Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 26 of 328
Found at i:7609308 original size:14 final size:15
Alignment explanation
Indices: 7609288--7609337 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
7609278 AAAATATCCA
*
7609288 AATAATAATAATAAT
1 AATAATAATAACAAT
*
7609303 AA-AATAGTAACAAT
1 AATAATAATAACAAT
7609317 -ATAATAATAA-AAT
1 AATAATAATAACAAT
*
7609330 GATAATAA
1 AATAATAA
7609338 AATAACAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 4 0.13
14 24 0.80
15 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:7609944 original size:60 final size:59
Alignment explanation
Indices: 7609874--7609993 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 59
7609864 CAGTTAGCTT
* *
7609874 GTGACAAAAAAAATTAAAATTA-AATAGTCAGACGATTATTTTGTAACTTTTCATAGTTGA
1 GTGACAAAAAAAA-T-AAATTACAATAGTCAGACGATCATTTTGTAACTTTTCATAATTGA
* * * * *
7609934 GTGACTAAAAATATAATTTACTAATAGTTAGACGATCATTTTGTAACTTTTGATAATTGA
1 GTGACAAAAAAAATAAATTAC-AATAGTCAGACGATCATTTTGTAACTTTTCATAATTGA
7609994 ATAAAAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
58 5 0.10
59 1 0.02
60 45 0.88
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (59 bp):
GTGACAAAAAAAATAAATTACAATAGTCAGACGATCATTTTGTAACTTTTCATAATTGA
Found at i:7610004 original size:60 final size:60
Alignment explanation
Indices: 7609896--7610011 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
7609886 ATTAAAATTA
* * * * ** *
7609896 AATAGTCAGACGATTATTTTGTAACTTTTCATAGTTGAGTGACTAAAAATATAATTTACT
1 AATAGTCAGACGATCATTTTGTAACTTTTCATAATTGAATAAAAAAAAACATAATTTACT
* *
7609956 AATAGTTAGACGATCATTTTGTAACTTTTGATAATTGAATAAAAAAAAACATAATT
1 AATAGTCAGACGATCATTTTGTAACTTTTCATAATTGAATAAAAAAAAACATAATT
7610012 GGCTTACATC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (60 bp):
AATAGTCAGACGATCATTTTGTAACTTTTCATAATTGAATAAAAAAAAACATAATTTACT
Found at i:7610126 original size:18 final size:19
Alignment explanation
Indices: 7610093--7610128 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7610083 ATTAAAAGTG
7610093 TTATAAAATAAATTTAATT
1 TTATAAAATAAATTTAATT
*
7610112 TTATATAAT-AATTTAAT
1 TTATAAAATAAATTTAAT
7610129 AAATATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATAAAATAAATTTAATT
Found at i:7613494 original size:24 final size:24
Alignment explanation
Indices: 7613462--7613522 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
7613452 ATTTTTGGTG
7613462 TAATTTAGTATTTT-TTTTGACAAA
1 TAATTTAGTATTTTATTTT-ACAAA
7613486 TAATTTAGTATTTATATTTTACAAA
1 TAATTTAGTATTT-TATTTTACAAA
*
7613511 -AGTTTA-TATTTT
1 TAATTTAGTATTTT
7613523 GGTAACCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 1 0.03
23 5 0.15
24 18 0.53
25 6 0.18
26 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (24 bp):
TAATTTAGTATTTTATTTTACAAA
Found at i:7618626 original size:18 final size:18
Alignment explanation
Indices: 7618603--7618709 Score: 196
Period size: 18 Copynumber: 5.9 Consensus size: 18
7618593 ACCGTTTATA
7618603 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
7618621 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
*
7618639 GTACTATTTACGTATACG
1 GTACTATTCACGTATACG
7618657 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
7618675 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
*
7618693 GTACTGTTCACGTATAC
1 GTACTATTCACGTATAC
7618710 AGTAGTTGGG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 86 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (18 bp):
GTACTATTCACGTATACG
Found at i:7624394 original size:8 final size:8
Alignment explanation
Indices: 7624381--7624408 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
7624371 TTAAAGTGCA
7624381 ATTTTATC
1 ATTTTATC
7624389 ATTTTATC
1 ATTTTATC
7624397 ATTTTATC
1 ATTTTATC
7624405 ATTT
1 ATTT
7624409 ATGAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTTTATC
Found at i:7626534 original size:31 final size:30
Alignment explanation
Indices: 7626495--7626575 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
7626485 TTAAGTAAAT
*
7626495 AAAT-AAAGTACAAAGGACTAAAGTT-ACC
1 AAATAAAAGTACAAAGGACTAAAATTGACC
* *
7626523 AATTTGAAAAGTAC-AAGAACTAAAATTGACC
1 AA-AT-AAAAGTACAAAGGACTAAAATTGACC
*
7626554 AAATAAAAGTACAGA-GACTAAA
1 AAATAAAAGTACAAAGGACTAAA
7626576 TCCACAGCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
28 2 0.05
29 15 0.36
30 13 0.31
31 12 0.29
ACGTcount: A:0.56, C:0.12, G:0.14, T:0.19
Consensus pattern (30 bp):
AAATAAAAGTACAAAGGACTAAAATTGACC
Found at i:7627551 original size:15 final size:15
Alignment explanation
Indices: 7627527--7627556 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7627517 AAAAATTAGA
7627527 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
7627542 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
7627557 ATTTAAGAAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:7627552 original size:96 final size:96
Alignment explanation
Indices: 7627348--7627595 Score: 275
Period size: 96 Copynumber: 2.5 Consensus size: 96
7627338 GTTTTTAAAT
* * ** *
7627348 TTTAGGGTTTTAAGGAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTAC
1 TTTAGGGTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTAC
* *
7627413 TAATTTTAAAAAATTAGATTATGGTTTAGTG
66 TAATTTAAAAAAATTAGATTATGGTTTAGGG
* *
7627444 TTTATGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
1 TTTA-GGGTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
7627508 -TAAATTTAAAAAAATTAGATTAGGATTTTAGGGTTTAGGG
65 CT-AATTTAAAAAAATTAGATT---A---T--GGTTTAGGG
* *
7627548 TTTTAGGGTATTTAAGAAAAAAAATCAAATAAATTAGGGTTTGGGGTT
1 -TTTAGGGT-TTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTT
7627596 TAGGGTAACT
Statistics
Matches: 127, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
95 1 0.01
96 64 0.50
97 10 0.08
99 1 0.01
102 1 0.01
104 11 0.09
105 10 0.08
106 29 0.23
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (96 bp):
TTTAGGGTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTAC
TAATTTAAAAAAATTAGATTATGGTTTAGGG
Found at i:7627856 original size:126 final size:125
Alignment explanation
Indices: 7627639--7628177 Score: 758
Period size: 126 Copynumber: 4.3 Consensus size: 125
7627629 AAAAGCTTCT
* * *
7627639 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTC-ATGCAA
*
7627704 ATAGTGTCAAAAACGTTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
65 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * *
7627765 ATGTGGACGCTCTTTTACTACAGTAGTATTTGAAAAAATAATTTTGAGAAGATGTGTCAGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCA-TGCAA
* *
7627830 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
65 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* **
7627891 ACATGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTACACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTC-ATGCAA
* * * * *
7627956 ATAGTGGT-AAAAACGCTTCAAGTAAGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
65 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
7628017 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTC-TGCATA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCATGC--A
* * *
7628081 AATAGTGTCAAAAACGCTTCAAGCAGGATGTATTTTTAGCAAAAGTACTGAAAGAAGCTCCC
64 AATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
7628143 ACGTGGACGATCTTTCGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
7628178 TAACTTGGGC
Statistics
Matches: 367, Mismatches: 40, Indels: 12
0.88 0.10 0.03
Matches are distributed among these distances:
124 1 0.00
125 2 0.01
126 361 0.98
127 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (125 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCATGCAAA
TAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:7631358 original size:116 final size:116
Alignment explanation
Indices: 7631187--7631800 Score: 1059
Period size: 116 Copynumber: 5.3 Consensus size: 116
7631177 TTATATTTTT
* * *
7631187 TTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAGTAATTTTCATTTTATTAA
1 TTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTAA
* * **
7631252 AAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATTG
66 AAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAA
* *
7631303 TCACATGAAATAATATAAAAATATTCAAAATGTTGTCTTATTTAAAATAATTTTCATTTTATTAA
1 TTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTAA
*
7631368 AAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACTTTTTATCTAA
66 AAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAA
*
7631419 TTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAA
1 TTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTAA
7631484 AAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAA
66 AAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAA
* * *
7631535 TTACATAAAATAATATAAAAATATTCCAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAA
1 TTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTAA
* *
7631600 AAATATAAAGGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTAA
66 AAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAA
7631651 TTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAA-TTTCTATTTTATTA
1 TTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTC-ATTTTATTA
7631715 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAA
65 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAA
*
7631767 TTACATGAAATAATATAAAAAGATTCAAAATGTT
1 TTACATGAAATAATATAAAAATATTCAAAATGTT
7631801 TGTACAAATA
Statistics
Matches: 473, Mismatches: 24, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
115 3 0.01
116 470 0.99
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.41
Consensus pattern (116 bp):
TTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTAA
AAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAA
Found at i:7632211 original size:18 final size:18
Alignment explanation
Indices: 7632185--7632223 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7632175 GACTAGAAAA
*
7632185 AGGAAACATATAAGCGCT
1 AGGAAACATAAAAGCGCT
* *
7632203 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGCGCT
7632221 AGG
1 AGG
7632224 TTACGTACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.13, G:0.28, T:0.15
Consensus pattern (18 bp):
AGGAAACATAAAAGCGCT
Found at i:7635327 original size:46 final size:46
Alignment explanation
Indices: 7635260--7635549 Score: 411
Period size: 46 Copynumber: 6.5 Consensus size: 46
7635250 TGGCAACTTG
7635260 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
7635306 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
7635344 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
7635390 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA-A
* *
7635436 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
7635482 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* *
7635528 TGAGTAAGACCATAGTTGAAAG
1 TGTGTAAGACCATGGTTGAAAG
7635550 GCACTATGGC
Statistics
Matches: 224, Mismatches: 9, Indels: 22
0.88 0.04 0.09
Matches are distributed among these distances:
38 36 0.16
41 2 0.01
43 2 0.01
45 3 0.01
46 179 0.80
47 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:7635346 original size:84 final size:84
Alignment explanation
Indices: 7635211--7635516 Score: 486
Period size: 84 Copynumber: 3.5 Consensus size: 84
7635201 AGTGTGCTCT
*
7635211 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
7635276 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
7635295 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
7635360 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
7635379 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
7635444 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
7635471 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7635517 ATGACAGAAA
Statistics
Matches: 208, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
84 130 0.62
89 1 0.00
91 1 0.00
92 76 0.37
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:7636473 original size:7 final size:7
Alignment explanation
Indices: 7636463--7636493 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
7636453 GTTAAATAAA
7636463 AAATACT
1 AAATACT
7636470 AAATACT
1 AAATACT
7636477 AAATACT
1 AAATACT
7636484 AAATAC-
1 AAATACT
7636490 AAAT
1 AAAT
7636494 CCATTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:7636474 original size:14 final size:14
Alignment explanation
Indices: 7636455--7636488 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7636445 AAATATTAGT
7636455 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
7636469 TAAATACTAAATAC
1 TAAATAAAAAATAC
7636483 TAAATA
1 TAAATA
7636489 CAAATCCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:7637677 original size:20 final size:22
Alignment explanation
Indices: 7637644--7637690 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
7637634 TAACGAGAGT
7637644 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
7637666 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
7637686 TTTGA
1 TTTGA
7637691 AAGAATATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 16 0.67
21 1 0.04
22 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:7637689 original size:11 final size:11
Alignment explanation
Indices: 7637644--7637695 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
7637634 TAACGAGAGT
*
7637644 TTTGAGAGGAA
1 TTTGAGAGAAA
*
7637655 TTTAAGAGAAA
1 TTTGAGAGAAA
7637666 TTTGAGAG--A
1 TTTGAGAGAAA
7637675 TTTGAGAGAAA
1 TTTGAGAGAAA
*
7637686 TTTGAAAGAA
1 TTTGAGAGAA
7637696 TATTGAAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 9 0.26
11 26 0.74
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:7637707 original size:31 final size:31
Alignment explanation
Indices: 7637644--7637707 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
7637634 TAACGAGAGT
* *
7637644 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
7637675 TTTGAGAGAAATTTGAA-AG-AATATTGAAAGA
1 TTTGAGAGAAATTT-AAGAGAAAT-TTGAAAGA
7637706 TT
1 TT
7637708 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 3 0.10
31 24 0.83
32 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:7644566 original size:6 final size:6
Alignment explanation
Indices: 7644557--7644588 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
7644547 CAACTAATTT
*
7644557 TATATT TATATC TATATC TATATC TATATC TA
1 TATATC TATATC TATATC TATATC TATATC TA
7644589 CATATATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (6 bp):
TATATC
Found at i:7645027 original size:16 final size:16
Alignment explanation
Indices: 7645003--7645033 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7644993 CCCTTGGTTC
7645003 ATTGGAATGGAATAGG
1 ATTGGAATGGAATAGG
*
7645019 ATTGTAATGGAATAG
1 ATTGGAATGGAATAG
7645034 TCATTATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (16 bp):
ATTGGAATGGAATAGG
Found at i:7645173 original size:3 final size:3
Alignment explanation
Indices: 7645165--7645199 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7645155 TTCGAATTAT
7645165 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7645200 TTTTAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7645272 original size:22 final size:21
Alignment explanation
Indices: 7645247--7645287 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7645237 AATCTATAAA
* *
7645247 TATAATATTAATATATAAATTG
1 TATAAAATTAAAATA-AAATTG
7645269 TATAAAATTAAAATAAAAT
1 TATAAAATTAAAATAAAAT
7645288 AAAGCAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TATAAAATTAAAATAAAATTG
Found at i:7654764 original size:13 final size:11
Alignment explanation
Indices: 7654731--7654765 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
7654721 CTCTTCCCCC
7654731 CTCCCTTCTCT
1 CTCCCTTCTCT
7654742 CTCCCTTCTCT
1 CTCCCTTCTCT
7654753 CTTCCCTATCTCT
1 C-TCCCT-TCTCT
7654766 TTTTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.55
12 5 0.23
13 5 0.23
ACGTcount: A:0.03, C:0.51, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:7656019 original size:9 final size:9
Alignment explanation
Indices: 7656005--7656030 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7655995 TATAGCTTCT
7656005 TATTATTAC
1 TATTATTAC
7656014 TATTATTAC
1 TATTATTAC
7656023 TATTATTA
1 TATTATTA
7656031 TTAGTGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (9 bp):
TATTATTAC
Found at i:7665362 original size:71 final size:71
Alignment explanation
Indices: 7665259--7665401 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
7665249 CACTTCCACT
*
7665259 CAAGTCTGAGTAACATTGTTTTCCACAAAATAGGCTAGCCTTGCTTGAATTACTACAGTAACAGC
1 CAAGTCTGAGTAACATTGTTTTCCACAAAATAGGCTAGACTTGCTTGAATTACTACAGTAACAGC
7665324 TAAAGG
66 TAAAGG
* *
7665330 CAAGTCTGAGTAACATTGTTTTCGACAAAATAGGCTAGACTTGCTTGAATTGCTACAGTAACAGC
1 CAAGTCTGAGTAACATTGTTTTCCACAAAATAGGCTAGACTTGCTTGAATTACTACAGTAACAGC
7665395 TAAAGG
66 TAAAGG
7665401 C
1 C
7665402 TAAAGCTGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (71 bp):
CAAGTCTGAGTAACATTGTTTTCCACAAAATAGGCTAGACTTGCTTGAATTACTACAGTAACAGC
TAAAGG
Found at i:7667697 original size:20 final size:20
Alignment explanation
Indices: 7667672--7667713 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
7667662 ACGATAGGGC
7667672 ACGTTTCCCTGAATTGCCAA
1 ACGTTTCCCTGAATTGCCAA
7667692 ACGTTTCCCTGAATTGCCAA
1 ACGTTTCCCTGAATTGCCAA
7667712 AC
1 AC
7667714 ATCGAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (20 bp):
ACGTTTCCCTGAATTGCCAA
Found at i:7667978 original size:131 final size:132
Alignment explanation
Indices: 7667702--7668143 Score: 525
Period size: 132 Copynumber: 3.4 Consensus size: 132
7667692 ACGTTTCCCT
* * * ** * * *
7667702 GAATTGCCAAACATCGAATATTTCCTTTGTTTTGAAGAGTTTTTAGAAA-ACATGAGTGAAATTC
1 GAATTGCCAAATATCAAACATCGCCTTCGTTTTAAAGAATTTTTA-AAAGACATGAGTGAAATTC
* * * *
7667766 AAAAGGGACCTTCGATTATTTTGA-ACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATT
65 TAAAGGGATCTTCGATTATTTTGAGA-AAACGAGAAATTGCAACCCAACACGTTAGGGCACGATT
7667830 CCGC
129 CCGC
* * * * *
7667834 GAATTACCCAATATCAAACATCACCTTTG-TTTAAAGAATTTTTAAAAGACATG-GATGAAACTC
1 GAATTGCCAAATATCAAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAG-TGAAATTC
*
7667897 TAAAGGGATCTTCGATTACTTTGAGAAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTC
65 TAAAGGGATCTTCGATTATTTTGAGAAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTC
7667962 CGC
130 CGC
* * * * * * *
7667965 GAATTGTCAAATATCGAACATCGCCCTCGTTTTAAAGGATTTTTAGAAGACATAAGTGAAATTTT
1 GAATTGCCAAATATCAAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAATTCT
* * * * *
7668030 GAAGGGATATTCAATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCC
66 AAAGGGATCTTCGATTATTTTGAGAAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
7668095 GC
131 GC
* *
7668097 AAATTGCCAAATATCAAATC-TCGTCTTCGTTTTAAAGAATTTTTAAA
1 GAATTGCCAAATATCAAA-CATCGCCTTCGTTTTAAAGAATTTTTAAA
7668144 TGAATAGTTA
Statistics
Matches: 264, Mismatches: 40, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
130 4 0.02
131 108 0.41
132 150 0.57
133 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (132 bp):
GAATTGCCAAATATCAAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAATTCT
AAAGGGATCTTCGATTATTTTGAGAAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
GC
Found at i:7668509 original size:16 final size:16
Alignment explanation
Indices: 7668488--7668519 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7668478 AACAAGATAC
7668488 AAAAATAATGGACTAA
1 AAAAATAATGGACTAA
*
7668504 AAAAATGATGGACTAA
1 AAAAATAATGGACTAA
7668520 TAATCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (16 bp):
AAAAATAATGGACTAA
Found at i:7679451 original size:69 final size:68
Alignment explanation
Indices: 7679370--7679572 Score: 244
Period size: 71 Copynumber: 2.9 Consensus size: 68
7679360 ACTTAAATCG
* *
7679370 ACAATTCCAATCAGAATCAATAATTACAAGCACGAAATTGAATAACTCTACAACTAATTAACTTA
1 ACAATTCCAATCAGAATCAATAATTACAAGCACTAAATT-AATAATTCTACAACTAATTAACTTA
7679435 ACTA
65 ACTA
* * * * * * *
7679439 GCAATTACAATCAGAACCAATAATTACAAGCACTAAAATAAATAATTCTACAACCAGTTAACAAC
1 ACAATTCCAATCAGAATCAATAATTACAAGCACT-AAATTAATAATTCTACAACTAATTAAC--T
7679504 TAACTA
63 TAACTA
* * * *
7679510 ACAATTCCAATAAGAATCCATAATTACAAGCACTAAATTATATAATTCTACTATTAATTAACT
1 ACAATTCCAATCAGAATCAATAATTACAAGCACTAAATTA-ATAATTCTACAACTAATTAACT
7679573 ACCCAACTAA
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
69 49 0.45
70 9 0.08
71 52 0.47
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (68 bp):
ACAATTCCAATCAGAATCAATAATTACAAGCACTAAATTAATAATTCTACAACTAATTAACTTAA
CTA
Found at i:7679540 original size:71 final size:69
Alignment explanation
Indices: 7679370--7679560 Score: 240
Period size: 69 Copynumber: 2.7 Consensus size: 69
7679360 ACTTAAATCG
* * * * * *
7679370 ACAATTCCAATCAGAATCAATAATTACAAGCACGAAATTGAATAACTCTACAACTAATTAACTTA
1 ACAATTCCAATCAGAATCCATAATTACAAGCACTAAATTAAATAATTCTACAACCAATTAACCTA
7679435 ACTA
66 ACTA
* * * *
7679439 GCAATTACAATCAGAA-CCAATAATTACAAGCACTAAAATAAATAATTCTACAACCAGTTAACAA
1 ACAATTCCAATCAGAATCC-ATAATTACAAGCACTAAATTAAATAATTCTACAACCAATTAAC--
7679503 CTAACTA
63 CTAACTA
* *
7679510 ACAATTCCAATAAGAATCCATAATTACAAGCACTAAATTATATAATTCTAC
1 ACAATTCCAATCAGAATCCATAATTACAAGCACTAAATTAAATAATTCTAC
7679561 TATTAATTAA
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
68 1 0.01
69 51 0.50
71 49 0.48
72 2 0.02
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.26
Consensus pattern (69 bp):
ACAATTCCAATCAGAATCCATAATTACAAGCACTAAATTAAATAATTCTACAACCAATTAACCTA
ACTA
Found at i:7680506 original size:12 final size:12
Alignment explanation
Indices: 7680489--7680515 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7680479 CTATCAATAC
7680489 TATTAAATTTAT
1 TATTAAATTTAT
7680501 TATTAAATTTAT
1 TATTAAATTTAT
7680513 TAT
1 TAT
7680516 CTTCAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTAAATTTAT
Found at i:7683545 original size:42 final size:42
Alignment explanation
Indices: 7683462--7683605 Score: 182
Period size: 42 Copynumber: 3.4 Consensus size: 42
7683452 TCTCATGAGC
* *
7683462 TTCAGTT-AACTCTTATGAGTTTCAGTTTAACCCTAATTGGGT
1 TTCAGTTCAACTCTTATGAGCTTCAGTTTAACCCTTA-TGGGT
* *
7683504 TTCAGTTCAGCTCTTTTGAGCTTCAGTTTAACCCTTATGGGT
1 TTCAGTTCAACTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * * *
7683546 TTCCGTTCAACTCCTATGAGCTTCCGTTCAACCCTTATGGGT
1 TTCAGTTCAACTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* *
7683588 TTCAGTTTAACACTTATG
1 TTCAGTTCAACTCTTATG
7683606 TGTTTTAGTG
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 62 0.71
43 25 0.29
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (42 bp):
TTCAGTTCAACTCTTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:7683575 original size:63 final size:64
Alignment explanation
Indices: 7683456--7683610 Score: 154
Period size: 63 Copynumber: 2.5 Consensus size: 64
7683446 TTTAGCTCTC
* * * * * *
7683456 ATGAGCTTCAG-TTAACTCTTATGAGTTTCAGTTTAACCCTAATTGGGTTTCAGTTCAGCTCTT
1 ATGAGCTTCAGTTTAACACTTATGAGTTTCAGTTCAACCCTAATTGAGCTTCAGTTCAACCCTT
* * * * *
7683519 TTGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAACTCCT-A-TGAGCTTCCGTTCAACCCTT
1 ATGAGCTTCAGTTTAACACTTATGAGTTTCAGTTCAAC-CCTAATTGAGCTTCAGTTCAACCCTT
* * *
7683582 ATGGGTTTCAGTTTAACACTTATGTGTTT
1 ATGAGCTTCAGTTTAACACTTATGAGTTT
7683611 TAGTGTAGCC
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
63 49 0.65
64 23 0.31
65 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.41
Consensus pattern (64 bp):
ATGAGCTTCAGTTTAACACTTATGAGTTTCAGTTCAACCCTAATTGAGCTTCAGTTCAACCCTT
Found at i:7683610 original size:21 final size:21
Alignment explanation
Indices: 7683440--7683610 Score: 121
Period size: 21 Copynumber: 8.1 Consensus size: 21
7683430 CAGTGTTTGC
* * *
7683440 TTTCAGTTTAGCTCTCATGAG
1 TTTCAGTTTAACCCTTATGAG
* *
7683461 CTTCAG-TTAACTCTTATGAG
1 TTTCAGTTTAACCCTTATGAG
* *
7683481 TTTCAGTTTAACCCTAATTGGG
1 TTTCAGTTTAACCCTTA-TGAG
* * * *
7683503 TTTCAGTTCAGCTCTTTTGAG
1 TTTCAGTTTAACCCTTATGAG
* *
7683524 CTTCAGTTTAACCCTTATGGG
1 TTTCAGTTTAACCCTTATGAG
* *
7683545 TTTCCGTTCAACTCC-TATGAG
1 TTTCAGTTTAAC-CCTTATGAG
* * * *
7683566 CTTCCGTTCAACCCTTATGGG
1 TTTCAGTTTAACCCTTATGAG
* *
7683587 TTTCAGTTTAACACTTATGTG
1 TTTCAGTTTAACCCTTATGAG
7683608 TTT
1 TTT
7683611 TAGTGTAGCC
Statistics
Matches: 116, Mismatches: 30, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
20 19 0.16
21 80 0.69
22 17 0.15
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (21 bp):
TTTCAGTTTAACCCTTATGAG
Found at i:7685105 original size:19 final size:19
Alignment explanation
Indices: 7685081--7685118 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7685071 CAAACACACT
7685081 TCACACACTTATGAAACTA
1 TCACACACTTATGAAACTA
7685100 TCACACACTTATGAAACTA
1 TCACACACTTATGAAACTA
7685119 ACTCATGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
TCACACACTTATGAAACTA
Found at i:7686070 original size:34 final size:34
Alignment explanation
Indices: 7686027--7686135 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 34
7686017 TTTTTAAAAA
* *
7686027 AAATTAATTAAATTAGGTTTTAAGGGTTTTAAGT
1 AAATTAATTAAATTAGGATTTAAGGTTTTTAAGT
** *
7686061 AAATTAATTAAATTAGGATTTAAAATTTTTAAGA
1 AAATTAATTAAATTAGGATTTAAGGTTTTTAAGT
* * *
7686095 AAATTAAATAAATTAGGGTTT-AGGTTTTTAAAT
1 AAATTAATTAAATTAGGATTTAAGGTTTTTAAGT
7686128 AAA-TAATT
1 AAATTAATT
7686136 TTGTGTTTAG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
32 4 0.06
33 11 0.17
34 48 0.76
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (34 bp):
AAATTAATTAAATTAGGATTTAAGGTTTTTAAGT
Found at i:7686445 original size:125 final size:126
Alignment explanation
Indices: 7686219--7686737 Score: 701
Period size: 125 Copynumber: 4.1 Consensus size: 126
7686209 GTTTTGTTTT
* * * *
7686219 TTTTTCTACAGTAGTTTCT-AAAAAATTAATTTTGAGAAGATGATTCT-AAAAAGATAATGTTAA
1 TTTTTCTACAGTAGTTCCTGAAAAAA-TAATTTTGAGAAGATGGTTCTGAAAAA-ATAGTGTCAA
* * *
7686282 AAACGCTTCAAGCAGGATGCACTGTCAGTATAAGTACTGAAAAAAGCTCCTACGTGGATGCTC
64 AAACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
7686345 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
*
7686409 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
* ** * *
7686470 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGGCGGTTTTGAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
* * * * *
7686535 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCT-CTCACGTGAACACTT
66 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCT-ACGTGGACGCTC
* * ** * *
7686596 TTTTTTTATAGTAGTTATTGAAAAAATAATTTTGAGAAGATAGTTTTG-AAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
* *
7686660 TCGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAATCTTCC-ACGTAGG-CGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGC-TCCTACGT-GGACGCTC
*
7686721 TTTTTCTATAGTAGTTC
1 TTTTTCTACAGTAGTTC
7686738 GTGCTTGGCC
Statistics
Matches: 352, Mismatches: 35, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
125 184 0.52
126 167 0.47
127 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
Found at i:7686667 original size:251 final size:252
Alignment explanation
Indices: 7686219--7686737 Score: 728
Period size: 251 Copynumber: 2.1 Consensus size: 252
7686209 GTTTTGTTTT
* *
7686219 TTTTTCTACAGTAGTT-TCTAAAAAATTAATTTTGAGAAGATGATTCTAAAAAGATAATGTTAAA
1 TTTTTCTACAGTAGTTCTCTAAAAAATTAATTTTGAGAAGACGATTCTAAAAAGATAATGTAAAA
* * * **
7686283 AACGCTTCAAGCAGGATGCACTGTCAGTATAAGTACTGAAAAAAGCTCCTACGTGGATGCTCTTT
66 AACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGAACACTCTTT
* *
7686348 TTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACGC
131 TTCTACAGTAGTTACTAAAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAGTGTCAAAAACGC
7686413 TTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGT-GGACGCTC
196 TTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTAGG-CGCTC
* * * *
7686470 TTTTTCTACAGTAGTTCT-TGAAAAAA-TAATTTTGAGAAGGCGGTTTTGAAAAA-ATAGTGTAA
1 TTTTTCTACAGTAGTTCTCT-AAAAAATTAATTTTGAGAAGACGATTCT-AAAAAGATAATGTAA
* * *
7686532 AAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCT-CTCACGTGAACACTT
64 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCT-ACGTGAACACTC
* * * *
7686596 TTTTTTTATAGTAGTTATTGAAAAAATAATTTTGAGAAGATAGTTTTG-AAAAATAGTGTCAAAA
128 TTTTTCTACAGTAGTTACT-AAAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAGTGTCAAAA
* * *
7686660 TCGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAATCTTCCACGTAGGCGCTC
192 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTAGGCGCTC
*
7686721 TTTTTCTATAGTAGTTC
1 TTTTTCTACAGTAGTTC
7686738 GTGCTTGGCC
Statistics
Matches: 238, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
250 2 0.01
251 196 0.82
252 40 0.17
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (252 bp):
TTTTTCTACAGTAGTTCTCTAAAAAATTAATTTTGAGAAGACGATTCTAAAAAGATAATGTAAAA
AACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGAACACTCTTT
TTCTACAGTAGTTACTAAAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAGTGTCAAAAACGC
TTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTAGGCGCTC
Found at i:7688202 original size:18 final size:18
Alignment explanation
Indices: 7688166--7688202 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7688156 GGAAAAGGAA
* *
7688166 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAAGAT
7688184 ACATATAAGGGCTAAGAT
1 ACATATAAGGGCTAAGAT
7688202 A
1 A
7688203 TGAACCTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAAGAT
Found at i:7689986 original size:379 final size:379
Alignment explanation
Indices: 7689280--7690038 Score: 1257
Period size: 379 Copynumber: 2.0 Consensus size: 379
7689270 CTTACAAGGT
7689280 TATACGAAACCTTAAAACACGCTTAATAGTGGTTCGGGACTAAACCGATCACACATAAAAGCTTT
1 TATACGAAACCTTAAAACACGCTTAATAGTGGTTCGGGACTAAACCGATCACACATAAAAGCTTT
* *
7689345 CAGACACTTAGAAAAATTATGCAATCATAGGTCACACGCCCGCGTGAACAGGCCGTGTGACTTAT
66 CAGACACTTAGAAAAATTATGCAATCACAGGTCACACGCCCGCGTGAACAGGCCGTGTGACTCAT
* * ** *
7689410 ACGGATACCAAACACGCTTGTGTCATAGGTCGTGTGAAAACAAGGCATACATACTGACTTGTACC
131 ACAGATACCAAAAACGCCCGTATCATAGGTCGTGTGAAAACAAGGCATACATACTGACTTGTACC
7689475 ACACAGCCGAAGACATGCCCATGTGCCTTGACCGTGGTCGAAACTGACTTGGGTCACACGGCTAA
196 ACACAGCCGAAGACATGCCCATGTGCCTTGACCGTGGTCGAAACTGACTTGGGTCACACGGCTAA
* * * *
7689540 CCACACGCCCGTGTGTCTACCCCGCGTACCCTTTGAAATGGTCACACACGCCTATGTGCCGAGGC
261 CCACACGCCCGTGTGTCTACCCCACGTACCCTTTGAAATGGCCACACACGCCCATGTGCCAAGGC
*
7689605 TGTGTACCTCACACGGCCACCAGACACGCCCATGTGTCTAGGCCATGCTCAAGA
326 TGTGTACCTCACACAGCCACCAGACACGCCCATGTGTCTAGGCCATGCTCAAGA
* * *
7689659 TATAGGAAACCTTAAAACATGCTTAATAGTGGTTCGGGACTAAACCGATCACATATAAAAGCTTT
1 TATACGAAACCTTAAAACACGCTTAATAGTGGTTCGGGACTAAACCGATCACACATAAAAGCTTT
* * * *
7689724 CGGACACTTAGAAAAATTATGCAATCACAGGTCACATGCCCGCTTGAACAGGCTGTGTGACTCAT
66 CAGACACTTAGAAAAATTATGCAATCACAGGTCACACGCCCGCGTGAACAGGCCGTGTGACTCAT
*
7689789 ACAGTTACCAAAAACGCCCGTATCATAGGTCGTGTGAAAACAAGGCATACATACTGACTTGTACC
131 ACAGATACCAAAAACGCCCGTATCATAGGTCGTGTGAAAACAAGGCATACATACTGACTTGTACC
* * *
7689854 ACACAGCCGGAGACTTGCCCGTGTGCCTTGACCGTGGTCGAAACTGACTTGGGTCACACGGCTAA
196 ACACAGCCGAAGACATGCCCATGTGCCTTGACCGTGGTCGAAACTGACTTGGGTCACACGGCTAA
* * * *
7689919 TCGCACGCCCTTGTGTCTAGCCCACGTACCCTTTGAAATGGCCACACACGCCCATGTGCCAAGGC
261 CCACACGCCCGTGTGTCTACCCCACGTACCCTTTGAAATGGCCACACACGCCCATGTGCCAAGGC
* *
7689984 TGTGTACCTCGCACAGCCACCAGACACGCCCATGTGTCTAGGCCGTGCTCAAGA
326 TGTGTACCTCACACAGCCACCAGACACGCCCATGTGTCTAGGCCATGCTCAAGA
7690038 T
1 T
7690039 TGACTTTAAA
Statistics
Matches: 351, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
379 351 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (379 bp):
TATACGAAACCTTAAAACACGCTTAATAGTGGTTCGGGACTAAACCGATCACACATAAAAGCTTT
CAGACACTTAGAAAAATTATGCAATCACAGGTCACACGCCCGCGTGAACAGGCCGTGTGACTCAT
ACAGATACCAAAAACGCCCGTATCATAGGTCGTGTGAAAACAAGGCATACATACTGACTTGTACC
ACACAGCCGAAGACATGCCCATGTGCCTTGACCGTGGTCGAAACTGACTTGGGTCACACGGCTAA
CCACACGCCCGTGTGTCTACCCCACGTACCCTTTGAAATGGCCACACACGCCCATGTGCCAAGGC
TGTGTACCTCACACAGCCACCAGACACGCCCATGTGTCTAGGCCATGCTCAAGA
Found at i:7690983 original size:47 final size:46
Alignment explanation
Indices: 7690884--7691022 Score: 138
Period size: 47 Copynumber: 3.0 Consensus size: 46
7690874 CACAATCAAT
* * * *
7690884 AAGTACCTATACCATGGCCCGTAGCCAAATCAATGTAACTTATCCCG
1 AAGTACCTATACCATGG-CCATAGCCAAATCAAGGTAACTTATCACA
* * *
7690931 GAGTACCTATATCATGGCTCATAGCCAAATCAAGGTAA-TTCCTCACA
1 AAGTACCTATACCATGGC-CATAGCCAAATCAAGGTAACTT-ATCACA
* * *
7690978 AAGTACCTATACCATGACCTATAGCCAAATTAAGGT-ATTTATCAC
1 AAGTACCTATACCATGGCC-ATAGCCAAATCAAGGTAACTTATCAC
7691023 TCCCAAAGTG
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
46 9 0.12
47 67 0.88
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (46 bp):
AAGTACCTATACCATGGCCATAGCCAAATCAAGGTAACTTATCACA
Found at i:7698426 original size:13 final size:13
Alignment explanation
Indices: 7698404--7698436 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
7698394 TTGCTTTAGT
7698404 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
7698416 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
7698429 TTAGTTTA
1 TTAGTTTA
7698437 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:7703581 original size:6 final size:6
Alignment explanation
Indices: 7703570--7703596 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7703560 TCCTCTTATC
7703570 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
7703597 CAATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:7718383 original size:31 final size:31
Alignment explanation
Indices: 7718345--7718406 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
7718335 AAAGTTAGCC
7718345 TATGTTTTCTCCTCCATTGCCGTAACTAGAG
1 TATGTTTTCTCCTCCATTGCCGTAACTAGAG
*
7718376 TATGTTTTCTCCTCCATTGTCGTAACTAGAG
1 TATGTTTTCTCCTCCATTGCCGTAACTAGAG
7718407 AAAGAAGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.40
Consensus pattern (31 bp):
TATGTTTTCTCCTCCATTGCCGTAACTAGAG
Found at i:7719867 original size:39 final size:39
Alignment explanation
Indices: 7719732--7719851 Score: 222
Period size: 39 Copynumber: 3.1 Consensus size: 39
7719722 TGAATATATA
7719732 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
*
7719771 TATATGCGAGAATTATATCCGGACTTTATGTCTGCAGGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
*
7719810 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
7719849 TAT
1 TAT
7719852 GTGCTGGACA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
Found at i:7728097 original size:39 final size:39
Alignment explanation
Indices: 7728001--7728081 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
7727991 TGAATATATA
*
7728001 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
7728040 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
7728079 TAT
1 TAT
7728082 GTGCTGGGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
Found at i:7728459 original size:2 final size:2
Alignment explanation
Indices: 7728454--7728487 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7728444 TGTTAGTGTG
7728454 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7728488 CGTAATTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7736051 original size:65 final size:65
Alignment explanation
Indices: 7735947--7736076 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
7735937 AAATATGTTA
7735947 GTTTTCAAGTATGAATTTAGCCAAAAGAATTATATTTGGGCTTGGGATAATATTCCGAGGATTTG
1 GTTTTCAAGTATGAATTTAGCCAAAAGAATTATATTTGGGCTTGGGATAATATTCCGAGGATTTG
*
7736012 GTTTTCAAGTATGAATTTAGCCAAAAGTATTATATTTGGGCTTGGGATAATATTCCGAGGATTTG
1 GTTTTCAAGTATGAATTTAGCCAAAAGAATTATATTTGGGCTTGGGATAATATTCCGAGGATTTG
7736077 AACTTGTTCC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (65 bp):
GTTTTCAAGTATGAATTTAGCCAAAAGAATTATATTTGGGCTTGGGATAATATTCCGAGGATTTG
Found at i:7737957 original size:11 final size:12
Alignment explanation
Indices: 7737932--7737960 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7737922 TTCATCCATA
7737932 TTTTTAATTATT
1 TTTTTAATTATT
7737944 TTTTTAATTATT
1 TTTTTAATTATT
7737956 TTTTT
1 TTTTT
7737961 CAAGTACGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTAATTATT
Found at i:7738745 original size:25 final size:25
Alignment explanation
Indices: 7738711--7738762 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
7738701 ACTATTATTT
7738711 ACATACAAAATACTCTCCCAGTCTA
1 ACATACAAAATACTCTCCCAGTCTA
*
7738736 ACATACAAAATACTCTCCTAGTCTA
1 ACATACAAAATACTCTCCCAGTCTA
7738761 AC
1 AC
7738763 TCCGAGAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.31, G:0.04, T:0.25
Consensus pattern (25 bp):
ACATACAAAATACTCTCCCAGTCTA
Found at i:7740895 original size:28 final size:28
Alignment explanation
Indices: 7740834--7740931 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
7740824 TCACAAATTG
** * *
7740834 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
7740863 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
7740891 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
7740919 GCACTAAGTGTGC
1 GCACTAAGTGTGC
7740932 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:7748565 original size:28 final size:28
Alignment explanation
Indices: 7748504--7748601 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
7748494 TCACAAATTG
** * *
7748504 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
7748533 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
7748561 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
7748589 GCACTAAGTGTGC
1 GCACTAAGTGTGC
7748602 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:7750310 original size:16 final size:18
Alignment explanation
Indices: 7750282--7750315 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7750272 TTAAAATTGG
7750282 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
7750299 ATTGAG-AAATTAATTTA
1 ATTGAGAAAATTAATTTA
7750316 GTTAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:7754265 original size:27 final size:26
Alignment explanation
Indices: 7754211--7754262 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
7754201 TTTGTGATAT
7754211 TTTCACCTAAAAAATTTTAAAATAAA
1 TTTCACCTAAAAAATTTTAAAATAAA
7754237 TTTCACCTAAAAAATTTTAAAATAAA
1 TTTCACCTAAAAAATTTTAAAATAAA
7754263 ATTATCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (26 bp):
TTTCACCTAAAAAATTTTAAAATAAA
Found at i:7757493 original size:35 final size:35
Alignment explanation
Indices: 7757466--7757631 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
7757456 CATGGCAAAG
*
7757466 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
7757501 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
7757536 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
7757576 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
7757611 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
7757632 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:7757585 original size:75 final size:75
Alignment explanation
Indices: 7757466--7757636 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
7757456 CATGGCAAAG
** *
7757466 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
7757525 CCATACTGAGC
65 CCATACCGAGC
7757536 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
7757601 CATACCGAGT
66 CATACCGAGC
**
7757611 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
7757637 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:7764331 original size:14 final size:14
Alignment explanation
Indices: 7764312--7764338 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7764302 AAGGGATATG
7764312 AATTTTATGATGAT
1 AATTTTATGATGAT
7764326 AATTTTATGATGA
1 AATTTTATGATGA
7764339 ATTATTATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (14 bp):
AATTTTATGATGAT
Found at i:7764998 original size:35 final size:35
Alignment explanation
Indices: 7764971--7765136 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
7764961 CATGGCAAAG
*
7764971 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
7765006 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
7765041 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
7765081 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
7765116 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
7765137 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:7765090 original size:75 final size:75
Alignment explanation
Indices: 7764971--7765141 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
7764961 CATGGCAAAG
** *
7764971 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
7765030 CCATACTGAGC
65 CCATACCGAGC
7765041 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
7765106 CATACCGAGT
66 CATACCGAGC
**
7765116 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
7765142 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:7773173 original size:42 final size:41
Alignment explanation
Indices: 7773126--7773204 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
7773116 CTACGTACCT
*
7773126 GAAAAAATAAAAAATAAAATAGAATTAAACGTTTTGATCTTG
1 GAAAAAATAAAAAA-AAAATAGAATTAAAAGTTTTGATCTTG
* * *
7773168 GAAAAAATAAAATAAAAATTGAATTAAAATTTTTGAT
1 GAAAAAATAAAAAAAAAATAGAATTAAAAGTTTTGAT
7773205 TAAAATTCCG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 20 0.61
42 13 0.39
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (41 bp):
GAAAAAATAAAAAAAAAATAGAATTAAAAGTTTTGATCTTG
Found at i:7774724 original size:96 final size:97
Alignment explanation
Indices: 7774600--7774777 Score: 272
Period size: 96 Copynumber: 1.8 Consensus size: 97
7774590 TTTTTTCTTT
*
7774600 TTTTTGCTTAAGAATATACTGAACCTTTTGACGCGAAGAGA-ATTGACAGCCAAGCACCCCACCC
1 TTTTTGCTTAAGAACATACTGAACCTTTTGACGCGAAGAGAGA-TGACAGCCAAGCACCCCACCC
*
7774664 CGGTTACTTAGCCCAACATTCTCCTAATTTTTA
65 CGGTTACTCAGCCCAACATTCTCCTAATTTTTA
* *
7774697 TTTTT-CTTAAGAACATA-TCGAACCTTTTGACGTGAAGAGAGATGACAGCCAAGCACCTCACCC
1 TTTTTGCTTAAGAACATACT-GAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCC
*
7774760 TGGTTACTCAGCCCAACA
65 CGGTTACTCAGCCCAACA
7774778 CATTCTTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 1 0.01
96 67 0.91
97 6 0.08
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (97 bp):
TTTTTGCTTAAGAACATACTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCC
GGTTACTCAGCCCAACATTCTCCTAATTTTTA
Found at i:7775989 original size:8 final size:7
Alignment explanation
Indices: 7775972--7776108 Score: 106
Period size: 8 Copynumber: 18.6 Consensus size: 7
7775962 TATCAATATC
7775972 TAAA-AA
1 TAAATAA
7775978 TAAAGTAA
1 TAAA-TAA
7775986 TAAATAA
1 TAAATAA
7775993 TAAAATAAAA
1 T-AAAT--AA
7776003 TAAAATAA
1 T-AAATAA
*
7776011 AAATATAA
1 TAA-ATAA
7776019 TAATATAA
1 TAA-ATAA
7776027 TAATATAA
1 TAA-ATAA
7776035 TAATATAA
1 TAA-ATAA
7776043 TAAATAA
1 TAAATAA
7776050 TAAATAA
1 TAAATAA
7776057 T--ATAA
1 TAAATAA
7776062 TATAAT-A
1 TA-AATAA
7776069 TAATATAA
1 TAA-ATAA
7776077 TAAATAA
1 TAAATAA
7776084 TAAAATAA
1 T-AAATAA
7776092 -AAATAA
1 TAAATAA
7776098 -AGAATAA
1 TA-AATAA
7776105 TAAA
1 TAAA
7776109 AATTGGGTTG
Statistics
Matches: 115, Mismatches: 2, Indels: 27
0.80 0.01 0.19
Matches are distributed among these distances:
5 5 0.04
6 12 0.10
7 35 0.30
8 55 0.48
10 8 0.07
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (7 bp):
TAAATAA
Found at i:7776001 original size:5 final size:5
Alignment explanation
Indices: 7775991--7776098 Score: 60
Period size: 5 Copynumber: 21.2 Consensus size: 5
7775981 AGTAATAAAT
* * * *
7775991 AATAA AATAA AATAA AATAAA AATAT AATAA TATAA TAATAT AATAA TATAA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA -AATAA AATAA AATAA
* * * * * *
7776043 TAA-AT AAT-A AATAA TATAA TATAA TATAA TATAA TAA-AT AATAA AATAAA
1 -AATAA AATAA AATAA AATAA AATAA AATAA AATAA -AATAA AATAA AAT-AA
7776093 AATAA A
1 AATAA A
7776099 GAATAATAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
4 7 0.09
5 59 0.73
6 15 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (5 bp):
AATAA
Found at i:7776023 original size:3 final size:3
Alignment explanation
Indices: 7775983--7776107 Score: 94
Period size: 3 Copynumber: 44.0 Consensus size: 3
7775973 AAAAATAAAG
*
7775983 TAA TAAA TAA TAA -AA TAA -AA TAA -AA TAA AAA T-A TAA TAA T-A
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7776024 TAA TAA T-A TAA TAA T-A TAA TAAA TAA TAAA TAA T-A TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA T-AA TAA TAA TAA TAA TAA
* *
7776067 T-A TAA T-A TAA TAAA TAA TAA -AA TAA AAA TAAA GAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
7776108 AAATTGGGTT
Statistics
Matches: 99, Mismatches: 6, Indels: 34
0.71 0.04 0.24
Matches are distributed among these distances:
2 24 0.24
3 61 0.62
4 14 0.14
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:7779463 original size:33 final size:33
Alignment explanation
Indices: 7779414--7779487 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
7779404 TTTCCTTTTG
* *
7779414 GAAATCAATAGGTTGCCGTAGAATTTGCTGTTA
1 GAAATCAACAGGTTGCCGTAGAATCTGCTGTTA
* * * *
7779447 GAAATCAACAGTTTGCCGTTGTATCTGCTGTTG
1 GAAATCAACAGGTTGCCGTAGAATCTGCTGTTA
7779480 GAAATCAA
1 GAAATCAA
7779488 GCATATTGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (33 bp):
GAAATCAACAGGTTGCCGTAGAATCTGCTGTTA
Found at i:7781053 original size:41 final size:41
Alignment explanation
Indices: 7781008--7781085 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
7780998 CTGCGTACCT
7781008 GAAAAAATAAAA-AAATAAGAT-AATTAAAAGTTTTGATCTTG
1 GAAAAAATAAAATAAA-AA-ATGAATTAAAAGTTTTGATCTTG
*
7781049 GAAAAAATAAAATAAAAATTGAATTAAAAGTTTTGAT
1 GAAAAAATAAAATAAAAAATGAATTAAAAGTTTTGAT
7781086 TGAAATTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
40 1 0.03
41 30 0.88
42 3 0.09
ACGTcount: A:0.58, C:0.01, G:0.12, T:0.29
Consensus pattern (41 bp):
GAAAAAATAAAATAAAAAATGAATTAAAAGTTTTGATCTTG
Found at i:7781835 original size:10 final size:9
Alignment explanation
Indices: 7781821--7781859 Score: 51
Period size: 10 Copynumber: 4.0 Consensus size: 9
7781811 TAAATTCTAA
7781821 AAAATAAAT
1 AAAATAAAT
7781830 ACAAATAAAT
1 A-AAATAAAT
7781840 AAAGATAAAT
1 AAA-ATAAAT
7781850 GAAAATAAAT
1 -AAAATAAAT
7781860 CCTAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (9 bp):
AAAATAAAT
Found at i:7785226 original size:46 final size:46
Alignment explanation
Indices: 7785159--7785375 Score: 294
Period size: 46 Copynumber: 4.7 Consensus size: 46
7785149 TGGCAACCTG
*
7785159 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
7785205 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAA-A
*
7785251 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** * *
7785297 AGAATAAGACTATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
7785343 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
7785376 TCACGTCAAA
Statistics
Matches: 155, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
45 3 0.02
46 150 0.97
47 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:7785353 original size:138 final size:130
Alignment explanation
Indices: 7785110--7785375 Score: 347
Period size: 138 Copynumber: 2.0 Consensus size: 130
7785100 AGTGTGCTCT
*
7785110 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
7785175 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
7785240 CTGATAT-AAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAA
1 CTGATATGAA-ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAA
*
7785304 GACTATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACA
57 GACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACA
*
7785368 CTATGGCA
121 CCATGGCA
7785376 TCACGTCAAA
Statistics
Matches: 117, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
129 2 0.02
130 45 0.38
133 2 0.02
136 1 0.01
137 1 0.01
138 66 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:7788515 original size:81 final size:81
Alignment explanation
Indices: 7788358--7788521 Score: 224
Period size: 81 Copynumber: 2.0 Consensus size: 81
7788348 TCCCTCTTTT
* * * *
7788358 GTATCCAAGCTAACTTATTTGAGTAATAGAGATACTTTCACATTCTCTCAACTTTGGCATTATTC
1 GTATCCAAGCTAACTTATTTGAGTAATAAAGACACTTCCACATTCTCTCAACTTTGACATTATTC
* *
7788423 TTTTGTTCTAATCTAA
66 TCTTGTGCTAATCTAA
* *
7788439 GTATCCAAGCTAGCTTATTTGAGTAATAAAGACACTTCCACATTCTC-CTAACTCTT-ACATTCT
1 GTATCCAAGCTAACTTATTTGAGTAATAAAGACACTTCCACATTCTCTC-AACT-TTGACATTAT
7788502 TCTCTTGTGCTAATCTAA
64 TCTCTTGTGCTAATCTAA
7788520 GT
1 GT
7788522 TCCCTTTTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.01
81 70 0.96
82 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (81 bp):
GTATCCAAGCTAACTTATTTGAGTAATAAAGACACTTCCACATTCTCTCAACTTTGACATTATTC
TCTTGTGCTAATCTAA
Found at i:7791291 original size:2 final size:2
Alignment explanation
Indices: 7791284--7791313 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7791274 TTATTCTTTC
7791284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7791314 CCATTAAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7792212 original size:16 final size:16
Alignment explanation
Indices: 7792191--7792235 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
7792181 CAAAAACACT
7792191 AGAAAAAATGAAGAAA
1 AGAAAAAATGAAGAAA
* * *
7792207 AGAAAAGAGGAAGAGA
1 AGAAAAAATGAAGAAA
7792223 AGAAAAAAT-AAGA
1 AGAAAAAATGAAGA
7792236 GGAAACTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.04
Consensus pattern (16 bp):
AGAAAAAATGAAGAAA
Found at i:7792224 original size:21 final size:21
Alignment explanation
Indices: 7792200--7792239 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7792190 TAGAAAAAAT
7792200 GAAGAAAAGAA-AAGAGGAAGA
1 GAAGAAAA-AATAAGAGGAAGA
7792221 GAAGAAAAAATAAGAGGAA
1 GAAGAAAAAATAAGAGGAA
7792240 ACTAAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (21 bp):
GAAGAAAAAATAAGAGGAAGA
Found at i:7793829 original size:14 final size:14
Alignment explanation
Indices: 7793810--7793854 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
7793800 TTAATTTTTT
7793810 TAATATTTATATTA
1 TAATATTTATATTA
7793824 TAATATTATATATT-
1 TAATATT-TATATTA
7793838 T-A-ATTT-TATTA
1 TAATATTTATATTA
7793849 TAATAT
1 TAATAT
7793855 ATAAACATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.15
11 2 0.07
12 4 0.15
13 3 0.11
14 8 0.30
15 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATATTTATATTA
Found at i:7793849 original size:17 final size:17
Alignment explanation
Indices: 7793800--7793850 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 17
7793790 TACAAACAAC
*
7793800 TTAATTTTTTTA-ATAT
1 TTAATTTTATTATATAT
7793816 TTATATTATAATATTATATAT
1 TTA-ATT-T--TATTATATAT
7793837 TTAATTTTATTATA
1 TTAATTTTATTATA
7793851 ATATATAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
16 3 0.10
17 10 0.34
18 1 0.03
19 1 0.03
20 7 0.24
21 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAATTTTATTATATAT
Found at i:7793855 original size:22 final size:21
Alignment explanation
Indices: 7793812--7793857 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
7793802 AATTTTTTTA
*
7793812 ATATTTATATTATAATATTAT
1 ATATTTATATTATAATAATAT
* *
7793833 ATATTTAATTTTATTATAATAT
1 ATATTT-ATATTATAATAATAT
7793855 ATA
1 ATA
7793858 AACATCAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTATATTATAATAATAT
Found at i:7793946 original size:19 final size:19
Alignment explanation
Indices: 7793906--7793947 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7793896 TTTTTAAATT
*
7793906 AATTTAATTTTATTATTCA
1 AATTTAATTTTATTATTAA
7793925 AATTTAATTTTATT-TTGAA
1 AATTTAATTTTATTATT-AA
7793944 AATT
1 AATT
7793948 AAACAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTTAATTTTATTATTAA
Found at i:7796860 original size:153 final size:153
Alignment explanation
Indices: 7796579--7796876 Score: 488
Period size: 153 Copynumber: 1.9 Consensus size: 153
7796569 GATCTATGGA
* * *
7796579 TTCTTTAGATTCCAACTTGGAGGCAGGTGTAACTAAGTTAGATTTACCGGAGGGGAGAACGAGGT
1 TTCTTTAGATTCCAACTTGGAGGCAGGTGTAAATAAGTTAGATATACCGGAGGGGAGAACAAGGT
* * * *
7796644 TGGAGAAGAGTTGTTCCAAAAGCAAGGATAGAAAAGATGATAATATCGAAAGTGAGATTCAGGCG
66 TGGAGAAGAGTTGTTCCAAAAGCAAGGATAGAAAAGATGATAATACCAAAAGTGAGATCCAGGCC
7796709 CTTGCTAAACTCAATTCAGGGCG
131 CTTGCTAAACTCAATTCAGGGCG
* *
7796732 TTCTTTGGATTCCAACTTGGAGGCAGGTGTAAATAAGTTAGATATACCGGAGGTGAGAACAAGGT
1 TTCTTTAGATTCCAACTTGGAGGCAGGTGTAAATAAGTTAGATATACCGGAGGGGAGAACAAGGT
* *
7796797 TGGAGAAGAGTTGTTCCAAAAGTAAGGATAGAAAAGATGATAATGCCAAAAGTGAGATCCAGGCC
66 TGGAGAAGAGTTGTTCCAAAAGCAAGGATAGAAAAGATGATAATACCAAAAGTGAGATCCAGGCC
*
7796862 CTTGTTAAACTCAAT
131 CTTGCTAAACTCAAT
7796877 CTAAAGCTCC
Statistics
Matches: 133, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
153 133 1.00
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (153 bp):
TTCTTTAGATTCCAACTTGGAGGCAGGTGTAAATAAGTTAGATATACCGGAGGGGAGAACAAGGT
TGGAGAAGAGTTGTTCCAAAAGCAAGGATAGAAAAGATGATAATACCAAAAGTGAGATCCAGGCC
CTTGCTAAACTCAATTCAGGGCG
Found at i:7803871 original size:3 final size:3
Alignment explanation
Indices: 7803863--7803909 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7803853 ATCAACTGTT
7803863 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7803910 CAAGATTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7805507 original size:2 final size:2
Alignment explanation
Indices: 7805500--7805532 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7805490 TTAGGCCATA
7805500 AT AT AT AT 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 AT AT AT AT A
7805533 CTAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7809571 original size:46 final size:46
Alignment explanation
Indices: 7809504--7809596 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
7809494 CCCTCTAGTG
7809504 TACATCTACCTTCTTTACTAACATTGTTAAATTTTATTTTATTTAC
1 TACATCTACCTTCTTTACTAACATTGTTAAATTTTATTTTATTTAC
7809550 TACATCTACCTTCTTTACTAACATTGTTAAATTTTATTTTATTTAC
1 TACATCTACCTTCTTTACTAACATTGTTAAATTTTATTTTATTTAC
7809596 T
1 T
7809597 TCCAAAATTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.28, C:0.17, G:0.02, T:0.53
Consensus pattern (46 bp):
TACATCTACCTTCTTTACTAACATTGTTAAATTTTATTTTATTTAC
Found at i:7811578 original size:4 final size:4
Alignment explanation
Indices: 7811569--7811593 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7811559 GAACACCCAC
7811569 ACAA ACAA ACAA ACAA ACAA ACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA A
7811594 GTCCAGCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:7815047 original size:26 final size:25
Alignment explanation
Indices: 7815011--7815062 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
7815001 TCCAAAAAAA
7815011 TATTCAAAAAAAAAACAAAATTCTCT
1 TATTC-AAAAAAAAACAAAATTCTCT
*
7815037 TATTTAAAAAAAAACAAAATTCTCT
1 TATTCAAAAAAAAACAAAATTCTCT
7815062 T
1 T
7815063 TCTTTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (25 bp):
TATTCAAAAAAAAACAAAATTCTCT
Found at i:7817048 original size:29 final size:30
Alignment explanation
Indices: 7816994--7817052 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
7816984 ATCTCAAAAT
* *
7816994 TATATATGAACTTTAATTTAATGTGCAATTG
1 TATATATAAACTTTAATTT-AGGTGCAATTG
7817025 TATATATAAACTTTAATTT-GGTGCAATT
1 TATATATAAACTTTAATTTAGGTGCAATT
7817053 ATACACGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.46
Consensus pattern (30 bp):
TATATATAAACTTTAATTTAGGTGCAATTG
Found at i:7817399 original size:22 final size:22
Alignment explanation
Indices: 7817374--7817422 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
7817364 ATAAAAGAGT
7817374 TATTAATTAAAAATAAAAATTA
1 TATTAATTAAAAATAAAAATTA
* ** *
7817396 TATTTATTAATTATAAACATTA
1 TATTAATTAAAAATAAAAATTA
7817418 -ATTAA
1 TATTAA
7817423 AAAAAGCTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TATTAATTAAAAATAAAAATTA
Found at i:7820042 original size:26 final size:26
Alignment explanation
Indices: 7820005--7820088 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
7819995 TGATACAAAT
* *
7820005 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7820031 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7820057 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7820083 TGATAA
1 TGATAA
7820089 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:7821603 original size:26 final size:26
Alignment explanation
Indices: 7821574--7821626 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
7821564 TTTACAGTTT
7821574 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
7821600 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
7821626 T
1 T
7821627 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:7824021 original size:3 final size:3
Alignment explanation
Indices: 7823999--7824222 Score: 109
Period size: 3 Copynumber: 77.0 Consensus size: 3
7823989 TATTTTTTCA
* * *
7823999 TAT TAT TAC TAT TAT CAT TAT TAT TAT T-T TA- TAT TAT TAT TA- TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
7824044 TA- TATT TAG TAT TAT T-T TTT TA- TAT TA- CAT T-T T-T TAC TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
7824084 CA- TAT TAC TAT TAT CT-T TGT TAC T-T TCT CTAT TAA TATT TAT TACT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TA-T TAT TA-T
* * * * *
7824130 CTAT TTT TAA CAT TAT TAT TA- TAT TA- TAT T-T GTTT TTT TAT CTAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
7824175 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
7824223 ATACAATATT
Statistics
Matches: 169, Mismatches: 30, Indels: 44
0.70 0.12 0.18
Matches are distributed among these distances:
2 24 0.14
3 130 0.77
4 13 0.08
5 2 0.01
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7824070 original size:33 final size:34
Alignment explanation
Indices: 7823989--7824070 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 34
7823979 TATATATTGC
* *
7823989 TATTTTTTCATATTATTACTATTATCATTATTAT
1 TATTTTTTTATATTATTACTATTATCATTAGTAT
* *
7824023 TA-TTTTATATTATTATTA-TGTTAT-ATTTAGTAT
1 TATTTTTTTA-TATTATTACTATTATCA-TTAGTAT
7824056 TATTTTTTTATATTA
1 TATTTTTTTATATTA
7824071 CATTTTTTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
32 1 0.03
33 23 0.57
34 16 0.40
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (34 bp):
TATTTTTTTATATTATTACTATTATCATTAGTAT
Found at i:7824137 original size:59 final size:58
Alignment explanation
Indices: 7824072--7824185 Score: 131
Period size: 59 Copynumber: 1.9 Consensus size: 58
7824062 TTTATATTAC
* * *
7824072 ATTTTTTACTATCA-TATTACTATTATCTTTGTTACTTTCTCTATTAATATTTATTACTCT
1 ATTTTTAAC-ATCATTATTA-TATTATATTTGTTACTTTATCTATTAATA-TTATTACTCT
* ** *
7824132 ATTTTTAACATTATTATTATATTATATTTGTTTTTTTATCTATTATTATTATTA
1 ATTTTTAACATCATTATTATATTATATTTGTTACTTTATCTATTAATATTATTA
7824186 TTATTATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
58 6 0.13
59 27 0.59
60 13 0.28
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (58 bp):
ATTTTTAACATCATTATTATATTATATTTGTTACTTTATCTATTAATATTATTACTCT
Found at i:7824425 original size:17 final size:17
Alignment explanation
Indices: 7824392--7824426 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7824382 ATATATTATG
*
7824392 TTTTTTAATACTATATT
1 TTTTTTAATACCATATT
*
7824409 TTTTTTAATACCCTATT
1 TTTTTTAATACCATATT
7824426 T
1 T
7824427 ATTGTGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTTAATACCATATT
Found at i:7824854 original size:20 final size:18
Alignment explanation
Indices: 7824829--7824867 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7824819 CATATATGTA
7824829 TTTTTACATTATGTATATAT
1 TTTTTACA-TAT-TATATAT
*
7824849 TTTTTAGATATTATATAT
1 TTTTTACATATTATATAT
7824867 T
1 T
7824868 AAGTATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTTACATATTATATAT
Found at i:7825326 original size:2 final size:2
Alignment explanation
Indices: 7825319--7825349 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7825309 TTAAATATGT
7825319 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7825350 TACGTACCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7829047 original size:19 final size:18
Alignment explanation
Indices: 7829025--7829065 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
7829015 GCTTATTATG
7829025 TTAATTAAGTTAGATTAA
1 TTAATTAAGTTAGATTAA
* *
7829043 CTTAATTAATTTAGGTTAA
1 -TTAATTAAGTTAGATTAA
7829062 TTAA
1 TTAA
7829066 AGATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (18 bp):
TTAATTAAGTTAGATTAA
Found at i:7833235 original size:32 final size:30
Alignment explanation
Indices: 7833197--7833270 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 30
7833187 TCTATGTCAT
7833197 GACTAAAATTCCAAAAT-TTTAAAAAATATAAA
1 GACTAAAATT--AAAATGTTTAAAAAATA-AAA
7833229 GACTAAAATTAAAATGTTTAAAAAATAAAA
1 GACTAAAATTAAAATGTTTAAAAAATAAAA
*
7833259 AACTAAAATTAA
1 GACTAAAATTAA
7833271 TCAAATAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 19 0.47
31 11 0.28
32 10 0.25
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (30 bp):
GACTAAAATTAAAATGTTTAAAAAATAAAA
Found at i:7837306 original size:2 final size:2
Alignment explanation
Indices: 7837299--7837330 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7837289 CATATCATAA
7837299 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
7837331 GCTCTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7843200 original size:25 final size:25
Alignment explanation
Indices: 7843154--7843201 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7843144 ATTGTAAGTT
* * **
7843154 ACATTTTAGTCACTTAGGTGTTATA
1 ACATTTTAGCCACTAAACTGTTATA
7843179 ACATTTTAGCCACTAAACTGTTA
1 ACATTTTAGCCACTAAACTGTTA
7843202 ATTGTTATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (25 bp):
ACATTTTAGCCACTAAACTGTTATA
Found at i:7844442 original size:2 final size:2
Alignment explanation
Indices: 7844435--7844460 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7844425 AACCGATTAA
7844435 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7844461 GAAATTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7847940 original size:53 final size:53
Alignment explanation
Indices: 7847881--7847987 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
7847871 AGTCCAGGCT
7847881 AAATCCATTACGAAATGTATGCTCAAAAGAGCTCAATTAGGATTACAGTCTAG
1 AAATCCATTACGAAATGTATGCTCAAAAGAGCTCAATTAGGATTACAGTCTAG
7847934 AAATCCATTACGAAATGTATGCTCAAAAGAGCTCAATTAGGATTACAGTCTAG
1 AAATCCATTACGAAATGTATGCTCAAAAGAGCTCAATTAGGATTACAGTCTAG
7847987 A
1 A
7847988 CTAAATCCTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (53 bp):
AAATCCATTACGAAATGTATGCTCAAAAGAGCTCAATTAGGATTACAGTCTAG
Found at i:7848318 original size:20 final size:22
Alignment explanation
Indices: 7848293--7848333 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
7848283 TAAATATATT
7848293 AATATATTAT-TTA-ATTATAA
1 AATATATTATATTATATTATAA
7848313 AATATATTATATTATATTATA
1 AATATATTATATTATATTATA
7848334 TTATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 3 0.16
22 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:7848331 original size:30 final size:28
Alignment explanation
Indices: 7848284--7848341 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
7848274 TTTATGTTTT
7848284 AAATATATTAATATATTAT-TTAATTATA
1 AAATATATTAATATATTATATT-ATTATA
7848312 AAATATATTATATTATATTATATTATTATA
1 AAATATATTA-A-TATATTATATTATTATA
7848342 TTATGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 10 0.37
29 1 0.04
30 14 0.52
31 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
AAATATATTAATATATTATATTATTATA
Found at i:7848473 original size:14 final size:14
Alignment explanation
Indices: 7848456--7848490 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
7848446 TAAGTAAAAC
7848456 TATTATATTATTAT
1 TATTATATTATTAT
*
7848470 TATTATGTTATTAT
1 TATTATATTATTAT
7848484 TATTATA
1 TATTATA
7848491 ATATAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:7848584 original size:19 final size:19
Alignment explanation
Indices: 7848548--7848587 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7848538 AACGAAACAG
*
7848548 AGAAAGGAAAGAAGGAAAA
1 AGAAAGGAAAGAAAGAAAA
7848567 AGAAA-GAAAGAAAAGAAAA
1 AGAAAGGAAAG-AAAGAAAA
7848586 AG
1 AG
7848588 GGAGAATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (19 bp):
AGAAAGGAAAGAAAGAAAA
Found at i:7850427 original size:44 final size:45
Alignment explanation
Indices: 7850337--7850465 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
7850327 GACAGAACGA
*
7850337 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
7850383 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
7850427 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
7850466 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:7852050 original size:18 final size:19
Alignment explanation
Indices: 7852015--7852053 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
7852005 TGAGTATTGA
7852015 TATTGAATTGAATGAAAATG
1 TATTGAATTG-ATGAAAATG
7852035 TATTGAATTG-TGAAAATG
1 TATTGAATTGATGAAAATG
7852053 T
1 T
7852054 GTGAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (19 bp):
TATTGAATTGATGAAAATG
Found at i:7853958 original size:10 final size:10
Alignment explanation
Indices: 7853939--7853998 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
7853929 TGAAATTCTA
7853939 AAAGATAAAT
1 AAAGATAAAT
7853949 ACAA-ATAAAT
1 A-AAGATAAAT
7853959 AAAGATAAAT
1 AAAGATAAAT
*
7853969 AAATATAAAT
1 AAAGATAAAT
7853979 AAAGATAAAT
1 AAAGATAAAT
7853989 GAAA-ATAAAT
1 -AAAGATAAAT
7853999 CCTAGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:7853962 original size:20 final size:19
Alignment explanation
Indices: 7853939--7853998 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 19
7853929 TGAAATTCTA
7853939 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
7853959 AAAGATAAATAAATATAAAT
1 AAAGATAAATAAA-ATAAAT
7853979 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
7853999 CCTAGAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.05
20 33 0.87
21 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:7874076 original size:15 final size:16
Alignment explanation
Indices: 7874046--7874078 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7874036 AAGCTGTGTA
*
7874046 AACACAAACGCAACAC
1 AACACAAACACAACAC
7874062 AACAC-AACACAACAC
1 AACACAAACACAACAC
7874077 AA
1 AA
7874079 ATGTGTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.61, C:0.36, G:0.03, T:0.00
Consensus pattern (16 bp):
AACACAAACACAACAC
Found at i:7884799 original size:2 final size:2
Alignment explanation
Indices: 7884792--7884859 Score: 92
Period size: 2 Copynumber: 36.5 Consensus size: 2
7884782 AGAGTTATGA
*
7884792 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7884833 AG AG AG AG A- AG AG A- AG A- AG A- AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7884860 AAAAAAAAGA
Statistics
Matches: 60, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
1 5 0.08
2 55 0.92
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7884945 original size:3 final size:3
Alignment explanation
Indices: 7884933--7884995 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
7884923 GTATCTCCAT
*
7884933 TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC ATC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
7884980 TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC T
7884996 ACCGCTCAGC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:7885283 original size:30 final size:30
Alignment explanation
Indices: 7885207--7885292 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
7885197 TTCAGCTCAC
*
7885207 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTTAG
* * * *
7885237 GAGTTTAATCTCAGCTCAACTTTAGCTTAAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTT-AG
* *
7885268 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAACCTTAGCTCAACTTTAGCT
7885293 CAAACCCGGT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 8 0.18
30 34 0.76
31 3 0.07
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (30 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTTAG
Found at i:7890317 original size:22 final size:22
Alignment explanation
Indices: 7890292--7890334 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7890282 TATCCAAACA
7890292 ATAACAACAAAATAG-TAGCAAC
1 ATAACAACAAAAT-GTTAGCAAC
* *
7890314 ATAATAATAAAATGTTAGCAA
1 ATAACAACAAAATGTTAGCAA
7890335 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATGTTAGCAAC
Found at i:7893385 original size:44 final size:43
Alignment explanation
Indices: 7893335--7893425 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
7893325 AAAAATTTGT
* *
7893335 GGCGTTTATTGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTT-GTGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAAC
* *
7893379 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAAC
1 GGCGTTTGTGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAAC
7893422 GGCG
1 GGCG
7893426 CTTTTTTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 36 0.84
44 7 0.16
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (43 bp):
GGCGTTTGTGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAAC
Found at i:7899969 original size:18 final size:18
Alignment explanation
Indices: 7899926--7900115 Score: 150
Period size: 18 Copynumber: 10.3 Consensus size: 18
7899916 TGATATATAT
* *
7899926 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
7899943 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
7899961 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
7899979 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
7900002 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
7900022 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
7900039 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
7900057 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
7900075 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
7900093 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
7900111 TTATG
1 TTATG
7900116 ATATCAAATA
Statistics
Matches: 139, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
17 28 0.20
18 85 0.61
20 7 0.05
21 4 0.03
22 4 0.03
23 6 0.04
25 5 0.04
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:7899982 original size:27 final size:27
Alignment explanation
Indices: 7899943--7900115 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
7899933 AATTATATAT
*
7899943 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
7899970 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
7900002 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
7900030 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
7900057 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
7900084 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
7900111 TTATG
1 TTATG
7900116 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:7900114 original size:9 final size:9
Alignment explanation
Indices: 7899943--7900115 Score: 132
Period size: 9 Copynumber: 18.6 Consensus size: 9
7899933 AATTATATAT
*
7899943 TTATCTAAG
1 TTATGTAAG
*
7899952 TTATATAAG
1 TTATGTAAG
7899961 TTATGTAAG
1 TTATGTAAG
*
7899970 TTATGTAAA
1 TTATGTAAG
*
7899979 TTATGATATAAAA
1 TTATG---T-AAG
*
7899992 TATATTTAAG
1 T-TATGTAAG
7900002 TATTATGTAAG
1 --TTATGTAAG
7900013 TTATGTAAG
1 TTATGTAAG
* *
7900022 TTATAT-AT
1 TTATGTAAG
*
7900030 TTATCTAAG
1 TTATGTAAG
*
7900039 TTATATAAG
1 TTATGTAAG
*
7900048 TTATATAAG
1 TTATGTAAG
*
7900057 TTATGTATG
1 TTATGTAAG
*
7900066 TTATATAAG
1 TTATGTAAG
7900075 TTATGTAAG
1 TTATGTAAG
* *
7900084 TTATATATG
1 TTATGTAAG
*
7900093 TTATATAAG
1 TTATGTAAG
*
7900102 TTATGTAAA
1 TTATGTAAG
7900111 TTATG
1 TTATG
7900116 ATATCAAATA
Statistics
Matches: 135, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
8 6 0.04
9 110 0.81
10 2 0.01
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:7900240 original size:15 final size:15
Alignment explanation
Indices: 7900220--7900275 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
7900210 AAGTAGCGGG
7900220 ATTAAATAATATTTA
1 ATTAAATAATATTTA
7900235 ATTAAATAATATTT-
1 ATTAAATAATATTTA
7900249 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
7900264 ATTAAATAATAT
1 ATTAAATAATAT
7900276 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:7900484 original size:24 final size:24
Alignment explanation
Indices: 7900452--7900519 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
7900442 ACTTAAATGG
7900452 TAAAACGGAAGATAATATTTGTGA
1 TAAAACGGAAGATAATATTTGTGA
7900476 TAAAACGG-AGAATAATATTTGTGA
1 TAAAACGGAAG-ATAATATTTGTGA
* *
7900500 TAAAACGGACGAGAATATTT
1 TAAAACGGAAGATAATATTT
7900520 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 37 0.93
25 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAACGGAAGATAATATTTGTGA
Done.