Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 107 of 143
Found at i:32794635 original size:52 final size:52
Alignment explanation
Indices: 32794562--32794799 Score: 352
Period size: 52 Copynumber: 4.6 Consensus size: 52
32794552 ATTTCGTTTA
* * * *
32794562 ATACTCACGATGACACATAGTCATTAGACCTTATAATCCGTAAAGGATTCGT
1 ATACTCACGATGACACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * *
32794614 ATACTCACGATGAGACGTAGTCATCAGACCACATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * * *
32794666 ATACTCACGATGACAAGTAGTCATCGGA-CTCATAATCTGTACAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
*
32794717 ATACTCACGATGACACGTAGTCATCAGACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
*
32794769 ATACTCACGATGACACGTAGTCATCGGACCT
1 ATACTCACGATGACACGTAGTCATCAGACCT
32794800 TTTTTCATTT
Statistics
Matches: 165, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
51 45 0.27
52 120 0.73
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
Found at i:32794724 original size:103 final size:103
Alignment explanation
Indices: 32794562--32794797 Score: 366
Period size: 103 Copynumber: 2.3 Consensus size: 103
32794552 ATTTCGTTTA
** * *
32794562 ATACTCACGATGACACA-TAGTCATTAGACCTTATAATCCGTAAAGGATTCGTATACTCACGATG
1 ATACTCACGATGACA-AGTAGTCATCGGA-CTCATAATCCGTAAAGGATTCATATACTCACGATG
*
32794626 AGACGTAGTCATCAGACCACATAATTCGTAAAGGATTCAT
64 ACACGTAGTCATCAGACCACATAATTCGTAAAGGATTCAT
* *
32794666 ATACTCACGATGACAAGTAGTCATCGGACTCATAATCTGTACAGGATTCATATACTCACGATGAC
1 ATACTCACGATGACAAGTAGTCATCGGACTCATAATCCGTAAAGGATTCATATACTCACGATGAC
*
32794731 ACGTAGTCATCAGACCTCATAATTCGTAAAGGATTCAT
66 ACGTAGTCATCAGACCACATAATTCGTAAAGGATTCAT
*
32794769 ATACTCACGATGACACGTAGTCATCGGAC
1 ATACTCACGATGACAAGTAGTCATCGGAC
32794798 CTTTTTTCAT
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
103 98 0.80
104 24 0.20
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (103 bp):
ATACTCACGATGACAAGTAGTCATCGGACTCATAATCCGTAAAGGATTCATATACTCACGATGAC
ACGTAGTCATCAGACCACATAATTCGTAAAGGATTCAT
Found at i:32796837 original size:64 final size:64
Alignment explanation
Indices: 32796745--32796867 Score: 210
Period size: 64 Copynumber: 1.9 Consensus size: 64
32796735 TTTTTTTAGT
* *
32796745 GGTGGTGTGGGGAAGGAAGTGGATGGTGGTGACTGGGGTGTGGGGAGGTTGAGGGATTTTCAGC
1 GGTGGTGTGGGGAAGGAAGTGGATGGTGGTGACTGGAGTATGGGGAGGTTGAGGGATTTTCAGC
* *
32796809 GGTGGTGTGTGGAAGGAAGTGGATGGTGGTGAGTGGAGTATGGGGAGGTTGAGGGATTT
1 GGTGGTGTGGGGAAGGAAGTGGATGGTGGTGACTGGAGTATGGGGAGGTTGAGGGATTT
32796868 AGAGATGTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.17, C:0.02, G:0.54, T:0.26
Consensus pattern (64 bp):
GGTGGTGTGGGGAAGGAAGTGGATGGTGGTGACTGGAGTATGGGGAGGTTGAGGGATTTTCAGC
Found at i:32798451 original size:58 final size:60
Alignment explanation
Indices: 32798369--32798538 Score: 167
Period size: 60 Copynumber: 2.9 Consensus size: 60
32798359 TTTAGGACAC
* * *
32798369 TCGAGGG-CAAAAAT-GTATATTTTGGACATTC-GTGGTAAAATGGTAATTTTT-GGAAGT
1 TCGAGGGTCAAAAATAGAAT-TTTTGGACATTCGGGGGTAAAATGGTAATTTTTAGAAAGT
** *
32798426 TTTAGGGTCAAAAATAGAATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTAGAAAGT
1 TCGAGGGTCAAAAATAGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTTAGAAAGT
**
32798486 TCGA-GGTC-AAAATAAGGAATTTTTGGA-AGTTTAGGGGTGAAAAT-GTAATTTTT
1 TCGAGGGTCAAAAAT-A-GAATTTTTGGACA-TTCGGGGGT-AAAATGGTAATTTTT
32798539 TAAGAAATTT
Statistics
Matches: 95, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
57 5 0.05
58 23 0.24
59 28 0.29
60 34 0.36
61 5 0.05
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.36
Consensus pattern (60 bp):
TCGAGGGTCAAAAATAGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTTAGAAAGT
Found at i:32798475 original size:29 final size:29
Alignment explanation
Indices: 32798343--32798478 Score: 86
Period size: 29 Copynumber: 4.7 Consensus size: 29
32798333 TTGGATGCTT
* * *
32798343 GGGGGCAAAATGGTAA-TTTAGGACACTC
1 GGGGGTAAAATGGTAATTTTTGGACATTC
**
32798371 GAGGGCAAAAAT-GT-ATATTTTGGACATTC
1 G-GGGGTAAAATGGTAAT-TTTTGGACATTC
* *
32798400 -GTGGTAAAATGGTAATTTTTGGA-AGTTT
1 GGGGGTAAAATGGTAATTTTTGGACA-TTC
** * *
32798428 TAGGGTCAAAAATAG-AATTTTTGGATATTC
1 GGGGGT--AAAATGGTAATTTTTGGACATTC
32798458 GGGGGTAAAATGGTAATTTTT
1 GGGGGTAAAATGGTAATTTTT
32798479 AGAAAGTTCG
Statistics
Matches: 82, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
27 9 0.11
28 20 0.24
29 30 0.37
30 16 0.20
31 7 0.09
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (29 bp):
GGGGGTAAAATGGTAATTTTTGGACATTC
Found at i:32798494 original size:59 final size:59
Alignment explanation
Indices: 32798328--32798538 Score: 163
Period size: 60 Copynumber: 3.6 Consensus size: 59
32798318 GATTTAATGC
* * * * *
32798328 AATTTTTGGATGCTT-GGGGGCAAAATGGTAA--TTTAGGACA-CTCGAGGGCAAAAAT-G
1 AATTTTTGGAT-ATTCGGGGGTAAAATGGTAATTTTTA-GAAAGTTCGAGGTCAAAAATAG
* * * * **
32798384 TATATTTTGGACATTC-GTGGTAAAATGGTAATTTTT-GGAAGTTTTAGGGTCAAAAATAG
1 AAT-TTTTGGATATTCGGGGGTAAAATGGTAATTTTTAGAAAGTTCGA-GGTCAAAAATAG
32798443 AATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTAGAAAGTTCGAGGTC-AAAATAAGG
1 AATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTAGAAAGTTCGAGGTCAAAAAT-A-G
**
32798503 AATTTTTGGA-AGTTTAGGGGTGAAAAT-GTAATTTTT
1 AATTTTTGGATA-TTCGGGGGT-AAAATGGTAATTTTT
32798539 TAAGAAATTT
Statistics
Matches: 123, Mismatches: 19, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
56 19 0.15
57 9 0.07
58 28 0.23
59 28 0.23
60 34 0.28
61 5 0.04
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.35
Consensus pattern (59 bp):
AATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTAGAAAGTTCGAGGTCAAAAATAG
Found at i:32798523 original size:60 final size:58
Alignment explanation
Indices: 32798402--32798715 Score: 200
Period size: 59 Copynumber: 5.3 Consensus size: 58
32798392 GGACATTCGT
* * **
32798402 GGTAAAATGGTAATTTTT-GGAAGTTTTAGGGTCAAAAATA-GAATTTTTGGATA-TTCGGG
1 GGTAAAAT-GTAATTTTTAGAAAGTTTGA-GGTC-AAAATAGGAATTTTTGGA-AGTTTAGG
*
32798461 GGTAAAATGGTAATTTTTAGAAAGTTCGAGGTCAAAATAAGGAATTTTTGGAAGTTTAGG
1 GGTAAAAT-GTAATTTTTAGAAAGTTTGAGGTCAAAAT-AGGAATTTTTGGAAGTTTAGG
* * *
32798521 GGTGAAAATGTAATTTTTTAAGAAA-TTTGAGGTTAAAGAT-GCAA-TTATGGAAGTTTAGG
1 GGT-AAAATGTAA-TTTTT-AGAAAGTTTGAGGTCAAA-ATAGGAATTTTTGGAAGTTTAGG
** * * * *
32798580 GACAAAAATGTAATTTTTA-AAGAGTTTGGGGGTTAAAATATG-ATTTTTGAAAAGTTTAGG
1 G-GTAAAATGTAATTTTTAGAA-AGTTT-GAGGTCAAAATAGGAATTTTTG-GAAGTTTAGG
* * * * *
32798640 GGTTAAAATGTAA-TTTT-GGAAGTTTAAGGGTTAAAAT-GCAATTTTTGAGAAGTTTACG
1 GG-TAAAATGTAATTTTTAGAAAGTTTGA-GGTCAAAATAGGAATTTTTG-GAAGTTTAGG
* *
32798698 GGTCAAAATATCATTTTT
1 GGT-AAAATGTAATTTTT
32798716 GGATAGTTCA
Statistics
Matches: 207, Mismatches: 27, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
56 2 0.01
57 3 0.01
58 55 0.27
59 69 0.33
60 51 0.25
61 20 0.10
62 7 0.03
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.37
Consensus pattern (58 bp):
GGTAAAATGTAATTTTTAGAAAGTTTGAGGTCAAAATAGGAATTTTTGGAAGTTTAGG
Found at i:32798539 original size:30 final size:29
Alignment explanation
Indices: 32798404--32798728 Score: 180
Period size: 30 Copynumber: 10.9 Consensus size: 29
32798394 ACATTCGTGG
32798404 TAAAATGGTAATTTTTGGAAGTTTTA-GGGT
1 TAAAAT-GTAATTTTTGGAAG-TTTAGGGGT
* * *
32798434 CAAAAATAG-AATTTTTGG-A-TATTCGGGGG
1 -TAAAAT-GTAATTTTTGGAAGT-TTAGGGGT
* * *
32798463 TAAAATGGTAATTTTTAGAAAG-TTCGAGGT
1 TAAAAT-GTAATTTTT-GGAAGTTTAGGGGT
* *
32798493 CAAAATAAGGAATTTTTGGAAGTTTAGGGGT
1 TAAAAT--GTAATTTTTGGAAGTTTAGGGGT
* * * *
32798524 GAAAATGTAATTTTTTAAGAAATTT-GAGGT
1 TAAAATGTAA-TTTTT-GGAAGTTTAGGGGT
* * **
32798554 TAAAGATGCAA-TTATGGAAGTTTAGGGAC
1 TAAA-ATGTAATTTTTGGAAGTTTAGGGGT
* ** *
32798583 AAAAATGTAATTTTTAAAGAGTTTGGGGGT
1 TAAAATGTAATTTTTGGA-AGTTTAGGGGT
* * *
32798613 TAAAATATGATTTTTGAAAAGTTTAGGGGT
1 TAAAATGTAATTTTTG-GAAGTTTAGGGGT
*
32798643 TAAAATGTAA-TTTTGGAAGTTTAAGGGT
1 TAAAATGTAATTTTTGGAAGTTTAGGGGT
* *
32798671 TAAAATGCAATTTTTGAGAAGTTTACGGGT
1 TAAAATGTAATTTTTG-GAAGTTTAGGGGT
* * * *
32798701 CAAAATATCATTTTTGGATAGTTCAGGG
1 TAAAATGTAATTTTTGGA-AGTTTAGGG
32798729 ACCTTCTGAG
Statistics
Matches: 223, Mismatches: 53, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
27 1 0.00
28 39 0.17
29 38 0.17
30 106 0.48
31 39 0.17
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
TAAAATGTAATTTTTGGAAGTTTAGGGGT
Found at i:32798677 original size:88 final size:89
Alignment explanation
Indices: 32798503--32798716 Score: 204
Period size: 88 Copynumber: 2.4 Consensus size: 89
32798493 CAAAATAAGG
* * * * * * * *
32798503 AATTTTT-GGAAGTTTAGGGGTGAAAATGTAATTTTTTAAGAAATTT-GAGGTTAAAGATGCAAT
1 AATTTTTAAGAAGTTTACGGGTCAAAATATCATTTTTGAA-AAGTTTAGGGGTTAAAGATGCAAT
*
32798566 TATGGAAGTTTAGGGACAAAAATGT
65 TATGGAAGTTTAGGGACAAAAATGC
** * * *
32798591 AATTTTTAA-AGAGTTTGGGGGTTAAAATATGATTTTTGAAAAGTTTAGGGGTTAAA-ATGTAAT
1 AATTTTTAAGA-AGTTTACGGGTCAAAATATCATTTTTGAAAAGTTTAGGGGTTAAAGATGCAAT
* **
32798654 TTTGGAAGTTTAAGGG-TTAAAATGC
65 TATGGAAGTTT-AGGGACAAAAATGC
*
32798679 AATTTTTGAGAAGTTTACGGGTCAAAATATCATTTTTG
1 AATTTTTAAGAAGTTTACGGGTCAAAATATCATTTTTG
32798717 GATAGTTCAG
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
88 66 0.64
89 37 0.36
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.38
Consensus pattern (89 bp):
AATTTTTAAGAAGTTTACGGGTCAAAATATCATTTTTGAAAAGTTTAGGGGTTAAAGATGCAATT
ATGGAAGTTTAGGGACAAAAATGC
Found at i:32800517 original size:6 final size:6
Alignment explanation
Indices: 32800503--32800541 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
32800493 GATTTGATAA
* *
32800503 TAAATT TAAACT TAAA-T TAAATT TAAACT TAAACT TAAA
1 TAAACT TAAACT TAAACT TAAACT TAAACT TAAACT TAAA
32800542 ATAAATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAACT
Found at i:32800525 original size:17 final size:18
Alignment explanation
Indices: 32800503--32800541 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
32800493 GATTTGATAA
32800503 TAAATTTAAACTTAAA-T
1 TAAATTTAAACTTAAACT
32800520 TAAATTTAAACTTAAACT
1 TAAATTTAAACTTAAACT
32800538 TAAA
1 TAAA
32800542 ATAAATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATTTAAACTTAAACT
Found at i:32800534 original size:23 final size:23
Alignment explanation
Indices: 32800503--32800558 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
32800493 GATTTGATAA
*
32800503 TAAATTTAAACTTAAATTAAATT
1 TAAATTTAAACTTAAAATAAATT
*
32800526 TAAACTTAAACTTAAAATAAATT
1 TAAATTTAAACTTAAAATAAATT
*
32800549 GAAATTTAAA
1 TAAATTTAAA
32800559 AACAAATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (23 bp):
TAAATTTAAACTTAAAATAAATT
Found at i:32800575 original size:18 final size:18
Alignment explanation
Indices: 32800533--32800575 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32800523 ATTTAAACTT
* *
32800533 AAACTT-AAAATAAATTG
1 AAACTTAAAAACAAATTC
*
32800550 AAATTTAAAAACAAATTC
1 AAACTTAAAAACAAATTC
32800568 AAACTTAA
1 AAACTTAA
32800576 GATAAATCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (18 bp):
AAACTTAAAAACAAATTC
Found at i:32801250 original size:209 final size:209
Alignment explanation
Indices: 32800904--32801303 Score: 575
Period size: 209 Copynumber: 1.9 Consensus size: 209
32800894 TGATGTGACT
* * ** ** *
32800904 TACTTCTCAGTATCTCATCAGGAAGATAACTTCATCACTTGTTTTGATCTACTTCTCTGTATCTC
1 TACTTCTCAATATCTCATAAGGAAGATAACCGCATCACTTGTTTCAATCTACTTCTCTATATCTC
* * ** * * * * *
32800969 ATTAGGAAGACGGATCTGGTTTACTTCTCTGTATTTTATCAGGAAGGTAACCGCTTTATTGCTTC
66 ATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTC
* * *
32801034 GACCTGCTTCTCAGTATCTCATCAGGAAGTTGGAGTTCGAAGATTTGCTCACTTTGAGCCTAGTT
131 GACCTGCTTCTCAATATCTCATCAGGAAGCTGGAGTTCGAAGATTCGCTCACTTTGAGCCTAGTT
32801099 TCATTGATTTGGTC
196 TCATTGATTTGGTC
* *
32801113 TACTTCTCAATATCTCATAAGGAAGATGACCGCATCACTTGTTTCAATCTGCTTCTCTATATCTC
1 TACTTCTCAATATCTCATAAGGAAGATAACCGCATCACTTGTTTCAATCTACTTCTCTATATCTC
* * *
32801178 ATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTC
66 ATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTC
*
32801243 GACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACTTTGAGCCT
131 GACCTGCTTCTCAATATCTCATCAGGAAGCTGGAGTTCGAAGATTCGCTCACTTTGAGCCT
32801304 TGAGTTGATA
Statistics
Matches: 166, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
209 166 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (209 bp):
TACTTCTCAATATCTCATAAGGAAGATAACCGCATCACTTGTTTCAATCTACTTCTCTATATCTC
ATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTC
GACCTGCTTCTCAATATCTCATCAGGAAGCTGGAGTTCGAAGATTCGCTCACTTTGAGCCTAGTT
TCATTGATTTGGTC
Found at i:32801442 original size:152 final size:152
Alignment explanation
Indices: 32801164--32801453 Score: 463
Period size: 152 Copynumber: 1.9 Consensus size: 152
32801154 TTTCAATCTG
*
32801164 CTTCTCTATATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAAC
1 CTTCTCTATATCTCATCAGGAAGACGAATTTGATCCACTTCTCAGTATCTCATTAGGAAGCTAAC
****
32801229 CATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCA
66 CATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTAAAATTCGAAGATTCGCTCA
*
32801294 CTTTGAGCCTTGAGTTGATATA
131 CATTGAGCCTTGAGTTGATATA
* *
32801316 CTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCACTTCTCAGTATCTCATTAGGAAGCTGAC
1 CTTCTCTATATCTCATCAGGAAGACGAATTTGATCCACTTCTCAGTATCTCATTAGGAAGCTAAC
* * * * *
32801381 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTAAAATTTGAAGTTTCGCTCG
66 CATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTAAAATTCGAAGATTCGCTCA
32801446 CATTGAGC
131 CATTGAGC
32801454 TTTATTTCAT
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
152 125 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (152 bp):
CTTCTCTATATCTCATCAGGAAGACGAATTTGATCCACTTCTCAGTATCTCATTAGGAAGCTAAC
CATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTAAAATTCGAAGATTCGCTCA
CATTGAGCCTTGAGTTGATATA
Found at i:32801624 original size:361 final size:361
Alignment explanation
Indices: 32800947--32801700 Score: 1125
Period size: 361 Copynumber: 2.1 Consensus size: 361
32800937 ATCACTTGTT
* * * * ** * * *
32800947 TTGATCTACTTCTCTGTATCTCATTAGGAAGACGGATCTGGTTTACTTCTCTGTATTTTATCAGG
1 TTGATATACTTCTCTGTATCTCATCAGGAAGACGAATCTGATCCACTTCTCAGTATCTCATCAGG
* * ** *
32801012 AAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGAGTTCGAAGA
66 AAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTAAAATTCGAAGA
*
32801077 TTTGCTCACTTTGAGCCTAGTTTCATTGATTTGGTCTACTTCTCAATATCTCATAAGGAAGATGA
131 TTTGCTCACATTGAGCCTAGTTTCATTGATTTGGTCTACTTCTCAATATCTCATAAGGAAGATGA
**
32801142 CCGCATCACTTGTTTCAATCTGCTTCTCTATATCTCATCAGGAAGACGAATTTGGTCCACTTCTC
196 CCGCATCACTTGTTTCAATCCACTTCTCTATATCTCATCAGGAAGACGAATTTGGTCCACTTCTC
* * * *
32801207 AGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAG
261 AATATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAAGAAG
* *
32801272 CTGGGGTTCGAAGATTCGCTCACTTTGAGCCTTGAG
326 CTGAGGTTCGAAGATTCGCTCACTTTGAGCCTCGAG
* *
32801308 TTGATATACTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCACTTCTCAGTATCTCATTAGG
1 TTGATATACTTCTCTGTATCTCATCAGGAAGACGAATCTGATCCACTTCTCAGTATCTCATCAGG
* * *
32801373 AAGCTGACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTAAAATTTGAAG-
66 AAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTAAAATTCGAAGA
* * * * * *
32801437 TTTCGCTCGCATTGAGCTTTA-TTTCATTGATTTGGTCTTCTTCTTAATATCTTATCAGGAAGAT
131 TTT-GCTCACATTGAGC-CTAGTTTCATTGATTTGGTCTACTTCTCAATATCTCATAAGGAAGAT
* *
32801501 GACCGCATCGCTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTC
194 GACCGCATCACTTGTTTCAATCCACTTCTCTATATCTCATCAGGAAGACGAATTTGGTCCACTTC
*
32801566 TCAATATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGA
259 TCAATATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAAGA
32801631 AGCTGAGGTTCGAAGATTCGCTCACTTTGAGCCTCGAG
324 AGCTGAGGTTCGAAGATTCGCTCACTTTGAGCCTCGAG
* *
32801669 TTGGTATACTTCTCTGTATCGCATCAGGAAGA
1 TTGATATACTTCTCTGTATCTCATCAGGAAGA
32801701 TGACTGCCTC
Statistics
Matches: 352, Mismatches: 39, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
360 3 0.01
361 347 0.99
362 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (361 bp):
TTGATATACTTCTCTGTATCTCATCAGGAAGACGAATCTGATCCACTTCTCAGTATCTCATCAGG
AAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTAAAATTCGAAGA
TTTGCTCACATTGAGCCTAGTTTCATTGATTTGGTCTACTTCTCAATATCTCATAAGGAAGATGA
CCGCATCACTTGTTTCAATCCACTTCTCTATATCTCATCAGGAAGACGAATTTGGTCCACTTCTC
AATATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAAGAAG
CTGAGGTTCGAAGATTCGCTCACTTTGAGCCTCGAG
Found at i:32801777 original size:201 final size:203
Alignment explanation
Indices: 32801315--32801976 Score: 767
Period size: 201 Copynumber: 3.2 Consensus size: 203
32801305 GAGTTGATAT
* * * *
32801315 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCACTTCTCAGTATCTCATTAGGAAGCTGA
1 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAA
* * ** *
32801380 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTAAAATTTGAAGTTTCGCTC
66 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGTTTCGCTC
* * * * * **
32801445 GCATTGAGCTTTATTTCATTGATTTGGTCTTCTTCTTAATATCTTATCAGGAAGATGACCGCATC
131 ACATTGAGC------TCATCGAGTTGGTATACTTCTTAATATCGCATCAGGAAGATGACCGCATC
*
32801510 GCTTGTTTCAATCC
190 ACTTGTTTCAATCC
*
32801524 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAAGAAGCTAA
1 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAA
* *
32801589 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGAGGTTCGAAGATTCGCTC
66 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGTTTCGCTC
* * * *
32801654 ACTTTGAGC-C-TCGAGTTGGTATACTTCTCT-GTATCGCATCAGGAAGATGACTGCCTCACTTG
131 ACATTGAGCTCATCGAGTTGGTATACTTCT-TAATATCGCATCAGGAAGATGACCGCATCACTTG
32801716 TTTCAATCC
195 TTTCAATCC
* *
32801725 GCTTCTTTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAA
1 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAA
*
32801790 CCATTTTATTGCTTCGATCTGCTTCTCAGTATCTCATCAGGAAGCTG-GGATTCGAAGTTTCGCT
66 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGG-TTCGAAGTTTCGCT
* * * * * * * * *
32801854 CACATCGAGCTTTGGTTTCATTGATTTGGTCTACTTTTTAGTATCTCATCAAGAAGATGATCGCA
130 CACATTGAGC-------TCATCGAGTTGGTATACTTCTTAATATCGCATCAGGAAGATGACCGCA
* **
32801919 TCTC-TGTTTTGATCC
188 TCACTTGTTTCAATCC
* * * *
32801934 ACTTCTGTGTATCTCATCAGGAAGACGGATCTGGTTCACTTCT
1 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCT
32801977 ATTGAGCTTT
Statistics
Matches: 392, Mismatches: 49, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
200 2 0.01
201 177 0.45
202 2 0.01
209 174 0.44
210 37 0.09
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (203 bp):
ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAA
CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGTTTCGCTC
ACATTGAGCTCATCGAGTTGGTATACTTCTTAATATCGCATCAGGAAGATGACCGCATCACTTGT
TTCAATCC
Found at i:32809501 original size:23 final size:24
Alignment explanation
Indices: 32809456--32809501 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
32809446 AATATGCAAA
* *
32809456 TATGCAATGCGAATAAAATGCATG
1 TATGCAATGCGAAGAAAAGGCATG
*
32809480 TATGTAATGC-AAGAAAAGGCAT
1 TATGCAATGCGAAGAAAAGGCAT
32809502 TGATTTTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (24 bp):
TATGCAATGCGAAGAAAAGGCATG
Found at i:32813211 original size:29 final size:29
Alignment explanation
Indices: 32813172--32813571 Score: 121
Period size: 30 Copynumber: 13.5 Consensus size: 29
32813162 TTTCGAGGGT
32813172 AAAATGGTAATTTTTGAAAGTTCAGAGGTA
1 AAAAT-GTAATTTTTGAAAGTTCAGAGGTA
* *
32813202 AAAATGTAATTTTTGGACA--TCAAGGGGT-
1 AAAATGTAATTTTT-GAAAGTTC-AGAGGTA
** *
32813230 -AAATGGTAATTTTTGGAAA-TTTTGGGGTCA
1 AAAAT-GTAATTTTT-GAAAGTTCAGAGGT-A
* * *
32813260 AAAATGAAATTTTTGGACA-TTCAGGGGT-
1 AAAATGTAATTTTT-GAAAGTTCAGAGGTA
* *
32813288 AAAATGGTAATTTTTAGAAATTTTAG-GGTTA
1 AAAAT-GTAATTTTT-GAAAGTTCAGAGG-TA
* * ** *
32813319 AAAATGGAA-TTTTCAGACCTCCAGAGGT-
1 AAAATGTAATTTTTGA-AAGTTCAGAGGTA
*
32813347 GAAATAGTAATTTTTGGAAAGTTCAG-GGTCA
1 AAAAT-GTAATTTTT-GAAAGTTCAGAGGT-A
* * * *
32813378 AAATAAGAAATTTTTGGAAGTTTA-AGGGTA
1 AAA-ATGTAATTTTTGAAAGTTCAGA-GGTA
* *
32813408 AAAATGTAATTCTTGAGAAATTC-GAGGTCA
1 AAAATGTAATTTTTGA-AAGTTCAGAGGT-A
* ** * *
32813438 AAGATACAATTTTAGAAAGTT-TGAGCGTA
1 AAAATGTAATTTTTGAAAGTTCAGAG-GTA
* * * *
32813467 AAAATATAATTTTTGAAGTGTTCGAGGGGTT
1 AAAATGTAATTTTTGAA-AGTTC-AGAGGTA
* * * *
32813498 AAAATATTATTTTTGAAAAGTT-TGAGGGTT
1 AAAATGTAATTTTTG-AAAGTTCAGA-GGTA
* * *
32813528 AAATTGTAATTTTTAGAAAGTTTA-AGGTTT
1 AAAATGTAATTTTT-GAAAGTTCAGAGG-TA
32813558 AAAATGTAATTTTT
1 AAAATGTAATTTTT
32813572 AAGAAGTTTG
Statistics
Matches: 278, Mismatches: 58, Indels: 68
0.69 0.14 0.17
Matches are distributed among these distances:
27 4 0.01
28 30 0.11
29 80 0.29
30 116 0.42
31 43 0.15
32 5 0.02
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTTGAAAGTTCAGAGGTA
Found at i:32813322 original size:59 final size:59
Alignment explanation
Indices: 32813168--32813429 Score: 239
Period size: 59 Copynumber: 4.4 Consensus size: 59
32813158 TGATTTTCGA
* *
32813168 GGGTAAAATGGTAATTTTT-GAAAGTTCAGAGGT-AAAAATGTAATTTTTGGACA-TCAAG
1 GGGTAAAATGGTAATTTTTAGAAATTTCAG-GGTCAAAAATGAAATTTTTGGACATTC-AG
* **
32813226 GGGT-AAATGGTAATTTTTGGAAATTTTGGGGTCAAAAATGAAATTTTTGGACATTCAG
1 GGGTAAAATGGTAATTTTTAGAAATTTCAGGGTCAAAAATGAAATTTTTGGACATTCAG
* * * ** * *
32813284 GGGTAAAATGGTAATTTTTAGAAATTTTAGGGTTAAAAATGGAATTTTCAGACCTCCAG
1 GGGTAAAATGGTAATTTTTAGAAATTTCAGGGTCAAAAATGAAATTTTTGGACATTCAG
* * * * * * * *
32813343 AGGTGAAATAGTAATTTTTGGAAAGTTCAGGGTCAAAATAAGAAATTTTTGGA-AGTTTAA
1 GGGTAAAATGGTAATTTTTAGAAATTTCAGGGTCAAAA-ATGAAATTTTTGGACA-TTCAG
*
32813403 GGGTAAAAAT-GTAATTCTTGAGAAATT
1 GGGT-AAAATGGTAATT-TTTAGAAATT
32813430 CGAGGTCAAA
Statistics
Matches: 164, Mismatches: 32, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
57 17 0.10
58 36 0.22
59 79 0.48
60 21 0.13
61 11 0.07
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTAGAAATTTCAGGGTCAAAAATGAAATTTTTGGACATTCAG
Found at i:32813529 original size:30 final size:30
Alignment explanation
Indices: 32813348--32813601 Score: 146
Period size: 30 Copynumber: 8.5 Consensus size: 30
32813338 TCCAGAGGTG
* * *
32813348 AAATAGTAATTTTTGGAAAG-TTCAGGGTCA
1 AAATA-TAATTTTTGAAAAGTTTGAGGGTTA
* * * *
32813378 AAATAAGAAATTTTTG-GAAGTTTAAGGGTAA
1 AAAT-A-TAATTTTTGAAAAGTTTGAGGGTTA
* * * *
32813409 AAATGTAATTCTTGAGAAA-TTCGA-GGTCA
1 AAATATAATTTTTGA-AAAGTTTGAGGGTTA
* * * *
32813438 AAGATACAATTTTAG-AAAGTTTGAGCGTAA
1 AA-ATATAATTTTTGAAAAGTTTGAGGGTTA
** *
32813468 AAATATAATTTTTGAAGTGTTCGAGGGGTTA
1 AAATATAATTTTTGAAAAGTTTGA-GGGTTA
*
32813499 AAATATTATTTTTGAAAAGTTTGAGGGTTA
1 AAATATAATTTTTGAAAAGTTTGAGGGTTA
* * * *
32813529 AATTGTAATTTTT-AGAAAGTTTAAGGTTTA
1 AAATATAATTTTTGA-AAAGTTTGAGGGTTA
* *
32813559 AAATGTAATTTTT-AAGAAGTTTG-GGGTCA
1 AAATATAATTTTTGAA-AAGTTTGAGGGTTA
*
32813588 AAATATGATTTTTG
1 AAATATAATTTTTG
32813602 GATAGTTCAG
Statistics
Matches: 172, Mismatches: 40, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
28 3 0.02
29 44 0.26
30 77 0.45
31 48 0.28
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.37
Consensus pattern (30 bp):
AAATATAATTTTTGAAAAGTTTGAGGGTTA
Found at i:32815390 original size:17 final size:17
Alignment explanation
Indices: 32815367--32815460 Score: 89
Period size: 17 Copynumber: 5.4 Consensus size: 17
32815357 TTGGACTTTT
*
32815367 ATTTAAATTTAGAATAA
1 ATTTAAATTTAAAATAA
* *
32815384 TTTTAAATTTGATAATAA
1 ATTTAAATTT-AAAATAA
*
32815402 ATTTAAACTTAAAATAA
1 ATTTAAATTTAAAATAA
*
32815419 ATTTAAATTTAAAAACAA
1 ATTTAAATTT-AAAATAA
* * *
32815437 ATTCAAACTTAAGATAA
1 ATTTAAATTTAAAATAA
*
32815454 ATCTAAA
1 ATTTAAA
32815461 ACAAAATAGG
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
17 34 0.55
18 28 0.45
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:32815439 original size:35 final size:35
Alignment explanation
Indices: 32815367--32815460 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 35
32815357 TTGGACTTTT
* * * * * *
32815367 ATTTAAATTTAGAATAATTTTAAATTTGATAATAA
1 ATTTAAACTTAAAATAAATTTAAATTTAAAAACAA
32815402 ATTTAAACTTAAAATAAATTTAAATTTAAAAACAA
1 ATTTAAACTTAAAATAAATTTAAATTTAAAAACAA
* * *
32815437 ATTCAAACTTAAGATAAATCTAAA
1 ATTTAAACTTAAAATAAATTTAAA
32815461 ACAAAATAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (35 bp):
ATTTAAACTTAAAATAAATTTAAATTTAAAAACAA
Found at i:32815448 original size:18 final size:18
Alignment explanation
Indices: 32815400--32815448 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
32815390 ATTTGATAAT
*
32815400 AAATTTAAACTT-AAAAT
1 AAATTTAAACTTAAAAAC
*
32815417 AAATTTAAATTTAAAAAC
1 AAATTTAAACTTAAAAAC
*
32815435 AAATTCAAACTTAA
1 AAATTTAAACTTAA
32815449 GATAAATCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTTAAACTTAAAAAC
Found at i:32815994 original size:21 final size:21
Alignment explanation
Indices: 32815953--32815995 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
32815943 CGACGTGGCA
* *
32815953 AGTTAATTGGCTACATTAGCT
1 AGTTAATTGGCCACATCAGCT
32815974 AGTTAATTGGCCA-AGTCAGCT
1 AGTTAATTGGCCACA-TCAGCT
32815995 A
1 A
32815996 TCACGTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (21 bp):
AGTTAATTGGCCACATCAGCT
Found at i:32817049 original size:23 final size:22
Alignment explanation
Indices: 32817021--32817070 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
32817011 TAAAATTTTT
* *
32817021 ATTTTTTAGATAAGAAAAATTATA
1 ATTTTATAG-TAA-AAAAATTAGA
*
32817045 ATTTTATTGTAAAAAAATTAGA
1 ATTTTATAGTAAAAAAATTAGA
32817067 ATTT
1 ATTT
32817071 GAAAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 13 0.57
23 3 0.13
24 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (22 bp):
ATTTTATAGTAAAAAAATTAGA
Found at i:32818886 original size:31 final size:31
Alignment explanation
Indices: 32818833--32818905 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
32818823 TAATAGTTTA
*
32818833 TTTTTATCATTTTTTAAAAATT-ATATCAATT
1 TTTTTATTATTTTTTAAAAATTAATAT-AATT
*
32818864 TTTTTATTA-TTTTTAGAGAATTAAAATATAATT
1 TTTTTATTATTTTTTA-AAAATT--AATATAATT
32818897 TTTTTATTA
1 TTTTTATTA
32818906 AATAAAAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 6 0.17
31 13 0.36
33 13 0.36
34 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TTTTTATTATTTTTTAAAAATTAATATAATT
Found at i:32825782 original size:31 final size:30
Alignment explanation
Indices: 32825703--32825787 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 30
32825693 TTTAGCGGAA
*
32825703 AAATAAAAAGTTTTG-GGGAGGAATGGGAGGG
1 AAAT-AAAAGTTTTGAGGGAGAAATGGGA-GG
*
32825734 GAATAAAAGTTTT-AGGGAGAAAGTGGGA-G
1 AAATAAAAGTTTTGAGGGAGAAA-TGGGAGG
32825763 AAAGTAAAAGTTTTGAGGGA-AAATG
1 AAA-TAAAAGTTTTGAGGGAGAAATG
32825788 AAAAGTTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
29 5 0.11
30 29 0.62
31 13 0.28
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.21
Consensus pattern (30 bp):
AAATAAAAGTTTTGAGGGAGAAATGGGAGG
Found at i:32827798 original size:2 final size:2
Alignment explanation
Indices: 32827757--32827781 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32827747 ACACACACAC
32827757 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32827782 CTTAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32828252 original size:17 final size:17
Alignment explanation
Indices: 32828232--32828275 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
32828222 TACTAAAAAT
* * *
32828232 ATATAAATATTATATTA
1 ATATAAATATGAAATAA
*
32828249 ATATTAATATGAAATAA
1 ATATAAATATGAAATAA
32828266 ATATAAATAT
1 ATATAAATAT
32828276 ATTAACATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATAAATATGAAATAA
Found at i:32828277 original size:25 final size:24
Alignment explanation
Indices: 32828249--32828296 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
32828239 TATTATATTA
*
32828249 ATATTAATATGAAATAAATATAAAT
1 ATATTAACATGAAATAAA-ATAAAT
*
32828274 ATATTAACATTAAATAAAATAAA
1 ATATTAACATGAAATAAAATAAA
32828297 AATCTCCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
ATATTAACATGAAATAAAATAAAT
Found at i:32831349 original size:15 final size:15
Alignment explanation
Indices: 32831329--32831358 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32831319 TTTCTTTCAA
32831329 AATATAATCATTTTT
1 AATATAATCATTTTT
*
32831344 AATATAATTATTTTT
1 AATATAATCATTTTT
32831359 GAAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
AATATAATCATTTTT
Found at i:32831736 original size:24 final size:25
Alignment explanation
Indices: 32831707--32831754 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
32831697 TATTTCAATA
32831707 TTTTATT-TATCATCCTTACTTTTT
1 TTTTATTATATCATCCTTACTTTTT
* *
32831731 TTTTATTATCTCATCTTTACTTTT
1 TTTTATTATATCATCCTTACTTTT
32831755 CCATTTATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTATTATATCATCCTTACTTTTT
Found at i:32840608 original size:31 final size:29
Alignment explanation
Indices: 32840573--32840638 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
32840563 TAAAAGAGGT
32840573 AAAATTACATTTTGAT-CTCATAAAAAATATA
1 AAAATTA-ATTTT-ATACT-ATAAAAAATATA
* *
32840604 AAAATTTAATTTTATACTTTAAAAATTATA
1 AAAA-TTAATTTTATACTATAAAAAATATA
32840634 AAAAT
1 AAAAT
32840639 ATAGATTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
29 1 0.03
30 16 0.52
31 11 0.35
32 3 0.10
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (29 bp):
AAAATTAATTTTATACTATAAAAAATATA
Found at i:32843416 original size:57 final size:57
Alignment explanation
Indices: 32843346--32843461 Score: 160
Period size: 57 Copynumber: 2.0 Consensus size: 57
32843336 TTTTCAAGTC
* * * *
32843346 TTTCATTTTCATTTTGGTGAAAACCACATTCATTTCCAAATAATTTCATTTCTCCAT
1 TTTCATATTCATTTTGGAGAAAAACACAATCATTTCCAAATAATTTCATTTCTCCAT
* ** *
32843403 TTTCATATTCATTTTGGAGAAAAACGCAATCATTTCCAAATGTTTTGATTTCTCCAT
1 TTTCATATTCATTTTGGAGAAAAACACAATCATTTCCAAATAATTTCATTTCTCCAT
32843460 TT
1 TT
32843462 CACCATTTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (57 bp):
TTTCATATTCATTTTGGAGAAAAACACAATCATTTCCAAATAATTTCATTTCTCCAT
Found at i:32848648 original size:34 final size:30
Alignment explanation
Indices: 32848594--32848659 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 30
32848584 TTTTTCCCTC
32848594 TTGTTTTTTAATGGTTTTGAGCTTTTGGGA
1 TTGTTTTTTAATGGTTTTGAGCTTTTGGGA
* *
32848624 TTGTTTTGATTAATGTGTTTTTGAGTTTTTGTGA
1 TTGTTTT--TTAATG-G-TTTTGAGCTTTTGGGA
32848658 TT
1 TT
32848660 CTTGGTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.23
32 6 0.20
33 1 0.03
34 16 0.53
ACGTcount: A:0.14, C:0.02, G:0.24, T:0.61
Consensus pattern (30 bp):
TTGTTTTTTAATGGTTTTGAGCTTTTGGGA
Found at i:32854841 original size:28 final size:28
Alignment explanation
Indices: 32854799--32854870 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
32854789 AATCGGGGTT
* *
32854799 CAAAATGGGACTTTTGGATA-CCCGAGGG
1 CAAAATGGTAATTTTGGA-AGCCCGAGGG
**
32854827 CAAAATGGTAATTTTGGAAGGTTCGAGGG
1 CAAAATGGTAATTTTGGAA-GCCCGAGGG
*
32854856 TAAAATGGTAATTTT
1 CAAAATGGTAATTTT
32854871 TGTGAAATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.03
28 16 0.43
29 20 0.54
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (28 bp):
CAAAATGGTAATTTTGGAAGCCCGAGGG
Found at i:32854862 original size:29 final size:30
Alignment explanation
Indices: 32854828--32854993 Score: 134
Period size: 29 Copynumber: 5.7 Consensus size: 30
32854818 ACCCGAGGGC
*
32854828 AAAATGGTAATTTTGGAAGGTTCGAGGG-T
1 AAAATGGTAATTTTGGAAAGTTCGAGGGTT
*
32854857 AAAATGGTAATTTTTGTGAAA--TCG-GGGCT
1 AAAATGGTAA-TTTTG-GAAAGTTCGAGGGTT
* * *
32854886 AAAGATTG-AATTTTGGAAAGTT-TAGGGGT
1 AAA-ATGGTAATTTTGGAAAGTTCGAGGGTT
* **
32854915 AAAATGGTAATTTTTGAAAGTTTTAGGGTT
1 AAAATGGTAATTTTGGAAAGTTCGAGGGTT
* *
32854945 AAAAT-ATAATTTTGGAAAAGTTTTG-GGGTT
1 AAAATGGTAATTTTGG-AAAG-TTCGAGGGTT
32854975 AAAAT-GTAATTTTGGAAAG
1 AAAATGGTAATTTTGGAAAG
32854994 CTTTGGGGTC
Statistics
Matches: 115, Mismatches: 11, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
27 4 0.03
28 11 0.10
29 52 0.45
30 42 0.37
31 6 0.05
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (30 bp):
AAAATGGTAATTTTGGAAAGTTCGAGGGTT
Found at i:32854940 original size:30 final size:29
Alignment explanation
Indices: 32854894--32855030 Score: 147
Period size: 30 Copynumber: 4.7 Consensus size: 29
32854884 CTAAAGATTG
32854894 AATTTTGGAAAG-TTTAGGGGTAAAATGGT
1 AATTTTGGAAAGTTTTAGGGGTAAAAT-GT
* * *
32854923 AATTTTTGAAAGTTTTAGGGTTAAAATAT
1 AATTTTGGAAAGTTTTAGGGGTAAAATGT
32854952 AATTTTGGAAAAGTTTT-GGGGTTAAAATGT
1 AATTTTGG-AAAGTTTTAGGGG-TAAAATGT
* *
32854982 AATTTTGGAAAGCTTT-GGGGTCAAAATAT
1 AATTTTGGAAAGTTTTAGGGGT-AAAATGT
*
32855011 AATTTTTGGACAG-TTTAGGG
1 AA-TTTTGGAAAGTTTTAGGG
32855031 ACCTACAGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.01
29 44 0.47
30 48 0.52
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.39
Consensus pattern (29 bp):
AATTTTGGAAAGTTTTAGGGGTAAAATGT
Found at i:32854993 original size:59 final size:58
Alignment explanation
Indices: 32854894--32855030 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 58
32854884 CTAAAGATTG
* * *
32854894 AATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTTAAAATAT
1 AATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTGGAAAGCTTTAGGGTCAAAATAT
* *
32854952 AATTTTGGAAAAGTTTTGGGGTTAAAAT-GTAATTTTGGAAAGCTTTGGGGTCAAAATAT
1 AATTTTGG-AAAGTTTAGGGG-TAAAATGGTAATTTTGGAAAGCTTTAGGGTCAAAATAT
*
32855011 AATTTTTGGACAGTTTAGGG
1 AA-TTTTGGAAAGTTTAGGG
32855031 ACCTACAGAG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
58 8 0.12
59 49 0.71
60 12 0.17
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.39
Consensus pattern (58 bp):
AATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTGGAAAGCTTTAGGGTCAAAATAT
Found at i:32855007 original size:29 final size:29
Alignment explanation
Indices: 32854894--32855026 Score: 160
Period size: 29 Copynumber: 4.5 Consensus size: 29
32854884 CTAAAGATTG
* *
32854894 AATTTTGGAAAGTTTAGGGG-TAAAATGGT
1 AATTTTGGAAAGTTTTGGGGTTAAAAT-AT
* *
32854923 AATTTTTGAAAGTTTTAGGGTTAAAATAT
1 AATTTTGGAAAGTTTTGGGGTTAAAATAT
*
32854952 AATTTTGGAAAAGTTTTGGGGTTAAAATGT
1 AATTTTGG-AAAGTTTTGGGGTTAAAATAT
* *
32854982 AATTTTGGAAAGCTTTGGGGTCAAAATAT
1 AATTTTGGAAAGTTTTGGGGTTAAAATAT
*
32855011 AATTTTTGGACAGTTT
1 AA-TTTTGGAAAGTTT
32855027 AGGGACCTAC
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
29 45 0.51
30 44 0.49
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.40
Consensus pattern (29 bp):
AATTTTGGAAAGTTTTGGGGTTAAAATAT
Found at i:32855827 original size:6 final size:6
Alignment explanation
Indices: 32855818--32855875 Score: 64
Period size: 6 Copynumber: 9.5 Consensus size: 6
32855808 AATTTAGAGC
** *
32855818 AAATTT AAATTT AAAAGGAT AAATTT AAATTT AAATTT AAA-GT AAATTT
1 AAATTT AAATTT -AAA-TTT AAATTT AAATTT AAATTT AAATTT AAATTT
32855867 AAATTT AAA
1 AAATTT AAA
32855876 ATAAATTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
5 4 0.09
6 32 0.74
7 6 0.14
8 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (6 bp):
AAATTT
Found at i:32855865 original size:17 final size:17
Alignment explanation
Indices: 32855843--32855883 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
32855833 AGGATAAATT
*
32855843 TAAATTTAAATTTAAAG
1 TAAATTTAAATTTAAAA
32855860 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
32855877 TAAATTT
1 TAAATTT
32855884 GAATCAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:32856484 original size:92 final size:92
Alignment explanation
Indices: 32856072--32857404 Score: 1771
Period size: 92 Copynumber: 14.5 Consensus size: 92
32856062 AACACTGGAC
* * * ** ** * * *
32856072 TTGATGCTTCATCTTGCTCTTACTACAGCTTCAGAGAGATAAAGGTTTGATATCCATCTTTACTA
1 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTT
* * *
32856137 CAACTTCAAGAGGATTGGAAATGAT-G
66 CAATTTCAAGAGGATAGGAAATGATAT
* * * * * * *
32856163 TTGGTGCTTCATCTTGCTCTTACTTCAATTTCAAAGAGATAAAGACTTGATATCCAACTCTACTA
1 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTT
* * * *
32856228 CAACTTCGAGAGGATAGAAAATGAT-G
66 CAATTTCAAGAGGATAGGAAATGATAT
* * * * * *
32856254 TCGGTGCTTCATCTTA-CTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAGCTCTACT
1 TTGATGCTTTATC-TAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACT
* * * * *
32856318 ACAACTTCGAGAGGATAGAAAATGAT-G
65 TCAATTTCAAGAGGATAGGAAATGATAT
*
32856345 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAGCTTTACTT
1 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTT
32856410 CAATTTCAAGAGGATAGGAAATGATAT
66 CAATTTCAAGAGGATAGGAAATGATAT
32856437 TTGATGCTTTATCTAGCTCTTACTTCAATTTCTA-AGAGATAAAGACTTGCTATCCAACTTTACT
1 TTGATGCTTTATCTAGCTCTTACTTCAATTTC-AGAGAGATAAAGACTTGCTATCCAACTTTACT
* *
32856501 TTAATTTCAAGAGGATAGGAAATGATGT
65 TCAATTTCAAGAGGATAGGAAATGATAT
*
32856529 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCTAACTTTACTT
1 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTT
*
32856594 CAATTTCAAGAGGATAGGAAATGATGT
66 CAATTTCAAGAGGATAGGAAATGATAT
** * * *
32856621 CGGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAGCTTTACTA
1 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTT
* *
32856686 CAACTTT-GAGAGGATAGAAAAT-A-AT
66 CAA-TTTCAAGAGGATAGGAAATGATAT
32856711 GTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACT
1 -TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACT
32856776 TCAATTTCAAGAGGATAGGAAATGATAT
65 TCAATTTCAAGAGGATAGGAAATGATAT
* *
32856804 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTACTTTACTT
1 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTT
32856869 CAATTTCAAGAGGATAGGAAATGATAT
66 CAATTTCAAGAGGATAGGAAATGATAT
*
32856896 TTGATGCTTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGGCTTGCTATCCAACTTTACT
1 TTGATGC-TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACT
32856961 TCAATTTCAAGAGGATAGGAAATGATAT
65 TCAATTTCAAGAGGATAGGAAATGATAT
*
32856989 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGGCTTGCTATCCAACTTTACTT
1 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTT
32857054 CAATTTCAAGAGGATAGGAAATGATAT
66 CAATTTCAAGAGGATAGGAAATGATAT
*
32857081 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGGCTTGCTATCCAACTTTACTT
1 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTT
32857146 CAATTTCAAGAGGATAGGAAATGATAT
66 CAATTTCAAGAGGATAGGAAATGATAT
* *
32857173 TTGATGCTTTATCTAGCTTTTACTTCAATTTCAGAGAGATAAAGA-TT-CATTATCCATCTTTAC
1 TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGC--TATCCAACTTTAC
* * * *
32857236 TAT-AACTTCAAGAGGATAAGAATTGACAT
64 T-TCAATTTCAAGAGGATAGGAAATGATAT
** * * * *
32857265 TTGAAACTTCATCTTGCTCTTACTAT-AACTTCAAAGAGATAAAGA-TT-CATTATCCAACTTTA
1 TTGATGCTTTATCTAGCTCTTACT-TCAATTTCAGAGAGATAAAGACTTGC--TATCCAACTTTA
* ** **
32857327 CTAT-AACTTCAAGAGGATAAAAAATGACGT
63 CT-TCAATTTCAAGAGGATAGGAAATGATAT
* * * * *
32857357 TTAAAGCTTTATCTTGCTCTTACTAT-AACTTCAAAGAGATAAAGACTT
1 TTGATGCTTTATCTAGCTCTTACT-TCAATTTCAGAGAGATAAAGACTT
32857405 TTCTTTTTTT
Statistics
Matches: 1153, Mismatches: 73, Indels: 30
0.92 0.06 0.02
Matches are distributed among these distances:
90 7 0.01
91 322 0.28
92 725 0.63
93 99 0.09
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (92 bp):
TTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTT
CAATTTCAAGAGGATAGGAAATGATAT
Found at i:32857254 original size:40 final size:41
Alignment explanation
Indices: 32857205--32857347 Score: 123
Period size: 40 Copynumber: 3.3 Consensus size: 41
32857195 CTTCAATTTC
32857205 AGAGAGATAAAGATTCATTATCCATCTTTACTATAACTTCA
1 AGAGAGATAAAGATTCATTATCCATCTTTACTATAACTTCA
*
32857246 AGAG-GAT-AAGAATTGACATTTGAAACTTCATCTTGCTCTTACTATAACTTCA
1 AGAGAGATAAAG-ATT--CA-TT---A--TC--CAT-CT-TTACTATAACTTCA
*
32857298 A-AGAGATAAAGATTCATTATCCAACTTTACTATAACTTCA
1 AGAGAGATAAAGATTCATTATCCATCTTTACTATAACTTCA
32857338 AGAG-GATAAA
1 AGAGAGATAAA
32857348 AAATGACGTT
Statistics
Matches: 83, Mismatches: 3, Indels: 33
0.70 0.03 0.28
Matches are distributed among these distances:
39 3 0.04
40 27 0.33
41 8 0.10
42 3 0.04
43 2 0.02
44 2 0.02
46 2 0.02
48 2 0.02
49 2 0.02
50 4 0.05
51 4 0.05
52 21 0.25
53 3 0.04
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (41 bp):
AGAGAGATAAAGATTCATTATCCATCTTTACTATAACTTCA
Found at i:32857481 original size:51 final size:50
Alignment explanation
Indices: 32857426--32857613 Score: 136
Period size: 51 Copynumber: 3.7 Consensus size: 50
32857416 TCTTTTTGCA
* * * *
32857426 GTACA-GGATCTGCCGTTGCGGTCTTAGATCTTTCCCGTCGTGTCTTTTGAG
1 GTACACGG-TCTGCCATTGCGGACTTAGACCTTTCCCTTC-TGTCTTTTGAG
* * * * *
32857477 GTACACGGTCCGTCGTTG-TGACTTAGACCTTTCCCTTTTCTGT-TTTTGCG
1 GTACACGGTCTGCCATTGCGGACTTAGACCTTTCCC--TTCTGTCTTTTGAG
* * * * * *
32857527 ATAC-TGGATCTGCCATTGTGGTCTTAGATCTTTCCCTTCCATG-CTTCTGAG
1 GTACACGG-TCTGCCATTGCGGACTTAGACCTTTCCCTT-C-TGTCTTTTGAG
32857578 GTACACGGTCTGCCATTGC-GACTTAGACCTTTCCCT
1 GTACACGGTCTGCCATTGCGGACTTAGACCTTTCCCT
32857614 GTAGTGTTTT
Statistics
Matches: 106, Mismatches: 22, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
49 4 0.04
50 46 0.43
51 50 0.47
52 6 0.06
ACGTcount: A:0.13, C:0.27, G:0.22, T:0.38
Consensus pattern (50 bp):
GTACACGGTCTGCCATTGCGGACTTAGACCTTTCCCTTCTGTCTTTTGAG
Found at i:32857524 original size:50 final size:51
Alignment explanation
Indices: 32857469--32857613 Score: 143
Period size: 50 Copynumber: 2.9 Consensus size: 51
32857459 CCCGTCGTGT
* * * *
32857469 CTTTTGAGGTACACGGTCCGTCGTTGTGACTTAGACCTTTCCCTTTTC-TG
1 CTTTTGAGGTACACGGTCTGCCATTGTGACTTAGACCTTTCCCTTTCCATG
* * * * * *
32857519 TTTTTGCGATAC-TGGATCTGCCATTGTGGTCTTAGATCTTTCCC-TTCCATG
1 CTTTTGAGGTACACGG-TCTGCCATTGT-GACTTAGACCTTTCCCTTTCCATG
* *
32857570 CTTCTGAGGTACACGGTCTGCCATTGCGACTTAGACCTTTCCCT
1 CTTTTGAGGTACACGGTCTGCCATTGTGACTTAGACCTTTCCCT
32857614 GTAGTGTTTT
Statistics
Matches: 72, Mismatches: 18, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
49 2 0.03
50 34 0.47
51 34 0.47
52 2 0.03
ACGTcount: A:0.14, C:0.27, G:0.21, T:0.39
Consensus pattern (51 bp):
CTTTTGAGGTACACGGTCTGCCATTGTGACTTAGACCTTTCCCTTTCCATG
Found at i:32857601 original size:101 final size:101
Alignment explanation
Indices: 32857418--32857613 Score: 270
Period size: 101 Copynumber: 1.9 Consensus size: 101
32857408 TTTTTTTGTC
* * *
32857418 TTTTTGCAGTACAGGATCTGCCGTTGCGGTCTTAGATCTTTCCCGTCGTGTCTTTTGAGGTACAC
1 TTTTTGCAGTACAGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTCATGTCTTCTGAGGTACAC
* * *
32857483 GGTCCGTCGTTGTGACTTAGACCTTTCCCTTTTCTG
66 GGTCCGCCATTGCGACTTAGACCTTTCCCTTTTCTG
* * *
32857519 TTTTTGC-GATACTGGATCTGCCATTGTGGTCTTAGATCTTTCCCTTCCATG-CTTCTGAGGTAC
1 TTTTTGCAG-TACAGGATCTGCCATTGCGGTCTTAGATCTTTCCCGT-CATGTCTTCTGAGGTAC
*
32857582 ACGGTCTGCCATTGCGACTTAGACCTTTCCCT
64 ACGGTCCGCCATTGCGACTTAGACCTTTCCCT
32857614 GTAGTGTTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
100 1 0.01
101 79 0.95
102 3 0.04
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.39
Consensus pattern (101 bp):
TTTTTGCAGTACAGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTCATGTCTTCTGAGGTACAC
GGTCCGCCATTGCGACTTAGACCTTTCCCTTTTCTG
Found at i:32858947 original size:22 final size:22
Alignment explanation
Indices: 32858904--32858948 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
32858894 CTTGTTTTTG
32858904 CTTTTCTTTTTTTCTTTCTCTT
1 CTTTTCTTTTTTTCTTTCTCTT
* *
32858926 CTTTT-TTTTATTTGTTTTTCTT
1 CTTTTCTTTT-TTTCTTTCTCTT
32858948 C
1 C
32858949 ATTGTATCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (22 bp):
CTTTTCTTTTTTTCTTTCTCTT
Found at i:32864347 original size:28 final size:28
Alignment explanation
Indices: 32864316--32864376 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
32864306 AAAACAGGAC
32864316 TTTTGGATA-CCCGGGGGTAAAATGGTAA
1 TTTTGGA-AGCCCGGGGGTAAAATGGTAA
**
32864344 TTTTGGAAGGTTCGGGGGTAAAATGGTAA
1 TTTTGGAA-GCCCGGGGGTAAAATGGTAA
32864373 TTTT
1 TTTT
32864377 TGTAAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 1 0.03
28 7 0.24
29 21 0.72
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.34
Consensus pattern (28 bp):
TTTTGGAAGCCCGGGGGTAAAATGGTAA
Found at i:32864359 original size:29 final size:29
Alignment explanation
Indices: 32864327--32864528 Score: 146
Period size: 30 Copynumber: 6.9 Consensus size: 29
32864317 TTTGGATACC
*
32864327 CGGGGGTAAAATGGTAATTTTGGAAGGTT
1 CGGGGGTAAAATGGTAATTTTGGAAAGTT
* *
32864356 CGGGGGTAAAATGGTAATTTTTGTAAAATT
1 CGGGGGTAAAATGGTAA-TTTTGGAAAGTT
*
32864386 -GGGGCTAAAGATGG-AATTTTGGAAAGTT
1 CGGGGGTAAA-ATGGTAATTTTGGAAAGTT
** *
32864414 TAGGGGTAAAATGGTAATTTTTGAAAGTTT
1 CGGGGGTAAAATGGTAATTTTGGAAAG-TT
*** * *
32864444 TAAGGTTAAAAT-ATAATTTTGGAAAAGTT
1 CGGGGGTAAAATGGTAATTTTGG-AAAGTT
***
32864473 TTAGGGTCAAAAT-GTAATTTTGGAAAAGCTT
1 CGGGGGT-AAAATGGTAATTTTGG-AAAG-TT
*
32864504 -TGGGGTCAAAAT-GTAATTTTGGAAA
1 CGGGGGT-AAAATGGTAATTTTGGAAA
32864529 AGCTTTAGGG
Statistics
Matches: 148, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.09
29 63 0.43
30 69 0.47
31 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.35
Consensus pattern (29 bp):
CGGGGGTAAAATGGTAATTTTGGAAAGTT
Found at i:32864454 original size:30 final size:30
Alignment explanation
Indices: 32864400--32864553 Score: 190
Period size: 30 Copynumber: 5.2 Consensus size: 30
32864390 CTAAAGATGG
32864400 AATTTTGG-AAAG-TTTAGGGGT-AAAATGGT
1 AATTTTGGAAAAGCTTTA-GGGTCAAAAT-GT
* * * * *
32864429 AATTTTTG-AAAGTTTTAAGGTTAAAATAT
1 AATTTTGGAAAAGCTTTAGGGTCAAAATGT
*
32864458 AATTTTGGAAAAGTTTTAGGGTCAAAATGT
1 AATTTTGGAAAAGCTTTAGGGTCAAAATGT
*
32864488 AATTTTGGAAAAGCTTTGGGGTCAAAATGT
1 AATTTTGGAAAAGCTTTAGGGTCAAAATGT
*
32864518 AATTTTGGAAAAGCTTTAGGGTCAAAATAT
1 AATTTTGGAAAAGCTTTAGGGTCAAAATGT
32864548 AATTTT
1 AATTTT
32864554 TGAACAGTGT
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
29 22 0.20
30 89 0.80
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (30 bp):
AATTTTGGAAAAGCTTTAGGGTCAAAATGT
Found at i:32865129 original size:6 final size:6
Alignment explanation
Indices: 32865120--32865177 Score: 64
Period size: 6 Copynumber: 9.5 Consensus size: 6
32865110 AATTTAGAAC
** *
32865120 AAATTT AAATTT AAAAGGAT AAATTT AAATTT AAATTT AAA-GT AAATTT
1 AAATTT AAATTT -AAA-TTT AAATTT AAATTT AAATTT AAATTT AAATTT
32865169 AAATTT AAA
1 AAATTT AAA
32865178 ATAAATTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
5 4 0.09
6 32 0.74
7 6 0.14
8 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (6 bp):
AAATTT
Found at i:32865167 original size:17 final size:17
Alignment explanation
Indices: 32865145--32865185 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
32865135 AGGATAAATT
*
32865145 TAAATTTAAATTTAAAG
1 TAAATTTAAATTTAAAA
32865162 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
32865179 TAAATTT
1 TAAATTT
32865186 GAATCAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:32867714 original size:21 final size:20
Alignment explanation
Indices: 32867690--32867747 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
32867680 TATAAAAATC
**
32867690 TATAATATTTTGAAATATATA
1 TATAATATTTAAAAAT-TATA
32867711 TATAA-ATTTAAAAATTATA
1 TATAATATTTAAAAATTATA
*
32867730 TA-AATATATAAACAATTA
1 TATAATATTTAAA-AATTA
32867748 GAAAGCTCGC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 13 0.41
21 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TATAATATTTAAAAATTATA
Found at i:32870659 original size:2 final size:2
Alignment explanation
Indices: 32870652--32870690 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
32870642 TCGTAATGAT
32870652 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
32870691 ATGATAGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32872646 original size:31 final size:31
Alignment explanation
Indices: 32872611--32872680 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
32872601 CTTTATAGTC
32872611 TAGTGACTTAAATAAAAACTTTGGAATAATT
1 TAGTGACTTAAATAAAAACTTTGGAATAATT
* *
32872642 TAGTGACTTAAATGAAAACTTTTGAATAATT
1 TAGTGACTTAAATAAAAACTTTGGAATAATT
32872673 TAGTGACT
1 TAGTGACT
32872681 ATTTTGTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.37
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAACTTTGGAATAATT
Found at i:32881866 original size:28 final size:27
Alignment explanation
Indices: 32881833--32881894 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
32881823 AAAATATTAA
*
32881833 AAATAATTTTTCATAATTTTTATATTTT
1 AAATAATTTTTAATAATTTTTA-ATTTT
*
32881861 AAATAA-TTTTAATGATTTTTAATTTT
1 AAATAATTTTTAATAATTTTTAATTTT
*
32881887 AAAAAATT
1 AAATAATT
32881895 AATTGAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 10 0.33
27 14 0.47
28 6 0.20
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
AAATAATTTTTAATAATTTTTAATTTT
Found at i:32883107 original size:19 final size:20
Alignment explanation
Indices: 32883062--32883110 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
32883052 GTAGTATATA
*
32883062 AAAAATATA-AATATAATTT
1 AAAAATAAATAATATAATTT
*
32883081 -AAATTAAATAATA-AATTT
1 AAAAATAAATAATATAATTT
32883099 AAAAATAAATAA
1 AAAAATAAATAA
32883111 CAAGTATATC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATAAATAATATAATTT
Found at i:32885221 original size:24 final size:24
Alignment explanation
Indices: 32885187--32885235 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
32885177 TGATGTGGAA
32885187 CCAGTACAAAATGAAGATCCAACT
1 CCAGTACAAAATGAAGATCCAACT
*
32885211 CCAGTAGAAAATGAAGATCCAACT
1 CCAGTACAAAATGAAGATCCAACT
32885235 C
1 C
32885236 TGTGTATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.16
Consensus pattern (24 bp):
CCAGTACAAAATGAAGATCCAACT
Found at i:32889935 original size:17 final size:17
Alignment explanation
Indices: 32889896--32889934 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
32889886 TATTTTGTAC
*
32889896 CATTTTGGTAAATAACT
1 CATTTTGGTAAATAAAT
32889913 CATTTTGGTAAATAAAT
1 CATTTTGGTAAATAAAT
32889930 -ATTTT
1 CATTTT
32889935 TTATATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (17 bp):
CATTTTGGTAAATAAAT
Found at i:32890481 original size:4 final size:4
Alignment explanation
Indices: 32890472--32890513 Score: 57
Period size: 4 Copynumber: 9.8 Consensus size: 4
32890462 CAAAAAAATA
32890472 TCTT TCTT TCTT TCTT TCTT TCTT TCTT CTCTCT TCTCT TCT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT -TCT-T TCT-T TCT
32890514 CACCCGTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 24 0.67
5 11 0.31
6 1 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TCTT
Found at i:32891428 original size:49 final size:50
Alignment explanation
Indices: 32891351--32891448 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 50
32891341 TTAGTATATA
32891351 CAATAAAAAAGACCCAGGTCGTTGGTCAGCCATGTCTGTTAGTTGAGATG
1 CAATAAAAAAGACCCAGGTCGTTGGTCAGCCATGTCTGTTAGTTGAGATG
32891401 CAATAAAAAAGACCCA-GTCGTTGGTCAGCCATGTCTGTTAGTTGAGAT
1 CAATAAAAAAGACCCAGGTCGTTGGTCAGCCATGTCTGTTAGTTGAGAT
32891449 TCCCAGAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 32 0.67
50 16 0.33
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (50 bp):
CAATAAAAAAGACCCAGGTCGTTGGTCAGCCATGTCTGTTAGTTGAGATG
Found at i:32892595 original size:3 final size:3
Alignment explanation
Indices: 32892587--32892647 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
32892577 GCGTGTGTTG
32892587 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32892635 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
32892648 TAGTTTAATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:32896233 original size:37 final size:37
Alignment explanation
Indices: 32896192--32896413 Score: 248
Period size: 37 Copynumber: 6.0 Consensus size: 37
32896182 TGCATCTAAA
* * * *
32896192 TATTTAGGCTATGTGTCGAGAAAGCTTTGTGCCGGTG
1 TATTTAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
** * *
32896229 TATTTAAACTATGTGCCTAGTAGGTTTTGTGTCGGTG
1 TATTTAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * * *
32896266 TATTCAAGCTATGTGCCTAGTAGGCTTTGTGTCAGTG
1 TATTTAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * *
32896303 TATTCAGGTTATGTGCCTAGTAGGCTTCGTGCCGGTG
1 TATTTAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
32896340 -ATTTCAGGCTATCTGCCTAGTAGGCTTCGTGCCGGTG
1 TATTT-AGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * *
32896377 TATTTGGGCTATGTGCCTAGCAGGCTTTGTACCGGTG
1 TATTTAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
32896414 ATCCAAGAAC
Statistics
Matches: 158, Mismatches: 25, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
36 3 0.02
37 151 0.96
38 4 0.03
ACGTcount: A:0.16, C:0.17, G:0.30, T:0.36
Consensus pattern (37 bp):
TATTTAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
Found at i:32897161 original size:21 final size:21
Alignment explanation
Indices: 32897131--32897170 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32897121 ACTCACTGTC
*
32897131 AATTTTAGTATCGGTAGAACT
1 AATTTAAGTATCGGTAGAACT
32897152 AATTTAAGTATCGGTAGAA
1 AATTTAAGTATCGGTAGAA
32897171 ATATCCAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (21 bp):
AATTTAAGTATCGGTAGAACT
Found at i:32898054 original size:29 final size:29
Alignment explanation
Indices: 32898021--32898077 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
32898011 TGACCAGGCA
* * *
32898021 ATGTGGCCCACATGGTCTGCCACACGACC
1 ATGTGACCCACACGATCTGCCACACGACC
*
32898050 ATGTGACCCACACGATTTGCCACACGAC
1 ATGTGACCCACACGATCTGCCACACGAC
32898078 TTACCACACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.37, G:0.21, T:0.18
Consensus pattern (29 bp):
ATGTGACCCACACGATCTGCCACACGACC
Found at i:32903611 original size:4 final size:4
Alignment explanation
Indices: 32903559--32903595 Score: 56
Period size: 4 Copynumber: 8.8 Consensus size: 4
32903549 TAATTAGGTG
32903559 TTAA TTAA GCTTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA --TTAA TTAA TTAA TTAA TTAA TTAA TTA
32903596 GACTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 27 0.87
6 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (4 bp):
TTAA
Found at i:32907335 original size:4 final size:4
Alignment explanation
Indices: 32907283--32907319 Score: 56
Period size: 4 Copynumber: 8.8 Consensus size: 4
32907273 TAATTAGGTG
32907283 TTAA TTAA GCTTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA --TTAA TTAA TTAA TTAA TTAA TTAA TTA
32907320 GACTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 27 0.87
6 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (4 bp):
TTAA
Found at i:32910962 original size:47 final size:47
Alignment explanation
Indices: 32910880--32910971 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
32910870 CATAACTGCA
* * * * *
32910880 TTGAAATTTGACACATTTGTCTCATCTATTTTACTTTTAATTGGGCT
1 TTGAAATTTGACACACTTGTCTCATCAATTCTACTTCTAAATGGGCT
* *
32910927 TTGAAATTTGACCCACTTGTCTTATCAATTCTACTTCTAAATGGG
1 TTGAAATTTGACACACTTGTCTCATCAATTCTACTTCTAAATGGG
32910972 TGGTTAATCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (47 bp):
TTGAAATTTGACACACTTGTCTCATCAATTCTACTTCTAAATGGGCT
Found at i:32911652 original size:14 final size:14
Alignment explanation
Indices: 32911633--32911660 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32911623 AGTCACGTCT
32911633 AGTGAGTTAGGACA
1 AGTGAGTTAGGACA
32911647 AGTGAGTTAGGACA
1 AGTGAGTTAGGACA
32911661 TAACGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.36, T:0.21
Consensus pattern (14 bp):
AGTGAGTTAGGACA
Found at i:32911900 original size:97 final size:97
Alignment explanation
Indices: 32911722--32911983 Score: 445
Period size: 97 Copynumber: 2.7 Consensus size: 97
32911712 AACCTTAGAA
*
32911722 AAGGGTATTCGATTATCCCGATTTGAAGAAAAGTCGTGCCTAG-AAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCACAAATTTTCA
*
32911786 AAACCAGAGATAAAGAAACATCGCCTCGATTT
66 AAACCAGAGATAAAGAAACATCGCCTCAATTT
* *
32911818 AAGGGTATTCGATTATCCCAATTTGAAGAAAAATTGTGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCACAAATTTTCA
*
32911883 AAACCAGAGATAAAGAAACATTGCCTCAATTT
66 AAACCAGAGATAAAGAAACATCGCCTCAATTT
* * *
32911915 AAGGGTATTCGATTATCCCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTTA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCACAAATTTTCA
32911980 AAAC
66 AAAC
32911984 TCAAAATAAG
Statistics
Matches: 155, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
96 40 0.26
97 115 0.74
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACCAGAGATAAAGAAACATCGCCTCAATTT
Found at i:32912086 original size:19 final size:19
Alignment explanation
Indices: 32912059--32912099 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32912049 AAAATAGAGA
32912059 TAAAAATGAGC-ATGCAAAT
1 TAAAAATGAGCTATGC-AAT
*
32912078 TAAATATGAGCTATGCAAT
1 TAAAAATGAGCTATGCAAT
32912097 TAA
1 TAA
32912100 CGATAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.27
Consensus pattern (19 bp):
TAAAAATGAGCTATGCAAT
Found at i:32912359 original size:29 final size:29
Alignment explanation
Indices: 32912313--32912473 Score: 88
Period size: 28 Copynumber: 5.7 Consensus size: 29
32912303 GGAAAGTCTT
*
32912313 AGGGGAAAATGTCA-TTTTAGGAAAATTCG
1 AGGGGAAAATGTGATTTTTAGG-AAATTCG
* *
32912342 -GGGGAAAACGTGATTTTT-GGAAGTTCG
1 AGGGGAAAATGTGATTTTTAGGAAATTCG
* *
32912369 AGGGCAAAAATGTGATTTTTA-GAAGTT-G
1 AGGG-GAAAATGTGATTTTTAGGAAATTCG
* * * * *
32912397 AGGGTAAAAATGTAATTTTT-GGGACTT-T
1 AGGG-GAAAATGTGATTTTTAGGAAATTCG
* * *
32912425 AGGGGAAAAATGTAATTTTTA-GAATTTAG
1 AGGGG-AAAATGTGATTTTTAGGAAATTCG
32912454 AGGGGTAAAAATGT-ATTTTT
1 AGGGG--AAAATGTGATTTTT
32912474 TGAGAGGTTT
Statistics
Matches: 109, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
27 6 0.06
28 61 0.56
29 34 0.31
30 8 0.07
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (29 bp):
AGGGGAAAATGTGATTTTTAGGAAATTCG
Found at i:32912377 original size:28 final size:28
Alignment explanation
Indices: 32912338--32912405 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 28
32912328 TTTAGGAAAA
* *
32912338 TTCG-GGGGAAAACGTGATTTTTGGAAG
1 TTCGAGGGCAAAACGTGATTTTTAGAAG
*
32912365 TTCGAGGGCAAAAATGTGATTTTTAGAAG
1 TTCGAGGGC-AAAACGTGATTTTTAGAAG
*
32912394 TT-GAGGGTAAAA
1 TTCGAGGGCAAAA
32912406 ATGTAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 8 0.23
28 8 0.23
29 19 0.54
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (28 bp):
TTCGAGGGCAAAACGTGATTTTTAGAAG
Found at i:32912406 original size:28 final size:28
Alignment explanation
Indices: 32912354--32912705 Score: 250
Period size: 28 Copynumber: 12.2 Consensus size: 28
32912344 GGAAAACGTG
* * *
32912354 ATTTTTGGAAGTTCGAGGGCAAAAATGTG
1 ATTTTTAGAAGTT-GAGGGTAAAAATGTA
32912383 ATTTTTAGAAGTTGAGGGTAAAAATGTA
1 ATTTTTAGAAGTTGAGGGTAAAAATGTA
* * * * *
32912411 ATTTTTGGGACTTTAGGGGAAAAATGTA
1 ATTTTTAGAAGTTGAGGGTAAAAATGTA
*
32912439 ATTTTTAGAATTTAGAGGGGTAAAAATGTA
1 ATTTTTAGAAGTT-GA-GGGTAAAAATGTA
* * * *
32912469 TTTTTTGAGAGGTTTAGGGGTAAAAATGGA
1 ATTTTT-AGAAGTTGA-GGGTAAAAATGTA
* *
32912499 ATTTTTGGAAGTTCG-GGGTGAAAATGTA
1 ATTTTTAGAAGTT-GAGGGTAAAAATGTA
* * **
32912527 ATTTTTGAAAAGTTTAGGGGCAAAATGTA
1 ATTTTT-AGAAGTTGAGGGTAAAAATGTA
*
32912556 ATTTTT-GAAAGTTTGAGGG-CAAAATGTA
1 ATTTTTAG-AAG-TTGAGGGTAAAAATGTA
*
32912584 ATTCTT-GAAAGTTTGAGGG-AAAACA--TA
1 ATTTTTAG-AAG-TTGAGGGTAAAA-ATGTA
* *
32912611 ATTTTTGAGAAGTTCGAGGGTAAAATTTTA
1 ATTTTT-AGAAGTT-GAGGGTAAAAATGTA
*
32912641 ATTTTTAAGAAGTTTAAGGGTAAAAATGTA
1 ATTTTT-AGAAG-TTGAGGGTAAAAATGTA
* * *
32912671 AGTTTTAAGAAGTTCGAGGGTCAAAATGTG
1 A-TTTTTAGAAGTT-GAGGGTAAAAATGTA
32912701 ATTTT
1 ATTTT
32912706 GGAAAGTGTA
Statistics
Matches: 262, Mismatches: 43, Indels: 36
0.77 0.13 0.11
Matches are distributed among these distances:
27 9 0.03
28 104 0.40
29 58 0.22
30 80 0.31
31 11 0.04
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (28 bp):
ATTTTTAGAAGTTGAGGGTAAAAATGTA
Found at i:32912475 original size:58 final size:57
Alignment explanation
Indices: 32912369--32912719 Score: 281
Period size: 58 Copynumber: 6.1 Consensus size: 57
32912359 TGGAAGTTCG
* * * *
32912369 AGGGCAAAAATGTGATTTTTAGAAGTTGA-GGGTAAAAATGTAATTTTTGGGACTTT
1 AGGGGAAAAATGTAATTTTTAGAAGTTGAGGGGTAAAAATGTAATTTTTGAGAGTTT
* *
32912425 AGGGGAAAAATGTAATTTTTAGAATTTAGAGGGGTAAAAATGTATTTTTTGAGAGGTTT
1 AGGGGAAAAATGTAATTTTTAGAAGTT-GAGGGGTAAAAATGTAATTTTTGAGA-GTTT
* * * * *
32912484 AGGGGTAAAAATGGAATTTTTGGAAGTT-CGGGGTGAAAATGTAATTTTTGAAAAGTTT
1 AGGGG-AAAAATGTAATTTTTAGAAGTTGAGGGGTAAAAATGTAATTTTTG-AGAGTTT
* * * *
32912542 AGGGGCAAAATGTAATTTTT-GAAAGTTTGA-GGG-CAAAATGTAATTCTTGAAAGTTT
1 AGGGGAAAAATGTAATTTTTAG-AAG-TTGAGGGGTAAAAATGTAATTTTTGAGAGTTT
* * *
32912598 -GAGGGAAAACA--TAATTTTTGAGAAGTTCGA-GGGTAAAATTTTAATTTTTAAGAAGTTT
1 AG-GGGAAAA-ATGTAATTTTT-AGAAGTT-GAGGGGTAAAAATGTAATTTTTGAG-AGTTT
* * * * * * *
32912656 AAGGGTAAAAATGTAAGTTTTAAGAAGTTCGA-GGGTCAAAATGTGATTTTGGAAAGTGT
1 -AGGGGAAAAATGTAA-TTTTTAGAAGTT-GAGGGGTAAAAATGTAATTTTTGAGAGTTT
32912715 AGGGG
1 AGGGG
32912720 TCAAAATATG
Statistics
Matches: 239, Mismatches: 36, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
55 11 0.05
56 46 0.19
57 46 0.19
58 64 0.27
59 20 0.08
60 48 0.20
61 4 0.02
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (57 bp):
AGGGGAAAAATGTAATTTTTAGAAGTTGAGGGGTAAAAATGTAATTTTTGAGAGTTT
Found at i:32912493 original size:29 final size:29
Alignment explanation
Indices: 32912374--32912745 Score: 216
Period size: 28 Copynumber: 12.8 Consensus size: 29
32912364 GTTCGAGGGC
* *
32912374 AAAAATGTGATTTTT-AGAAGTTGA-GGGT
1 AAAAATGTAATTTTTGAG-AGTTTAGGGGT
* *
32912402 AAAAATGTAATTTTTGGGACTTTAGGGG-
1 AAAAATGTAATTTTTGAGAGTTTAGGGGT
*
32912430 AAAAATGTAATTTTT-AGAATTTAGAGGGGT
1 AAAAATGTAATTTTTGAGAGTTT--AGGGGT
*
32912460 AAAAATGTATTTTTTGAGAGGTTTAGGGGT
1 AAAAATGTAATTTTTGAGA-GTTTAGGGGT
* *
32912490 AAAAATGGAATTTTTG-GAAG-TTCGGGGT
1 AAAAATGTAATTTTTGAG-AGTTTAGGGGT
* *
32912518 GAAAATGTAATTTTTGAAAAGTTTAGGGG-
1 AAAAATGTAATTTTTG-AGAGTTTAGGGGT
* *
32912547 CAAAATGTAATTTTTGAAAGTTT-GAGGG-
1 AAAAATGTAATTTTTGAGAGTTTAG-GGGT
* * *
32912575 CAAAATGTAATTCTTGAAAGTTT-GAGGG-
1 AAAAATGTAATTTTTGAGAGTTTAG-GGGT
*
32912603 AAAACA--TAATTTTTGAGAAG-TTCGAGGGT
1 AAAA-ATGTAATTTTTGAG-AGTTTAG-GGGT
* * * *
32912632 AAAATTTTAATTTTTAAGAAGTTTAAGGGT
1 AAAAATGTAATTTTTGAG-AGTTTAGGGGT
* * *
32912662 AAAAATGTAAGTTTTAAGAAG-TTCGAGGGT
1 AAAAATGTAATTTTTGAG-AGTTTAG-GGGT
* * * * *
32912692 CAAAATGTGATTTTGGAAAGTGTAGGGGT
1 AAAAATGTAATTTTTGAGAGTTTAGGGGT
* * * *
32912721 CAAAATATGATTTTTGGATAGTTTA
1 AAAAATGTAATTTTT-GAGAGTTTA
32912746 AGGACCTTCT
Statistics
Matches: 281, Mismatches: 41, Indels: 42
0.77 0.11 0.12
Matches are distributed among these distances:
27 17 0.06
28 101 0.36
29 54 0.19
30 101 0.36
31 5 0.02
32 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAAATGTAATTTTTGAGAGTTTAGGGGT
Found at i:32914094 original size:17 final size:17
Alignment explanation
Indices: 32914074--32914118 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
32914064 TGCTTGGAAT
*
32914074 TAAATTTAAATTTAAAA
1 TAAATTTAAACTTAAAA
* *
32914091 TAAATCTAAACTTAAAT
1 TAAATTTAAACTTAAAA
32914108 TAAAATTTAAA
1 T-AAATTTAAA
32914119 ATTTGGGCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTTAAACTTAAAA
Found at i:32914927 original size:208 final size:208
Alignment explanation
Indices: 32914488--32915147 Score: 811
Period size: 208 Copynumber: 3.2 Consensus size: 208
32914478 GCTTCATCTC
* * * * * * *
32914488 TTGGTCTACTTCTCTGTTATATCATTAGGAAGATGACCGCTTTATTGCTTTGACCTACTTCTCCG
1 TTGGTCCACTTCTCT-ATATCTCATCAGGAAGACGACCGCTTTATTGCTTCGACCTACTTCTCAG
* * * * * * *
32914553 TATCTCATCAAGAAGATAGGGGTTTGAAGCTTCACTCGCATCTGAACTTTGTTTCACTTAATTTG
65 TATCTCATCAGGAAGCT-GGGGTTCGAAGTTTCACTCACAT-TGAGCTTTGTTTCA-TTGATTTG
* * * * * * *
32914618 GTCTACTTCTCTATATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCGCTTCACTGTAT
127 GTATACTTCTCTGTATCTCATCAGGAAGATGACTGCATCAC-TGTTTCAATCCACTTCTCTGTAT
* * *
32914683 TTTATCAGGAAGACGGAT
191 CTCATCAGGAAGACGAAT
** * *
32914701 TTGGTCCACTTCTCTATATCTCATCAGGAAGACGACCATTTTATTGCTTCAACCTGCTTCTCAGT
1 TTGGTCCACTTCTCTATATCTCATCAGGAAGACGACCGCTTTATTGCTTCGACCTACTTCTCAGT
* *
32914766 ACCTCATCAGGAAGCTGGGGCTCGAAGTTTCACTCACATTGAGCTTTGTTTCATTGATTTGGTAT
66 ATCTCATCAGGAAGCTGGGGTTCGAAGTTTCACTCACATTGAGCTTTGTTTCATTGATTTGGTAT
* * * *
32914831 GCTTCTCTGTATCTCATCAAGAAGATGACTGCATCACTGCTTCAATCCACTTCTCCGTATCTCAT
131 ACTTCTCTGTATCTCATCAGGAAGATGACTGCATCACTGTTTCAATCCACTTCTCTGTATCTCAT
32914896 CAGGAAGACGAAT
196 CAGGAAGACGAAT
*
32914909 TTGGTCCACTTCTCTATATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACCTACTTCTCAGT
1 TTGGTCCACTTCTCTATATCTCATCAGGAAGACGACCGCTTTATTGCTTCGACCTACTTCTCAGT
* * * *
32914974 ATCTTATCAGGAAGCTGGGATTCGAAGTTTCACTCACATAGAGCTTTATTTCATTGATTTGGTAT
66 ATCTCATCAGGAAGCTGGGGTTCGAAGTTTCACTCACATTGAGCTTTGTTTCATTGATTTGGTAT
* * *
32915039 ACTTCTCTGTATCTCATCAGGAAGATGA-TCGTATCACTATTTCAA-CTACTTCTCTGTATCTCA
131 ACTTCTCTGTATCTCATCAGGAAGATGACT-GCATCACTGTTTCAATCCACTTCTCTGTATCTCA
* * *
32915102 TCAAGAAGATGAGT
195 TCAGGAAGACGAAT
* * * *
32915116 TTGGTCCACTTTTTTGTATGTCATCAGGAAGA
1 TTGGTCCACTTCTCTATATCTCATCAGGAAGA
32915148 TGAATTTGGT
Statistics
Matches: 387, Mismatches: 59, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
207 56 0.14
208 190 0.49
209 42 0.11
210 13 0.03
211 19 0.05
212 53 0.14
213 14 0.04
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (208 bp):
TTGGTCCACTTCTCTATATCTCATCAGGAAGACGACCGCTTTATTGCTTCGACCTACTTCTCAGT
ATCTCATCAGGAAGCTGGGGTTCGAAGTTTCACTCACATTGAGCTTTGTTTCATTGATTTGGTAT
ACTTCTCTGTATCTCATCAGGAAGATGACTGCATCACTGTTTCAATCCACTTCTCTGTATCTCAT
CAGGAAGACGAAT
Found at i:32915147 original size:37 final size:37
Alignment explanation
Indices: 32915086--32915184 Score: 126
Period size: 37 Copynumber: 2.7 Consensus size: 37
32915076 TATTTCAACT
* *
32915086 ACTTCTCTGTATCTCATCAAGAAGATGAGTTTGGTCC
1 ACTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCC
* * * **
32915123 ACTTTTTTGTATGTCATCAGGAAGATGAATTTGGTTT
1 ACTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCC
*
32915160 ACTTCTCTGTATCTCATTAGGAAGA
1 ACTTCTCTGTATCTCATCAGGAAGA
32915185 CAACCGCTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (37 bp):
ACTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCC
Found at i:32927649 original size:30 final size:30
Alignment explanation
Indices: 32927265--32927655 Score: 279
Period size: 29 Copynumber: 13.6 Consensus size: 30
32927255 AGTTTCGGAG
* *
32927265 AGTTT-GGGGTTAAAATGTAATTTTAGA-A
1 AGTTTAGGGGTAAAAATGTAATTTTTGAGA
* * *
32927293 AGTTTTAGGGGGAAAACA--TCA-TTTTGGGAA
1 AG-TTTAGGGGTAAAA-ATGTAATTTTTGAG-A
* * *
32927323 AATTT-GGGGTAAAAA-GTGATTTTT-TGA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAGA
** *
32927350 AGTTCGGGGGCAAAAATGTAATTTTTG-GA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAGA
* * * *
32927379 AG-TTCGAAGG-AAAAATGCAATTTTT-AAA
1 AGTTTAG-GGGTAAAAATGTAATTTTTGAGA
* * *
32927407 AGTTCA-GGG-AAAAATGGAATTTTTAAGA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAGA
*
32927435 AG-TTCGAGGGT-AAAATGTAATTTTTG-GA
1 AGTTTAG-GGGTAAAAATGTAATTTTTGAGA
*
32927463 AGTTT-GGGGGATAAAATGTAATTTTTGAGA
1 AGTTTAGGGGTA-AAAATGTAATTTTTGAGA
* *
32927493 AGTTTAAGGGTAAAAATGTAAATTTTGA-A
1 AGTTTAGGGGTAAAAATGTAATTTTTGAGA
* *
32927522 AGTTTAGAGGCAAAAATGTAATTTTTGAGA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAGA
* *
32927552 AGTTT-GAGGGTAAAAATGCAA-TTTTAAGA
1 AGTTTAG-GGGTAAAAATGTAATTTTTGAGA
*
32927581 AGTTTAGGGGT-AAAATGTAA-TTTTAAGA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAGA
** *
32927609 AGTTCGGGGGTAAAAATATAATTTTTGAGA
1 AGTTTAGGGGTAAAAATGTAATTTTTGAGA
*
32927639 AGTTTAGGGGTCAAAAT
1 AGTTTAGGGGTAAAAAT
32927656 ATGATTTTGG
Statistics
Matches: 289, Mismatches: 47, Indels: 52
0.74 0.12 0.13
Matches are distributed among these distances:
27 25 0.09
28 79 0.27
29 110 0.38
30 70 0.24
31 5 0.02
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
AGTTTAGGGGTAAAAATGTAATTTTTGAGA
Found at i:32927663 original size:30 final size:29
Alignment explanation
Indices: 32927425--32927695 Score: 180
Period size: 30 Copynumber: 9.2 Consensus size: 29
32927415 GAAAAATGGA
* * * *
32927425 ATTTTTAAGAAG-TTCGAGGGTAAAATGTA
1 ATTTTTGAGAAGTTTAG-GGGTAAAATATG
* * *
32927454 ATTTTTG-GAAGTTTGGGGGATAAAATGTA
1 ATTTTTGAGAAGTTTAGGGG-TAAAATATG
*
32927483 ATTTTTGAGAAGTTTAAGGGTAAAA-ATG
1 ATTTTTGAGAAGTTTAGGGGTAAAATATG
* * *
32927511 TAAATTTTGA-AAGTTTAGAGGCAAAA-ATG
1 --ATTTTTGAGAAGTTTAGGGGTAAAATATG
32927540 TAATTTTTGAGAAGTTT-GAGGGTAAAA-ATG
1 --ATTTTTGAGAAGTTTAG-GGGTAAAATATG
* * *
32927570 CAATTTTAAGAAGTTTAGGGGTAAAATGT-
1 -ATTTTTGAGAAGTTTAGGGGTAAAATATG
* * ** *
32927599 AATTTTAAGAAGTTCGGGGGTAAAAATATA
1 ATTTTTGAGAAGTTTAGGGGT-AAAATATG
32927629 ATTTTTGAGAAGTTTAGGGGTCAAAATATG
1 ATTTTTGAGAAGTTTAGGGGT-AAAATATG
* * * *
32927659 ATTTTGGAAAAGTGTAAGGGTCAAAATATG
1 ATTTTTGAGAAGTTTAGGGGT-AAAATATG
32927689 ATTTTTG
1 ATTTTTG
32927696 GACAGTTGAA
Statistics
Matches: 200, Mismatches: 31, Indels: 21
0.79 0.12 0.08
Matches are distributed among these distances:
28 27 0.14
29 83 0.41
30 90 0.45
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (29 bp):
ATTTTTGAGAAGTTTAGGGGTAAAATATG
Found at i:32928143 original size:23 final size:23
Alignment explanation
Indices: 32928112--32928170 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
32928102 TTGACGTGGC
*
32928112 ATCCAGTCAGCAACTTCTAGAAG
1 ATCCAGTCAGCAACTTCCAGAAG
* *
32928135 ATCCGGTCAGCAGCTTCCAGAACG
1 ATCCAGTCAGCAACTTCCAGAA-G
*
32928159 -TCTAGTCAGCAA
1 ATCCAGTCAGCAA
32928171 GGATGGACGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (23 bp):
ATCCAGTCAGCAACTTCCAGAAG
Found at i:32928919 original size:12 final size:12
Alignment explanation
Indices: 32928902--32928926 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32928892 GATACTTATA
32928902 TTAAATTTCTTT
1 TTAAATTTCTTT
32928914 TTAAATTTCTTT
1 TTAAATTTCTTT
32928926 T
1 T
32928927 CTTTAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTAAATTTCTTT
Found at i:32930704 original size:17 final size:17
Alignment explanation
Indices: 32930636--32930695 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 17
32930626 CATTTTTAAT
* *
32930636 TAAATTCAAATTTAAAA
1 TAAATTTAAACTTAAAA
*
32930653 TAAATTTAAACTCAAAA
1 TAAATTTAAACTTAAAA
32930670 TAAATTTAAACTTAAAA
1 TAAATTTAAACTTAAAA
32930687 T-AATTTAAA
1 TAAATTTAAA
32930696 ATTTAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
16 8 0.21
17 31 0.79
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAATTTAAACTTAAAA
Found at i:32931545 original size:30 final size:30
Alignment explanation
Indices: 32931497--32931557 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
32931487 CGAATTTGGA
* * *
32931497 GATTTTAGGTTGTTGAATTTGGGGATTTTG
1 GATTTTAGGTGGTCGAATTAGGGGATTTTG
*
32931527 GATTTTGGGTGGTCGAATTAGGGGATTTTG
1 GATTTTAGGTGGTCGAATTAGGGGATTTTG
32931557 G
1 G
32931558 TTAAGAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.02, G:0.38, T:0.44
Consensus pattern (30 bp):
GATTTTAGGTGGTCGAATTAGGGGATTTTG
Found at i:32931595 original size:13 final size:15
Alignment explanation
Indices: 32931566--32931611 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
32931556 GGTTAAGAGA
32931566 TTTGATTTAGGGATT
1 TTTGATTTAGGGATT
32931581 TTTG-TTTAGGG-TT
1 TTTGATTTAGGGATT
*
32931594 TTTGATTTTGGAGATT
1 TTTGATTTAGG-GATT
32931610 TT
1 TT
32931612 GGGTTAGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 6 0.22
14 12 0.44
15 5 0.19
16 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (15 bp):
TTTGATTTAGGGATT
Found at i:32932785 original size:13 final size:13
Alignment explanation
Indices: 32932767--32932793 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32932757 CCAATTTATA
32932767 TAGCAGAAGCAAC
1 TAGCAGAAGCAAC
32932780 TAGCAGAAGCAAC
1 TAGCAGAAGCAAC
32932793 T
1 T
32932794 TTAGGCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (13 bp):
TAGCAGAAGCAAC
Found at i:32935190 original size:15 final size:16
Alignment explanation
Indices: 32935170--32935200 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
32935160 ACAAACATTA
32935170 AAAATAAA-TAAATTT
1 AAAATAAATTAAATTT
32935185 AAAATAAATTAAATTT
1 AAAATAAATTAAATTT
32935201 TTTTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATAAATTAAATTT
Found at i:32936744 original size:23 final size:23
Alignment explanation
Indices: 32936718--32936766 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
32936708 CGATGAATTG
32936718 TTTACGGTT-TCAAATTTGGAGAT
1 TTTA-GGTTGTCAAATTTGGAGAT
** *
32936741 TTTAGGTTGTTGAATTTGGGGAT
1 TTTAGGTTGTCAAATTTGGAGAT
32936764 TTT
1 TTT
32936767 GGATTTTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.49
Consensus pattern (23 bp):
TTTAGGTTGTCAAATTTGGAGAT
Found at i:32936792 original size:30 final size:30
Alignment explanation
Indices: 32936738--32936798 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
32936728 CAAATTTGGA
* * *
32936738 GATTTTAGGTTGTTGAATTTGGGGATTTTG
1 GATTTTAGGTGGTTCAATTAGGGGATTTTG
*
32936768 GATTTTGGGTGGTTCAATTAGGGGATTTTG
1 GATTTTAGGTGGTTCAATTAGGGGATTTTG
32936798 G
1 G
32936799 TTAAGAGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.46
Consensus pattern (30 bp):
GATTTTAGGTGGTTCAATTAGGGGATTTTG
Found at i:32936835 original size:27 final size:29
Alignment explanation
Indices: 32936788--32936859 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
32936778 GGTTCAATTA
* *
32936788 GGGGATTTTGGTTAAGAG-TTTTGA-TTT
1 GGGGATTTTTGTTTAGAGTTTTTGATTTT
*
32936815 GGGGATTTTTGTTTAGGGTTTTTGATTTT
1 GGGGATTTTTGTTTAGAGTTTTTGATTTT
* *
32936844 GGAGATTTTTGGTTAG
1 GGGGATTTTTGTTTAG
32936860 TGTTGCTCTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 15 0.39
28 6 0.16
29 17 0.45
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.51
Consensus pattern (29 bp):
GGGGATTTTTGTTTAGAGTTTTTGATTTT
Found at i:32936837 original size:14 final size:15
Alignment explanation
Indices: 32936806--32936854 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
32936796 TGGTTAAGAG
*
32936806 TTTTGATTTGGGGAT
1 TTTTGATTTAGGGAT
32936821 TTTTG-TTTAGGG-T
1 TTTTGATTTAGGGAT
*
32936834 TTTTGATTTTGGAGAT
1 TTTTGATTTAGG-GAT
32936850 TTTTG
1 TTTTG
32936855 GTTAGTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 6 0.21
14 11 0.38
15 6 0.21
16 6 0.21
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.59
Consensus pattern (15 bp):
TTTTGATTTAGGGAT
Found at i:32937428 original size:11 final size:11
Alignment explanation
Indices: 32937412--32937480 Score: 83
Period size: 11 Copynumber: 6.6 Consensus size: 11
32937402 GATGATGATT
32937412 ATAATTTTAAA
1 ATAATTTTAAA
32937423 ATAATTTT--A
1 ATAATTTTAAA
*
32937432 ATAATTTTAAT
1 ATAATTTTAAA
*
32937443 TTAATTTTAAA
1 ATAATTTTAAA
32937454 ATAATTTT--A
1 ATAATTTTAAA
32937463 ATAATTTTAAA
1 ATAATTTTAAA
*
32937474 ATCATTT
1 ATAATTT
32937481 GCTAACATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
9 18 0.37
11 31 0.63
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (11 bp):
ATAATTTTAAA
Found at i:32937437 original size:20 final size:20
Alignment explanation
Indices: 32937412--32937480 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
32937402 GATGATGATT
32937412 ATAATTTTAAAATAATTTT--A
1 ATAATTTT--AATAATTTTAAA
32937432 ATAATTTTAATTTAATTTTAAA
1 ATAATTTTAA--TAATTTTAAA
32937454 ATAATTTTAATAATTTTAAA
1 ATAATTTTAATAATTTTAAA
*
32937474 ATCATTT
1 ATAATTT
32937481 GCTAACATGG
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 2 0.05
20 31 0.70
22 11 0.25
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAATTTTAATAATTTTAAA
Found at i:32937451 original size:31 final size:31
Alignment explanation
Indices: 32937413--32937472 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
32937403 ATGATGATTA
32937413 TAATTTTAAAATAATTTTAATAATTTTAATT
1 TAATTTTAAAATAATTTTAATAATTTTAATT
32937444 TAATTTTAAAATAATTTTAATAATTTTAA
1 TAATTTTAAAATAATTTTAATAATTTTAA
32937473 AATCATTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
TAATTTTAAAATAATTTTAATAATTTTAATT
Found at i:32938719 original size:182 final size:182
Alignment explanation
Indices: 32938407--32938774 Score: 639
Period size: 182 Copynumber: 2.0 Consensus size: 182
32938397 CACAGACTTC
* *
32938407 AATCTAACATCCTTCTCCAACAACTCTTTGAATAGGGTTAGCTCTCGCGGGTCAAATAAGTCCCA
1 AATCTAACAGCCTTCTCCAACAACTCTTTGAATAGGGTTAGCTCTCGCGGGTCAAATAAGCCCCA
*
32938472 TCTAACTGATAGACCTTCTTGGGACACATTTTATGCAATGGTCACGGGCTTTGAACTACGGCCCA
66 TCTAACTGATAGACCTTCTTGGGACACATTTTATGCAATGATCACGGGCTTTGAACTACGGCCCA
32938537 TGACATTTGTTCATGCATAAACAATGTTGAGAAGCTTATGAACTAATTATTT
131 TGACATTTGTTCATGCATAAACAATGTTGAGAAGCTTATGAACTAATTATTT
*
32938589 AATCTAACAGCCTTCTCCAACAACTCTTTGAATCGGGTTAGCTCTCGTC-GGTCAAATAAGCCCC
1 AATCTAACAGCCTTCTCCAACAACTCTTTGAATAGGGTTAGCTCTCG-CGGGTCAAATAAGCCCC
* * * **
32938653 ATCTAATTGATAGACCTTCTTGGGACACATTTTGTGCAATGATCATGGGCTTTGAACTGTGGCCC
65 ATCTAACTGATAGACCTTCTTGGGACACATTTTATGCAATGATCACGGGCTTTGAACTACGGCCC
32938718 ATGACATTTGTTCATGCATAAACAATGTTGAGAAGCTTATGAACTAATTATTT
130 ATGACATTTGTTCATGCATAAACAATGTTGAGAAGCTTATGAACTAATTATTT
32938771 AATC
1 AATC
32938775 CAAACATGGT
Statistics
Matches: 176, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
182 175 0.99
183 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (182 bp):
AATCTAACAGCCTTCTCCAACAACTCTTTGAATAGGGTTAGCTCTCGCGGGTCAAATAAGCCCCA
TCTAACTGATAGACCTTCTTGGGACACATTTTATGCAATGATCACGGGCTTTGAACTACGGCCCA
TGACATTTGTTCATGCATAAACAATGTTGAGAAGCTTATGAACTAATTATTT
Found at i:32943085 original size:4 final size:4
Alignment explanation
Indices: 32943033--32943069 Score: 56
Period size: 4 Copynumber: 8.8 Consensus size: 4
32943023 TAATTAGGTG
32943033 TTAA TTAA GCTTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA --TTAA TTAA TTAA TTAA TTAA TTAA TTA
32943070 GACTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 27 0.87
6 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (4 bp):
TTAA
Found at i:32950163 original size:17 final size:18
Alignment explanation
Indices: 32950143--32950180 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32950133 ATTTATTTTA
32950143 TTTTAA-TATT-AATAATT
1 TTTTAATTATTGAA-AATT
32950160 TTTTAATTATTGAAAATT
1 TTTTAATTATTGAAAATT
32950178 TTT
1 TTT
32950181 ATATAGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 11 0.58
19 2 0.11
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTAATTATTGAAAATT
Found at i:32950548 original size:9 final size:9
Alignment explanation
Indices: 32950534--32950601 Score: 51
Period size: 9 Copynumber: 8.1 Consensus size: 9
32950524 ACAAATGATT
*
32950534 TTAAAATTG
1 TTAAAATTA
32950543 TTAAAATTA
1 TTAAAATTA
*
32950552 TTAAAATTC
1 TTAAAATTA
32950561 TT----TT-
1 TTAAAATTA
32950565 TTAAAA-TA
1 TTAAAATTA
32950573 -TAAAATTA
1 TTAAAATTA
32950581 TTAAAATTA
1 TTAAAATTA
32950590 TTTTAAAATTA
1 --TTAAAATTA
32950601 T
1 T
32950602 AATCATCATC
Statistics
Matches: 48, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
7 6 0.12
8 2 0.04
9 27 0.56
11 9 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (9 bp):
TTAAAATTA
Found at i:32950564 original size:29 final size:29
Alignment explanation
Indices: 32950532--32950603 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
32950522 CAACAAATGA
* *
32950532 TTTTAAAATTGTTAAAATTATTAAAATTCTT
1 TTTTAAAATT-ATAAAATTATTAAAATT-AT
32950563 TTTTAAAA-TATAAAATTATTAAAATTA-
1 TTTTAAAATTATAAAATTATTAAAATTAT
32950590 TTTTAAAATTATAA
1 TTTTAAAATTATAA
32950604 TCATCATCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 8 0.21
28 5 0.13
29 16 0.42
30 1 0.03
31 8 0.21
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
TTTTAAAATTATAAAATTATTAAAATTAT
Found at i:32951253 original size:23 final size:23
Alignment explanation
Indices: 32951226--32951274 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
32951216 ACCAAAATCC
32951226 AAAATCCCCAAATTCAACAACC-T
1 AAAATCCCCAAATTCAA-AACCAT
* *
32951249 AAAATCTCTAAATTCAAAACCAT
1 AAAATCCCCAAATTCAAAACCAT
32951272 AAA
1 AAA
32951275 CAATTCATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAATCCCCAAATTCAAAACCAT
Found at i:32952320 original size:47 final size:47
Alignment explanation
Indices: 32952262--32952353 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 47
32952252 TGATTAACCA
* * * * *
32952262 CCCATTTAGAAGTAGAATTGATAAGACAAGTGTGTTAAATTTCAAAG
1 CCCAATTAGAAGTAAAATAGATAAGACAAATGTGTCAAATTTCAAAG
*
32952309 CCCAATTAGAAGTAAAATAGATGAGACAAATGTGTCAAATTTCAA
1 CCCAATTAGAAGTAAAATAGATAAGACAAATGTGTCAAATTTCAA
32952354 TGCAATTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.27
Consensus pattern (47 bp):
CCCAATTAGAAGTAAAATAGATAAGACAAATGTGTCAAATTTCAAAG
Found at i:32955591 original size:4 final size:4
Alignment explanation
Indices: 32955539--32955575 Score: 56
Period size: 4 Copynumber: 8.8 Consensus size: 4
32955529 TAATTAGGTG
32955539 TTAA TTAA GCTTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA --TTAA TTAA TTAA TTAA TTAA TTAA TTA
32955576 GACTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 27 0.87
6 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (4 bp):
TTAA
Found at i:32961562 original size:181 final size:181
Alignment explanation
Indices: 32961259--32961613 Score: 622
Period size: 181 Copynumber: 2.0 Consensus size: 181
32961249 ACCTTGTTTG
*
32961259 GATTAAATAATTAGTTCATAACTTCTCAACATTGTTTATGCATGAACAAATGTCATGGGCCGCAG
1 GATTAAATAATTAGTTCATAACTTCTCAACATTGTTTATGCATGAACAAATGTCATGGGCCACAG
32961324 TTCAAAGCCCATGACCATTGCACAAAATGTGTCCCAAGAAGGTCTATCAATTAGAT-GGGCTCAT
66 TTCAAAGCCCATGACCATTGCACAAAATGTGTCCCAAGAAGGTCTATCAATTAGATGGGGCTCAT
*
32961388 TTGACCGACGAGAGCTAACCCGATTCAAAGAGTTGTTGGAGAAGACTACTA
131 TTGACCCACGAGAGCTAACCCGATTCAAAGAGTTGTTGGAGAAGACTACTA
* *
32961439 GATTAAATAATTAGTTCATAAGCTTCTCAACATTGTTTATGCATGAACAAATGTCATGGGCTATA
1 GATTAAATAATTAGTTCATAA-CTTCTCAACATTGTTTATGCATGAACAAATGTCATGGGCCACA
* * *
32961504 GTTCAAAGCCCGTGACCATTGCATAAAATGTGTCCCAAGAAGGTCTATCAGTTAGATGGGGCTCA
65 GTTCAAAGCCCATGACCATTGCACAAAATGTGTCCCAAGAAGGTCTATCAATTAGATGGGGCTCA
*
32961569 TTTGACCCACGAGAGCTAACCCTATTCAAAGAGTTGTTGGAGAAG
130 TTTGACCCACGAGAGCTAACCCGATTCAAAGAGTTGTTGGAGAAG
32961614 GATGTTAGAT
Statistics
Matches: 165, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
180 21 0.13
181 94 0.57
182 50 0.30
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (181 bp):
GATTAAATAATTAGTTCATAACTTCTCAACATTGTTTATGCATGAACAAATGTCATGGGCCACAG
TTCAAAGCCCATGACCATTGCACAAAATGTGTCCCAAGAAGGTCTATCAATTAGATGGGGCTCAT
TTGACCCACGAGAGCTAACCCGATTCAAAGAGTTGTTGGAGAAGACTACTA
Found at i:32962564 original size:9 final size:9
Alignment explanation
Indices: 32962550--32962608 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
32962540 GCAAATGATT
32962550 TTAAAATTA
1 TTAAAATTA
32962559 TTAAAATTA
1 TTAAAATTA
32962568 TT----TT-
1 TTAAAATTA
32962572 TTAAAA-TA
1 TTAAAATTA
32962580 -TAAAATTA
1 TTAAAATTA
32962588 TTAAAATTA
1 TTAAAATTA
32962597 TTTTAAAATTA
1 --TTAAAATTA
32962608 T
1 T
32962609 AATCATCATC
Statistics
Matches: 41, Mismatches: 0, Indels: 18
0.69 0.00 0.31
Matches are distributed among these distances:
4 2 0.05
5 2 0.05
7 6 0.15
8 2 0.05
9 20 0.49
11 9 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TTAAAATTA
Found at i:32962570 original size:20 final size:20
Alignment explanation
Indices: 32962542--32962608 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
32962532 CCATGTCAGC
*
32962542 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
32962562 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
32962582 AAATTA--TTAAAATTATTTTA
1 AAATTATTTTAAAATTA--TTA
32962602 AAATTAT
1 AAATTAT
32962609 AATCATCATC
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
16 6 0.15
17 2 0.05
20 21 0.54
21 2 0.05
22 8 0.21
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:32963232 original size:28 final size:28
Alignment explanation
Indices: 32963161--32963232 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
32963151 TAGAGCAACA
*
32963161 CTAACCCAAAATCTCCAAAATCAAAAACC
1 CTAA-CCAAAATCCCCAAAATCAAAAACC
* * *
32963190 CTAAACAAAAACCCCCAAATC-AAAACTC
1 CTAACCAAAATCCCCAAAATCAAAAAC-C
*
32963218 TTAACCAAAATCCCC
1 CTAACCAAAATCCCC
32963233 TAATTCGACC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
27 5 0.14
28 26 0.74
29 4 0.11
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (28 bp):
CTAACCAAAATCCCCAAAATCAAAAACC
Found at i:32963256 original size:30 final size:30
Alignment explanation
Indices: 32963222--32963282 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
32963212 AAACTCTTAA
* * *
32963222 CCAAAATCCCCTAATTCGACCACCTAAAAT
1 CCAAAATCCCCAAATTCAACAACCTAAAAT
32963252 CCAAAATCCCCAAATTCAACAACCTAAAAT
1 CCAAAATCCCCAAATTCAACAACCTAAAAT
32963282 C
1 C
32963283 TCCAAATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (30 bp):
CCAAAATCCCCAAATTCAACAACCTAAAAT
Found at i:32963768 original size:18 final size:18
Alignment explanation
Indices: 32963739--32963790 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
32963729 AACAAAGGGT
32963739 ATTTTAAATTATTTTTTTA
1 ATTTT-AATTATTTTTTTA
*
32963758 ATTTTAATTA-TGTTTTA
1 ATTTTAATTATTTTTTTA
*
32963775 ACTTTAATT-TTTTTTT
1 ATTTTAATTATTTTTTT
32963791 GCTGACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 19 0.66
18 5 0.17
19 5 0.17
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTTTAATTATTTTTTTA
Found at i:32964336 original size:47 final size:47
Alignment explanation
Indices: 32964278--32964371 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
32964268 TGATTAACCA
* * * * *
32964278 CCCATTTAGAAGTAGAATTGATAAGACAAGTGTGTTAAATTTCAAAG
1 CCCAATTAGAAGTAAAATAGATAAGACAAATGTGTCAAATTTCAAAG
* *
32964325 CCCAATTAGAAGTAAAATAGATGAGACAAATGTGTCAATTTTCAAAG
1 CCCAATTAGAAGTAAAATAGATAAGACAAATGTGTCAAATTTCAAAG
32964372 TAATTATGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.28
Consensus pattern (47 bp):
CCCAATTAGAAGTAAAATAGATAAGACAAATGTGTCAAATTTCAAAG
Found at i:32964990 original size:104 final size:102
Alignment explanation
Indices: 32964810--32965027 Score: 400
Period size: 104 Copynumber: 2.1 Consensus size: 102
32964800 AACTATCTTA
* *
32964810 ATATAAAAAAATTTAATGTATTTTAAATTTGTTTATTTTTTAATGTTTGTTTTAATGTTTTTAAG
1 ATATAATAAAATTTAATGTATTTTAAATTTATTTATTTTTTAATGTTTGTTTTAATGTTTTTAAG
32964875 TGTATTTGATATATTATATATATTTTTAAAATTTGTTGC
66 TGTATTTGATATA-T-TATATATTTTTAAAATTTGTTGC
32964914 ATATAATAAAATTTAATGTATTTTAAATTTATTTATTTTTTAATGTTTGTTTTAATGTTTTTAAG
1 ATATAATAAAATTTAATGTATTTTAAATTTATTTATTTTTTAATGTTTGTTTTAATGTTTTTAAG
32964979 TGTATTTGATATATTATATATTTTTAAAATTTGTTGC
66 TGTATTTGATATATTATATATTTTTAAAATTTGTTGC
32965016 ATATAATAAAAT
1 ATATAATAAAAT
32965028 AATCTAAAAA
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
102 35 0.31
103 1 0.01
104 76 0.68
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (102 bp):
ATATAATAAAATTTAATGTATTTTAAATTTATTTATTTTTTAATGTTTGTTTTAATGTTTTTAAG
TGTATTTGATATATTATATATTTTTAAAATTTGTTGC
Found at i:32967069 original size:59 final size:58
Alignment explanation
Indices: 32966991--32967168 Score: 166
Period size: 59 Copynumber: 3.0 Consensus size: 58
32966981 TTTTTGACTC
*
32966991 TCGAGGGGTAAAAAT-GTAATTTTGGGAAAATTCGAGGTTAAAAATGGGATTTAAG-AAGAT
1 TCGA-GGGT-AAAATGGTAATTTTGGGAAAA-TCGAGGTTAAAAATGGGATTTTAGAAAG-T
* * * * *
32967051 TCGAGGGTAAAGTGGTAATTTT-CGATGAAATCGGGGTTAAAAAAGGGATTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGGGA--AAATCGAGGTTAAAAATGGGATTTTAGAAAGT
* * * * *
32967110 TTGGGGGTAAAATGGTATTTTTGGTG-AAATCGAGATTAAAAATGGAATTTTAGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGG-GAAAATCGAGGTTAAAAATGGGATTTTAGAAAGT
32967168 T
1 T
32967169 TGGGGACTTA
Statistics
Matches: 96, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
58 34 0.35
59 51 0.53
60 10 0.10
61 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.31
Consensus pattern (58 bp):
TCGAGGGTAAAATGGTAATTTTGGGAAAATCGAGGTTAAAAATGGGATTTTAGAAAGT
Found at i:32967160 original size:58 final size:58
Alignment explanation
Indices: 32966995--32967173 Score: 184
Period size: 58 Copynumber: 3.1 Consensus size: 58
32966985 TGACTCTCGA
* * *
32966995 GGGGTAAAAAT-GTAATTTTGG-GAAAATTCGAGGTTAAAAATGGGATTTAAG-AAGATTCG
1 GGGGT-AAAATGGTATTTTTGGTG-AAA-TCGAGGTTAAAAATGGGATTTTAGAAAG-TTTG
* * * * * * *
32967054 AGGGTAAAGTGGTAATTTTCGATGAAATCGGGGTTAAAAAAGGGATTTTGGAAAGTTTG
1 GGGGTAAAATGGT-ATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTAGAAAGTTTG
* *
32967113 GGGGTAAAATGGTATTTTTGGTGAAATCGAGATTAAAAATGGAATTTTAGAAAGTTTG
1 GGGGTAAAATGGTATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTAGAAAGTTTG
32967171 GGG
1 GGG
32967174 ACTTATAAGC
Statistics
Matches: 97, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
58 45 0.46
59 40 0.41
60 11 0.11
61 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.31, T:0.31
Consensus pattern (58 bp):
GGGGTAAAATGGTATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTAGAAAGTTTG
Found at i:32968316 original size:12 final size:12
Alignment explanation
Indices: 32968299--32968380 Score: 60
Period size: 12 Copynumber: 6.6 Consensus size: 12
32968289 TGTTACTGTT
*
32968299 TATTAATATTAA
1 TATTATTATTAA
*
32968311 TATTAATTATAAA
1 TATT-ATTATTAA
*
32968324 TA-T-TTATTAC
1 TATTATTATTAA
32968334 TATTATTTATTATCA
1 TATTA-TTATTA--A
*
32968349 TGATTATTACTAA
1 T-ATTATTATTAA
32968362 TATTATTATTAA
1 TATTATTATTAA
*
32968374 TAATATT
1 TATTATT
32968381 TAAAAGGTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
10 7 0.13
11 1 0.02
12 21 0.38
13 16 0.29
15 6 0.11
16 4 0.07
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:32968371 original size:15 final size:15
Alignment explanation
Indices: 32968351--32968380 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32968341 TATTATCATG
*
32968351 ATTATTACTAATATT
1 ATTATTAATAATATT
32968366 ATTATTAATAATATT
1 ATTATTAATAATATT
32968381 TAAAAGGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATTAATAATATT
Found at i:32969053 original size:15 final size:16
Alignment explanation
Indices: 32969020--32969054 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
32969010 TGGGCCTATA
32969020 TTTTGTAATCGGACTT
1 TTTTGTAATCGGACTT
*
32969036 TTTTGTAATTGGACTT
1 TTTTGTAATCGGACTT
32969052 TTT
1 TTT
32969055 AATTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (16 bp):
TTTTGTAATCGGACTT
Found at i:32971135 original size:28 final size:28
Alignment explanation
Indices: 32971096--32971151 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
32971086 TGATTTTAAA
* **
32971096 ATTATTAAAATTATTTTTTAATTATAAT
1 ATTACTAAAATTATTTTAAAATTATAAT
32971124 ATTACTAAAATTATTTTAAAATTATAAT
1 ATTACTAAAATTATTTTAAAATTATAAT
32971152 CATCATCATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTACTAAAATTATTTTAAAATTATAAT
Found at i:32971778 original size:30 final size:30
Alignment explanation
Indices: 32971686--32971802 Score: 89
Period size: 30 Copynumber: 4.0 Consensus size: 30
32971676 CAGCACTAAC
* * * *
32971686 CCAAAATCTCCAAAATCAAAAACCCTAAAT
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
* * **
32971716 -AAAAATCCCCAAA-TCAA-AACTCTTAA-
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
* * *
32971742 CCAAAATCCCCTAATTCGACCACCCAAAAT
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
* *
32971772 CCAAAATCTCCAAATTCAACAACCTAAAAT
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
32971802 C
1 C
32971803 TCCAAATTCG
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
27 18 0.27
28 7 0.10
29 16 0.24
30 26 0.39
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (30 bp):
CCAAAATCCCCAAATTCAACAACCCAAAAT
Done.