 100537004--100537051 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
100536994 ATTTCTATGC
100537004 TAAATTGATAAAGAT-TAA-TATA
1 TAAATTGATAAAGATATAATTATA
100537026 TAAATT-ATAATAGATATAATTATA
1 TAAATTGATAA-AGATATAATTATA
100537050 TA
1 TA
100537052 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAATTGATAAAGATATAATTATA
Found at i:100554030 original size:27 final size:27
Alignment explanation
Indices: 100553986--100554081 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
100553976 GTTAGTATTA
* *
100553986 TACTGGTGGCTCTACCACA-ATTATTGT
1 TACTGGTGGCTTTGCCACATA-TATTGT
* * *
100554013 TACCGGTGGCTTTGCCACATATATAGA
1 TACTGGTGGCTTTGCCACATATATTGT
* *
100554040 TACTGGTGGCTTTGCCACATGTACTGT
1 TACTGGTGGCTTTGCCACATATATTGT
*
100554067 TACTGGTAGCTTTGC
1 TACTGGTGGCTTTGC
100554082 TGCAATATTG
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 56 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (27 bp):
TACTGGTGGCTTTGCCACATATATTGT
Found at i:100560242 original size:29 final size:29
Alignment explanation
Indices: 100560198--100560256 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
100560188 CATGTCCCAA
* *
100560198 AAATGTCTCTTCTCGCAGCTAGAATTCAC
1 AAATGTCACTTCTCGCAGCCAGAATTCAC
*
100560227 AAATGTCACTTTTCGCAGCCAGAATTCAC
1 AAATGTCACTTCTCGCAGCCAGAATTCAC
100560256 A
1 A
100560257 CTTGCTGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
AAATGTCACTTCTCGCAGCCAGAATTCAC
Found at i:100568033 original size:44 final size:46
Alignment explanation
Indices: 100567985--100568112 Score: 174
Period size: 44 Copynumber: 2.8 Consensus size: 46
100567975 ACATATCTGT
100567985 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACATC-T-CGTA
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACATCATACGTA
* * *
100568029 GCCGATGCATGTCCTAGACATGGTCTTACACT-GTCTC-TCATAATGTG
1 GCCGATGCATGTCCTAGACAT-GTCTTACACTAG-CACATCAT-ACGTA
100568076 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACA
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACA
100568113 CACACATCGC
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
44 24 0.33
45 13 0.18
46 12 0.16
47 24 0.33
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCACATCATACGTA
Found at i:100568106 original size:91 final size:93
Alignment explanation
Indices: 100567943--100568112 Score: 290
Period size: 91 Copynumber: 1.8 Consensus size: 93
100567933 ATGCTAATGC
100567943 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCTAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCTAGACATGT
100568008 CTTACACTAGCACATCTCGTAGCCGATG
66 CTTACACTAGCACATCTCGTAGCCGATG
* * * *
100568036 CATGTCCTAGACATGGTCTTACACTGTCTCTCATA-ATGTG-GCCGATGCATGTCCTAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCTAGACATGT
100568099 CTTACACTAGCACA
66 CTTACACTAGCACA
100568113 CACACATCGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 37 0.51
92 4 0.05
93 32 0.44
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCTAGACATGT
CTTACACTAGCACATCTCGTAGCCGATG
Found at i:100569098 original size:21 final size:21
Alignment explanation
Indices: 100569073--100569141 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
100569063 TCTAGCTTCT
100569073 AAATCCTTTTCTTGGCTGGAA
1 AAATCCTTTTCTTGGCTGGAA
* * ***
100569094 AAATCGGTGGTTTC-TAGCTTCTA
1 AAATC-CT--TTTCTTGGCTGGAA
100569117 -AATCCTTTTCTTGGCTGGAA
1 AAATCCTTTTCTTGGCTGGAA
100569137 AAATC
1 AAATC
100569142 GGTGGAGAGA
Statistics
Matches: 33, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 10 0.30
22 5 0.15
23 5 0.15
24 4 0.12
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (21 bp):
AAATCCTTTTCTTGGCTGGAA
Found at i:100569121 original size:43 final size:43
Alignment explanation
Indices: 100569060--100569146 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
100569050 TTTGCTGAAA
100569060 GTTTCTAGCTTCTAAATCCTTTTCTTGGCTGGAAAAATCGGTG
1 GTTTCTAGCTTCTAAATCCTTTTCTTGGCTGGAAAAATCGGTG
100569103 GTTTCTAGCTTCTAAATCCTTTTCTTGGCTGGAAAAATCGGTG
1 GTTTCTAGCTTCTAAATCCTTTTCTTGGCTGGAAAAATCGGTG
100569146 G
1 G
100569147 AGAGAAGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (43 bp):
GTTTCTAGCTTCTAAATCCTTTTCTTGGCTGGAAAAATCGGTG
Found at i:100569720 original size:18 final size:18
Alignment explanation
Indices: 100569697--100569746 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
100569687 GGCCCTTTCT
100569697 AGTAACAGTAAACAGTGC
1 AGTAACAGTAAACAGTGC
*
100569715 AGTAACAGTAAACAGTGT
1 AGTAACAGTAAACAGTGC
* *
100569733 AGAAATAGTAAACA
1 AGTAACAGTAAACA
100569747 ATATGCAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.18
Consensus pattern (18 bp):
AGTAACAGTAAACAGTGC
Found at i:100570096 original size:27 final size:27
Alignment explanation
Indices: 100570056--100570294 Score: 225
Period size: 27 Copynumber: 9.0 Consensus size: 27
100570046 AACATACATT
* * *
100570056 ACATAGGGGCAAAACAGTCATCTTACT
1 ACATAAGGGCAAAACAGTCATTTTACC
* *
100570083 ATATAAGGGCAAAATAGTCATTTTACC
1 ACATAAGGGCAAAACAGTCATTTTACC
*
100570110 ACATAAGGGCAAAACAATCATTTTACC
1 ACATAAGGGCAAAACAGTCATTTTACC
* * *
100570137 ACATAAGGGAAAAACAATCATTCTACC
1 ACATAAGGGCAAAACAGTCATTTTACC
* *
100570164 ACATAAGGGCAAAATAGTCATTTAACC
1 ACATAAGGGCAAAACAGTCATTTTACC
* * * *
100570191 ACATAAGGGAAAAATAATCATTTTATC
1 ACATAAGGGCAAAACAGTCATTTTACC
* *
100570218 AC---A-GGCAAAACAGTTATTTTATC
1 ACATAAGGGCAAAACAGTCATTTTACC
* * * * * *
100570241 ATAGAAAGGCAAAATAGTCTTTTTATC
1 ACATAAGGGCAAAACAGTCATTTTACC
* *
100570268 ACATAGGGGCAAAATAGTCATTTTACC
1 ACATAAGGGCAAAACAGTCATTTTACC
100570295 TTATGAGGGT
Statistics
Matches: 175, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
23 17 0.10
24 1 0.01
26 1 0.01
27 156 0.89
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (27 bp):
ACATAAGGGCAAAACAGTCATTTTACC
Found at i:100572159 original size:46 final size:46
Alignment explanation
Indices: 100572108--100572279 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
100572098 GGTTGAGCAT
*
100572108 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * * *
100572154 TCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--C
100572201 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
100572247 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
100572280 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:100579641 original size:46 final size:46
Alignment explanation
Indices: 100579591--100579716 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
100579581 TGGTTGAGCA
*
100579591 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
100579637 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
100579683 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
100579717 GGGGCTGGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:100581458 original size:15 final size:15
Alignment explanation
Indices: 100581438--100581476 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
100581428 GGCTTTCCAC
100581438 AACATGTATTCATTT
1 AACATGTATTCATTT
100581453 AACATGTATTCATTT
1 AACATGTATTCATTT
100581468 AACATGTAT
1 AACATGTAT
100581477 AAATCATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (15 bp):
AACATGTATTCATTT
Found at i:100591227 original size:40 final size:40
Alignment explanation
Indices: 100591119--100591288 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
100591109 CGGGATTTAA
* * * * *
100591119 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
100591159 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100591199 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100591239 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100591279 CCGGATATAT
1 CCGGATATAT
100591289 TTTCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:100621859 original size:40 final size:40
Alignment explanation
Indices: 100621751--100622000 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
100621741 CGGGATTTAA
* * * * *
100621751 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
100621791 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
100621831 CCGGATATATCCACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100621871 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100621911 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100621951 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100621991 CCGGATATAT
1 CCGGATATAT
100622001 TTCCAATGTT
Statistics
Matches: 192, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 191 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:100629975 original size:40 final size:40
Alignment explanation
Indices: 100629867--100630113 Score: 358
Period size: 40 Copynumber: 6.2 Consensus size: 40
100629857 CGGGATTTAA
* * * * *
100629867 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
100629907 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100629947 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100629987 CCGGATATATCAACTCGCACGAATGCCTT---GTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100630024 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100630064 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100630104 CCGGATATAT
1 CCGGATATAT
100630114 TTCCAATGTT
Statistics
Matches: 187, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.20
39 1 0.01
40 149 0.80
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:100630048 original size:77 final size:78
Alignment explanation
Indices: 100629867--100630113 Score: 336
Period size: 77 Copynumber: 3.1 Consensus size: 78
100629857 CGGGATTTAA
* * * * * * * * * * *
100629867 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGT-GACTTGCACAAAG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACGAAT
100629931 GCCTTCGGGTCTTAGC
65 GCCTT--GGTCTTAGC
100629947 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
100630012 CCTT-GTCTTAGC
66 CCTTGGTCTTAGC
100630024 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
100630089 CCTTCGGGTCTTAGC
66 CCTT--GGTCTTAGC
100630104 CCGGATATAT
1 CCGGATATAT
100630114 TTCCAATGTT
Statistics
Matches: 152, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
77 77 0.51
79 1 0.01
80 74 0.49
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (78 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
CCTTGGTCTTAGC
Found at i:100643234 original size:40 final size:40
Alignment explanation
Indices: 100643088--100643336 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
100643078 CGGGATTTAA
* * * * *
100643088 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
100643128 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100643168 CCGGATATATC-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100643207 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100643247 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100643287 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100643327 CCGGATATAT
1 CCGGATATAT
100643337 TTCCAATGTT
Statistics
Matches: 192, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.81
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:100645284 original size:27 final size:27
Alignment explanation
Indices: 100645182--100645274 Score: 150
Period size: 27 Copynumber: 3.4 Consensus size: 27
100645172 AAATTATCGA
* *
100645182 AATGCCCCTGTAGGGTAAAATGACCGC
1 AATGCCCTTGTAGGGTAAAATGACCGT
* *
100645209 AATGCCCCTGTAGGGTAAAATAACCGT
1 AATGCCCTTGTAGGGTAAAATGACCGT
100645236 AATGCCCTTGTAGGGTAAAATGACCGT
1 AATGCCCTTGTAGGGTAAAATGACCGT
100645263 AATGCCCTTGTA
1 AATGCCCTTGTA
100645275 TAGAAAAATG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (27 bp):
AATGCCCTTGTAGGGTAAAATGACCGT
Found at i:100645295 original size:54 final size:54
Alignment explanation
Indices: 100645182--100645297 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
100645172 AAATTATCGA
* * * **
100645182 AATGCCCCTGTAGGGTAAAATGACCGCAATGCCCCTGTAGGGTAAAATAACCGT
1 AATGCCCTTGTAGGGTAAAATGACCGCAATGCCCCTGTAGAGAAAAATAACAAT
* * * **
100645236 AATGCCCTTGTAGGGTAAAATGACCGTAATGCCCTTGTATAGAAAAATGTCAAT
1 AATGCCCTTGTAGGGTAAAATGACCGCAATGCCCCTGTAGAGAAAAATAACAAT
*
100645290 TATGCCCT
1 AATGCCCT
100645298 CATGTTTCGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (54 bp):
AATGCCCTTGTAGGGTAAAATGACCGCAATGCCCCTGTAGAGAAAAATAACAAT
Found at i:100645512 original size:26 final size:26
Alignment explanation
Indices: 100645474--100645524 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
100645464 TTTGCCACAT
* *
100645474 TTATTGTTTCTAGAAGCTATGCTGCA
1 TTATTATTACTAGAAGCTATGCTGCA
* *
100645500 TTATTATTACTAGCAGCTTTGCTGC
1 TTATTATTACTAGAAGCTATGCTGC
100645525 GATATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.43
Consensus pattern (26 bp):
TTATTATTACTAGAAGCTATGCTGCA
Found at i:100646528 original size:27 final size:27
Alignment explanation
Indices: 100646498--100646612 Score: 160
Period size: 27 Copynumber: 4.3 Consensus size: 27
100646488 ACCCCGATTT
* *
100646498 GTAAAATTATCGAAATGCCCCTGTAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
*
100646525 GTAAAATGATCGTAATGCCCATGTAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
*
100646552 GTAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
* * *
100646579 GTAAAATAATCGTAATACCCCTG-ATG
1 GTAAAATGATCGTAATGCCCCTGTAGG
100646605 GTAAAATG
1 GTAAAATG
100646613 TCAATTATGC
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 9 0.12
27 69 0.88
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (27 bp):
GTAAAATGATCGTAATGCCCCTGTAGG
Found at i:100646794 original size:27 final size:26
Alignment explanation
Indices: 100646757--100646840 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
100646747 AAGTTCTGTG
*
100646757 CTGGTGACTATGTCACATTCACTGTTA
1 CTGGTGGCTATGTCACATT-ACTGTTA
* *
100646784 CTGGTGGCTATGCCACAATTACTGATA
1 CTGGTGGCTATGTCAC-ATTACTGTTA
*
100646811 CTGGTGGCT-T-TCCACATTTACTGTTT
1 CTGGTGGCTATGT-CACA-TTACTGTTA
100646837 CTGG
1 CTGG
100646841 CAGCTATACT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 1 0.02
26 15 0.31
27 29 0.60
28 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTATGTCACATTACTGTTA
Found at i:100649348 original size:29 final size:29
Alignment explanation
Indices: 100649316--100649450 Score: 146
Period size: 29 Copynumber: 4.7 Consensus size: 29
100649306 ATACCCTCCG
** * *
100649316 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
100649345 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* *
100649374 AACAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
100649403 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
100649432 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
100649451 GATCTCGTCA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 90 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:100649383 original size:58 final size:58
Alignment explanation
Indices: 100649320--100649451 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 58
100649310 CCTCCGAGCT
** * ** * *
100649320 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAACA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAACA
* * * *
100649378 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAACA
100649436 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
100649452 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAACA
Found at i:100651076 original size:27 final size:27
Alignment explanation
Indices: 100651045--100651143 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
100651035 GGCTGTCACA
*
100651045 GCCCCTGTAGGGTAAAATGACTGTAAT
1 GCCCCTGTAGGGTAAAATGACCGTAAT
*
100651072 GCCCCTGTGGGGTAAAATGACCGTAAT
1 GCCCCTGTAGGGTAAAATGACCGTAAT
* *
100651099 G-CCCTGTAAGGTAAAATAACCGTAAT
1 GCCCCTGTAGGGTAAAATGACCGTAAT
* *
100651125 ACCCCTGTATGGTAAAATG
1 GCCCCTGTAGGGTAAAATG
100651144 TTGATTATAC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.35
27 41 0.65
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (27 bp):
GCCCCTGTAGGGTAAAATGACCGTAAT
Found at i:100658126 original size:40 final size:40
Alignment explanation
Indices: 100658030--100658248 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 40
100658020 CAAATGGTGT
* * * *
100658030 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
100658071 CCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
100658111 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
100658151 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
100658191 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
100658231 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
100658249 ACAATCGAGC
Statistics
Matches: 152, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
40 127 0.84
41 25 0.16
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:100658244 original size:120 final size:121
Alignment explanation
Indices: 100658030--100658248 Score: 289
Period size: 120 Copynumber: 1.8 Consensus size: 121
100658020 CAAATGGTGT
* * *
100658030 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* * *
100658095 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCCAAAA
66 GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCCAAAA
* * * * *
100658151 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAAT
* * *
100658214 TGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
100658249 ACAATCGAGC
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
119 1 0.01
120 57 0.69
121 25 0.30
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCCAAAA
Found at i:100658269 original size:40 final size:40
Alignment explanation
Indices: 100658191--100658274 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
100658181 GTTATTAAAT
* * *
100658191 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
100658231 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
100658271 CCGG
1 CCGG
100658275 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:100660113 original size:40 final size:40
Alignment explanation
Indices: 100660016--100660194 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
100660006 CGAATGGTGT
* * * * *
100660016 CCGGGCTAAGTCCCGAAAGCTTTTGTGCTATGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAAA
* *
100660057 TCGGG-TCAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
100660097 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
100660137 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
100660177 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
100660195 ACAATCGAGC
Statistics
Matches: 113, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
40 88 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:100660155 original size:80 final size:81
Alignment explanation
Indices: 100660016--100660194 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 81
100660006 CGAATGGTGT
* * * * * *
100660016 CCGGGCTAAGTCCCGAAAGCTTTTGTGCTATGTGACTAAATTCGGGTCAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAAGTCCCGAAGGCAATT
* *
100660081 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
100660097 CCGGGTTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AAGTCCCGAAGGCAAT
* *
100660160 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
100660177 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
100660195 ACAATCGAGC
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 57 0.70
81 24 0.29
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAAGTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:100660215 original size:40 final size:40
Alignment explanation
Indices: 100660137--100660215 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
100660127 GTTACTAAAT
* * *
100660137 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* *
100660177 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATA
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATA
100660216 TTCGGTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:100670789 original size:24 final size:24
Alignment explanation
Indices: 100670738--100670790 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
100670728 TAATTTTCTC
** *
100670738 TTAATTTTTAATTTTTTTAATTAG
1 TTAATTTTTAATTCATTGAATTAG
100670762 TTAATTTTTCAATTCATTGAATTA-
1 TTAATTTTT-AATTCATTGAATTAG
100670786 TTAAT
1 TTAAT
100670791 AATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
TTAATTTTTAATTCATTGAATTAG
Found at i:100673600 original size:235 final size:235
Alignment explanation
Indices: 100673183--100673654 Score: 872
Period size: 235 Copynumber: 2.0 Consensus size: 235
100673173 TAGTAGAGAG
*
100673183 AAATTGCTACGATCAACATATGAAGACATAAATTAAGCTCAATGATTGCCGCTTAGTCTTGAATA
1 AAATTGCTACGATCAACATATGAAGACATAAATTAAGCTCAATGATTGCAGCTTAGTCTTGAATA
100673248 AAGGAATAAAAATCAAATTGGTAAGGGTTAACATGTCTTTGTTACAAAAGAATTTAGTCTAAAAT
66 AAGGAATAAAAATCAAATTGGTAAGGGTTAACATGTCTTTGTTACAAAAGAATTTAGTCTAAAAT
*
100673313 TTTCTATTATAATAAGTAGCATAACTATCATATTTCTTGTTTTTGAGCATGAGTATATCAAATTC
131 TTGCTATTATAATAAGTAGCATAACTATCATATTTCTTGTTTTTGAGCATGAGTATATCAAATTC
*
100673378 ATAATTTTAGGGAGAACGTTGTTCTGGAGGAGTTTTTCAA
196 ATAATTTTAGGGAGAACGTTGTTCTGAAGGAGTTTTTCAA
*
100673418 AAATTGCTACGATCAACATATGAAGACATAAATTAAGCTCAATGATTGCAGCTTAGTCTTGGATA
1 AAATTGCTACGATCAACATATGAAGACATAAATTAAGCTCAATGATTGCAGCTTAGTCTTGAATA
* *
100673483 AAGGAATAAAAATCAAATTGGTAAGGGTTAACATGTCTTTGTTATAAAAGCATTTAGTCTAAAAT
66 AAGGAATAAAAATCAAATTGGTAAGGGTTAACATGTCTTTGTTACAAAAGAATTTAGTCTAAAAT
*
100673548 TTGCTATTATAATAAGTAGCATAACTATCATATTTCTTGTTTTTGGGCATGAGTATATCAAATTC
131 TTGCTATTATAATAAGTAGCATAACTATCATATTTCTTGTTTTTGAGCATGAGTATATCAAATTC
*
100673613 ATAATTTTAGGGAGAATGTTGTTCTGAAGGAGTTTTTCAA
196 ATAATTTTAGGGAGAACGTTGTTCTGAAGGAGTTTTTCAA
100673653 AA
1 AA
100673655 GTGTTTTCGA
Statistics
Matches: 229, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
235 229 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (235 bp):
AAATTGCTACGATCAACATATGAAGACATAAATTAAGCTCAATGATTGCAGCTTAGTCTTGAATA
AAGGAATAAAAATCAAATTGGTAAGGGTTAACATGTCTTTGTTACAAAAGAATTTAGTCTAAAAT
TTGCTATTATAATAAGTAGCATAACTATCATATTTCTTGTTTTTGAGCATGAGTATATCAAATTC
ATAATTTTAGGGAGAACGTTGTTCTGAAGGAGTTTTTCAA
Found at i:100679428 original size:27 final size:27
Alignment explanation
Indices: 100679397--100679662 Score: 288
Period size: 27 Copynumber: 9.9 Consensus size: 27
100679387 TAGACCCCAA
*
100679397 TTTGTAAAATTACCAAAATACCCCTGG
1 TTTGTAAAATTACCAAAATACCCCTAG
* *
100679424 TTTGTAAAATTATCGAAATACTCCC-AG
1 TTTGTAAAATTACCAAAATAC-CCCTAG
* *
100679451 TTTGTAAAATTACAAAAATACCCCCAG
1 TTTGTAAAATTACCAAAATACCCCTAG
*
100679478 TTTGTAAAATTACCGAAATACCCCTAG
1 TTTGTAAAATTACCAAAATACCCCTAG
* ** *
100679505 TTTATAAAATTACTGAAATA-CCCTTG
1 TTTGTAAAATTACCAAAATACCCCTAG
* * *
100679531 TAGTGTAAAATTA-CATAAATACCCTTAA
1 T-TTGTAAAATTACCA-AAATACCCCTAG
*
100679559 TTTGTAAAATTACTAAAATACCCCTAG
1 TTTGTAAAATTACCAAAATACCCCTAG
* * *
100679586 TTTGTAAAATTATCGAAATACCCCAAG
1 TTTGTAAAATTACCAAAATACCCCTAG
*
100679613 TTTGTAAAATTACCAAAATA-CCCTTG
1 TTTGTAAAATTACCAAAATACCCCTAG
* *
100679639 TAGTATAAAATTACCAAAATACCC
1 T-TTGTAAAATTACCAAAATACCC
100679663 TTGTAGTGTA
Statistics
Matches: 198, Mismatches: 33, Indels: 15
0.80 0.13 0.06
Matches are distributed among these distances:
26 14 0.07
27 174 0.88
28 10 0.05
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCCTAG
Found at i:100679636 original size:81 final size:81
Alignment explanation
Indices: 100679395--100679689 Score: 343
Period size: 81 Copynumber: 3.7 Consensus size: 81
100679385 TTTAGACCCC
*
100679395 AATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATC-GAAATACTCCCAGTTTGTAAA
1 AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCTGAAATAC-CCCAGTTTGTAAA
* **
100679459 ATTACAAAAATACCCCC
65 ATTACCAAAATACCCTT
* * * ** *
100679476 AGTTTGTAAAATTACCGAAATACCCCTAGTTTATAAAATTA-CTGAAATACCCTTGTAGTGTAAA
1 AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCTGAAATACCCCAGT-TTGTAAA
100679540 ATTA-CATAAATACCCTT
65 ATTACCA-AAATACCCTT
*
100679557 AATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTATC-GAAATACCCCAAGTTTGTAAA
1 AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCTGAAATACCCC-AGTTTGTAAA
100679621 ATTACCAAAATACCCTT
65 ATTACCAAAATACCCTT
* * * * *
100679638 -GTAGTATAAAATTACCAAAATA-CCCTTGTAGTGTAAAATT-TCTGAAATACCC
1 AAT-TTGTAAAATTACCAAAATACCCCTAGT-TTGTAAAATTATCTGAAATACCC
100679690 TTATAGGGCA
Statistics
Matches: 182, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
80 15 0.08
81 162 0.89
82 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCTGAAATACCCCAGTTTGTAAAA
TTACCAAAATACCCTT
Found at i:100680208 original size:27 final size:27
Alignment explanation
Indices: 100680137--100680210 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
100680127 ATTTACCTGT
* * *
100680137 GGCTATGTGCCGATCATATTTATTGAT
1 GGCTATGTGCCGATCATATTTACTCAC
* * * * *
100680164 GACTCTATGTCGACCATATTTACTCAC
1 GGCTATGTGCCGATCATATTTACTCAC
*
100680191 GGCTGTGTGCCGATCATATT
1 GGCTATGTGCCGATCATATT
100680211 ACAGGTACTG
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (27 bp):
GGCTATGTGCCGATCATATTTACTCAC
Found at i:100683890 original size:81 final size:81
Alignment explanation
Indices: 100683751--100683912 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
100683741 TTGATTAAGT
100683751 TTTAATTAAATTTCTTTGGTTTTTGGACTATAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
1 TTTAATTAAATTTCTTTGGTTTTTGGACTATAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
100683816 CTTTGGGATTTTCATG
66 CTTTGGGATTTTCATG
*
100683832 TTTAATTAAATTTCTTTGGTTTTTGGACTATAATGCTATTTGAACTATGGTTGTGTTTTTATCTA
1 TTTAATTAAATTTCTTTGGTTTTTGGACTATAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
100683897 CTTTGGGATTTTCATG
66 CTTTGGGATTTTCATG
100683913 CATGCATAAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.21, C:0.09, G:0.17, T:0.52
Consensus pattern (81 bp):
TTTAATTAAATTTCTTTGGTTTTTGGACTATAATGCTATTTGAACTATGGTTGCGTTTTTATCTA
CTTTGGGATTTTCATG
Found at i:100708206 original size:48 final size:48
Alignment explanation
Indices: 100708148--100708265 Score: 155
Period size: 48 Copynumber: 2.5 Consensus size: 48
100708138 TGAGAGCTAA
* * **
100708148 TGTAAGACATGTTTAGGACATGCATCGGCCTCAAGATATTTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGCCAG
* ** *
100708196 TGTAAGACATGCCTGGGACATGCATCGGCCTCGCGATATACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGCCAG
*
100708244 TGTAAGACCTGTCTGGGACATG
1 TGTAAGACATGTCTGGGACATG
100708266 GCGTCAACTT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGCCAG
Found at i:100708388 original size:49 final size:47
Alignment explanation
Indices: 100708100--100708408 Score: 148
Period size: 48 Copynumber: 6.5 Consensus size: 47
100708090 TATGTGTGCT
* * * * * *
100708100 AGTGTAAGACATGTCTGGGACATGCATCAG--TGATAGCATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGCATCGGCCTCATA-TATGAAAGCC
* * * * * **
100708146 AATGTAAGACATGTTTAGGACATGCATCGGCCTCAAGATATTTAAGCC
1 AGTGTAAGACCTGTCTGGGACATGCATCGGCCTC-ATATATGAAAGCC
* * ** *
100708194 AGTGTAAGACATGCCTGGGACATGCATCGGCCTCGCGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGCATCGGCCTC-ATATATGA-AAGCC
* ** * ****
100708242 AGTGTAAGACCTGTCTGGGACATGGCGTC-AACT--TGT-TGTGTTCC
1 AGTGTAAGACCTGTCTGGGACAT-GCATCGGCCTCATATATGAAAGCC
* * * ** * * *
100708286 AATGTAAGACCTATCTAGGACATAGCATCTACAC-CGATAGATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACAT-GCATCGGC-CTC-ATATATGAAAGCC
100708335 AGTGTAAGACCTGTCTGGGACATGACATCGGCCTCACTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATG-CATCGGCCTCA-TATATGAAAGCC
*
100708384 AGTGTAAGACCATGCCTGGGACATG
1 AGTGTAAGACC-TGTCTGGGACATG
100708409 GCGTCGGCAT
Statistics
Matches: 195, Mismatches: 52, Indels: 28
0.71 0.19 0.10
Matches are distributed among these distances:
44 26 0.13
45 2 0.01
46 27 0.14
48 72 0.37
49 56 0.29
50 12 0.06
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGCATCGGCCTCATATATGAAAGCC
Found at i:100712997 original size:40 final size:40
Alignment explanation
Indices: 100712952--100713119 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
100712942 CGGAATATAA
100712952 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
100712992 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
100713032 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
100713072 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
100713112 CCGGATAT
1 CCGGATAT
100713120 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:100713102 original size:80 final size:80
Alignment explanation
Indices: 100712968--100713117 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
100712958 ATAATCACGT
*
100712968 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
100713032 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
100713048 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
100713111 CCCGGAT
64 CCCGGAT
100713118 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:100721001 original size:40 final size:40
Alignment explanation
Indices: 100720956--100721122 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
100720946 CGGAATATAA
100720956 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * *
100720996 CCGGATA-AATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
100721035 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
100721075 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
100721115 CCGGATAT
1 CCGGATAT
100721123 CATTCAATTT
Statistics
Matches: 103, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.32
40 68 0.66
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:100723352 original size:30 final size:30
Alignment explanation
Indices: 100723318--100723378 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
100723308 TCCTTAACTC
100723318 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
100723348 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
100723378 A
1 A
100723379 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:100729535 original size:11 final size:11
Alignment explanation
Indices: 100729512--100729564 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 11
100729502 ATTTTAATCC
100729512 TTTTATATATAT
1 TTTTATAT-TAT
100729524 TTTTATATTA-
1 TTTTATATTAT
100729534 -TTTAT-TTA-
1 TTTTATATTAT
*
100729542 TTTTA-AATAT
1 TTTTATATTAT
100729552 TTTTATATTAT
1 TTTTATATTAT
100729563 TT
1 TT
100729565 ATTTTACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 3 0.09
9 11 0.31
10 5 0.14
11 8 0.23
12 8 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATTAT
Found at i:100729552 original size:28 final size:29
Alignment explanation
Indices: 100729520--100729577 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
100729510 CCTTTTATAT
*
100729520 ATATTTTTATATTATTTA-TTTATTTTAA
1 ATATTTTTATATTATTTATTTTACTTTAA
100729548 ATATTTTTATATTATTTATTTTACTTTAA
1 ATATTTTTATATTATTTATTTTACTTTAA
100729577 A
1 A
100729578 CCTTATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
ATATTTTTATATTATTTATTTTACTTTAA
Found at i:100729565 original size:19 final size:19
Alignment explanation
Indices: 100729512--100729565 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
100729502 ATTTTAATCC
**
100729512 TTTTATATATATTTTTATAT
1 TTTTATAT-TATTTAAATAT
100729532 TATTTAT-TTATTTTAAATAT
1 T-TTTATATTA-TTTAAATAT
100729552 TTTTATATTATTTA
1 TTTTATATTATTTA
100729566 TTTTACTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 11 0.38
20 13 0.45
21 5 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATATTATTTAAATAT
Found at i:100729567 original size:15 final size:15
Alignment explanation
Indices: 100729521--100729569 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
100729511 CTTTTATATA
100729521 TATTTTTATATTATT
1 TATTTTTATATTATT
* **
100729536 TA--TTTATTTTAAA
1 TATTTTTATATTATT
100729549 TATTTTTATATTATT
1 TATTTTTATATTATT
100729564 TATTTT
1 TATTTT
100729570 ACTTTAAACC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 10 0.38
15 16 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTTATATTATT
Found at i:100729624 original size:21 final size:22
Alignment explanation
Indices: 100729600--100729707 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 22
100729590 GCAAAAATAT
*
100729600 TTATTTTATT-TGTATTATTTA
1 TTATTTTATTATATATTATTTA
* * *
100729621 TTATATTATTTATTTTTTATTGTA
1 TTATTTTA-TTATATATTATT-TA
100729645 -TATTTT-TTATTATATTATTTA
1 TTATTTTATTA-TATATTATTTA
*
100729666 TT-TTTTATTGTATATTATTTA
1 TTATTTTATTATATATTATTTA
*
100729687 TTATATTATGTATA-ATT-TTTA
1 TTATTTTAT-TATATATTATTTA
100729708 AAAATTTGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
21 33 0.47
22 20 0.29
23 15 0.21
24 2 0.03
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (22 bp):
TTATTTTATTATATATTATTTA
Found at i:100729629 original size:12 final size:12
Alignment explanation
Indices: 100729612--100729695 Score: 83
Period size: 12 Copynumber: 7.5 Consensus size: 12
100729602 ATTTTATTTG
100729612 TATTATTTATTA
1 TATTATTTATTA
100729624 TATTATTTATT-
1 TATTATTTATTA
*
100729635 TTTTATTGTA-TA
1 TATTATT-TATTA
100729647 T-TT-TTTATTA
1 TATTATTTATTA
100729657 TATTATTTATT-
1 TATTATTTATTA
* *
100729668 TTTTA-TT-GTA
1 TATTATTTATTA
100729678 TATTATTTATTA
1 TATTATTTATTA
100729690 TATTAT
1 TATTAT
100729696 GTATAATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
9 3 0.05
10 11 0.19
11 17 0.29
12 28 0.47
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:100729659 original size:33 final size:33
Alignment explanation
Indices: 100729603--100729695 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
100729593 AAAATATTTA
*
100729603 TTTTATT-TGTATTATTTATTATATTATTTATT
1 TTTTATTGTATATTATTTATTATATTATTTATT
*
100729635 TTTTATTGTATATTTTTTATTATATTATTTATT
1 TTTTATTGTATATTATTTATTATATTATTTATT
100729668 TTTTATTGTATATTATTTATTATATTAT
1 TTTTATTGTATATTATTTATTATATTAT
100729696 GTATAATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 7 0.12
33 50 0.88
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (33 bp):
TTTTATTGTATATTATTTATTATATTATTTATT
Found at i:100729761 original size:15 final size:15
Alignment explanation
Indices: 100729722--100729762 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
100729712 TTTGTAAATT
100729722 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
100729737 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
100729750 ATTATTAAATATT
1 ATTATTAAATATT
100729763 TAGTATATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:100729776 original size:21 final size:21
Alignment explanation
Indices: 100729729--100729776 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
100729719 ATTATTATTA
* *
100729729 AATATTACATTTTTATATATC
1 AATATTAAATATTTATATATC
*
100729750 ATTATTAAATATTTAGTATAT-
1 AATATTAAATATTTA-TATATC
100729771 AATATT
1 AATATT
100729777 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
AATATTAAATATTTATATATC
Found at i:100730387 original size:31 final size:31
Alignment explanation
Indices: 100730311--100730384 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
100730301 TCAAGTTATC
*
100730311 TTAAATATTAAAATAAAAATAAAAATTTTGAA
1 TTAAATA-TAAAATAAAAATAAAAATTTAGAA
*
100730343 TCAAA-ACTAAAATAAATAATAAAAA-TTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATTTAGAA
100730373 TTAAATATAAAA
1 TTAAATATAAAA
100730385 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATTTAGAA
Found at i:100735072 original size:34 final size:34
Alignment explanation
Indices: 100735032--100735099 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
100735022 AGTAAACCTT
100735032 AAATCCTAAACCATTTAATATATATAAAGCCTAA
1 AAATCCTAAACCATTTAATATATATAAAGCCTAA
100735066 AAATCCTAAACCATTTAATATATATAAAGCCTAA
1 AAATCCTAAACCATTTAATATATATAAAGCCTAA
100735100 TCCTTAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (34 bp):
AAATCCTAAACCATTTAATATATATAAAGCCTAA
Found at i:100735142 original size:14 final size:14
Alignment explanation
Indices: 100735125--100735186 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
100735115 AACACTTAAC
*
100735125 CCTTAACCCCTAAG
1 CCTTAACCCCTAAA
*
100735139 CCTTAAACCCC-AAC
1 CCTT-AACCCCTAAA
* *
100735153 CCTTAAACCATAAA
1 CCTTAACCCCTAAA
* *
100735167 CCATAATCCCTAAA
1 CCTTAACCCCTAAA
100735181 CCTTAA
1 CCTTAA
100735187 AATAGTAACT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 4 0.11
14 28 0.74
15 6 0.16
ACGTcount: A:0.39, C:0.39, G:0.02, T:0.21
Consensus pattern (14 bp):
CCTTAACCCCTAAA
Found at i:100735153 original size:21 final size:21
Alignment explanation
Indices: 100735129--100735187 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
100735119 CTTAACCCTT
* *
100735129 AACCCCTAAGCCTTAAACCCC
1 AACCCCTAAACCTTAAACCAC
* * *
100735150 AACCCTTAAACCATAAACCAT
1 AACCCCTAAACCTTAAACCAC
*
100735171 AATCCCTAAACCTTAAA
1 AACCCCTAAACCTTAAA
100735188 ATAGTAACTC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.19
Consensus pattern (21 bp):
AACCCCTAAACCTTAAACCAC
Found at i:100735235 original size:14 final size:14
Alignment explanation
Indices: 100735206--100735250 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
100735196 TCATACACTT
*
100735206 TAAACTCTAAACCA
1 TAAACCCTAAACCA
* *
100735220 TATACCCTAAATCA
1 TAAACCCTAAACCA
*
100735234 TAAACCCTAAACTA
1 TAAACCCTAAACCA
100735248 TAA
1 TAA
100735251 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:100735356 original size:7 final size:7
Alignment explanation
Indices: 100735344--100735391 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
100735334 ACTAATTAAT
100735344 CTAAACC
1 CTAAACC
100735351 CTAAACTC
1 CTAAAC-C
* *
100735359 ATAATCC
1 CTAAACC
100735366 CTAAACC
1 CTAAACC
100735373 CTAAACC
1 CTAAACC
* *
100735380 GTAAATC
1 CTAAACC
100735387 CTAAA
1 CTAAA
100735392 ACATGAACCT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
7 28 0.85
8 5 0.15
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:100735453 original size:25 final size:25
Alignment explanation
Indices: 100735422--100735469 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
100735412 AACACTTATA
100735422 CCTTAAACCACAA-CCCTTAAACCAC
1 CCTTAAACCACAATCCC-TAAACCAC
*
100735447 CCTTAAACCATAATCCCTAAACC
1 CCTTAAACCACAATCCCTAAACC
100735470 CATAATCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.19
Consensus pattern (25 bp):
CCTTAAACCACAATCCCTAAACCAC
Found at i:100735472 original size:15 final size:15
Alignment explanation
Indices: 100735450--100735484 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
100735440 AAACCACCCT
*
100735450 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
100735464 TAAACCCATAATCCA
1 TAAACCCATAATCCA
100735479 TAAACC
1 TAAACC
100735485 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Done.