Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 175 of 210
Found at i:58252384 original size:41 final size:41
Alignment explanation
Indices: 58252246--58252411 Score: 156
Period size: 41 Copynumber: 4.0 Consensus size: 41
58252236 ATATTTTTGT
* *
58252246 GGCGCTTTTTCAAAAACGTCGCTAAAG-CCTTGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAGACC-TGAGCATTAGC
* * ** * * * * **
58252287 GGCACTCCTTGGAAAATGGCACTAAAGCCCCAAGCATTAGGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAGACCTGAGCATTA-GC
*
58252329 GGCGCTT-TTCCAAAAACGCCGCTAAAGATCTGAGCATTAGC
1 GGCGCTTCTT-CAAAAACGCCGCTAAAGACCTGAGCATTAGC
**
58252370 GGCGCTTCTTCAAAAACGCCGCTAAAGATTTGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAGACCTGAGCATTAGC
58252411 G
1 G
58252412 ATGCTCATTT
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
41 68 0.69
42 31 0.31
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (41 bp):
GGCGCTTCTTCAAAAACGCCGCTAAAGACCTGAGCATTAGC
Found at i:58252593 original size:6 final size:6
Alignment explanation
Indices: 58252584--58252632 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
58252574 CTAAATCCTA
* * *
58252584 AACCCT AACCCT AACCCT AACCCG ACCCCA AATCCCT AACCCCT AACCC
1 AACCCT AACCCT AACCCT AACCCT AACCCT AA-CCCT AA-CCCT AACCC
58252633 CTAAACATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
6 25 0.69
7 11 0.31
ACGTcount: A:0.33, C:0.53, G:0.02, T:0.12
Consensus pattern (6 bp):
AACCCT
Found at i:58252805 original size:14 final size:15
Alignment explanation
Indices: 58252788--58252820 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
58252778 CGTAAATCAG
58252788 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
58252802 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
58252817 AATC
1 AATC
58252821 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:58253303 original size:41 final size:41
Alignment explanation
Indices: 58253235--58253390 Score: 172
Period size: 41 Copynumber: 3.8 Consensus size: 41
58253225 AAATGTTTTT
* * * * * *
58253235 GCGGCGCTTTTTCAAAAACGTCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTCTTAAAAAATGCCACTAAAGCCCCGAGCATTA
**
58253276 GCGGCGC-TCTTTGGAAAATGCCACTAAAGCCCCGAGCATTA
1 GCGGCGCTTC-TTAAAAAATGCCACTAAAGCCCCGAGCATTA
*
58253317 GCGGCGCTTCTTAAAAAATGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTCTTAAAAAATGCCACTAAAGCCCCGAGCATTA
* * *
58253358 GCGGCGCTT-TTCCAAAAATGCCGCTAAAACCCC
1 GCGGCGCTTCTT-AAAAAATGCCACTAAAGCCCC
58253391 AAAAGGTAGA
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.03
41 95 0.95
42 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTCTTAAAAAATGCCACTAAAGCCCCGAGCATTA
Found at i:58253376 original size:82 final size:82
Alignment explanation
Indices: 58253235--58253390 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 82
58253225 AAATGTTTTT
* * * * **
58253235 GCGGCGCTTTTTCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTCTTTGGAAAATGCCAC
1 GCGGCGCTTCTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTCTTTCAAAAATGCCAC
*
58253300 TAAAGCCCCGAGCATTA
66 TAAAACCCCGAGCATTA
* *
58253317 GCGGCGCTTCTTAAAAAATGCCGCTAAAGCCCCGAGCATTAGCGGCGCT-TTTCCAAAAATGCCG
1 GCGGCGCTTCTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTCTTT-CAAAAATGCCA
58253381 CTAAAACCCC
65 CTAAAACCCC
58253391 AAAAGGTAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 3 0.05
82 61 0.95
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (82 bp):
GCGGCGCTTCTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTCTTTCAAAAATGCCAC
TAAAACCCCGAGCATTA
Found at i:58253480 original size:41 final size:42
Alignment explanation
Indices: 58253429--58253522 Score: 131
Period size: 40 Copynumber: 2.3 Consensus size: 42
58253419 TAGGTTTTTT
*
58253429 GCGGTGTTTTTCTGAA-AAACGCCGCTAATGCTC-GATCTTTA
1 GCGGCGTTTTT-TGAAGAAACGCCGCTAATGCTCAGATCTTTA
* *
58253470 GCGGCG-TTTTTGAAGAAGCGTCGCTAATGCTCAGATCTTTA
1 GCGGCGTTTTTTGAAGAAACGCCGCTAATGCTCAGATCTTTA
58253511 GCGGCGTTTTTT
1 GCGGCGTTTTTT
58253523 ATCCAAATGC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
39 4 0.09
40 19 0.40
41 19 0.40
42 5 0.11
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (42 bp):
GCGGCGTTTTTTGAAGAAACGCCGCTAATGCTCAGATCTTTA
Found at i:58255318 original size:12 final size:12
Alignment explanation
Indices: 58255301--58255327 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
58255291 ATTATCATCG
58255301 CTCTAATCCAAT
1 CTCTAATCCAAT
58255313 CTCTAATCCAAT
1 CTCTAATCCAAT
58255325 CTC
1 CTC
58255328 GTGTACTAAG
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:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCTAATCCAAT
Found at i:58257977 original size:27 final size:26
Alignment explanation
Indices: 58257947--58258034 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 26
58257937 AGAAATACCA
* *
58257947 TTGTAGTGTACTCTGAAATAAATGCCT
1 TTGTGGTGCACTCTGAAA-AAATGCCT
* * *
58257974 TTGTGGCGCACTTTGAAAAGAATGTCT
1 TTGTGGTGCACTCTGAAAA-AATGCCT
*
58258001 TTGTGGTGCACTCTGAAAGGAATGCCT
1 TTGTGGTGCACTCTGAAA-AAATGCCT
58258028 TTGTGGT
1 TTGTGGT
58258035 AAATTTTGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 49 0.98
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (26 bp):
TTGTGGTGCACTCTGAAAAAATGCCT
Found at i:58258043 original size:54 final size:54
Alignment explanation
Indices: 58257947--58258060 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
58257937 AGAAATACCA
* * * ** *
58257947 TTGTAGTGTACTCTGAAATAAATGCCTTTGTGGCGCACTTTGAAAAGAATGTCT
1 TTGTGGTGCACTCTGAAAGAAATGCCTTTGTGGCAAACTTTGAAAAGAATGCCT
* * * *
58258001 TTGTGGTGCACTCTGAAAGGAATGCCTTTGTGGTAAATTTTGAATAGAATGCCT
1 TTGTGGTGCACTCTGAAAGAAATGCCTTTGTGGCAAACTTTGAAAAGAATGCCT
*
58258055 TGGTGG
1 TTGTGG
58258061 CATACTCTGT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.35
Consensus pattern (54 bp):
TTGTGGTGCACTCTGAAAGAAATGCCTTTGTGGCAAACTTTGAAAAGAATGCCT
Found at i:58258044 original size:27 final size:26
Alignment explanation
Indices: 58257967--58258060 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
58257957 CTCTGAAATA
*
58257967 AATGCCTTTGTGGCGCACTTTGAAAAG
1 AATGCCTTTGTGGTGCACTTTG-AAAG
* *
58257994 AATGTCTTTGTGGTGCACTCTGAAAGG
1 AATGCCTTTGTGGTGCACTTTGAAA-G
** *
58258021 AATGCCTTTGTGGTAAATTTTGAATAG
1 AATGCCTTTGTGGTGCACTTTGAA-AG
*
58258048 AATGCCTTGGTGG
1 AATGCCTTTGTGG
58258061 CATACTCTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.05
27 52 0.93
28 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (26 bp):
AATGCCTTTGTGGTGCACTTTGAAAG
Found at i:58259323 original size:22 final size:22
Alignment explanation
Indices: 58259295--58259340 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
58259285 AAACACCTTC
58259295 ATACTTAGCCATTTTAGTAACT
1 ATACTTAGCCATTTTAGTAACT
58259317 ATACTTAGCCATTTTAGTAACT
1 ATACTTAGCCATTTTAGTAACT
58259339 AT
1 AT
58259341 TCATCATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (22 bp):
ATACTTAGCCATTTTAGTAACT
Found at i:58260033 original size:50 final size:50
Alignment explanation
Indices: 58259875--58260216 Score: 302
Period size: 50 Copynumber: 6.8 Consensus size: 50
58259865 TGAATATACA
* * * ** * * *
58259875 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * *
58259924 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGA---GT--TCTAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * **
58259969 TGCCCATGCTATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
58260019 TGCCAACGCCATGTCACAGACATGGTCTAACATGGGACTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
58260069 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
58260119 TGCCAATGCCATGTCTCAGACATGGTCTTACATGAGACCTATCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC--TC-TCATCTC---GG
* *
58260175 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
58260217 TTACCCAAAT
Statistics
Matches: 241, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
44 2 0.01
45 31 0.13
46 1 0.00
48 1 0.00
49 32 0.13
50 128 0.53
52 1 0.00
53 6 0.02
54 2 0.01
56 37 0.15
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:58263317 original size:19 final size:21
Alignment explanation
Indices: 58263236--58263311 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
58263226 ATCTTCGAGG
58263236 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
58263255 ATATGCAATCTTAGATATGAA
1 ATATGCAATCTTAGATATGAT
*
58263276 ATATTCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
58263297 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
58263312 AGATATGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 19 0.37
21 33 0.63
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:58263333 original size:23 final size:24
Alignment explanation
Indices: 58263236--58263334 Score: 78
Period size: 21 Copynumber: 4.6 Consensus size: 24
58263226 ATCTTCGAGG
58263236 ATATGCAATCTT---AGATATG--
1 ATATGCAATCTTAGAAGATATGAT
*
58263255 ATATGCAATCTTAG---ATATGAA
1 ATATGCAATCTTAGAAGATATGAT
*
58263276 ATATTCAATCTT---AGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
58263297 ATATGCAATCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
58263321 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
58263335 GATTTAATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
19 17 0.26
21 28 0.42
23 12 0.18
24 9 0.14
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:58263346 original size:23 final size:23
Alignment explanation
Indices: 58263303--58263345 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
58263293 TGATATATGC
*
58263303 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATAATTTTGT
*
58263326 AATCTTAG-AGATTTAATTTT
1 AATCTTAGAAGATATAATTTT
58263346 TAGATACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
AATCTTAGAAGATATAATTTTGT
Found at i:58263530 original size:19 final size:21
Alignment explanation
Indices: 58263506--58263544 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
58263496 ACTGTTTTCT
*
58263506 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
58263525 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
58263545 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:58270652 original size:7 final size:8
Alignment explanation
Indices: 58270638--58270675 Score: 58
Period size: 8 Copynumber: 4.5 Consensus size: 8
58270628 GGAATCATTC
58270638 TAAAAAAA
1 TAAAAAAA
58270646 TAAAAAAA
1 TAAAAAAA
58270654 TAAAAAAA
1 TAAAAAAA
58270662 TAAATTAAAA
1 TAAA--AAAA
58270672 TAAA
1 TAAA
58270676 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 20 0.71
10 8 0.29
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
TAAAAAAA
Found at i:58270967 original size:88 final size:88
Alignment explanation
Indices: 58270814--58271728 Score: 1352
Period size: 88 Copynumber: 10.4 Consensus size: 88
58270804 GTGAAGATAA
* * * * * *
58270814 CAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
* *
58270879 GCAGCGGAGAAGGTTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * *
58270902 CAGATCTTACCTTCCTGCACCAACAGCGAAGAAGATCGAAGTCACCAACCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
* * *
58270967 GTAGTGGAGCACGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* *
58270990 CAGATCTTGCCTTCCTGCACCGACAGCGAAGGAGATCGAAGAT-ACCAGCCTTGCCTCCCTAGGT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAG-TCACCAGCCTTGCCTCCCTGGGT
* *
58271054 TGCAGTGGAGCAGGCTAAAATTAG
65 TGCAGCGGAGCAGGCTAAAAATAG
* * *
58271078 CAGATCTTGCCTTCCTGCACCGACAACGAAGCAAATCGAAGTCACCAGCCTTGCCTTCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
*
58271143 GCAGCAGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * *
58271166 CAGATCTTGGCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCACCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
* *
58271231 GCAGCCGAGTAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* *
58271254 CAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGAT-ACCGGCCTTGCCTCCCTGGGT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAG-TCACCAGCCTTGCCTCCCTGGGT
* *
58271318 TGTAGCGGAGCAGGCTGAAAATAG
65 TGCAGCGGAGCAGGCTAAAAATAG
*
58271342 CAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
* *
58271407 ACAGTGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* *
58271430 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGAT-ACCGGCCTTGCCTCCCTGGGT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAG-TCACCAGCCTTGCCTCCCTGGGT
* *
58271494 TGTAGCGGAGCAGGCTGAAAATAG
65 TGCAGCGGAGCAGGCTAAAAATAG
* *
58271518 CAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGTCACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
* *
58271583 GCAGTGGAGTAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
*
58271606 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTT-CCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
* *
58271670 GCAGTGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
58271693 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
58271729 TGATGACCCC
Statistics
Matches: 744, Mismatches: 77, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
87 72 0.10
88 669 0.90
89 3 0.00
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGCTAAAAATAG
Found at i:58271351 original size:44 final size:44
Alignment explanation
Indices: 58271215--58271709 Score: 143
Period size: 44 Copynumber: 11.3 Consensus size: 44
58271205 AGTCACCACC
* * * *
58271215 CTTGCCTCCCTAGGTTGCAGCCGAGTAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTGAAAATAGCAGAT
* * **** * * * * **
58271259 CTTGCCTTCTTGCACCGACAGCGAAGCA-GATCGAAGATA-CCGGC
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCT-GAAAATAGCAGAT
*
58271303 CTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTGAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTGAAAATAGCAGAT
* **** * * * * * *
58271347 CTTGCCTTCCTGCACCGACAACGAAGCA-GATCG-AAGTCACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCT-GAAAAT-AGCAGAT
* * *
58271391 CTTGCCTCCCTGGGTTACAGTGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTGAAAATAGCAGAT
* **** * * * * **
58271435 CTTGCCTTCCTGCACCGACAGCGAAGCA-GATCAAAGATA-CCGGC
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCTGAAA-ATAGCAGAT
*
58271479 CTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTGAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTGAAAATAGCAGAT
* **** * * * * * *
58271523 CTTGCCTTCCTGCACCGACAACGAAGCA-GATCG-AAGTCACCA-AC
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCT-GAAAAT-AGCAGAT
* * *
58271567 CTTGCCTCCCTGGGTTGCAGTGGAGTAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTGAAAATAGCAGAT
* **** * * * * * *
58271611 CTTGCCTTCCTGCACCGACAGCGAAGCA-GATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCT-GAAAATAGCAGAT
* * *
58271655 CTT-CCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTGAAAATAGCAGAT
*
58271698 CTTGCCTTCCTG
1 CTTGCCTCCCTG
58271710 CACCGACAGC
Statistics
Matches: 292, Mismatches: 134, Indels: 50
0.61 0.28 0.11
Matches are distributed among these distances:
42 15 0.05
43 58 0.20
44 159 0.54
45 60 0.21
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTGAAAATAGCAGAT
Found at i:58271810 original size:44 final size:44
Alignment explanation
Indices: 58271742--58271990 Score: 297
Period size: 44 Copynumber: 5.7 Consensus size: 44
58271732 TGACCCCAAC
* *
58271742 CCTATCTCCCTGGTCAGCATTGGAACAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
58271786 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
58271830 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAA-ATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTT-AAAGATTGTGAAT
** * * * * * *
58271874 TTTATCTCCCTGGGCAGTAGTGGCATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * *
58271918 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
58271962 CCTATCTCCCTGAG-CAGCAGTGGAGTAGG
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGG
58271991 AGGAAAATAG
Statistics
Matches: 176, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.02
44 168 0.95
45 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:58272398 original size:44 final size:43
Alignment explanation
Indices: 58272298--58272413 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 43
58272288 ATGGCAAATT
* *
58272298 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGT-GAGCAGATTAAAACCGATAATC
* * * *
58272342 CTATCACCCTGAAGTTGCAGTGAAGCAGATTAAAACC-TTGGATC
1 TTATCTCCCTGAAGTTGCAGTG-AGCAGATTAAAACCGAT-AATC
* *
58272386 TTATCTCTCTGAAGTTGCAGAGAGCAGA
1 TTATCTCCCTGAAGTTGCAGTGAGCAGA
58272414 ACGCATCTAG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
43 8 0.13
44 52 0.87
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGAGCAGATTAAAACCGATAATC
Found at i:58272843 original size:17 final size:18
Alignment explanation
Indices: 58272829--58272912 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
58272819 ATAATCTTCG
58272829 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
58272847 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
*
58272866 TATGATATATGCAATCTTAGA
1 -A-G-GATATGCAATCTTAGA
* *
58272887 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
58272906 A-GATATG
1 AGGATATG
58272913 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.11
18 1 0.02
19 33 0.58
21 17 0.30
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:58272855 original size:19 final size:19
Alignment explanation
Indices: 58272831--58272905 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
58272821 AATCTTCGAG
58272831 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58272850 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58272869 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
58272890 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
58272906 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:58272877 original size:21 final size:21
Alignment explanation
Indices: 58272832--58272894 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
58272822 ATCTTCGAGG
58272832 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
58272851 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
58272872 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
58272893 AT
1 AT
58272895 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:58272924 original size:23 final size:22
Alignment explanation
Indices: 58272844--58272928 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
58272834 ATGCAATCTT
*
58272844 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
58272865 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
58272884 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
58272906 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
58272929 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:58272938 original size:22 final size:23
Alignment explanation
Indices: 58272894--58272938 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
58272884 AGATATGATA
*
58272894 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
58272917 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
58272939 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:58275802 original size:30 final size:31
Alignment explanation
Indices: 58275734--58275792 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
58275724 CACCCTTAAA
* * *
58275734 ATATTTACACTATTCATCCTTCAAATTTTTC
1 ATATTTACACTATTAACCCCTCAAATTTTTC
58275765 ATATTTACACT-TTAACCCCTCAAATTTT
1 ATATTTACACTATTAACCCCTCAAATTTT
58275793 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTTTC
Found at i:58276663 original size:80 final size:81
Alignment explanation
Indices: 58276529--58276693 Score: 323
Period size: 80 Copynumber: 2.0 Consensus size: 81
58276519 TCAAGTATTT
58276529 TTCAATTTTCCTTTAGTTGTTTGTTTTCTTAATTCGACTTGTGAATTGTTCAAATATTTCTACAG
1 TTCAATTTTCCTTTAGTTGTTTGTTTTCTTAATTCGACTTGTGAATTGTTCAAATATTTCTACAG
58276594 ATTTTTAGTTCTAAAC
66 ATTTTTAGTTCTAAAC
58276610 TTCAATTTTCCTTT-GTTGTTTGTTTTCTTAATTCGACTTGTGAATTGTTCAAATATTTCTACAG
1 TTCAATTTTCCTTTAGTTGTTTGTTTTCTTAATTCGACTTGTGAATTGTTCAAATATTTCTACAG
58276674 ATTTTTAGTTCTAAAC
66 ATTTTTAGTTCTAAAC
58276690 TTCA
1 TTCA
58276694 TCAATATCCA
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 70 0.83
81 14 0.17
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (81 bp):
TTCAATTTTCCTTTAGTTGTTTGTTTTCTTAATTCGACTTGTGAATTGTTCAAATATTTCTACAG
ATTTTTAGTTCTAAAC
Found at i:58278904 original size:12 final size:12
Alignment explanation
Indices: 58278884--58278918 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
58278874 AGGATTGCAA
58278884 ATTTTCATTTCC
1 ATTTTCATTTCC
* *
58278896 ATTTCCATTTTC
1 ATTTTCATTTCC
58278908 ATTTTCATTTC
1 ATTTTCATTTC
58278919 TAAATGATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTTCATTTCC
Found at i:58278907 original size:18 final size:18
Alignment explanation
Indices: 58278884--58278918 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58278874 AGGATTGCAA
58278884 ATTTTCATTTCCATTTCC
1 ATTTTCATTTCCATTTCC
*
58278902 ATTTTCATTTTCATTTC
1 ATTTTCATTTCCATTTC
58278919 TAAATGATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTCATTTCCATTTCC
Found at i:58281901 original size:33 final size:33
Alignment explanation
Indices: 58281857--58281993 Score: 163
Period size: 33 Copynumber: 4.2 Consensus size: 33
58281847 TTGGAAGGGT
*
58281857 TCATCATCATCATCTCCGTCGTCTTCGTTGTTG
1 TCATCATCATCATCTCCGTCGTCTTCGTCGTTG
* * * *
58281890 TCATCACCATCATCTCTGTCGTCTTCATCATTG
1 TCATCATCATCATCTCCGTCGTCTTCGTCGTTG
* *
58281923 TCATCATCATCATCTTCGTCATCTTCGTCGTTG
1 TCATCATCATCATCTCCGTCGTCTTCGTCGTTG
* * *
58281956 TCATCATCATCA--T-CATCGTCATCGTCATTG
1 TCATCATCATCATCTCCGTCGTCTTCGTCGTTG
58281986 TCATCATC
1 TCATCATC
58281994 TTCGCCCTCT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
30 21 0.24
31 1 0.01
33 67 0.75
ACGTcount: A:0.18, C:0.31, G:0.11, T:0.40
Consensus pattern (33 bp):
TCATCATCATCATCTCCGTCGTCTTCGTCGTTG
Found at i:58281924 original size:15 final size:15
Alignment explanation
Indices: 58281914--58281993 Score: 70
Period size: 15 Copynumber: 5.1 Consensus size: 15
58281904 TCTGTCGTCT
58281914 TCATCATTGTCATCA
1 TCATCATTGTCATCA
*
58281929 TCATCATCTTCGTCATCT
1 TCATCA--TT-GTCATCA
* *
58281947 TCGTCGTTGTCATCA
1 TCATCATTGTCATCA
** *
58281962 TCATCATCATCGTCA
1 TCATCATTGTCATCA
*
58281977 TCGTCATTGTCATCA
1 TCATCATTGTCATCA
58281992 TC
1 TC
58281994 TTCGCCCTCT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
15 35 0.71
16 2 0.04
17 2 0.04
18 10 0.20
ACGTcount: A:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (15 bp):
TCATCATTGTCATCA
Found at i:58286325 original size:10 final size:9
Alignment explanation
Indices: 58286265--58286324 Score: 63
Period size: 10 Copynumber: 6.6 Consensus size: 9
58286255 AAAATCGTTA
58286265 AAAATATATT
1 AAAA-ATATT
58286275 AAAAATCA-T
1 AAAAAT-ATT
58286284 AAAGAATATT
1 AAA-AATATT
58286294 AAAAATAATT
1 AAAAAT-ATT
58286304 AAAAATA-T
1 AAAAATATT
58286312 -AAAATATT
1 AAAAATATT
58286320 AAAAA
1 AAAAA
58286325 AGTATATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
7 6 0.14
8 2 0.05
9 15 0.34
10 21 0.48
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:58286351 original size:10 final size:9
Alignment explanation
Indices: 58286263--58286398 Score: 68
Period size: 9 Copynumber: 14.4 Consensus size: 9
58286253 AAAAAATCGT
58286263 TAAAAATATA
1 TAAAAAT-TA
*
58286273 TTAAAAATCA
1 -TAAAAATTA
58286283 TAAAGAA-TA
1 TAAA-AATTA
*
58286292 TTAAAAATAA
1 -TAAAAATTA
58286302 TTAAAAA-TA
1 -TAAAAATTA
58286311 TAAAATATTA
1 TAAAA-ATTA
*
58286321 -AAAAAGTA
1 TAAAAATTA
**
58286329 TATAATCTTA
1 TA-AAAATTA
58286339 TAAAAATTCA
1 TAAAAATT-A
58286349 TAAAAAATTA
1 T-AAAAATTA
*
58286359 TAAATATTA
1 TAAAAATTA
58286368 TAAAAA--A
1 TAAAAATTA
58286375 TCAAATTAATTA
1 T-AAA--AATTA
58286387 TAAAAA-TA
1 TAAAAATTA
58286395 TAAA
1 TAAA
58286399 TTTTTAAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.02
8 17 0.17
9 32 0.32
10 29 0.29
11 17 0.17
12 2 0.02
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:58286359 original size:20 final size:19
Alignment explanation
Indices: 58286263--58286375 Score: 79
Period size: 19 Copynumber: 5.9 Consensus size: 19
58286253 AAAAAATCGT
* *
58286263 TAAAAATATATTAAAAATCA
1 TAAAAAT-TATAAAAAATTA
* *
58286283 TAAAGAA-TATTAAAAATAA
1 TAAA-AATTATAAAAAATTA
*
58286302 TTAAAAA-TATAAAATATTA
1 -TAAAAATTATAAAAAATTA
* * **
58286321 -AAAAAGTATATAATCTTA
1 TAAAAATTATAAAAAATTA
58286339 TAAAAATTCATAAAAAATTA
1 TAAAAATT-ATAAAAAATTA
*
58286359 TAAATATTATAAAAAAT
1 TAAAAATTATAAAAAAT
58286376 CAAATTAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.06
18 10 0.13
19 37 0.48
20 23 0.30
21 2 0.03
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
TAAAAATTATAAAAAATTA
Found at i:58286385 original size:28 final size:29
Alignment explanation
Indices: 58286319--58286398 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
58286309 TATAAAATAT
* * *
58286319 TAAAAAAGTATATAATCTTATAAAAATTCA
1 TAAAAAATTATA-AATATTATAAAAAATCA
58286349 TAAAAAATTATAAATATTATAAAAAATCA
1 TAAAAAATTATAAATATTATAAAAAATCA
** *
58286378 -AATTAATTATAAA-AATATAAA
1 TAAAAAATTATAAATATTATAAA
58286399 TTTTTAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.16
28 11 0.25
29 15 0.34
30 11 0.25
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (29 bp):
TAAAAAATTATAAATATTATAAAAAATCA
Found at i:58286399 original size:19 final size:18
Alignment explanation
Indices: 58286351--58286422 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 18
58286341 AAAATTCATA
58286351 AAAAATTATAAA-TATTAT
1 AAAAA-TATAAATTATTAT
58286369 AAAAA-ATCAAATTAATTAT
1 AAAAATAT-AAATT-ATTAT
58286388 AAAAATATAAATT-TT-T
1 AAAAATATAAATTATTAT
*
58286404 -AAAATATAAAATA-TAT
1 AAAAATATAAATTATTAT
58286420 AAA
1 AAA
58286423 TTAAAAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 15
0.74 0.02 0.24
Matches are distributed among these distances:
15 12 0.26
16 4 0.09
17 7 0.15
18 6 0.13
19 15 0.33
20 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATATAAATTATTAT
Found at i:58287159 original size:10 final size:9
Alignment explanation
Indices: 58287146--58287188 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
58287136 AATAAATGAT
58287146 TTTTTATAA
1 TTTTTATAA
*
58287155 TTTTTAT-T
1 TTTTTATAA
58287163 TTTTTAT-A
1 TTTTTATAA
58287171 TTTTTATAA
1 TTTTTATAA
58287180 GTTTTTATA
1 -TTTTTATA
58287189 CGTTTACAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 14 0.47
9 8 0.27
10 8 0.27
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTTATAA
Found at i:58287194 original size:18 final size:18
Alignment explanation
Indices: 58287163--58287215 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
58287153 AATTTTTATT
**
58287163 TTTTTATATTTTTATAAG
1 TTTTTATACGTTTATAAG
*
58287181 TTTTTATACGTTTACAAG
1 TTTTTATACGTTTATAAG
* *
58287199 TTCTTAAACGTTTATAA
1 TTTTTATACGTTTATAA
58287216 TTTCTTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.55
Consensus pattern (18 bp):
TTTTTATACGTTTATAAG
Found at i:58287220 original size:18 final size:18
Alignment explanation
Indices: 58287173--58287221 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
58287163 TTTTTATATT
*
58287173 TTTATAAGTTT-TTATACG
1 TTTATAA-TTTCTTAAACG
* *
58287191 TTTACAAGTTCTTAAACG
1 TTTATAATTTCTTAAACG
58287209 TTTATAATTTCTT
1 TTTATAATTTCTT
58287222 TTTCAATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTATAATTTCTTAAACG
Found at i:58287779 original size:2 final size:2
Alignment explanation
Indices: 58287772--58287809 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
58287762 GTACAACCAT
58287772 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
58287810 CTGTTTTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:58288651 original size:9 final size:9
Alignment explanation
Indices: 58288634--58288670 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
58288624 TGAGTTTTCG
58288634 AATTCGAAT
1 AATTCGAAT
*
58288643 AACTCGAAT
1 AATTCGAAT
58288652 AATTCGAAT
1 AATTCGAAT
*
58288661 TATTCGAAT
1 AATTCGAAT
58288670 A
1 A
58288671 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:58291288 original size:13 final size:13
Alignment explanation
Indices: 58291270--58291296 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58291260 AAGCTAAAGC
58291270 TACTTTCTGAAGT
1 TACTTTCTGAAGT
58291283 TACTTTCTGAAGT
1 TACTTTCTGAAGT
58291296 T
1 T
58291297 CTTCCATTAT
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:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (13 bp):
TACTTTCTGAAGT
Found at i:58292210 original size:18 final size:18
Alignment explanation
Indices: 58292187--58292229 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
58292177 ATTGGTTTGG
58292187 TTATTTTACTTAGTAGT-T
1 TTATTTTACTTAGT-GTAT
*
58292205 TTATTTAACTTAGTGTAT
1 TTATTTTACTTAGTGTAT
58292223 TTATTTT
1 TTATTTT
58292230 CACAGGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.63
Consensus pattern (18 bp):
TTATTTTACTTAGTGTAT
Found at i:58317379 original size:60 final size:60
Alignment explanation
Indices: 58317306--58317426 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
58317296 GGTTTAGTAA
*
58317306 GTTTGTATGTGCATTAGTTTGCAAAATACCAAGTTCCCGTGAAATTATTCATAATAGCAT
1 GTTTGTATGTGCATTAGTTTGCAAAAGACCAAGTTCCCGTGAAATTATTCATAATAGCAT
**
58317366 GTTTGTATGTGCATTAGTTTGCAAAAGACCAAGTTGTCGTGAAATTATTCATAATAGCAT
1 GTTTGTATGTGCATTAGTTTGCAAAAGACCAAGTTCCCGTGAAATTATTCATAATAGCAT
58317426 G
1 G
58317427 AATGTGAGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (60 bp):
GTTTGTATGTGCATTAGTTTGCAAAAGACCAAGTTCCCGTGAAATTATTCATAATAGCAT
Found at i:58331325 original size:52 final size:52
Alignment explanation
Indices: 58331247--58331489 Score: 459
Period size: 52 Copynumber: 4.7 Consensus size: 52
58331237 NNNNNNNNNN
58331247 GAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTGTTTGAGCTTCAACC
1 GAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTGTTTGAGCTTCAACC
58331299 GAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTGTTTGAGCTTCAACC
1 GAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTGTTTGAGCTTCAACC
58331351 GAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTGTTTGAGCTTCAACC
1 GAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTGTTTGAGCTTCAACC
58331403 GAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTGTTTGAGCTTCAACC
1 GAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTGTTTGAGCTTCAACC
** *
58331455 GAGCTAGAAATGATATCTTAAGCTGCTGTCCATTA
1 GAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTA
58331490 CGTTTCCTTA
Statistics
Matches: 188, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 188 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (52 bp):
GAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTGTTTGAGCTTCAACC
Found at i:58337473 original size:27 final size:27
Alignment explanation
Indices: 58337432--58337502 Score: 110
Period size: 27 Copynumber: 2.6 Consensus size: 27
58337422 CACTAATGTG
58337432 TTGGCGAGCTGGGGGTTTGCTAGTCCT-T
1 TTGGCGAGCT-GGGGTTTGCTAGT-CTGT
58337460 TTGGCGAGCTGGGGTTTGCTAGTCTGT
1 TTGGCGAGCTGGGGTTTGCTAGTCTGT
58337487 TTGGCGA-CTGGGGTTT
1 TTGGCGAGCTGGGGTTT
58337503 TCCAGGATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
26 11 0.26
27 21 0.50
28 10 0.24
ACGTcount: A:0.07, C:0.15, G:0.41, T:0.37
Consensus pattern (27 bp):
TTGGCGAGCTGGGGTTTGCTAGTCTGT
Found at i:58339027 original size:39 final size:39
Alignment explanation
Indices: 58338971--58339046 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
58338961 ATTGAGATTA
*
58338971 TGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGT
1 TGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGT
* *
58339010 TGAGAGGTCCCCCGTAAGACCATGTCTTGGACATGGC
1 TGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGC
58339047 ATGGGCACTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.22
Consensus pattern (39 bp):
TGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGT
Found at i:58339090 original size:89 final size:93
Alignment explanation
Indices: 58338928--58339096 Score: 229
Period size: 89 Copynumber: 1.8 Consensus size: 93
58338918 GAGATCCCAT
* **
58338928 GTAAGACCATGTCTAGGACATGGCATTGACATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTAGGACATGGCATGGACATCA-T-AGATTATGAGAACTCCCATGTAAGACCA
*
58338993 TGTCTGGGACATGGCGTTGAGAGGTCCCCC
64 TATCTGGGACATGGCGTTGAGAGGTCCCCC
* *
58339023 GTAAGACCATGTCTTGGACATGGCATGGGCA-C-T-GA-TATGAGAACTCCCATGTAAGACCATA
1 GTAAGACCATGTCTAGGACATGGCATGGACATCATAGATTATGAGAACTCCCATGTAAGACCATA
*
58339084 TCTGGGATATGGC
66 TCTGGGACATGGC
58339097 ATTGGCAGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
89 35 0.52
90 2 0.03
92 1 0.01
94 1 0.01
95 28 0.42
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (93 bp):
GTAAGACCATGTCTAGGACATGGCATGGACATCATAGATTATGAGAACTCCCATGTAAGACCATA
TCTGGGACATGGCGTTGAGAGGTCCCCC
Found at i:58339137 original size:49 final size:50
Alignment explanation
Indices: 58339023--58339143 Score: 156
Period size: 49 Copynumber: 2.4 Consensus size: 50
58339013 GAGGTCCCCC
* * *
58339023 GTAAGACCATGTCTTGGACATGGCATGGGCACTGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACTGACAAGAGAACTCCCAT
* * * *
58339073 GTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAAGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACTGACAAGAGAAC-TCCCAT
58339122 GTAAGACCATGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
58339144 TCTTTGACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 3 0.05
49 30 0.49
50 28 0.46
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACTGACAAGAGAACTCCCAT
Found at i:58353051 original size:52 final size:52
Alignment explanation
Indices: 58352967--58353252 Score: 346
Period size: 52 Copynumber: 5.5 Consensus size: 52
58352957 TCTAGCGAGC
* * *
58352967 GATCAGGTTCTGTTATGAGTATATTCCTTACTAAGTTTTGAAATGTGTGAGT
1 GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
* * * *
58353019 GATCAAGTTCTGTTATGAGTATGTTTCATACTAAGTTTTGAAAAGTGTGAGT
1 GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
* ** *
58353071 GATTAGGTTCCATTATGATTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
1 GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
* * * *
58353123 GATCAGGTTTTGTTATGATTATATTCCATACTAAGTTTTCAAATGTGTTAGT
1 GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
* * ** *
58353175 GATTACGTTCCATTATGAGTATGTTCCATAC-AA-TTTTC-AATAGTATGAGT
1 GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAAT-GTGTGAGT
58353225 GATCAGGTT-TCGTTATGAGTATGTTCCA
1 GATCAGGTTCT-GTTATGAGTATGTTCCA
58353253 CAATCGTCAG
Statistics
Matches: 200, Mismatches: 32, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 3 0.01
50 34 0.17
51 2 0.01
52 161 0.81
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (52 bp):
GATCAGGTTCTGTTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGT
Found at i:58353153 original size:104 final size:104
Alignment explanation
Indices: 58352979--58353252 Score: 383
Period size: 104 Copynumber: 2.7 Consensus size: 104
58352969 TCAGGTTCTG
* * * * *
58352979 TTATGAGTATATTCCTTACTAAGTTTTGAAATGTGTGAGTGATCAAGTTCTGTTATGAGTATGTT
1 TTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGTGATCAGGTTTTGTTATGAGTATGTT
* * *
58353044 TCATACTAAGTTTTGAAAAGTGTGAGTGATTAGGTTCCA
66 CCATACTAAGTTTTCAAAAGTGTGAGTGATTACGTTCCA
* * *
58353083 TTATGATTATGTTCCATACTAAGTTTTCAAATGTGTGAGTGATCAGGTTTTGTTATGATTATATT
1 TTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGTGATCAGGTTTTGTTATGAGTATGTT
* *
58353148 CCATACTAAGTTTTCAAATGTGTTAGTGATTACGTTCCA
66 CCATACTAAGTTTTCAAAAGTGTGAGTGATTACGTTCCA
* *
58353187 TTATGAGTATGTTCCATAC-AA-TTTTC-AATAGTATGAGTGATCAGGTTTCGTTATGAGTATGT
1 TTATGAGTATGTTCCATACTAAGTTTTCAAAT-GTGTGAGTGATCAGGTTTTGTTATGAGTATGT
58353249 TCCA
65 TCCA
58353253 CAATCGTCAG
Statistics
Matches: 151, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
101 3 0.02
102 37 0.25
103 2 0.01
104 109 0.72
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (104 bp):
TTATGAGTATGTTCCATACTAAGTTTTCAAATGTGTGAGTGATCAGGTTTTGTTATGAGTATGTT
CCATACTAAGTTTTCAAAAGTGTGAGTGATTACGTTCCA
Found at i:58366341 original size:52 final size:52
Alignment explanation
Indices: 58366278--58366495 Score: 276
Period size: 52 Copynumber: 4.2 Consensus size: 52
58366268 CTATTTTCTG
* *
58366278 GTGAGTGATCAGGTTCCATTATGAGTTTGTTCCATACTAAGTTTTCAAAAGT
1 GTGAGTGATCAGGTTCCGTTATGAGTATGTTCCATACTAAGTTTTCAAAAGT
* * *
58366330 TTGAGTAATCAGGTTCCGTTATGAGTATGTTTCATACTAAGTTTT-AAAATGT
1 GTGAGTGATCAGGTTCCGTTATGAGTATGTTCCATACTAAGTTTTCAAAA-GT
* * * * *
58366382 GTAAGTGATCAAGTTCCTTTATGAGTATGTTCCATACTATGTTCTCAAAAGT
1 GTGAGTGATCAGGTTCCGTTATGAGTATGTTCCATACTAAGTTTTCAAAAGT
* * ** *
58366434 GAGTGTGATCAGGTTTTGTTATGAGTATGTTCTATACTAAGTTTTCAAAAGT
1 GTGAGTGATCAGGTTCCGTTATGAGTATGTTCCATACTAAGTTTTCAAAAGT
*
58366486 GCGAGTGATC
1 GTGAGTGATC
58366496 GGTAATCTTC
Statistics
Matches: 139, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
51 4 0.03
52 131 0.94
53 4 0.03
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (52 bp):
GTGAGTGATCAGGTTCCGTTATGAGTATGTTCCATACTAAGTTTTCAAAAGT
Found at i:58392869 original size:28 final size:28
Alignment explanation
Indices: 58392832--58392918 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
58392822 ATCTGGTTAT
* *
58392832 TGTATTGGGCTAAGGCCCACGCTATTAC
1 TGTACTGGGCTAAGGCCCACACTATTAC
*
58392860 TGTGCTGGGCTAAGGCCCACACTATTAC
1 TGTACTGGGCTAAGGCCCACACTATTAC
* * * *
58392888 TGTATTGGGATAAGGCCCACATTGTTAC
1 TGTACTGGGCTAAGGCCCACACTATTAC
58392916 TGT
1 TGT
58392919 TTGGGGCTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (28 bp):
TGTACTGGGCTAAGGCCCACACTATTAC
Found at i:58392926 original size:56 final size:56
Alignment explanation
Indices: 58392832--58392938 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 56
58392822 ATCTGGTTAT
* *
58392832 TGTATTGGGCTAAGGCCCACGCTATTACTGTGCTGGGCT-AAGGCCCACACTATTAC
1 TGTATTGGGATAAGGCCCACACTATTACTGTGCTGGGCTGAA-GCCCACACTATTAC
* * *
58392888 TGTATTGGGATAAGGCCCACATTGTTACTGT-TTGGGGCTGAAGCCCACACT
1 TGTATTGGGATAAGGCCCACACTATTACTGTGCT-GGGCTGAAGCCCACACT
58392939 GTATTGTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
55 1 0.02
56 41 0.93
57 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.28
Consensus pattern (56 bp):
TGTATTGGGATAAGGCCCACACTATTACTGTGCTGGGCTGAAGCCCACACTATTAC
Found at i:58392950 original size:56 final size:56
Alignment explanation
Indices: 58392829--58392950 Score: 133
Period size: 56 Copynumber: 2.2 Consensus size: 56
58392819 AGTATCTGGT
* * *
58392829 TATTGTATTGGGCTAAGGCCCACGCTATTACTGTGCTGGGCTAAGGCCCACACTAT
1 TATTGTATTGGGATAAGGCCCACACTATTACTGTGCTGGGCTAAGGCCCACACTAG
* * * *
58392885 TACTGTATTGGGATAAGGCCCACATTGTTACTGT-TTGGGGCTGAA-GCCCACACT-G
1 TATTGTATTGGGATAAGGCCCACACTATTACTGTGCT-GGGCT-AAGGCCCACACTAG
58392940 TATTGTTATTG
1 TATTG-TATTG
58392951 TATAGGGCTC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
55 5 0.09
56 48 0.87
57 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (56 bp):
TATTGTATTGGGATAAGGCCCACACTATTACTGTGCTGGGCTAAGGCCCACACTAG
Found at i:58393643 original size:17 final size:17
Alignment explanation
Indices: 58393621--58393654 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58393611 TCCATAGTAT
58393621 TTCAATACATAAATAAA
1 TTCAATACATAAATAAA
58393638 TTCAATACATAAATAAA
1 TTCAATACATAAATAAA
58393655 GTTTTACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (17 bp):
TTCAATACATAAATAAA
Found at i:58393772 original size:40 final size:40
Alignment explanation
Indices: 58393715--58393904 Score: 236
Period size: 40 Copynumber: 4.8 Consensus size: 40
58393705 TAATTATTAA
58393715 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
** *
58393755 TGATTGCACATGTGTGCCCCTATTTGTACTTCGATACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*
58393795 TGATTGCACATACGTGCCCCTATTTGTACTTCTGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * * * *
58393835 TAATTACACATACATGCCTCTGTTTGTACTTTGATACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
58393875 TAAATGCACTTACGTGCCCCTGTTTATACT
1 TGATTGCACATACGTGCCCCTATTTGTACT
58393905 CTAGTAACCC
Statistics
Matches: 129, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:58393794 original size:20 final size:19
Alignment explanation
Indices: 58393731--58393836 Score: 74
Period size: 20 Copynumber: 5.3 Consensus size: 19
58393721 CACATACGTG
58393731 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTC-GTA
* *
58393751 CCCCTGA-TTGCACATGT-GTG
1 CCCCT-ATTTGTAC-T-TCGTA
58393771 CCCCTATTTGTACTTCGATA
1 CCCCTATTTGTACTTCG-TA
* * *
58393791 CCCCTGA-TTGCACATACGTG
1 CCCCT-ATTTGTAC-TTCGTA
58393811 CCCCTATTTGTACTTCTGTA
1 CCCCTATTTGTACTTC-GTA
58393831 CCCCTA
1 CCCCTA
58393837 ATTACACATA
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
18 1 0.02
19 6 0.09
20 52 0.79
21 6 0.09
22 1 0.02
ACGTcount: A:0.17, C:0.33, G:0.15, T:0.35
Consensus pattern (19 bp):
CCCCTATTTGTACTTCGTA
Found at i:58396135 original size:13 final size:13
Alignment explanation
Indices: 58396117--58396143 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58396107 TTTCCCGAAA
58396117 TTATGAATTTATT
1 TTATGAATTTATT
58396130 TTATGAATTTATT
1 TTATGAATTTATT
58396143 T
1 T
58396144 AATGTTGACT
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:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:58396323 original size:50 final size:50
Alignment explanation
Indices: 58396243--58396428 Score: 273
Period size: 50 Copynumber: 3.7 Consensus size: 50
58396233 ATTTGGGTAA
* *
58396243 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTTGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
58396293 AGAGTTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * *
58396343 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
**
58396393 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
58396429 TTTTGCAAGT
Statistics
Matches: 122, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 93 0.76
51 29 0.24
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:58399464 original size:21 final size:22
Alignment explanation
Indices: 58399431--58399485 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
58399421 TGTTTCTCTC
*
58399431 TCAC-TTTCCTTTTCGCCTTTT
1 TCACTTTTCATTTTCGCCTTTT
**
58399452 TCA-TTTTCATTTTCTTCTTTT
1 TCACTTTTCATTTTCGCCTTTT
58399473 TCACTTTT-ATTTT
1 TCACTTTTCATTTT
58399486 TCTCTTCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.09, C:0.24, G:0.02, T:0.65
Consensus pattern (22 bp):
TCACTTTTCATTTTCGCCTTTT
Found at i:58405133 original size:51 final size:51
Alignment explanation
Indices: 58405069--58405203 Score: 155
Period size: 51 Copynumber: 2.6 Consensus size: 51
58405059 AAAGTGATGG
* *
58405069 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCTGATAGT-TTCAA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTAAT-AA
* * * ** * * **
58405120 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATCGGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTAATAA
58405171 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
58405204 TGAACCGAAC
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
51 68 0.99
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTAATAA
Found at i:58410025 original size:17 final size:17
Alignment explanation
Indices: 58410005--58410038 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58409995 TTTTTTATAG
58410005 TTAAAATAATTTTTGAA
1 TTAAAATAATTTTTGAA
58410022 TTAAAATAATTTTTGAA
1 TTAAAATAATTTTTGAA
58410039 AATGATGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TTAAAATAATTTTTGAA
Found at i:58414939 original size:33 final size:34
Alignment explanation
Indices: 58414884--58414947 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
58414874 TCTCTGATTT
58414884 TCTTTCTTTTTCCTCTCGTGTTTTTACCTCACAC
1 TCTTTCTTTTTCCTCTCGTGTTTTTACCTCACAC
* *
58414918 TCTTTGTTTTT-CTCTCTTGTTTTTACCTCA
1 TCTTTCTTTTTCCTCTCGTGTTTTTACCTCA
58414948 TTCTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.08, C:0.28, G:0.06, T:0.58
Consensus pattern (34 bp):
TCTTTCTTTTTCCTCTCGTGTTTTTACCTCACAC
Found at i:58414965 original size:12 final size:11
Alignment explanation
Indices: 58414948--58414985 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 11
58414938 TTTTACCTCA
58414948 TTCTTTTCTTT
1 TTCTTTTCTTT
58414959 CTTCTTTTCTATT
1 -TTCTTTTCT-TT
58414972 TTCTTTTCTTT
1 TTCTTTTCTTT
58414983 TTC
1 TTC
58414986 CTTCTCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.20
12 18 0.72
13 2 0.08
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:58414997 original size:24 final size:24
Alignment explanation
Indices: 58414948--58414996 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
58414938 TTTTACCTCA
*
58414948 TTCTTTTCTTTCTTCTTTTCTATT
1 TTCTTTTCTTTCTTCTTCTCTATT
58414972 TTCTTTTCTTT-TTCCTTCTC-ATT
1 TTCTTTTCTTTCTT-CTTCTCTATT
58414995 TT
1 TT
58414997 TTTCCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (24 bp):
TTCTTTTCTTTCTTCTTCTCTATT
Found at i:58415007 original size:23 final size:22
Alignment explanation
Indices: 58414965--58415011 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
58414955 CTTTCTTCTT
*
58414965 TTCTATTTTCTTTTCTTTTTCC
1 TTCTATTTTCTTTCCTTTTTCC
58414987 TTCTCATTTT-TTTCCTCTTTTCC
1 TTCT-ATTTTCTTTCCT-TTTTCC
58415010 TT
1 TT
58415012 TTGCTCTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (22 bp):
TTCTATTTTCTTTCCTTTTTCC
Found at i:58416706 original size:40 final size:40
Alignment explanation
Indices: 58416642--58416772 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 40
58416632 TGTTTGGATA
* * * *
58416642 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTCTG
1 AAAAATGCCGCTATAAATCGAGCATTAGCGGCACTTTTTG
* * *
58416682 AAAAATGCCGCTATAAATCAAGCATTAGCGACTCTTTTTG
1 AAAAATGCCGCTATAAATCGAGCATTAGCGGCACTTTTTG
* *
58416722 AAAAATGTCGCTATACATCGAGCATTAGCGGCACTTTTTG
1 AAAAATGCCGCTATAAATCGAGCATTAGCGGCACTTTTTG
58416762 AAAAATGCCGC
1 AAAAATGCCGC
58416773 AAAAAAATTA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (40 bp):
AAAAATGCCGCTATAAATCGAGCATTAGCGGCACTTTTTG
Found at i:58416852 original size:40 final size:39
Alignment explanation
Indices: 58416807--58416915 Score: 121
Period size: 39 Copynumber: 2.7 Consensus size: 39
58416797 AGCTTTAGTG
*
58416807 GCATTAGTGGCGCTTTCTGAAAAACGCCGCTATA-GATCTA
1 GCATTAGTGGCGCTTT-TGAAAAACGCCGCTATATG-TCGA
* * * * *
58416847 GCATTAGCGGCGCTTTTCAGAAATGCTGCTATATGTCGA
1 GCATTAGTGGCGCTTTTGAAAAACGCCGCTATATGTCGA
*
58416886 CCATTAGTGGCGCTTATTGAAAAACGCCGC
1 GCATTAGTGGCGCTT-TTGAAAAACGCCGC
58416916 AAAAAAATTA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
39 29 0.53
40 26 0.47
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (39 bp):
GCATTAGTGGCGCTTTTGAAAAACGCCGCTATATGTCGA
Found at i:58416932 original size:143 final size:145
Alignment explanation
Indices: 58416663--58417076 Score: 451
Period size: 143 Copynumber: 2.8 Consensus size: 145
58416653 TATAGATCGA
* * * * * *
58416663 GCATTAGCGGCGCTTTCTGAAAAATGCCGCTATAAATCAAGCATTAGCGACTCTTTTTGAAAAAT
1 GCATTAGTGGCGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCGC-TTTTAAAAAAT
* * *
58416728 G-TCGCTATACATCGAGCATTAGCGGCACTTTTTGAAAAATGCCGCAAAAAAATTAAGCACAA-C
65 GCT-GCTATA-GTCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACC
58416791 GCCA-TA-AGCTTTAGTG
128 GCCATTATAGCTTTAGTG
* * *
58416807 GCATTAGTGGCGCTTTCTGAAAAACGCCGCTATAGATCTAGCATTAGCGGCGCTTTTCAGAAATG
1 GCATTAGTGGCGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTTAAAAAATG
* * *
58416872 CTGCTATATGTCGACCATTAGTGGCGCTTATTGAAAAACGCCGCAAAAAAATTAAGCACAATGCC
66 CTGCTATA-GTCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAA--CC
58416937 GCCATTTTATGTTGAGCTTTAGTG
128 GCCA--TTA---T-AGCTTTAGTG
* * * * * *
58416961 GCATTAGTGGCACTTTTTAAAAAACGTCG-TCATAGGTCGAGCATTAGCGGCGCTTCTTAAAAAA
1 GCATTAGTGGCGCTTTCTGAAAAACGCCGCT-ATAGATCAAGCATTAGCGGCGCTT-TTAAAAAA
* *
58417025 TGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCACAAAAAA
64 TGCTGCTATAG-TCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAA
58417077 TTTAGTAAGA
Statistics
Matches: 227, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
143 62 0.27
144 48 0.21
146 5 0.02
149 2 0.01
153 1 0.00
154 58 0.26
155 51 0.22
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (145 bp):
GCATTAGTGGCGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTTAAAAAATG
CTGCTATAGTCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACCGCC
ATTATAGCTTTAGTG
Found at i:58417021 original size:40 final size:40
Alignment explanation
Indices: 58416961--58417068 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
58416951 AGCTTTAGTG
* * * *
58416961 GCATTAGTGGCACTTTTTAAAAAACGTCG-TCATAGGTCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCT-ATAGATCGA
* *
58417001 GCATTAGCGGCGCTTCTTAAAAAATGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGA
*
58417041 GCATTAGCGGCGCTTTTTGAAAAACGCC
1 GCATTAGCGGCGCTTTTTAAAAAACGCC
58417069 ACAAAAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 57 0.98
41 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGA
Found at i:58417078 original size:154 final size:154
Alignment explanation
Indices: 58416797--58417076 Score: 402
Period size: 154 Copynumber: 1.8 Consensus size: 154
58416787 CAACGCCATA
* * *
58416797 AGCTTTAGTGGCATTAGTGGCGCTTTCTGAAAAACGCCGCTATAGATCTAGCATTAGCGGCGCTT
1 AGCTTTAGTGGCATTAGTGGCACTTTCTAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTT
* * * * *
58416862 TTCAGAAATGCTGCTATATGTCGACCATTAGTGGCGCTTATTGAAAAACGCCGCAAAAAAATTAA
66 TTAAAAAATGCCGCTATATGTCGACCATTAGCGGCGCTTATTGAAAAACGCCACAAAAAAATTAA
58416927 GCACAATGCCGCCATTTTATGTTG
131 GCACAATGCCGCCATTTTATGTTG
* * *
58416951 AGCTTTAGTGGCATTAGTGGCACTTTTTAAAAAACGTCG-TCATAGGTCGAGCATTAGCGGCGCT
1 AGCTTTAGTGGCATTAGTGGCACTTTCTAAAAAACGCCGCT-ATAGATCGAGCATTAGCGGCGCT
* *
58417015 TCTTAAAAAATGCCGCTATA-GATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCACAAAAAA
65 T-TTAAAAAATGCCGCTATATG-TCGACCATTAGCGGCGCTTATTGAAAAACGCCACAAAAAA
58417077 TTTAGTAAGA
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
153 1 0.01
154 58 0.53
155 51 0.46
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (154 bp):
AGCTTTAGTGGCATTAGTGGCACTTTCTAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTT
TTAAAAAATGCCGCTATATGTCGACCATTAGCGGCGCTTATTGAAAAACGCCACAAAAAAATTAA
GCACAATGCCGCCATTTTATGTTG
Found at i:58417548 original size:15 final size:15
Alignment explanation
Indices: 58417528--58417559 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58417518 AAAGGCTTGT
*
58417528 GGATTATGGGTTTAG
1 GGATTATGGGTTAAG
58417543 GGATTATGGGTTAAG
1 GGATTATGGGTTAAG
58417558 GG
1 GG
58417560 TTGAGGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (15 bp):
GGATTATGGGTTAAG
Found at i:58418207 original size:37 final size:37
Alignment explanation
Indices: 58418156--58418229 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
58418146 GAAATTTGAT
*
58418156 ATATGAAAGGTTGATTGCTTTCATTAGATAATTCTAA
1 ATATGAAAGATTGATTGCTTTCATTAGATAATTCTAA
*
58418193 ATATGAGAGATTGATTGCTTTCATTAGATAATTCTAA
1 ATATGAAAGATTGATTGCTTTCATTAGATAATTCTAA
58418230 CTTAATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (37 bp):
ATATGAAAGATTGATTGCTTTCATTAGATAATTCTAA
Found at i:58421798 original size:23 final size:24
Alignment explanation
Indices: 58421772--58421834 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 24
58421762 ATAATACTAT
*
58421772 TTTATATACATATGTATATAT-AA
1 TTTATATACAAATGTATATATCAA
* *
58421795 TTTATAT-CAAAT-TAT-TTTCAT
1 TTTATATACAAATGTATATATCAA
58421816 TTTATATACAAATGTATAT
1 TTTATATACAAATGTATAT
58421835 TATTGATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 2 0.06
21 11 0.33
22 9 0.27
23 10 0.30
24 1 0.03
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (24 bp):
TTTATATACAAATGTATATATCAA
Found at i:58421851 original size:42 final size:44
Alignment explanation
Indices: 58421770--58421852 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
58421760 ATATAATACT
* *
58421770 ATTTTATATACATATGTATATATAATTTATATCAAATTATTTTC
1 ATTTTATATACAAATGTATATATAATTGATATCAAATTATTTTC
*
58421814 ATTTTATATACAAATGTATAT-T-ATTGATATCACATTATT
1 ATTTTATATACAAATGTATATATAATTGATATCAAATTATT
58421853 GTATTTTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 15 0.42
43 1 0.03
44 20 0.56
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (44 bp):
ATTTTATATACAAATGTATATATAATTGATATCAAATTATTTTC
Found at i:58427671 original size:43 final size:43
Alignment explanation
Indices: 58427624--58427747 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
58427614 AAAGTGATGT
* * * *
58427624 TAAAGGTCATGGTCCTTAGCGGTGT-TTATGATAAAAGCGCCAC
1 TAAAGGTCATGCTCTTTAGCGGCGTGTT-TGATAAAAGCACCAC
*
58427667 TAAAGGTCATGCTCTTTAGCGGCGTGTTTGATAAAAGCACCGC
1 TAAAGGTCATGCTCTTTAGCGGCGTGTTTGATAAAAGCACCAC
* * * *
58427710 TAAAGGTCATGCTCTTTAGCAGCCTTTTTCATAAAAGC
1 TAAAGGTCATGCTCTTTAGCGGCGTGTTTGATAAAAGC
58427748 GTCGTTAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 69 0.97
44 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGCTCTTTAGCGGCGTGTTTGATAAAAGCACCAC
Found at i:58427714 original size:86 final size:86
Alignment explanation
Indices: 58427561--58427729 Score: 198
Period size: 86 Copynumber: 2.0 Consensus size: 86
58427551 GGGTGTTATA
* * * * * * * *
58427561 GTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGTAGCGATTGTGATAAAAGTGATGTTA
1 GTTTATGATAAAAGCGCCACTAAAGGTCATGCTCTTTAGCAGCGATTGTGATAAAAGTCACGCTA
*
58427626 AAGGTCATGGTCCTTAGCGGT
66 AAGGTCATGCTCCTTAGCGGT
* *
58427647 GTTTATGATAAAAGCGCCACTAAAGGTCATGCTCTTTAGCGGCG-TGTTTGATAAAAG-CACCGC
1 GTTTATGATAAAAGCGCCACTAAAGGTCATGCTCTTTAGCAGCGAT-TGTGATAAAAGTCA-CGC
*
58427710 TAAAGGTCATGCTCTTTAGC
64 TAAAGGTCATGCTCCTTAGC
58427730 AGCCTTTTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 2 0.03
86 67 0.97
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (86 bp):
GTTTATGATAAAAGCGCCACTAAAGGTCATGCTCTTTAGCAGCGATTGTGATAAAAGTCACGCTA
AAGGTCATGCTCCTTAGCGGT
Found at i:58431810 original size:20 final size:19
Alignment explanation
Indices: 58431777--58431815 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
58431767 TTATTGACAA
**
58431777 AATTTTGATTTGGTTCTGTG
1 AATTTTGACATGGTT-TGTG
58431797 AATTTTGACATGGTTTGTG
1 AATTTTGACATGGTTTGTG
58431816 GGTTTCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.05, G:0.26, T:0.51
Consensus pattern (19 bp):
AATTTTGACATGGTTTGTG
Found at i:58434107 original size:50 final size:49
Alignment explanation
Indices: 58433962--58434146 Score: 191
Period size: 50 Copynumber: 3.8 Consensus size: 49
58433952 ACCAGGTTCA
* * * *
58433962 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-TCCGATA-
1 CATAGTAGCCTGCACATAGTACTACACACGTGACC--TATCATTCTGGTAC
** *
58434011 CAT-GTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TAT-TGGTAC
1 CATAGTAGCCTGCACATAGTACTACACACGTGA-CCTATCAT-TCTGGTAC
*
58434059 GCATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCTGGTAC
1 -CATAGTAGCCTGCACATAGTACTACACACGTGACCTATCATTCTGGTAC
* *
58434109 ACGTAGTAGCCTGCACATAGTACTATACACGTGACCTA
1 -CATAGTAGCCTGCACATAGTACTACACACGTGACCTA
58434147 GAAACTTCAC
Statistics
Matches: 113, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
47 4 0.04
48 29 0.26
49 11 0.10
50 69 0.61
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
CATAGTAGCCTGCACATAGTACTACACACGTGACCTATCATTCTGGTAC
Found at i:58434327 original size:16 final size:16
Alignment explanation
Indices: 58434302--58434333 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58434292 ATCCAGTCCA
58434302 AAAATAACATTTTTGC
1 AAAATAACATTTTTGC
*
58434318 AAAATTACATTTTTGC
1 AAAATAACATTTTTGC
58434334 CCCTAAAGTT
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:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAATAACATTTTTGC
Found at i:58438853 original size:21 final size:21
Alignment explanation
Indices: 58438807--58438883 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 21
58438797 TACAGGCTGC
* **
58438807 TCACACGGGCGCGTGTCCCCT
1 TCACACGGGCGTGTGTGGCCT
* *
58438828 CCACAGGGGCGTGTGTGGCCT
1 TCACACGGGCGTGTGTGGCCT
* *
58438849 TCACACGAGCATGTGTGGCCT
1 TCACACGGGCGTGTGTGGCCT
* *
58438870 TTACATGGGCGTGT
1 TCACACGGGCGTGT
58438884 AGACTCCCAC
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.13, C:0.30, G:0.34, T:0.23
Consensus pattern (21 bp):
TCACACGGGCGTGTGTGGCCT
Found at i:58440187 original size:27 final size:27
Alignment explanation
Indices: 58440157--58440211 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
58440147 AAAAGTGTAA
*
58440157 AATTGTAGTTAAATTGTGAAATATTAT
1 AATTGAAGTTAAATTGTGAAATATTAT
58440184 AATTGAAGTTAAATTGTGAAATATTAT
1 AATTGAAGTTAAATTGTGAAATATTAT
58440211 A
1 A
58440212 TGGATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (27 bp):
AATTGAAGTTAAATTGTGAAATATTAT
Found at i:58442362 original size:16 final size:16
Alignment explanation
Indices: 58442341--58442424 Score: 75
Period size: 16 Copynumber: 5.2 Consensus size: 16
58442331 AAAAATTATG
58442341 TTTTCTATCCTTCTAA
1 TTTTCTATCCTTCTAA
58442357 TTTTCTATCCCTTC-AA
1 TTTTCTAT-CCTTCTAA
* *
58442373 TTTTCCATCCTTCTAG
1 TTTTCTATCCTTCTAA
*
58442389 TTTGCTATCCCTT-T-A
1 TTTTCTAT-CCTTCTAA
* *
58442404 TTTTTTCATCTTTCTAA
1 TTTTCT-ATCCTTCTAA
58442421 TTTT
1 TTTT
58442425 ATTTCCACCC
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
15 12 0.22
16 28 0.52
17 14 0.26
ACGTcount: A:0.15, C:0.25, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTTCTATCCTTCTAA
Found at i:58442383 original size:32 final size:32
Alignment explanation
Indices: 58442341--58442424 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
58442331 AAAAATTATG
*
58442341 TTTTCTATCCTTCTAATTTTCTATCCCTTCAA
1 TTTTCCATCCTTCTAATTTTCTATCCCTTCAA
* * * *
58442373 TTTTCCATCCTTCTAGTTTGCTATCCCTTTAT
1 TTTTCCATCCTTCTAATTTTCTATCCCTTCAA
* *
58442405 TTTTTCATCTTTCTAATTTT
1 TTTTCCATCCTTCTAATTTT
58442425 ATTTCCACCC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.15, C:0.25, G:0.02, T:0.57
Consensus pattern (32 bp):
TTTTCCATCCTTCTAATTTTCTATCCCTTCAA
Found at i:58444112 original size:152 final size:151
Alignment explanation
Indices: 58443944--58444511 Score: 906
Period size: 152 Copynumber: 3.7 Consensus size: 151
58443934 TTGTTCCTAT
* *
58443944 TTTTTTTCCCAGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTATTTTACATTA
1 TTTTTTTCCCAGATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATTA
*
58444009 TTTTAGTACATTATGCTTGAAATGTGTTAATTTACTGTGTTTTTTAAATAAATTAAAAAAATCCT
66 TTTTAGTACATTATGCTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTAAAAAAATCCT
58444074 TATTTTGGCTCTTTATTCGTA
131 TATTTTGGCTCTTTATTCGTA
*
58444095 TTTTTTTCCCCGAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATT
1 TTTTTTTCCCAG-ATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATT
*
58444160 ATTTTAGTACATTATGCTTGAAATGTGTTAATTTACTGTGTTTTTTAAATAAATTAAAAAAATCC
65 ATTTTAGTACATTATGCTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTAAAAAAATCC
58444225 TTATTTTGGCTCTTTATTCGTA
130 TTATTTTGGCTCTTTATTCGTA
*
58444247 TTTTTTTCCCCGAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATT
1 TTTTTTTCCCAG-ATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATT
* * * *
58444312 ATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTATGTTTTTTAAATAAATTTAAAAAAATC
65 ATTTTAGTACATTATGCTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA-TTAAAAAAATC
* * *
58444377 TTTATTTCGGC-CATTTGTTCGTA
129 CTTATTTTGGCTC-TTTATTCGTA
* *
58444400 TTTTTTTCCCAGATTTTATTACTTTCAATAAAAA-ATATTATTTTCTACTTTTATTATTTTATAT
1 TTTTTTTCCCAGATTTTATTACTTT-AA-AAAAATATATTATTTTCTAATTTTATTATTTTACAT
* * *
58444464 TATTTTAGTACATTATGCTTGAAATGTATTCATGTAGTGTGTTTTTTA
64 TATTTTAGTACATTATGCTTGAAATGTATTAATTTACTGTGTTTTTTA
58444512 TTGAAAGCAA
Statistics
Matches: 395, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
151 11 0.03
152 264 0.67
153 115 0.29
154 5 0.01
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (151 bp):
TTTTTTTCCCAGATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATTA
TTTTAGTACATTATGCTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTAAAAAAATCCT
TATTTTGGCTCTTTATTCGTA
Found at i:58444656 original size:16 final size:16
Alignment explanation
Indices: 58444635--58444672 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
58444625 AAAATAATTT
58444635 AAAATAATAGAA-TACG
1 AAAATAATAGAATTA-G
*
58444651 AAAATAATATAATTAG
1 AAAATAATAGAATTAG
58444667 AAAATA
1 AAAATA
58444673 TTATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (16 bp):
AAAATAATAGAATTAG
Found at i:58445227 original size:125 final size:125
Alignment explanation
Indices: 58445006--58445279 Score: 462
Period size: 125 Copynumber: 2.2 Consensus size: 125
58444996 CGTTTACGTA
58445006 CTTTTGCTACAGTAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAA
1 CTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAA
* * * * * *
58445070 ATTGCTTCTAGCAGGATGCTGTTTGATAAGAATTTGTGAAATCGCTG-CCTCGTGGATGCG
66 ATCGATTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCAC-GCCCTCGTGGACGCG
*
58445130 CTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAA
1 CTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAA
58445195 ATCGATTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCG
66 ATCGATTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCG
58445255 CTTTTGCTACAGTAGGTCCTGGAAA
1 CTTTTGCTACAGTAGGTCCTGGAAA
58445280 TTGAGAGGAT
Statistics
Matches: 140, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
124 21 0.15
125 119 0.85
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (125 bp):
CTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAA
ATCGATTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCG
Found at i:58450290 original size:43 final size:43
Alignment explanation
Indices: 58450228--58450471 Score: 283
Period size: 43 Copynumber: 5.7 Consensus size: 43
58450218 CAATGTCACA
* *
58450228 GCTAAAGCTCATGTTCTTTAGCAGCGCTTATCCCACAAACGCC
1 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCC
* * *
58450271 ACTAAAGGTCATGCTCTTTAGCGGCGCTTATTCCACAAACGCC
1 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCC
* * * *
58450314 GGTAAAGGTCATGTTCTTTAGTGGCGCTTATCTCAAAAACGCC
1 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCC
* *
58450357 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCTACAATCGCC
1 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCC
* * * * * * * ** *
58450400 GCTATAGATCTTG-ACTTTTAGTGGCGCTTTTCTCGTAAGCGCC
1 GCTAAAGGTCATGTTC-TTTAGCGGCGCTTATCCCACAAACGCC
58450443 GCTAAAGGTCATGTTCTTTAGCGGCGCTT
1 GCTAAAGGTCATGTTCTTTAGCGGCGCTT
58450472 TTTCCAAAAA
Statistics
Matches: 165, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 163 0.99
44 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (43 bp):
GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCC
Found at i:58450481 original size:129 final size:129
Alignment explanation
Indices: 58450228--58450471 Score: 330
Period size: 129 Copynumber: 1.9 Consensus size: 129
58450218 CAATGTCACA
*
58450228 GCTAAAGCTCATGTTCTTTAGCAGCGCTTATCCCACAAACGCCACTAAAGGTCATGCTCTTTAGC
1 GCTAAAGCTCATGTTCTTTAGCAGCGCTTATCCCACAAACGCCACTAAAGATCATGCTCTTTAGC
* *
58450293 GGCGCTTATTCCACAAACGCCGGTAAAGGTCATGTTCTTTAGTGGCGCTTATCTCAAAAACGCC
66 GGCGCTTATTCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCTCAAAAACGCC
* * * * * * *
58450357 GCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCTACAATCGCCGCTATAGATCTTGACT-TTTAG
1 GCTAAAGCTCATGTTCTTTAGCAGCGCTTATCCCACAAACGCCACTAAAGATCATG-CTCTTTAG
* ** *
58450421 TGGCGCTT-TTCTCGTAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
65 CGGCGCTTATTC-CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
58450472 TTTCCAAAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
128 3 0.03
129 94 0.95
130 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (129 bp):
GCTAAAGCTCATGTTCTTTAGCAGCGCTTATCCCACAAACGCCACTAAAGATCATGCTCTTTAGC
GGCGCTTATTCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCTCAAAAACGCC
Found at i:58450502 original size:86 final size:86
Alignment explanation
Indices: 58450264--58450533 Score: 244
Period size: 86 Copynumber: 3.1 Consensus size: 86
58450254 CTTATCCCAC
* * * * * * * **
58450264 AAACGCCACTAAAGGTCATGCTCTTTAGCGGCGCTTATTCCACAAA-CGCCGGTAAAGGTCATG-
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTA-TCCAAAAATCACCGCTATAGATCGCGA
* *
58450327 TTCTTTAGTGGCGCTTATCTCAA
65 CT-TTTAGTGGCGCTTTTCTCAA
* * * **
58450350 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCTACAATCGCCGCTATAGATCTTGAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCAAAAATCACCGCTATAGATCGCGAC
**
58450415 TTTTAGTGGCGCTTTTCTCGT
66 TTTTAGTGGCGCTTTTCTCAA
* * *
58450436 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAAAAAT-ACCG-TAATAGATGGCG
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTATCCAAAAATCACCGCT-ATAGATCGCG
* *
58450499 ACTTTTAGCGACGCTTTT-TCGAA
64 ACTTTTAGTGGCGCTTTTCTC-AA
*
58450522 AAACGCCACTAA
1 AAACGCCGCTAA
58450534 TTTTGGAATT
Statistics
Matches: 152, Mismatches: 27, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
85 8 0.05
86 134 0.88
87 10 0.07
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (86 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCAAAAATCACCGCTATAGATCGCGAC
TTTTAGTGGCGCTTTTCTCAA
Found at i:58452566 original size:136 final size:136
Alignment explanation
Indices: 58452322--58452596 Score: 505
Period size: 136 Copynumber: 2.0 Consensus size: 136
58452312 TCTGCAGGTT
*
58452322 CATCAGGTGTAATTGAAACATTCGAAGATCCAATAGCAGTCTGTTGTTCAGTACTATTTGTTTCT
1 CATCAGGTGTAATCGAAACATTCGAAGATCCAATAGCAGTCTGTTGTTCAGTACTATTTGTTTCT
*
58452387 GCCGAGTTTGGAGTATTTTGAACAATGCTTAGATCTCGCACCTTTCTTCTAGGCATTTTATCTGC
66 ACCGAGTTTGGAGTATTTTGAACAATGCTTAGATCTCGCACCTTTCTTCTAGGCATTTTATCTGC
58452452 AATACA
131 AATACA
* * *
58452458 CATCAGGTGTAATCGTAACATTCGAAGATCCAATAGCAGTTTGTTGTTTAGTACTATTTGTTTCT
1 CATCAGGTGTAATCGAAACATTCGAAGATCCAATAGCAGTCTGTTGTTCAGTACTATTTGTTTCT
58452523 ACCGAGTTTGGAGTATTTTGAACAATGCTTAGATCTCGCACCTTTCTTCTAGGCATTTTATCTGC
66 ACCGAGTTTGGAGTATTTTGAACAATGCTTAGATCTCGCACCTTTCTTCTAGGCATTTTATCTGC
58452588 AATACA
131 AATACA
58452594 CAT
1 CAT
58452597 AAAATAGTTG
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 134 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (136 bp):
CATCAGGTGTAATCGAAACATTCGAAGATCCAATAGCAGTCTGTTGTTCAGTACTATTTGTTTCT
ACCGAGTTTGGAGTATTTTGAACAATGCTTAGATCTCGCACCTTTCTTCTAGGCATTTTATCTGC
AATACA
Found at i:58456661 original size:25 final size:25
Alignment explanation
Indices: 58456633--58456711 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
58456623 ATTAATTAAA
*
58456633 TTATGTAAGTTATGTATTATATAAG
1 TTATGTAAGTTATATATTATATAAG
* *
58456658 TTATGTAAGTTACATATTATGTAAG
1 TTATGTAAGTTATATATTATATAAG
* * * *
58456683 CTATGTAAGTTGTATTTTATGTAAG
1 TTATGTAAGTTATATATTATATAAG
58456708 TTAT
1 TTAT
58456712 TTATTATGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (25 bp):
TTATGTAAGTTATATATTATATAAG
Found at i:58456688 original size:41 final size:40
Alignment explanation
Indices: 58456632--58456736 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 40
58456622 TATTAATTAA
*
58456632 ATTATGTAAGTTATGTA-TTATATAAGTTATGTAAGTTACAT
1 ATTATGTAAGCTATGTAGTTATAT--GTTATGTAAGTTACAT
* * **
58456673 ATTATGTAAGCTATGTAAGTTGTATTTTATGTAAGTTATTT
1 ATTATGTAAGCTATGT-AGTTATATGTTATGTAAGTTACAT
58456714 ATTATGTAAGCTATGTAAGTTAT
1 ATTATGTAAGCTATGT-AGTTAT
58456737 GTATTATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 50 0.89
42 1 0.02
43 5 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (40 bp):
ATTATGTAAGCTATGTAGTTATATGTTATGTAAGTTACAT
Found at i:58456703 original size:66 final size:65
Alignment explanation
Indices: 58456632--58456970 Score: 290
Period size: 66 Copynumber: 5.3 Consensus size: 65
58456622 TATTAATTAA
* **
58456632 ATTATGTAAGTTATGTATTATATAAGTTATGTAAGTTACATATTATGTAAGCTATGTAAGTTGTA
1 ATTATGTAAGCTATGTATTATAT-AGTTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTA
58456697 T
65 T
* * * * * *
58456698 TTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATATAAGCTATGTCATAGACT
1 ATTATGTAAGCTATGTATTATAT-AGTTATGTAAGTTATGTATTATGTAAGCTATGT-A-AG--T
58456763 T-T-T
61 TGTAT
* * *
58456766 -TTATGTAAG-T-TG---TAT-T--TTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATAT
1 ATTATGTAAGCTATGTATTATATAGTTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTAT
* * * *
58456822 ATCATGTAAGCTATGTAAGTTGTAT-TTTATGTAAGTTATTTATTATGTAAGCTATGTAAGGTTG
1 ATTATGTAAGCTATGT-A-TTATATAGTTATGTAAGTTATGTATTATGTAAGCTATGTAA-GTTG
*
58456886 TGT
63 TAT
* * * *
58456889 ATT-TGTAAGCTATGTATTATGTTAGTTATGTAAGTTATGTATTATGTATGTTATGTAAGTTGTG
1 ATTATGTAAGCTATGTATTAT-ATAGTTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTA
58456953 T
65 T
**
58456954 AGAATGTAAGCTATGTA
1 ATTATGTAAGCTATGTA
58456971 AGTTATGTGA
Statistics
Matches: 227, Mismatches: 26, Indels: 40
0.77 0.09 0.14
Matches are distributed among these distances:
54 2 0.01
55 1 0.00
56 3 0.01
57 9 0.04
58 28 0.12
59 2 0.01
61 1 0.00
62 3 0.01
64 5 0.02
65 12 0.05
66 138 0.61
67 17 0.07
68 3 0.01
69 1 0.00
70 2 0.01
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (65 bp):
ATTATGTAAGCTATGTATTATATAGTTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTAT
Found at i:58456721 original size:25 final size:25
Alignment explanation
Indices: 58456693--58456976 Score: 99
Period size: 25 Copynumber: 10.8 Consensus size: 25
58456683 CTATGTAAGT
*
58456693 TGTATTTTATGTAAGTTATTTATTA
1 TGTATGTTATGTAAGTTATTTATTA
* * *
58456718 TGTAAGCTATGTAAGTTATGTATTA
1 TGTATGTTATGTAAGTTATTTATTA
* * * *
58456743 TATAAGCTATGTCATAGACTTTTTTATGTAA
1 TGTATGTTATGT-A-AG--TTATTTAT-T-A
*
58456774 GTTGTATTTTATGTAAGTTATTTATTA
1 --TGTATGTTATGTAAGTTATTTATTA
* * * * *
58456801 TGTAAGCTACGTAAGTTATATATCA
1 TGTATGTTATGTAAGTTATTTATTA
* * *
58456826 TGTAAGCTATGTAAGTTGTATT-TTA
1 TGTATGTTATGTAAGTTAT-TTATTA
* * * *
58456851 TGTAAGTTAT-TTA-TTATGTAAGCTA
1 TGTATGTTATGTAAGTTAT-TTA-TTA
* *
58456876 TGTAAGGTTGTGTATTTGTAAGCTATGTATTA
1 TGT-A---TGT-TA--TGTAAGTTATTTATTA
*
58456908 TGT-TAGTTATGTAAGTTATGTATTA
1 TGTAT-GTTATGTAAGTTATTTATTA
* * **
58456933 TGTATGTTATGTAAGTTGTGTAGAA
1 TGTATGTTATGTAAGTTATTTATTA
* *
58456958 TGTAAGCTATGTAAGTTAT
1 TGTATGTTATGTAAGTTAT
58456977 GTGAGTTATA
Statistics
Matches: 196, Mismatches: 41, Indels: 44
0.70 0.15 0.16
Matches are distributed among these distances:
23 4 0.02
24 2 0.01
25 135 0.69
26 4 0.02
27 6 0.03
28 3 0.02
29 15 0.08
30 3 0.02
31 3 0.02
32 7 0.04
33 11 0.06
34 3 0.02
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.48
Consensus pattern (25 bp):
TGTATGTTATGTAAGTTATTTATTA
Found at i:58456782 original size:83 final size:83
Alignment explanation
Indices: 58456684--58456837 Score: 272
Period size: 83 Copynumber: 1.9 Consensus size: 83
58456674 TTATGTAAGC
* * *
58456684 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATATAAG
1 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATATATCATATAAG
58456749 CTATGTCATAGACTTTTT
66 CTATGTCATAGACTTTTT
*
58456767 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATATATCATGTAAG
1 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATATATCATATAAG
58456832 CTATGT
66 CTATGT
58456838 AAGTTGTATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (83 bp):
TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATATATCATATAAG
CTATGTCATAGACTTTTT
Found at i:58456944 original size:41 final size:41
Alignment explanation
Indices: 58456725--58456945 Score: 166
Period size: 41 Copynumber: 5.4 Consensus size: 41
58456715 TTATGTAAGC
*
58456725 TATGTAAGTTATGTATTATATAAGCTATGTCATAGACTT-T-T-T
1 TATGTAAGTTATGTATTATGTAAGCTATGT-A-AG--TTGTGTAT
* * * * * * *
58456767 TATGTAAGTTGTATTTTATGTAAGTTAT-TTA-TTATGTAAGC
1 TATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTGT-A-T
* * * * *
58456808 TACGTAAGTTATATATCATGTAAGCTATGTAAGTTGTATTT
1 TATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTGTAT
*
58456849 TATGTAAGTTATTTATTATGTAAGCTATGTAAGGTTGTGTAT
1 TATGTAAGTTATGTATTATGTAAGCTATGTAA-GTTGTGTAT
* * * *
58456891 T-TGTAAGCTATGTATTATGTTAGTTATGTAAGTTATGTAT
1 TATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTGTAT
*
58456931 TATGTATGTTATGTA
1 TATGTAAGTTATGTA
58456946 AGTTGTGTAG
Statistics
Matches: 141, Mismatches: 29, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
36 2 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 9 0.06
41 90 0.64
42 33 0.23
43 4 0.03
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.48
Consensus pattern (41 bp):
TATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTGTAT
Found at i:58457092 original size:37 final size:37
Alignment explanation
Indices: 58457045--58457116 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
58457035 TAAGTTGTGA
58457045 AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAT
1 AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAT
*
58457082 AAGTTGTGTATTATGTAAGTTATTTAAGTTATGTA
1 AAGTTATGTATTATGTAAGTTATTTAAGTTATGTA
58457117 TTACGAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (37 bp):
AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAT
Found at i:58457957 original size:15 final size:16
Alignment explanation
Indices: 58457922--58457955 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
58457912 AACTTTTCAA
58457922 TTTAAAAAAAATATTT
1 TTTAAAAAAAATATTT
58457938 TTTAAAAAATAA-ATTT
1 TTTAAAAAA-AATATTT
58457954 TT
1 TT
58457956 AATAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAAAAAAATATTT
Found at i:58458612 original size:9 final size:9
Alignment explanation
Indices: 58458598--58458628 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
58458588 GTTAAACAAA
58458598 TCGAGTTAT
1 TCGAGTTAT
*
58458607 TCGAGTTAA
1 TCGAGTTAT
58458616 TCGAGTTAT
1 TCGAGTTAT
58458625 TCGA
1 TCGA
58458629 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:58458726 original size:9 final size:9
Alignment explanation
Indices: 58458679--58458733 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
58458669 TGAGTTTTCG
58458679 AATTCGAAT
1 AATTCGAAT
*
58458688 AACTCGAAT
1 AATTCGAAT
*
58458697 AACTCGAAT
1 AATTCGAAT
58458706 AATTCGAAT
1 AATTCGAAT
58458715 AATTCGAAT
1 AATTCGAAT
*
58458724 AATTCAAAT
1 AATTCGAAT
58458733 A
1 A
58458734 TCAAACTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:58459831 original size:15 final size:15
Alignment explanation
Indices: 58459811--58459848 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
58459801 TAATTATTTA
58459811 AAAAAATTATTTTTG
1 AAAAAATTATTTTTG
* *
58459826 AAAAAAATATTTTTT
1 AAAAAATTATTTTTG
58459841 AAAAAATT
1 AAAAAATT
58459849 TTAAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
AAAAAATTATTTTTG
Found at i:58461815 original size:22 final size:25
Alignment explanation
Indices: 58461764--58461816 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 25
58461754 TTTTGATGAT
58461764 TAAATTATTGTTATTAAATATGCTTG
1 TAAATTATTGTTATT-AATATGCTTG
58461790 -AAATTATTG-TATT-ATAT-CTTG
1 TAAATTATTGTTATTAATATGCTTG
58461811 TAAATT
1 TAAATT
58461817 GGATTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.15
22 9 0.35
24 4 0.15
25 9 0.35
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (25 bp):
TAAATTATTGTTATTAATATGCTTG
Found at i:58470862 original size:12 final size:13
Alignment explanation
Indices: 58470842--58470909 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 13
58470832 TTCAACATCT
58470842 TTTTCTTTTTCAA
1 TTTTCTTTTTCAA
58470855 TTTT-TTTTTCAATA
1 TTTTCTTTTTC-A-A
*
58470869 TCAATTTCCTTTTCAA
1 T---TTTCTTTTTCAA
58470885 TTTTCTTTTCTTC-A
1 TTTTC-TTT-TTCAA
58470899 TTTTCTTTTTC
1 TTTTCTTTTTC
58470910 TCTCACTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
12 9 0.20
13 12 0.27
14 10 0.22
15 3 0.07
16 2 0.04
17 4 0.09
18 5 0.11
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTCTTTTTCAA
Found at i:58470863 original size:30 final size:30
Alignment explanation
Indices: 58470829--58470894 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
58470819 CTCTCGTTTC
** *
58470829 TTTTTCAACATCTTTTTCTTTTTCAATTTT
1 TTTTTCAACATCAATTTCCTTTTCAATTTT
*
58470859 TTTTTCAATATCAATTTCCTTTTCAATTTT
1 TTTTTCAACATCAATTTCCTTTTCAATTTT
*
58470889 CTTTTC
1 TTTTTC
58470895 TTCATTTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTTCAACATCAATTTCCTTTTCAATTTT
Found at i:58470936 original size:18 final size:18
Alignment explanation
Indices: 58470915--58470973 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
58470905 TTTTCTCTCA
*
58470915 CTTTTTCGATTCCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
58470933 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
58470951 CTTTTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
58470969 GTTTT
1 CTTTT
58470974 CTTTTAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.71
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:58470990 original size:6 final size:6
Alignment explanation
Indices: 58470885--58470978 Score: 55
Period size: 6 Copynumber: 15.5 Consensus size: 6
58470875 TCCTTTTCAA
* * ** * * *
58470885 TTTTCTT TTCTTCA TTTTCT TTTTCT CTCACT TTTTCG ATTCCT TTTTCT
1 TTTTC-T TT-TTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* * * * *
58470935 TTTGCA ATTTCT TTTTCT TTTTCG TTTTCT TTTT-G TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
58470979 AATTTCTTTT
Statistics
Matches: 61, Mismatches: 24, Indels: 5
0.68 0.27 0.06
Matches are distributed among these distances:
5 4 0.07
6 50 0.82
7 4 0.07
8 3 0.05
ACGTcount: A:0.05, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
TTTTCT
Found at i:58472091 original size:8 final size:9
Alignment explanation
Indices: 58472059--58472091 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
58472049 TTTTTTCCCT
58472059 TTTTTTTGA
1 TTTTTTTGA
58472068 TTTTTTTGA
1 TTTTTTTGA
58472077 TTTTTTT-A
1 TTTTTTTGA
58472085 TTTTTTT
1 TTTTTTT
58472092 TCTAGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:58473747 original size:20 final size:19
Alignment explanation
Indices: 58473724--58473788 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
58473714 AAGCTCAAAC
58473724 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
58473744 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
58473764 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
58473784 GAGCT
1 GAGCT
58473789 GCGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:58475850 original size:20 final size:20
Alignment explanation
Indices: 58475822--58475860 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
58475812 TTTAACAATT
*
58475822 TATAGTTTT-TTAGATTTTTA
1 TATACTTTTATTA-ATTTTTA
58475842 TATACTTTTATTAATTTTT
1 TATACTTTTATTAATTTTT
58475861 GAATGGTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TATACTTTTATTAATTTTTA
Found at i:58478991 original size:43 final size:43
Alignment explanation
Indices: 58478923--58479233 Score: 359
Period size: 43 Copynumber: 7.4 Consensus size: 43
58478913 GGTTTTGGAA
* * * *
58478923 ACAAACGCCGCTAAAGAGCAAGACCTTTAGCAGCACTTTTTCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
* * * *
58478966 AAAAACGCCGCTAAAGAGCTGGACCTTTAGCTGCGCTTTTGCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
* *
58479009 ACAAATGCCGCTAAAGAGCAGGACCTTTAGCGGTGCTTTTCCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
*
58479052 ACAAACGCAGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
* * * * * *
58479095 AAAAACACAGCTAAAGAGCCGGACTTTTAGCGGTGCTTTTCCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
* *
58479138 ACAAGCCCCGCTAAA-A--A-G-CC---AGACGGCGCTTTTTCCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAG-CGGCGC-TTTTCCC
* *
58479175 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCAGCACTTTTCCC
1 ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
58479218 ACAAACGCCGCTAAAG
1 ACAAACGCCGCTAAAG
58479234 GTCATGAAAA
Statistics
Matches: 227, Mismatches: 31, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
35 2 0.01
36 5 0.02
37 20 0.09
38 2 0.01
39 1 0.00
40 1 0.00
41 1 0.00
42 3 0.01
43 186 0.82
44 4 0.02
45 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCC
Found at i:58479214 original size:80 final size:79
Alignment explanation
Indices: 58479082--58479232 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
58479072 GGACCTTTAG
* * * ** *
58479082 CGGCGCTTTTCCCAAAAACACAGCTAAAGAGCCGGACTTTTAGCGGTGCTTTTCCCACAAGCCCC
1 CGGCGCTTTTCCCAAAAACACAGCTAAAGAGCAGGACCTTTAGCAGCACTTTTCCCACAAACCCC
58479147 GCTAAAAAGCCAGA
66 GCTAAAAAGCCAGA
* * * *
58479161 CGGCGCTTTTTCCCACAAACGCCGCTAAAGAGCAGGACCTTTAGCAGCACTTTTCCCACAAACGC
1 CGGCGC-TTTTCCCAAAAACACAGCTAAAGAGCAGGACCTTTAGCAGCACTTTTCCCACAAACCC
58479226 CGCTAAA
65 CGCTAAA
58479233 GGTCATGAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 6 0.10
80 55 0.90
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (79 bp):
CGGCGCTTTTCCCAAAAACACAGCTAAAGAGCAGGACCTTTAGCAGCACTTTTCCCACAAACCCC
GCTAAAAAGCCAGA
Found at i:58480752 original size:9 final size:9
Alignment explanation
Indices: 58480735--58480771 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
58480725 TAAGTTTTCG
58480735 AATTCGAAT
1 AATTCGAAT
*
58480744 AACTCGAAT
1 AATTCGAAT
58480753 AATTCGAAT
1 AATTCGAAT
58480762 AATTCGAAT
1 AATTCGAAT
58480771 A
1 A
58480772 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:58482524 original size:9 final size:9
Alignment explanation
Indices: 58482510--58482535 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
58482500 CAATAATGGT
58482510 TGTAACCTC
1 TGTAACCTC
58482519 TGTAACCTC
1 TGTAACCTC
58482528 TGTAACCT
1 TGTAACCT
58482536 GTTTGTGAAA
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:0.23, C:0.31, G:0.12, T:0.35
Consensus pattern (9 bp):
TGTAACCTC
Found at i:58482683 original size:4 final size:4
Alignment explanation
Indices: 58482674--58482703 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
58482664 ATAATGTCGT
58482674 AGGG AGGG AGGG AGGG AGGG AGGG AGGG AG
1 AGGG AGGG AGGG AGGG AGGG AGGG AGGG AG
58482704 AGAGAGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (4 bp):
AGGG
Found at i:58484837 original size:165 final size:162
Alignment explanation
Indices: 58484610--58485044 Score: 626
Period size: 165 Copynumber: 2.7 Consensus size: 162
58484600 TATTTTTTGC
58484610 ATTGCTTATCTATTGCGGCGTTTTTCATAAAAACGCCACAAAAAAATTATTTCATTTTTAACAAA
1 ATTGCTTATCTATTGCGGCGTTTTTCATAAAAACGCCACAAAAAAATTATTTCATTTTTAACAAA
58484675 ATGACGCCGTTTTACTATGCTAAAAATTTTTATTTTGTTTTTTATAAATTGATTTATTTTTTGCG
66 ATGACGCCGTTTTACTATGCTAAAAATTTTTATTTTG-TTTTTATAAATTGATTTA-TTTTTGCG
58484740 GCGTTTTTTAAGCGTTTTTATAAAAAAATGCCGCT
129 GC-TTTTTTAAGCGTTTTTATAAAAAAATGCCGCT
* **
58484775 ATTGTTTATCTATTGCGGCGTTTTTCATAAAAATTCCACAAAAAAATTATTTCATTTTTAACAAA
1 ATTGCTTATCTATTGCGGCGTTTTTCATAAAAACGCCACAAAAAAATTATTTCATTTTTAACAAA
**
58484840 ATGACGCCGTTTTACTATGCTAAATTTTTTTATTTTGTTTTTATAAATTGATTTATTTTTGCGGC
66 ATGACGCCGTTTTACTATGCTAAAAATTTTTATTTTGTTTTTATAAATTGATTTATTTTTGCGGC
* *
58484905 -----T-----TTTTTAT-ACAAAACGCCGCT
131 TTTTTTAAGCGTTTTTATAAAAAAATGCCGCT
* * * * *
58484926 ATTGCTTATCTATTGCGGCGTTTTTAATAAAAACGTCGC-AAAAAGTTATTTCATTTTGAACAAA
1 ATTGCTTATCTATTGCGGCGTTTTTCATAAAAACGCCACAAAAAAATTATTTCATTTTTAACAAA
58484990 ATGACGCCGTTTTACTATGCTAAAAATTTTATTATTTT-TTTTTATAAATTGATTT
66 ATGACGCCGTTTTACTATGCTAAAAA-TTT-TTATTTTGTTTTTATAAATTGATTT
58485045 TTTATAAAAT
Statistics
Matches: 251, Mismatches: 17, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
150 47 0.19
151 64 0.25
152 14 0.06
157 1 0.00
163 10 0.04
164 18 0.07
165 97 0.39
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (162 bp):
ATTGCTTATCTATTGCGGCGTTTTTCATAAAAACGCCACAAAAAAATTATTTCATTTTTAACAAA
ATGACGCCGTTTTACTATGCTAAAAATTTTTATTTTGTTTTTATAAATTGATTTATTTTTGCGGC
TTTTTTAAGCGTTTTTATAAAAAAATGCCGCT
Found at i:58485489 original size:21 final size:21
Alignment explanation
Indices: 58485465--58485545 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
58485455 CCAAACCCCT
58485465 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCTTAAATCCC
*
58485486 AACCCTTAAACCAT-AATCCC
1 AACCCTTAAACCTTAAATCCC
* * * * *
58485506 TAATCCATAATCCCTAAAT-TC
1 -AACCCTTAAACCTTAAATCCC
58485527 ATACTCCTTAAACCTTAAA
1 A-AC-CCTTAAACCTTAAA
58485546 ATATGAACTC
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
20 7 0.15
21 25 0.54
22 14 0.30
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (21 bp):
AACCCTTAAACCTTAAATCCC
Found at i:58485513 original size:14 final size:14
Alignment explanation
Indices: 58485496--58485522 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58485486 AACCCTTAAA
58485496 CCATAATCCCTAAT
1 CCATAATCCCTAAT
58485510 CCATAATCCCTAA
1 CCATAATCCCTAA
58485523 ATTCATACTC
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:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Done.