Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold110
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: 1159294
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 6
Found at i:9648 original size:97 final size:97
Alignment explanation
Indices: 9531--9717 Score: 320
Period size: 97 Copynumber: 1.9 Consensus size: 97
9521 AAAAACTGGA
* *
9531 TTGGAGTATCCCCTCAGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGAATA
1 TTGGAGTATCCCCTCAGAGGAATGGGGTTGAAATGTCCCCGATGATGACAATTTAAGTGAGAATA
*
9596 AGATTTAAACTTTGATGCGTTTAAAAGCAGGG
66 AGATTTAAACTTTAATGCGTTTAAAAGCAGGG
* * *
9628 TTGGAGTATCCCTTCGGAGGAATGGGGTTGAAATGTCCCCGATGGTGACAATTTAAGTGAGAATA
1 TTGGAGTATCCCCTCAGAGGAATGGGGTTGAAATGTCCCCGATGATGACAATTTAAGTGAGAATA
9693 AGATTTAAACTTTAATGCGTTTAAA
66 AGATTTAAACTTTAATGCGTTTAAA
9718 CTTTGAGTGA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 84 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (97 bp):
TTGGAGTATCCCCTCAGAGGAATGGGGTTGAAATGTCCCCGATGATGACAATTTAAGTGAGAATA
AGATTTAAACTTTAATGCGTTTAAAAGCAGGG
Found at i:9862 original size:70 final size:70
Alignment explanation
Indices: 9768--9922 Score: 247
Period size: 70 Copynumber: 2.2 Consensus size: 70
9758 GGAGGAATGA
* *
9768 GGTTGAAGTGTCCCCGATGATGACAATTTAAATGAAAATAAGATTTAAACTTTGATGCATTTAAA
1 GGTTGGAGTATCCCCGATGATGACAATTTAAATGAAAATAAGATTTAAACTTTGATGCATTTAAA
9833 AGCAG
66 AGCAG
* * * *
9838 GGTTGGAGTATCCTCGATGGTGACAATTTAAGTGAGAATAAGATTTAAACTTTGATGCATTTAAA
1 GGTTGGAGTATCCCCGATGATGACAATTTAAATGAAAATAAGATTTAAACTTTGATGCATTTAAA
*
9903 AGCGG
66 AGCAG
9908 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
9923 TCGGAGGAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 77 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (70 bp):
GGTTGGAGTATCCCCGATGATGACAATTTAAATGAAAATAAGATTTAAACTTTGATGCATTTAAA
AGCAG
Found at i:11775 original size:11 final size:11
Alignment explanation
Indices: 11691--11778 Score: 95
Period size: 11 Copynumber: 7.7 Consensus size: 11
11681 ACTAGCCTTA
11691 TTTTTTTTCTACC
1 TTTTTTTTCT--C
* *
11704 TCTTTGTTTCTA
1 T-TTTTTTTCTC
*
11716 TTTCTTTTCTC
1 TTTTTTTTCTC
* *
11727 TTTTCTTTCTT
1 TTTTTTTTCTC
11738 TTTTTTTTCTC
1 TTTTTTTTCTC
*
11749 TTTTTATTCTC
1 TTTTTTTTCTC
11760 TTTTTTTTCTC
1 TTTTTTTTCTC
11771 TTTTTTTT
1 TTTTTTTT
11779 TATTTGAGCC
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
11 52 0.84
12 1 0.02
13 1 0.02
14 8 0.13
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:20061 original size:32 final size:32
Alignment explanation
Indices: 19988--20109 Score: 113
Period size: 32 Copynumber: 3.9 Consensus size: 32
19978 AGATAAAACT
* * * **
19988 TTTATTAATTATTAAATTTACGAGTAATTAGG
1 TTTATTATTTATCAAATTTATGAGTAATTATA
* *
20020 TTTAATATTTATCAAATTTATGAGTAATTTTA
1 TTTATTATTTATCAAATTTATGAGTAATTATA
* * * *
20052 TTTATTATTTTTTAAATTTATAATTAATTATA
1 TTTATTATTTATCAAATTTATGAGTAATTATA
* *
20084 TTTA--ATTCATCAAATTTATGATTAAT
1 TTTATTATTTATCAAATTTATGAGTAAT
20110 ATTAATTTAA
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
30 18 0.25
32 55 0.75
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (32 bp):
TTTATTATTTATCAAATTTATGAGTAATTATA
Found at i:20068 original size:64 final size:63
Alignment explanation
Indices: 19988--20131 Score: 155
Period size: 64 Copynumber: 2.3 Consensus size: 63
19978 AGATAAAACT
* * * * * *
19988 TTTATTAATTATTAAATTTACGAGTAATTAGGTTTAATATTTATCAAATTTATGAGTAAT-TTTA
1 TTTATTATTTTTTAAATTTACAAGTAATTAGATTT-A-ATTCATCAAATTTATGAGTAATATTAA
* * * *
20052 TTTATTATTTTTTAAATTTATAATTAATTATATTTAATTCATCAAATTTATGATTAATATTAA
1 TTTATTATTTTTTAAATTTACAAGTAATTAGATTTAATTCATCAAATTTATGAGTAATATTAA
*
20115 TTTAAATATTTTTTAAA
1 TTT-ATTATTTTTTAAA
20132 AGTTAAAGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
62 20 0.30
63 7 0.10
64 40 0.60
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (63 bp):
TTTATTATTTTTTAAATTTACAAGTAATTAGATTTAATTCATCAAATTTATGAGTAATATTAA
Found at i:20641 original size:19 final size:19
Alignment explanation
Indices: 20575--20641 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 19
20565 AACCATTTTT
20575 CTTCAAAACCCTAAACCAA
1 CTTCAAAACCCTAAACCAA
*
20594 CTT-AAAA-ACTAAACCTAAA
1 CTTCAAAACCCTAAACC--AA
20613 TCTTAATCAAAACCCTAAACCAA
1 -C-T--TCAAAACCCTAAACCAA
20636 CTTCAA
1 CTTCAA
20642 TTCTTGCTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 16
0.68 0.04 0.29
Matches are distributed among these distances:
17 7 0.18
18 4 0.11
19 9 0.24
20 1 0.03
21 2 0.05
22 1 0.03
23 3 0.08
24 4 0.11
25 7 0.18
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (19 bp):
CTTCAAAACCCTAAACCAA
Found at i:22597 original size:306 final size:307
Alignment explanation
Indices: 22019--22636 Score: 1204
Period size: 306 Copynumber: 2.0 Consensus size: 307
22009 GTTATGATTA
22019 AATTTAATTTTATGGTAACTAAGCTTTTTTTTTTTTGTAGAAGTTTAAATTTGTTGTTACTAACT
1 AATTTAATTTTATGGTAACTAAGCTTTTTTTTTTTTGTAGAAGTTTAAATTTGTTGTTACTAACT
22084 AAGATATGATTTAAGCTTTTTAAATAAATAATTTAAAATTTAATTTCATTGTATAAGTTTTTTAA
66 AAGATATGATTTAAGCTTTTTAAATAAATAATTTAAAATTTAATTTCATTGTATAAGTTTTTTAA
22149 GTTGAAAAATGTACTTTTTTTTTGTTTTGATATTTTTTTTGTTTTTTTATTCTTATGATTAACTT
131 GTTGAAAAATGTACTTTTTTTTTGTTTTGATATTTTTTTTGTTTTTTTATTCTTATGATTAACTT
*
22214 TGTAATTTATTATTATGATTAAATAAAAAAAATATAATTAGCTTTGTAATTTATTATTATGATTA
196 TGTAATTTATTATTATGATTAAATAAAAAAAATATAATTAGCTTTGTAATTTATTATTATAATTA
22279 AATTTAATTTTATTGTAACTAAGTTTAATTTAAGTATGATGAAATTT
261 AATTTAATTTTATTGTAACTAAGTTTAATTTAAGTATGATGAAATTT
22326 AATTTAATTTTATGGTAACTAAGCTTTTTTTTTTTTGTAGAAGTTTAAATTTGTTGTTACTAACT
1 AATTTAATTTTATGGTAACTAAGCTTTTTTTTTTTTGTAGAAGTTTAAATTTGTTGTTACTAACT
*
22391 AAGGTATGATTTAAGCTTTTTAAATAAATAATTTAAAATTTAATTTCATTGTATAAGTTTTTTAA
66 AAGATATGATTTAAGCTTTTTAAATAAATAATTTAAAATTTAATTTCATTGTATAAGTTTTTTAA
22456 GTTGAAAAATGTAC-TTTTTTTTGTTTTGATATTTTTTTTGTTTTTTTATTCTTATGATTAACTT
131 GTTGAAAAATGTACTTTTTTTTTGTTTTGATATTTTTTTTGTTTTTTTATTCTTATGATTAACTT
22520 TGTAATTTATTATTATGATTAAATAAAAAAAATATAATTAGCTTTGTAATTTATTATTATAATTA
196 TGTAATTTATTATTATGATTAAATAAAAAAAATATAATTAGCTTTGTAATTTATTATTATAATTA
22585 AATTTAATTTTATTGTAACTAAGTTTAATTTAAGTATGATGAAATTT
261 AATTTAATTTTATTGTAACTAAGTTTAATTTAAGTATGATGAAATTT
22632 -ATTTA
1 AATTTA
22637 TGTTCTAATA
Statistics
Matches: 309, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
305 5 0.02
306 161 0.52
307 143 0.46
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.53
Consensus pattern (307 bp):
AATTTAATTTTATGGTAACTAAGCTTTTTTTTTTTTGTAGAAGTTTAAATTTGTTGTTACTAACT
AAGATATGATTTAAGCTTTTTAAATAAATAATTTAAAATTTAATTTCATTGTATAAGTTTTTTAA
GTTGAAAAATGTACTTTTTTTTTGTTTTGATATTTTTTTTGTTTTTTTATTCTTATGATTAACTT
TGTAATTTATTATTATGATTAAATAAAAAAAATATAATTAGCTTTGTAATTTATTATTATAATTA
AATTTAATTTTATTGTAACTAAGTTTAATTTAAGTATGATGAAATTT
Found at i:22611 original size:21 final size:21
Alignment explanation
Indices: 22573--22615 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22563 TTGTAATTTA
*
22573 TTATTATAATTAAATTTAATT
1 TTATTATAACTAAATTTAATT
* *
22594 TTATTGTAACTAAGTTTAATT
1 TTATTATAACTAAATTTAATT
22615 T
1 T
22616 AAGTATGATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TTATTATAACTAAATTTAATT
Found at i:23772 original size:34 final size:35
Alignment explanation
Indices: 23734--23800 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
23724 CCTTACAACA
23734 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
23768 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
23801 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:24318 original size:22 final size:22
Alignment explanation
Indices: 24263--24318 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
24253 ACAGTGACCT
*
24263 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGAAAC
24285 ATGAA-AGTGATGTATCGAAAC
1 ATGAACAGTGATGTATCGAAAC
24306 ATGAACAGTGATG
1 ATGAACAGTGATG
24319 AATAGTGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGAAAC
Found at i:24325 original size:10 final size:10
Alignment explanation
Indices: 24306--24336 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24296 GTATCGAAAC
24306 ATGAACAGTG
1 ATGAACAGTG
*
24316 ATGAATAGTG
1 ATGAACAGTG
24326 ATGAACAGTG
1 ATGAACAGTG
24336 A
1 A
24337 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:24396 original size:18 final size:19
Alignment explanation
Indices: 24360--24396 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24350 CTACTACCAA
*
24360 TGTATCGATACATATTTTG
1 TGTATCAATACATATTTTG
24379 TGTATCAATACA-ATTTTG
1 TGTATCAATACATATTTTG
24397 GCTACTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (19 bp):
TGTATCAATACATATTTTG
Found at i:24424 original size:53 final size:53
Alignment explanation
Indices: 24360--24496 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
24350 CTACTACCAA
* *
24360 TGTATCGATACATATTTTGTGTATCAATACAATTTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
24413 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
24466 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
24497 TATGCAATCT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.83
54 13 0.17
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:24603 original size:21 final size:21
Alignment explanation
Indices: 24577--24617 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24567 GTCAACCTTG
24577 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
24598 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
24618 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:26532 original size:19 final size:19
Alignment explanation
Indices: 26507--26553 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
26497 ACTATAGATC
*
26507 GAACATG-ATAAAATGCAT
1 GAACATGTAAAAAATGCAT
26525 GAAACATGGTAAAAAATGCAT
1 G-AACAT-GTAAAAAATGCAT
26546 GAACATGT
1 GAACATGT
26554 GGCTGTCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 7 0.28
20 6 0.24
21 11 0.44
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (19 bp):
GAACATGTAAAAAATGCAT
Found at i:27611 original size:20 final size:20
Alignment explanation
Indices: 27583--27630 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
27573 ATAAGGTCCA
* *
27583 GTATTGATATATTCACTAAT
1 GTATCGATACATTCACTAAT
*
27603 GTATCGATACATTCACTTAT
1 GTATCGATACATTCACTAAT
27623 GTATCGAT
1 GTATCGAT
27631 GCAAATGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTCACTAAT
Found at i:28283 original size:61 final size:62
Alignment explanation
Indices: 28212--28395 Score: 205
Period size: 52 Copynumber: 3.2 Consensus size: 62
28202 CTAATAAACA
* *
28212 GATTCAAGGCCTA-CGACACTAGACTTAAAGATGATAAGGATGAGAAGAGTGCCAATGTGCT
1 GATTCAAGGCCTAGCGACATTAGACTTAAAGATGATAAGGATGAGAAGAGTGCTAATGTGCT
* * *
28273 AATTCAAGGCC-AGCGACATTAGACTTGAAGATG---A-GA--A-AA-A-TGCTAATGAGCT
1 GATTCAAGGCCTAGCGACATTAGACTTAAAGATGATAAGGATGAGAAGAGTGCTAATGTGCT
* * *
28325 GATTCAAGG-CTAGTGACATTGGACTTAAA-ATGATAAGGATGAGAAGAGTGTTAATGTGCT
1 GATTCAAGGCCTAGCGACATTAGACTTAAAGATGATAAGGATGAGAAGAGTGCTAATGTGCT
28385 GATTCAAGGCC
1 GATTCAAGGCC
28396 AATGAAATTG
Statistics
Matches: 100, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
51 4 0.04
52 33 0.33
53 1 0.01
54 3 0.03
55 3 0.03
57 3 0.03
58 3 0.03
59 1 0.01
60 20 0.20
61 29 0.29
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.23
Consensus pattern (62 bp):
GATTCAAGGCCTAGCGACATTAGACTTAAAGATGATAAGGATGAGAAGAGTGCTAATGTGCT
Found at i:28406 original size:60 final size:60
Alignment explanation
Indices: 28302--28414 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
28292 TAGACTTGAA
* * *
28302 GATGAGAAAAATGCTAATGAGCTGATTCAAGGCTAGTGACATTGGACTTAAAATGATAAG
1 GATGAGAAAAATGCTAATGAGCTGATTCAAGGCCAATGAAATTGGACTTAAAATGATAAG
* * * * *
28362 GATGAGAAGAGTGTTAATGTGCTGATTCAAGGCCAATGAAATTGGGCTTAAAA
1 GATGAGAAAAATGCTAATGAGCTGATTCAAGGCCAATGAAATTGGACTTAAAA
28415 ATAATAAAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.26
Consensus pattern (60 bp):
GATGAGAAAAATGCTAATGAGCTGATTCAAGGCCAATGAAATTGGACTTAAAATGATAAG
Found at i:28464 original size:52 final size:51
Alignment explanation
Indices: 28381--28570 Score: 193
Period size: 52 Copynumber: 3.7 Consensus size: 51
28371 AGTGTTAATG
* *
28381 TGCTGATTCAAGGCCA-ATGAAATTGGGCTTAAAAATAATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGA-GATATTGGACTTAAAAATAA-AAAGGTGCCAATA
* * * * *
28433 TGCTGATTTAAGGCCAGAGATATCGGACTTAAAGATGACAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGAGATATTGGACTTAAAAAT-AAAAAGGTGCCAATA
* * * * *
28485 TGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATAAGAAGAGTGCCAATA
1 TGCTGATTCAAGGCCAGAGATATTGGACTTAAAAATAAAAAG-GTGCCAATA
* * * *
28537 TGCTAATTTAAGGCTAGCGATATTGGACTTAAAA
1 TGCTGATTCAAGGCCAGAGATATTGGACTTAAAA
28571 GATATGGTTT
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
51 4 0.03
52 109 0.95
53 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (51 bp):
TGCTGATTCAAGGCCAGAGATATTGGACTTAAAAATAAAAAGGTGCCAATA
Found at i:28546 original size:104 final size:104
Alignment explanation
Indices: 28377--28569 Score: 280
Period size: 104 Copynumber: 1.9 Consensus size: 104
28367 GAAGAGTGTT
* * *
28377 AATGTGCTGATTCAAGGCCAATGAAATTGGGCTTAAAAATAATAAAGGTGCCAATATGCTGATTT
1 AATGTGCTGATTCAAGGCCAATGAAATTGGACTTAAAAATAAGAAAGGTGCCAATATGCTAATTT
28442 AAGGCCAGAGATATCGGACTTAAAGATGACAAAGGTGCC
66 AAGGCCAGAGATATCGGACTTAAAGATGACAAAGGTGCC
* * * *
28481 AATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATAAG-AAGAGTGCCAATATGCTAATT
1 AATGTGCTGATTCAAGGCCAATGAAATTGGACTTAAAAATAAGAAAG-GTGCCAATATGCTAATT
* * *
28545 TAAGGCTAGCGATATTGGACTTAAA
65 TAAGGCCAGAGATATCGGACTTAAA
28570 AGATATGGTT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 3 0.04
104 75 0.96
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (104 bp):
AATGTGCTGATTCAAGGCCAATGAAATTGGACTTAAAAATAAGAAAGGTGCCAATATGCTAATTT
AAGGCCAGAGATATCGGACTTAAAGATGACAAAGGTGCC
Found at i:28688 original size:32 final size:31
Alignment explanation
Indices: 28663--28724 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
28653 CTTTTGAGAG
28663 GGTTACCATCGACTTATGTGGGCTTTAAAAAA
1 GGTTACCA-CGACTTATGTGGGCTTTAAAAAA
* * *
28695 GGTTGCCACGACTTATGTAGGCTTTGAAAA
1 GGTTACCACGACTTATGTGGGCTTTAAAAA
28725 GGGTGCTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (31 bp):
GGTTACCACGACTTATGTGGGCTTTAAAAAA
Found at i:28791 original size:30 final size:30
Alignment explanation
Indices: 28679--29167 Score: 371
Period size: 28 Copynumber: 16.8 Consensus size: 30
28669 CATCGACTTA
* *
28679 TGTGGGCTTTAAAAAAGGTTGCCAC-GACTT
1 TGTGGGCTTTGAAAAAGGATGCCACTGAC-T
* * * *
28709 ATGTAGGCTTTG-AAAAGGGTGCTATTGACT
1 -TGTGGGCTTTGAAAAAGGATGCCACTGACT
*
28739 TGTGGGCTTTGAAAAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAAAAGGATGCCACTGACT
* *
28770 TGTGGGCTTTGAAAAAGGATGCTACTAACT
1 TGTGGGCTTTGAAAAAGGATGCCACTGACT
*
28800 TGTGGGCTTTG-AAAAGG-TGCCACTGACC
1 TGTGGGCTTTGAAAAAGGATGCCACTGACT
28828 TGTGGGCTTT-AAAAAGG-TGCCACTGACT
1 TGTGGGCTTTGAAAAAGGATGCCACTGACT
* **
28856 TATGGG-TCTTGAAAAA--A-GCCACAAACT
1 TGTGGGCT-TTGAAAAAGGATGCCACTGACT
28883 TGTGGGCTTTGGAAAAAAAAGG-TGCCACTGACT
1 TGTGGGCTTT-G---AAAAAGGATGCCACTGACT
* * *
28916 TGTGGGCTTT--AAAAGGGTACCACTAACT
1 TGTGGGCTTTGAAAAAGGATGCCACTGACT
* *
28944 TGTGGGCTTT-AAAAA-G-TACCACTAACT
1 TGTGGGCTTTGAAAAAGGATGCCACTGACT
* *
28971 TATGGGCTTTG-AAAAGGAATGCCACCGACT
1 TGTGGGCTTTGAAAAAGG-ATGCCACTGACT
* ** **
29001 TGTGAGCTTTGAAAGGGGATGCCACCAACT
1 TGTGGGCTTTGAAAAAGGATGCCACTGACT
* * * *
29031 TGTGGGCTTTG--AGAGGGTGCCATTAACT
1 TGTGGGCTTTGAAAAAGGATGCCACTGACT
* *
29059 TGTGGTCTTT-AAAAA-GATGCCATTGACT
1 TGTGGGCTTTGAAAAAGGATGCCACTGACT
* * *
29087 TATGGGCTTTG--AAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAAAGGATGCCACTGACT
* * *
29115 TGTGGGCTTTGAAAAAGGTTGCCACAGAGT
1 TGTGGGCTTTGAAAAAGGATGCCACTGACT
* *
29145 TATGGACTTT-AAAAAGG-TGCCAC
1 TGTGGGCTTTGAAAAAGGATGCCAC
29168 AGAGTTATGG
Statistics
Matches: 377, Mismatches: 53, Indels: 59
0.77 0.11 0.12
Matches are distributed among these distances:
27 49 0.13
28 133 0.35
29 34 0.09
30 97 0.26
31 46 0.12
33 18 0.05
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGTGGGCTTTGAAAAAGGATGCCACTGACT
Found at i:28912 original size:60 final size:60
Alignment explanation
Indices: 28838--28953 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
28828 TGTGGGCTTT
28838 AAAAAGGTGCCACTGACTTATGGGTCTTGAAAAAAG-CCACAAACTTGTGGGCTTTGGAAA
1 AAAAAGGTGCCACTGACTTATGGG-CTTGAAAAAAGACCACAAACTTGTGGGCTTTGGAAA
* * ** *
28898 AAAAAGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTAACTTGTGGGCTTT
1 AAAAAGGTGCCACTGACTTATGGGCTTGAAAAAAG-ACCACAAACTTGTGGGCTTT
28954 AAAAAGTACC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 8 0.16
60 23 0.47
61 18 0.37
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (60 bp):
AAAAAGGTGCCACTGACTTATGGGCTTGAAAAAAGACCACAAACTTGTGGGCTTTGGAAA
Found at i:28920 original size:88 final size:86
Alignment explanation
Indices: 28734--29130 Score: 303
Period size: 88 Copynumber: 4.6 Consensus size: 86
28724 AGGGTGCTAT
* *
28734 TGACTTGTGGGCTTTGAAAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGATGCTACTAAC
1 TGACTTGTGGGCTTT---AAAAAGGTGCCACTGACTTGTGGGC-TTGAAAAA--A-GCCACTAAC
28799 TTGTGGGCTTTG----AAAAGGTGCCAC
59 TTGTGGGCTTTGAAAAAAAAGGTGCCAC
* * *
28823 TGACCTGTGGGCTTTAAAAAGGTGCCACTGACTTATGGGTCTTGAAAAAAGCCACAAACTTGTGG
1 TGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGG-CTTGAAAAAAGCCACTAACTTGTGG
28888 GCTTTGGAAAAAAAAGGTGCCAC
65 GCTTT-GAAAAAAAAGGTGCCAC
* * * * *
28911 TGACTTGTGGGCTTTAAAAGGGTACCACTAACTTGTGGGCTT-TAAAAAGTACCACTAACTTATG
1 TGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTGAAAAAAG--CCACTAACTTGTG
**
28975 GGCTTTGAAAAGGAA--TGCCAC
64 GGCTTTGAAAAAAAAGGTGCCAC
* * ** ** **** *
28996 CGACTTGTGAGCTTTGAAAGGGGATGCCACCAACTTGTGGGCTTTGAGAGGGTGCCATTAACTTG
1 TGACTTGTGGGCTTT-AAAAAGG-TGCCACTGACTTGTGGGC-TTGA-AAAAAGCCACTAACTTG
* * *
29061 TGGTCTTT----AAAAAGATGCCAT
62 TGGGCTTTGAAAAAAAAGGTGCCAC
* * * *
29082 TGACTTATGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAAA
1 TGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGC-TTGAAAAA
29131 GGTTGCCACA
Statistics
Matches: 251, Mismatches: 42, Indels: 36
0.76 0.13 0.11
Matches are distributed among these distances:
83 19 0.08
84 25 0.10
85 24 0.10
86 59 0.24
87 27 0.11
88 81 0.32
89 14 0.06
90 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (86 bp):
TGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTGAAAAAAGCCACTAACTTGTGGG
CTTTGAAAAAAAAGGTGCCAC
Found at i:29032 original size:115 final size:115
Alignment explanation
Indices: 28734--29167 Score: 454
Period size: 115 Copynumber: 3.8 Consensus size: 115
28724 AGGGTGCTAT
* ** *
28734 TGACTTGTGGGCTTTGAAAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGGATGCTACTAAC
1 TGACTTATGGGCTTTGAAAAGGA-ATGCCACTGACTTGTGGGCTTTGAAAAAGGATGCCACTAAC
* *
28799 TTGTGGGCTTTGAAAA-GGTGCCACTGACCTGTGGGCTTTAAAAAGGTGCCAC
65 TTGTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTAAAAA-GTGCCAC
**
28851 TGACTTATGGG-TCTTGAAAA--AA-GCCACAAACTTGTGGGCTTTGGAAAAAAAAGG-TGCCAC
1 TGACTTATGGGCT-TTGAAAAGGAATGCCACTGACTTGTGGGCTTT-G---AAAAAGGATGCCAC
* * *
28911 TGACTTGTGGGCTTTAAAAGGGTACCACTAACTTGTGGGCTTTAAAAAGTACCAC
61 TAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGTGCCAC
* * * ** *
28966 TAACTTATGGGCTTTGAAAAGGAATGCCACCGACTTGTGAGCTTTGAAAGGGGATGCCACCAACT
1 TGACTTATGGGCTTTGAAAAGGAATGCCACTGACTTGTGGGCTTTGAAAAAGGATGCCACTAACT
* * * * *
29031 TGTGGGCTTTGAGAGGGTGCCATTAACTTGTGGTCTTTAAAAAGATGCCAT
66 TGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAG-TGCCAC
* * * *
29082 TGACTTATGGGCTTTG-AAAGG-GTGCCATTGACTTGTGGGCTTTGAAAAAGGTTGCCAC-AGAG
1 TGACTTATGGGCTTTGAAAAGGAATGCCACTGACTTGTGGGCTTTGAAAAAGGATGCCACTA-AC
* * *
29144 TTATGGACTTTAAAAAGGTGCCAC
65 TTGTGGGCTTTAAAAGGGTGCCAC
29168 AGAGTTATGG
Statistics
Matches: 265, Mismatches: 39, Indels: 29
0.80 0.12 0.09
Matches are distributed among these distances:
113 19 0.07
114 56 0.21
115 81 0.31
116 65 0.25
117 27 0.10
118 17 0.06
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (115 bp):
TGACTTATGGGCTTTGAAAAGGAATGCCACTGACTTGTGGGCTTTGAAAAAGGATGCCACTAACT
TGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGTGCCAC
Found at i:29485 original size:57 final size:57
Alignment explanation
Indices: 29093--29739 Score: 385
Period size: 57 Copynumber: 11.0 Consensus size: 57
29083 GACTTATGGG
* ** * * * * *
29093 CTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAAAGG-TTGCCACAGAGTTATGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAAGGAGTGCCACGGAGTTGTGGA
* * * * ** ** *
29151 CTTTAAAAAGGTGCCACAGAGTTATGGAGTTTAAAAAAAAGGTGCCATAGAGTTATGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAAGGA-GTGCCACGGAGTTGTGGA
* * *
29210 CTTTAAAAGAGGATGCCATAGGA-TTGTGGACCTT-AAAAGG-GTGCTACGGAGTTATGGA
1 CTTTAAAAG-GG-TGCCA-CGGAGTTGTGGA-CTTAAAAAGGAGTGCCACGGAGTTGTGGA
* ** * * * * *
29268 CTTAAAAAGAGGATGCCACAAAGTTGTGGGCTTAAAAAGAAGGTGTCAACAGAGTTGTGAA
1 CTTTAAAAG-GG-TGCCACGGAGTTGTGGACTTAAAAAGGA-GTG-CCACGGAGTTGTGGA
* ** * * *
29329 CTTTAAAAGGGTGCCACGGAGTTATAAACTTTTAGAAAAAGAAGGTGCCACAGAGTTGTGAA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGAC--TT--AAAAAGGA-GTGCCACGGAGTTGTGGA
* * * * **
29391 CTTTAAAAGGGGTGCCATGGAGTTGTGGGCTTTAAAAGGAGTGCTACAAAGTTGT-GA
1 CTTTAAAA-GGGTGCCACGGAGTTGTGGACTTAAAAAGGAGTGCCACGGAGTTGTGGA
*** * *
29448 CTTTGAAAAGGGTGCCATAAAGTTGTGGACTTAAAAAGGGGTGCCATGGAGTTGTGGA
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGAGTGCCACGGAGTTGTGGA
*
29506 CTTTAAAAGGGT-CTCACGGAGTTGTGGACTTTAAAAA-G-GTACCACGGAGTTGTGGA
1 CTTTAAAAGGGTGC-CACGGAGTTGTGGAC-TTAAAAAGGAGTGCCACGGAGTTGTGGA
* * * * * * * *
29562 CTTTTAGAAAAAAAGGTGCCACAGAGTTGTGGATTTTAAAAGGGGTGCCACGAAGATGTGGG
1 C-TTT----AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGAGTGCCACGGAGTTGTGGA
* ** ** *
29624 CTTTAAAAGGGTGCCATGGAGTTGTGGACTTTTAAAAAAAAGGTGCCATAGAGTTGTAGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGAC--TTAAAAAGGA-GTGCCACGGAGTTGTGGA
** * *
29684 CTTTAAAAGGGGTGCCACGGAGCAGTGGGCTTTAAAAGG-GTGCCACGGAGTTGTGG
1 CTTTAAAA-GGGTGCCACGGAGTTGTGGACTTAAAAAGGAGTGCCACGGAGTTGTGG
29740 GCATGTATCG
Statistics
Matches: 460, Mismatches: 97, Indels: 65
0.74 0.16 0.10
Matches are distributed among these distances:
56 18 0.04
57 110 0.24
58 96 0.21
59 54 0.12
60 37 0.08
61 77 0.17
62 40 0.09
63 28 0.06
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.26
Consensus pattern (57 bp):
CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGAGTGCCACGGAGTTGTGGA
Found at i:29594 original size:89 final size:86
Alignment explanation
Indices: 29126--29739 Score: 486
Period size: 89 Copynumber: 6.9 Consensus size: 86
29116 GTGGGCTTTG
* * * * * *
29126 AAAAAGGTTGCCACAGAGTTATGGACTTTAAAAAGGTGCCACAGAGTTATGGAGTTTAAAAAAAA
1 AAAAAGG-TGCCATAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT---AAAAA
* *
29191 GGTGCCATAGAGTTATGGACTTT-A
62 GGTGCCACAGAGTTGTGGACTTTAA
* * * * *
29215 AAAGAGGATGCCATAG-GATTGTGGACCTTAAAAGGGTGCTACGGAGTTATGGACTTAAAAAGAG
1 AAAAAGG-TGCCATAGAG-TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA-AG
* *
29279 GATGCCACAAAGTTGTGGGC-TTAA
63 G-TGCCACAGAGTTGTGGACTTTAA
* * * * **
29303 AAAGAAGGTGTCAACAGAGTTGTGAACTTTAAAAGGGTGCCACGGAGTTATAAACTTTTAGAAAA
1 AAA-AAGGTG-CCATAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTT----AA
*
29368 AGAAGGTGCCACAGAGTTGTGAACTTT-A
59 A-AAGGTGCCACAGAGTTGTGGACTTTAA
** * * * ** *
29396 AAAGGGGTGCCATGGAGTTGTGGGCTTTAAAAGGAGTGCTACAAAGTTGT-GACTTTGAAAAGGG
1 AAAAAGGTGCCATAGAGTTGTGGACTTTAAAAGG-GTGCCACGGAGTTGTGGACTTT-AAAAAGG
* *
29460 TGCCATAAAGTTGTGGAC-TTAA
64 TGCCACAGAGTTGTGGACTTTAA
** *
29482 AAAGGGGTGCCATGGAGTTGTGGACTTTAAAAGGGT-CTCACGGAGTTGTGGACTTTAAAAAGGT
1 AAAAAGGTGCCATAGAGTTGTGGACTTTAAAAGGGTGC-CACGGAGTTGTGGACTTTAAAAAGGT
* *
29546 ACCACGGAGTTGTGGACTTTTAGAA
65 GCCACAGAGTTGTGGAC-TTT--AA
* * * * * *
29571 AAAAAGGTGCCACAGAGTTGTGGATTTTAAAAGGGGTGCCACGAAGATGTGGGCTTTAAAAGGGT
1 AAAAAGGTGCCATAGAGTTGTGGACTTTAAAA-GGGTGCCACGGAGTTGTGGACTTTAAAAAGGT
**
29636 GCCATGGAGTTGTGGACTTTTAAA
65 GCCACAGAGTTGTGGAC-TTT-AA
* ** * *
29660 AAAAAGGTGCCATAGAGTTGTAGACTTTAAAAGGGGTGCCACGGAGCAGTGGGCTTTAAAAGGGT
1 AAAAAGGTGCCATAGAGTTGTGGACTTTAAAA-GGGTGCCACGGAGTTGTGGACTTTAAAAAGGT
*
29725 GCCACGGAGTTGTGG
65 GCCACAGAGTTGTGG
29740 GCATGTATCG
Statistics
Matches: 430, Mismatches: 71, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
84 1 0.00
85 32 0.07
86 62 0.14
87 10 0.02
88 21 0.05
89 187 0.43
90 51 0.12
91 23 0.05
92 15 0.03
93 19 0.04
94 8 0.02
95 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.25
Consensus pattern (86 bp):
AAAAAGGTGCCATAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGGTG
CCACAGAGTTGTGGACTTTAA
Found at i:29741 original size:28 final size:28
Alignment explanation
Indices: 29093--29739 Score: 427
Period size: 28 Copynumber: 22.0 Consensus size: 28
29083 GACTTATGGG
* ** * *
29093 CTTTGAAAGGGTGCCATTGACTTGTGGG
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* * *
29121 CTTTGAAAAAGGTTGCCACAGAGTTATGGA
1 CTTT--AAAAGGGTGCCACGGAGTTGTGGA
* * *
29151 CTTTAAAAAGGTGCCACAGAGTTATGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* * ** *
29179 GTTTAAAAAAAAGGTGCCATAGAGTTATGGA
1 CTTT---AAAAGGGTGCCACGGAGTTGTGGA
*
29210 CTTTAAAAGAGGATGCCATAGGA-TTGTGGA
1 CTTTAAAAG-GG-TGCCA-CGGAGTTGTGGA
* * *
29240 CCTTAAAAGGGTGCTACGGAGTTATGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* ** *
29268 CTTAAAAAGAGGATGCCACAAAGTTGTGGG
1 CTTTAAAAG-GG-TGCCACGGAGTTGTGGA
* * * *
29298 CTTAAAAAGAAGGTGTCAACAGAGTTGTGAA
1 CTTTAAAAG--GGTG-CCACGGAGTTGTGGA
* **
29329 CTTTAAAAGGGTGCCACGGAGTTATAAA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* *
29357 CTTTTAGAAAAAGAAGGTGCCACAGAGTTGTGAA
1 C-TTT---AAAAG--GGTGCCACGGAGTTGTGGA
* *
29391 CTTTAAAAGGGGTGCCATGGAGTTGTGGG
1 CTTTAAAA-GGGTGCCACGGAGTTGTGGA
* **
29420 CTTTAAAAGGAGTGCTACAAAGTTGT-GA
1 CTTTAAAAGG-GTGCCACGGAGTTGTGGA
***
29448 CTTTGAAAAGGGTGCCATAAAGTTGTGGA
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* *
29477 CTTAAAAAGGGGTGCCATGGAGTTGTGGA
1 CTTTAAAA-GGGTGCCACGGAGTTGTGGA
29506 CTTTAAAAGGGT-CTCACGGAGTTGTGGA
1 CTTTAAAAGGGTGC-CACGGAGTTGTGGA
* *
29534 CTTTAAAAAGGTACCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* *
29562 CTTTTAGAAAAAAAGGTGCCACAGAGTTGTGGA
1 C-TTT----AAAAGGGTGCCACGGAGTTGTGGA
* * * *
29595 TTTTAAAAGGGGTGCCACGAAGATGTGGG
1 CTTTAAAA-GGGTGCCACGGAGTTGTGGA
*
29624 CTTTAAAAGGGTGCCATGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* ** *
29652 CTTTTAAAAAAAAGGTGCCATAGAGTTGTAGA
1 C-TTT---AAAAGGGTGCCACGGAGTTGTGGA
** *
29684 CTTTAAAAGGGGTGCCACGGAGCAGTGGG
1 CTTTAAAA-GGGTGCCACGGAGTTGTGGA
29713 CTTTAAAAGGGTGCCACGGAGTTGTGG
1 CTTTAAAAGGGTGCCACGGAGTTGTGG
29740 GCATGTATCG
Statistics
Matches: 501, Mismatches: 81, Indels: 74
0.76 0.12 0.11
Matches are distributed among these distances:
27 4 0.01
28 171 0.34
29 133 0.27
30 67 0.13
31 54 0.11
32 30 0.06
33 25 0.05
34 17 0.03
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.26
Consensus pattern (28 bp):
CTTTAAAAGGGTGCCACGGAGTTGTGGA
Found at i:32112 original size:51 final size:50
Alignment explanation
Indices: 32018--32132 Score: 124
Period size: 51 Copynumber: 2.3 Consensus size: 50
32008 TCCAAAATAA
* * *
32018 GGTTGGAGCATCCCTGATTATAAAAAATCAGCGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCTAATTATAAAAAATCAGCG-TTTAAAAATAAAACCGG
* * * **
32069 GGTTGGAGTATCCCTAATTGTGAAAAATCGAAGC-TTTAGAAATAAGGCCGG
1 GGTTGGAGTATCCCTAATTATAAAAAATC--AGCGTTTAAAAATAAAACCGG
32120 GGTTGGAGTATCC
1 GGTTGGAGTATCC
32133 TCGCAAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
51 51 0.94
53 3 0.06
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (50 bp):
GGTTGGAGTATCCCTAATTATAAAAAATCAGCGTTTAAAAATAAAACCGG
Found at i:32157 original size:79 final size:77
Alignment explanation
Indices: 32066--32289 Score: 252
Period size: 78 Copynumber: 2.9 Consensus size: 77
32056 AAAATAAAAT
** * *
32066 CGGGGTTGGAGTATCCCTAATTGTGAAAAATCGAAGCTTTAGAAATAAGGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGAAGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
32131 CCTCGCAAAAATAA
66 CCTCG--AAAATAA
* * * *
32145 TGGGGTTGGAGTATCCCCGATTGTGAGAAATC-AATATTTTAGAAATAAAGCTGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGAA-GTTTTAGAAATAAAGCCGGGGTTGGAGTA
*
32209 CCCCTCGAAAATAA
65 -TCCTCGAAAATAA
* * * * * * * *
32223 CAGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGAAGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
32288 CC
66 CC
32290 CCTAGATGAA
Statistics
Matches: 120, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
77 2 0.02
78 59 0.49
79 54 0.45
80 5 0.04
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (77 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGAAGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
CCTCGAAAATAA
Found at i:32318 original size:50 final size:50
Alignment explanation
Indices: 32231--32354 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
32221 AACAGGATTA
* ** * *
32231 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTG
1 GAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTG
* * *
32282 GAGTATCCCCTAGATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTT
1 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTG
**
32332 GAGTATCTTCGAGATGAAAAATC
1 GAGTATCCCCGAGATGAAAAATC
32355 TAGAAATTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 51 0.82
51 11 0.18
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (50 bp):
GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTG
Found at i:34585 original size:20 final size:20
Alignment explanation
Indices: 34560--34612 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
34550 AAAATGTCTG
*
34560 AATGTATCAATACATTGAAA
1 AATGTATCAATACAATGAAA
*
34580 AATGTATCAATACAATGAAC
1 AATGTATCAATACAATGAAA
*
34600 AATGTATCGATAC
1 AATGTATCAATAC
34613 CTCTGGGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.28
Consensus pattern (20 bp):
AATGTATCAATACAATGAAA
Found at i:41642 original size:30 final size:30
Alignment explanation
Indices: 41606--41721 Score: 117
Period size: 30 Copynumber: 3.8 Consensus size: 30
41596 CGACAACCCC
41606 CAGTGGCATCCCTTCTAAAAGTCCACGACT
1 CAGTGGCATCCCTTCTAAAAGTCCACGACT
**
41636 CAGTGGCATCTTTTCTAAAAGTCCACGACT
1 CAGTGGCATCCCTTCTAAAAGTCCACGACT
* ** * *
41666 TAGTGGCATCTTTTCTTCAAAGTTCACGACT
1 CAGTGGCATCCCTTC-TAAAAGTCCACGACT
* * *
41697 TAGTCGCATCCCCTT-TTAAAGTCCA
1 CAGTGGCAT-CCCTTCTAAAAGTCCA
41722 AAATTCTGTG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 50 0.68
31 21 0.28
32 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (30 bp):
CAGTGGCATCCCTTCTAAAAGTCCACGACT
Found at i:41694 original size:31 final size:30
Alignment explanation
Indices: 41607--41706 Score: 137
Period size: 30 Copynumber: 3.3 Consensus size: 30
41597 GACAACCCCC
** *
41607 AGTGGCATCCCTTCTAAAAGTCCACGACTC
1 AGTGGCATCTTTTCTAAAAGTCCACGACTT
41637 AGTGGCATCTTTTCTAAAAGTCCACGACTT
1 AGTGGCATCTTTTCTAAAAGTCCACGACTT
* *
41667 AGTGGCATCTTTTCTTCAAAGTTCACGACTT
1 AGTGGCATCTTTTC-TAAAAGTCCACGACTT
*
41698 AGTCGCATC
1 AGTGGCATC
41707 CCCTTTTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 41 0.65
31 22 0.35
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (30 bp):
AGTGGCATCTTTTCTAAAAGTCCACGACTT
Found at i:41739 original size:28 final size:28
Alignment explanation
Indices: 41707--41951 Score: 82
Period size: 32 Copynumber: 8.2 Consensus size: 28
41697 TAGTCGCATC
*
41707 CCCTTTTAAAGTCCAAAATTCTGTGGCA
1 CCCTTTTAAAGTCCAAAACTCTGTGGCA
* * *
41735 CCCTTTTCAAACTCTACAACTCTGTGGCA
1 CCCTTTT-AAAGTCCAAAACTCTGTGGCA
* * * * * **
41764 TCTTTTGTAAAGTCTACAATTCCATGGCA
1 CCCTTT-TAAAGTCCAAAACTCTGTGGCA
** *
41793 TCTTTTGTTTCAAAGTCCACAACTCCT-TGGCA
1 -C-CCT-TTT-AAAGTCCAAAACT-CTGTGGCA
*
41825 CCCCTTTTTAAAGTCCATAACT-TCGTGGCA
1 -CCC-TTTTAAAGTCCAAAACTCT-GTGGCA
* * * *
41855 CTCTTTT-AAGTCCATAACTCTATAGCA
1 CCCTTTTAAAGTCCAAAACTCTGTGGCA
** *
41882 CTTTTATTTTCAAAGTCCACAACTCTGTGGCA
1 C---CCTTTT-AAAGTCCAAAACTCTGTGGCA
* * *
41914 CCTTTTTTTTGAAGTCCATAACTCTGTGGCA
1 CC---CTTTTAAAGTCCAAAACTCTGTGGCA
*
41945 CCATTTT
1 CCCTTTT
41952 TTAAAGTCAA
Statistics
Matches: 167, Mismatches: 31, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
27 17 0.10
28 17 0.10
29 40 0.24
30 23 0.14
31 27 0.16
32 42 0.25
33 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (28 bp):
CCCTTTTAAAGTCCAAAACTCTGTGGCA
Found at i:41824 original size:32 final size:32
Alignment explanation
Indices: 41739--41824 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 32
41729 GTGGCACCCT
*
41739 TTTCAAACTCTACAACT-CTGTGGCATCTTTTG
1 TTTCAAAGTCTACAACTCCT-TGGCATCTTTTG
* *
41771 --T-AAAGTCTACAATTCCATGGCATCTTTTG
1 TTTCAAAGTCTACAACTCCTTGGCATCTTTTG
*
41800 TTTCAAAGTCCACAACTCCTTGGCA
1 TTTCAAAGTCTACAACTCCTTGGCA
41825 CCCCTTTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
29 23 0.52
30 2 0.05
31 1 0.02
32 18 0.41
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (32 bp):
TTTCAAAGTCTACAACTCCTTGGCATCTTTTG
Found at i:41882 original size:27 final size:28
Alignment explanation
Indices: 41830--41883 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
41820 TGGCACCCCT
* *
41830 TTTTAAAGTCCATAACTTCGTGGCACTC
1 TTTTAAAGTCCATAACTTCATAGCACTC
41858 TTTT-AAGTCCATAAC-TCTATAGCACT
1 TTTTAAAGTCCATAACTTC-ATAGCACT
41884 TTTATTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.09
27 17 0.74
28 4 0.17
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (28 bp):
TTTTAAAGTCCATAACTTCATAGCACTC
Found at i:41906 original size:32 final size:31
Alignment explanation
Indices: 41858--41959 Score: 102
Period size: 31 Copynumber: 3.3 Consensus size: 31
41848 CGTGGCACTC
41858 TTTT-AAGTCCATAACTCTATAGCA-CTTTT
1 TTTTAAAGTCCATAACTCTATAGCACCTTTT
* * *
41887 ATTTTCAAAGTCCACAACTCTGTGGCACCTTTT
1 -TTTT-AAAGTCCATAACTCTATAGCACCTTTT
* * * *
41920 TTTTGAAGTCCATAACTCTGTGGCACC-ATT
1 TTTTAAAGTCCATAACTCTATAGCACCTTTT
41950 TTTTAAAGTC
1 TTTTAAAGTC
41960 AACCACTCCG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
30 15 0.24
31 21 0.34
32 21 0.34
33 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (31 bp):
TTTTAAAGTCCATAACTCTATAGCACCTTTT
Found at i:41937 original size:31 final size:31
Alignment explanation
Indices: 41710--41989 Score: 154
Period size: 30 Copynumber: 9.3 Consensus size: 31
41700 TCGCATCCCC
* * *
41710 TTTTAAAGTCCAAAATTCTGTGGCACC--CT
1 TTTTAAAGTCCATAACTCTGTGGCACCTTTT
* * * * *
41739 TTTCAAACTCTACAACTCTGTGGCA--TCTT
1 TTTTAAAGTCCATAACTCTGTGGCACCTTTT
* * * * ** *
41768 TTGTAAAGTCTACAATTCCATGGCATCTTTT
1 TTTTAAAGTCCATAACTCTGTGGCACCTTTT
* * **
41799 GTTTCAAAGTCCACAACTCCT-TGGCACC-CCT
1 -TTTTAAAGTCCATAACT-CTGTGGCACCTTTT
*
41830 TTTTAAAGTCCATAACT-TCGTGGCA-C--TC
1 TTTTAAAGTCCATAACTCT-GTGGCACCTTTT
* *
41858 TTTT-AAGTCCATAACTCTATAGCA-CTTTT
1 TTTTAAAGTCCATAACTCTGTGGCACCTTTT
*
41887 ATTTTCAAAGTCCACAACTCTGTGGCACCTTTT
1 -TTTT-AAAGTCCATAACTCTGTGGCACCTTTT
* *
41920 TTTTGAAGTCCATAACTCTGTGGCACC-ATT
1 TTTTAAAGTCCATAACTCTGTGGCACCTTTT
* ** *
41950 TTTTAAAGTCAACCACTCCGTGGCACCTTTT
1 TTTTAAAGTCCATAACTCTGTGGCACCTTTT
41981 TCTTTAAAG
1 T-TTTAAAG
41990 CCCACACAAG
Statistics
Matches: 194, Mismatches: 40, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
27 17 0.09
28 6 0.03
29 42 0.22
30 48 0.25
31 28 0.14
32 47 0.24
33 6 0.03
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (31 bp):
TTTTAAAGTCCATAACTCTGTGGCACCTTTT
Found at i:42021 original size:31 final size:31
Alignment explanation
Indices: 41985--42457 Score: 390
Period size: 31 Copynumber: 14.8 Consensus size: 31
41975 CCTTTTTCTT
*
41985 TAAAGCCCACACAAGTTAGTGGCAACCCTTC
1 TAAAGCCCACACAAGTTGGTGGCAACCCTTC
* * * *
42016 TAAAGCCCACAAAAGTCGATGG-AACCTTTCTC
1 TAAAGCCCACACAAGTTGGTGGCAACC-CT-TC
* * *
42048 TAAAGTCCACACAAGTCGATGGCAACCCTTTTC
1 TAAAGCCCACACAAGTTGGTGGCAACCC--TTC
* * * * *
42081 TAAAGCCTACACTAGTCGGGGGCAACCTTTC
1 TAAAGCCCACACAAGTTGGTGGCAACCCTTC
* * * *
42112 TATAGCCCACATGCACAAGTTGATAGTAACCCTTCTC
1 TAAAG-CC-CA--CACAAGTTGGTGGCAACCC-T-TC
* *
42149 TAAAGCCCACATAAATTGGTGGCAACCCTTC
1 TAAAGCCCACACAAGTTGGTGGCAACCCTTC
*
42180 TAAAGCCCACACAAGTTGGTGGCAACCTTTCTC
1 TAAAGCCCACACAAGTTGGTGGCAACC-CT-TC
* * *
42213 TAAAGCCTACACAAGTCGATGGCAACCCTTC
1 TAAAGCCCACACAAGTTGGTGGCAACCCTTC
* *
42244 CAAAGCCCACATAAGTTGGTGGCAACCCTTC
1 TAAAGCCCACACAAGTTGGTGGCAACCCTTC
* * *
42275 TTTAAAGCCCACACAAGTCGATGACAACCCTTC
1 --TAAAGCCCACACAAGTTGGTGGCAACCCTTC
* ** * *
42308 TAAAGTCCACACAAGTCAGTAGAAACCCTTC
1 TAAAGCCCACACAAGTTGGTGGCAACCCTTC
* *
42339 TAAAGCCAACACAAGTTAGTGGCAACCCTCTC
1 TAAAGCCCACACAAGTTGGTGGCAACCCT-TC
* * * * * *
42371 AAAAGCCTACACAATTTAGTGACGACCCTTC
1 TAAAGCCCACACAAGTTGGTGGCAACCCTTC
* *
42402 TAAAGCCTATACAAGTTGGTGGCAACCCTCTC
1 TAAAGCCCACACAAGTTGGTGGCAACCCT-TC
* *
42434 AAAAGCCCACACAAGTTGTTGGCA
1 TAAAGCCCACACAAGTTGGTGGCA
42458 TCTTTTTCTA
Statistics
Matches: 353, Mismatches: 72, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
30 4 0.01
31 155 0.44
32 75 0.21
33 95 0.27
34 1 0.00
35 14 0.04
36 3 0.01
37 6 0.02
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (31 bp):
TAAAGCCCACACAAGTTGGTGGCAACCCTTC
Found at i:42236 original size:64 final size:62
Alignment explanation
Indices: 41985--42457 Score: 365
Period size: 64 Copynumber: 7.4 Consensus size: 62
41975 CCTTTTTCTT
* * * *
41985 TAAAGCCCACACAAGTTAGTGGCAACCCTTCTAAAGCCCACAAAAGTCGATGG-AACCTTTCTC
1 TAAAGCCCACACAAGTTGGTGGCAACCTTTCTAAAGCCCACACAAGTCGATGGCAACC-CT-TC
* * * * * ** *
42048 TAAAGTCCACACAAGTCGATGGCAACCCTTTTCTAAAGCCTACACTAGTCGGGGGCAACCTTTC
1 TAAAGCCCACACAAGTTGGTGGCAA-CC-TTTCTAAAGCCCACACAAGTCGATGGCAACCCTTC
* * * * * * * *
42112 TATAGCCCACATGCACAAGTTGATAGTAACCCTTCTCTAAAGCCCACATAAATTGGTGGCAACCC
1 TAAAG-CC-CA--CACAAGTTGGTGGCAA-CCTT-TCTAAAGCCCACACAAGTCGATGGCAACCC
42177 TTC
60 TTC
*
42180 TAAAGCCCACACAAGTTGGTGGCAACCTTTCTCTAAAGCCTACACAAGTCGATGGCAACCCTTC
1 TAAAGCCCACACAAGTTGGTGGCAACC-TT-TCTAAAGCCCACACAAGTCGATGGCAACCCTTC
* * * *
42244 CAAAGCCCACATAAGTTGGTGGCAACCCTTCTTTAAAGCCCACACAAGTCGATGACAACCCTTC
1 TAAAGCCCACACAAGTTGGTGGCAA-CCTT-TCTAAAGCCCACACAAGTCGATGGCAACCCTTC
* ** * * * * *
42308 TAAAGTCCACACAAGTCAGTAGAAACCCTTCTAAAGCCAACACAAGT-TAGTGGCAACCCTCTC
1 TAAAGCCCACACAAGTTGGTGGCAACCTTTCTAAAGCCCACACAAGTCGA-TGGCAACCCT-TC
* * * * * * * * * * *
42371 AAAAGCCTACACAATTTAGTGACGACCCTTCTAAAGCCTATACAAGTTGGTGGCAACCCTCTC
1 TAAAGCCCACACAAGTTGGTGGCAACCTTTCTAAAGCCCACACAAGTCGATGGCAACCCT-TC
* *
42434 AAAAGCCCACACAAGTTGTTGGCA
1 TAAAGCCCACACAAGTTGGTGGCA
42458 TCTTTTTCTA
Statistics
Matches: 330, Mismatches: 67, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
61 1 0.00
62 25 0.08
63 95 0.29
64 126 0.38
65 25 0.08
66 8 0.02
67 4 0.01
68 46 0.14
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (62 bp):
TAAAGCCCACACAAGTTGGTGGCAACCTTTCTAAAGCCCACACAAGTCGATGGCAACCCTTC
Found at i:42267 original size:95 final size:93
Alignment explanation
Indices: 41985--42457 Score: 403
Period size: 95 Copynumber: 4.9 Consensus size: 93
41975 CCTTTTTCTT
* * * *
41985 TAAAGCCCACACAAGTTAGTGGCAACCCTTCTAAAGCCCACAAAAGTCGATGG-AACCTTTCTCT
1 TAAAGCCCACACAAGTTGGTGGCAACCCTTCTAAAGCCTACACAAGTCGATGGCAACCCTTC-C-
* * *
42049 AAAGTCCACACAAGTCGATGGCAACCCTTTTC
64 AAAGCCCACACAAGTTGGTGGCAACCC--TTC
* * * * * * * * * *
42081 TAAAGCCTACACTAGTCGGGGGCAACCTTTCTATAGCCCACATGCACAAGTTGATAGTAACCCTT
1 TAAAGCCCACACAAGTTGGTGGCAACCCTTCTAAAG--C-C-TACACAAGTCGATGGCAACCCTT
* *
42146 CTCTAAAGCCCACATAAATTGGTGGCAACCCTTC
62 C-C-AAAGCCCACACAAGTTGGTGGCAACCCTTC
*
42180 TAAAGCCCACACAAGTTGGTGGCAACCTTTCTCTAAAGCCTACACAAGTCGATGGCAACCCTTCC
1 TAAAGCCCACACAAGTTGGTGGCAACC-CT-TCTAAAGCCTACACAAGTCGATGGCAACCCTTCC
*
42245 AAAGCCCACATAAGTTGGTGGCAACCCTTC
64 AAAGCCCACACAAGTTGGTGGCAACCCTTC
* * * * *
42275 TTTAAAGCCCACACAAGTCGATGACAACCCTTCTAAAGTCC-ACACAAGTC-AGTAGAAACCCTT
1 --TAAAGCCCACACAAGTTGGTGGCAACCCTTCTAAAG-CCTACACAAGTCGA-TGGCAACCCTT
* * *
42338 CTAAAGCCAACACAAGTTAGTGGCAACCCTCTC
62 CCAAAGCCCACACAAGTTGGTGGCAACCCT-TC
* * * * * * * * * *
42371 AAAAGCCTACACAATTTAGTGACGACCCTTCTAAAGCCTATACAAGTTGGTGGCAACCCTCTCAA
1 TAAAGCCCACACAAGTTGGTGGCAACCCTTCTAAAGCCTACACAAGTCGATGGCAACCCT-TCCA
*
42436 AAGCCCACACAAGTTGTTGGCA
65 AAGCCCACACAAGTTGGTGGCA
42458 TCTTTTTCTA
Statistics
Matches: 308, Mismatches: 54, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
93 2 0.01
94 45 0.15
95 102 0.33
96 35 0.11
97 44 0.14
98 2 0.01
99 28 0.09
100 12 0.04
101 38 0.12
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (93 bp):
TAAAGCCCACACAAGTTGGTGGCAACCCTTCTAAAGCCTACACAAGTCGATGGCAACCCTTCCAA
AGCCCACACAAGTTGGTGGCAACCCTTC
Found at i:42603 original size:52 final size:52
Alignment explanation
Indices: 42518--42677 Score: 169
Period size: 52 Copynumber: 3.1 Consensus size: 52
42508 GTCAAACCAA
* * *
42518 CATTTTTAAG-CTCAATGTCACTAGCCTTGAATCAGCACATCGACACTCTTCT
1 CATTTTTAAGTCT-AATGTCACTAGCCTTAAATCAGCACATTGGCACTCTTCT
* * * ** *
42570 CATTTTTAAGTCTAATGTCGCTGGCTTTAAATCAAAACATTGGCATTCTTCT
1 CATTTTTAAGTCTAATGTCACTAGCCTTAAATCAGCACATTGGCACTCTTCT
* * * * * *
42622 TATCTTCAAGTCAAATGTCACTAGCCGTAAATCAGCACATTGGCACTCTTAT
1 CATTTTTAAGTCTAATGTCACTAGCCTTAAATCAGCACATTGGCACTCTTCT
42674 CATT
1 CATT
42678 GAGTCTGATG
Statistics
Matches: 84, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
52 82 0.98
53 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (52 bp):
CATTTTTAAGTCTAATGTCACTAGCCTTAAATCAGCACATTGGCACTCTTCT
Found at i:48378 original size:13 final size:13
Alignment explanation
Indices: 48360--48385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48350 CAATTTTTTG
48360 TGTATCGATACAT
1 TGTATCGATACAT
48373 TGTATCGATACAT
1 TGTATCGATACAT
48386 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:48450 original size:21 final size:21
Alignment explanation
Indices: 48424--48499 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
48414 CTGCCAAGAA
*
48424 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
48445 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
48465 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
48486 ATGTATCGATACAT
1 ATGTATCGATACAT
48500 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:48470 original size:20 final size:20
Alignment explanation
Indices: 48445--48517 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
48435 CATCTTTTTT
48445 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
48465 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
48486 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
48506 ATGTATCGATAC
1 ATGTATCGATAC
48518 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:48481 original size:41 final size:41
Alignment explanation
Indices: 48424--48517 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
48414 CTGCCAAGAA
*
48424 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
48465 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
48506 ATGTATCGATAC
1 ATGTATCGATAC
48518 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:49150 original size:36 final size:36
Alignment explanation
Indices: 49107--49175 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
49097 GGTAATTCAC
49107 GCATTCTCTCCTTTATCTCCCCCGTTTATTAATCAT
1 GCATTCTCTCCTTTATCTCCCCCGTTTATTAATCAT
49143 GCATTCTCTCCTTTATCTCCCCCGTTTATTAAT
1 GCATTCTCTCCTTTATCTCCCCCGTTTATTAAT
49176 AAATCTCCCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.16, C:0.33, G:0.06, T:0.45
Consensus pattern (36 bp):
GCATTCTCTCCTTTATCTCCCCCGTTTATTAATCAT
Found at i:49211 original size:34 final size:34
Alignment explanation
Indices: 49173--49242 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
49163 CCCGTTTATT
49173 AATAAATCTCCCCCTTAATCAAGTAATTCATATC
1 AATAAATCTCCCCCTTAATCAAGTAATTCATATC
49207 AATAAATCTCCCCCTTAATCAAGTAATTCATATC
1 AATAAATCTCCCCCTTAATCAAGTAATTCATATC
49241 AA
1 AA
49243 AATTTATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.26, G:0.03, T:0.31
Consensus pattern (34 bp):
AATAAATCTCCCCCTTAATCAAGTAATTCATATC
Found at i:51049 original size:13 final size:13
Alignment explanation
Indices: 51031--51069 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
51021 ATAATCACCC
*
51031 TGTATCGATACAG
1 TGTATCGATACAA
51044 TGTATCGATACAA
1 TGTATCGATACAA
51057 TGTATCGATACAA
1 TGTATCGATACAA
51070 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:53168 original size:15 final size:15
Alignment explanation
Indices: 53148--53178 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53138 ATTTCGTTTG
*
53148 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
53163 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
53178 G
1 G
53179 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:57258 original size:13 final size:13
Alignment explanation
Indices: 57240--57265 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57230 CAATTTTTTG
57240 TGTATCGATACAT
1 TGTATCGATACAT
57253 TGTATCGATACAT
1 TGTATCGATACAT
57266 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:57330 original size:21 final size:21
Alignment explanation
Indices: 57304--57379 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
57294 CTGCCAAGAA
*
57304 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
57325 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
57345 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
57366 ATGTATCGATACAT
1 ATGTATCGATACAT
57380 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:57350 original size:20 final size:20
Alignment explanation
Indices: 57325--57397 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
57315 CATCTTTTTT
57325 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
57345 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
57366 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
57386 ATGTATCGATAC
1 ATGTATCGATAC
57398 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:57361 original size:41 final size:41
Alignment explanation
Indices: 57304--57397 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
57294 CTGCCAAGAA
*
57304 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
57345 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
57386 ATGTATCGATAC
1 ATGTATCGATAC
57398 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:57837 original size:17 final size:17
Alignment explanation
Indices: 57815--57848 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
57805 ACTTTTAGTC
57815 TTAAATAACTAGGACTA
1 TTAAATAACTAGGACTA
57832 TTAAATAACTAGGACTA
1 TTAAATAACTAGGACTA
57849 CAGAGAAAGG
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:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
TTAAATAACTAGGACTA
Found at i:58354 original size:81 final size:82
Alignment explanation
Indices: 58174--58371 Score: 220
Period size: 81 Copynumber: 2.4 Consensus size: 82
58164 AGAGAATTAA
* * * * *
58174 CCAAGGCAAAACTGATAAATCCAACGGGTTAGAGGGGTTGACCAGGGTGAAACTCATAAAGTTAA
1 CCAAGGCAAAACTGATAAAGCCAACAGGTTAGAGGGATTGAACAGGGTGAAACTCATAAAGTCAA
58239 CCAATTAGAAAGGTCAG
66 CCAATTAGAAAGGTCAG
* * * ** * *
58256 TC-GGGCGAAACCAATAAAGCCAACAGGTTAGAGGGATTGAATAGGGTGAAACTGATAAA-TCAA
1 CCAAGGCAAAACTGATAAAGCCAACAGGTTAGAGGGATTGAACAGGGTGAAACTCATAAAGTCAA
** *
58319 CCAATTAGAGGGGTTAG
66 CCAATTAGAAAGGTCAG
* *
58336 CCAAGGAAAAACTGATAAAGCCAATAGGTTGAGAGG
1 CCAAGGCAAAACTGATAAAGCCAACAGGTT-AGAGG
58372 TTGACTACGT
Statistics
Matches: 92, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
80 18 0.20
81 68 0.74
82 6 0.07
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (82 bp):
CCAAGGCAAAACTGATAAAGCCAACAGGTTAGAGGGATTGAACAGGGTGAAACTCATAAAGTCAA
CCAATTAGAAAGGTCAG
Found at i:59598 original size:20 final size:21
Alignment explanation
Indices: 59575--59629 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
59565 ACAATAAGGT
*
59575 AATGTATCGATACATAAGTG-
1 AATGTATCGATACATAACTGA
*
59595 AATGTATCGATACATACCTGA
1 AATGTATCGATACATAACTGA
59616 AATGTATCGATACA
1 AATGTATCGATACA
59630 AAACCATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATAACTGA
Found at i:63278 original size:13 final size:13
Alignment explanation
Indices: 63260--63318 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
63250 CACATCTAGA
63260 TGTATCGATACAT
1 TGTATCGATACAT
63273 TGTATCGATACA-
1 TGTATCGATACAT
*
63285 TG--GC-AT--AT
1 TGTATCGATACAT
*
63293 TGTATCGATACAC
1 TGTATCGATACAT
63306 TGTATCGATACAT
1 TGTATCGATACAT
63319 GAAGAATCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
7 1 0.03
8 2 0.06
9 2 0.06
10 2 0.06
11 2 0.06
12 2 0.06
13 25 0.69
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:63283 original size:33 final size:33
Alignment explanation
Indices: 63241--63317 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
63231 ACCCTAAAAG
* *
63241 GTATCGATACACATC-TAGATGTATCGATACATT
1 GTATCGATACACAGCATA-ATGTATCGATACACT
** *
63274 GTATCGATACATGGCATATTGTATCGATACACT
1 GTATCGATACACAGCATAATGTATCGATACACT
63307 GTATCGATACA
1 GTATCGATACA
63318 TGAAGAATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 36 0.95
34 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (33 bp):
GTATCGATACACAGCATAATGTATCGATACACT
Found at i:67170 original size:11 final size:11
Alignment explanation
Indices: 67154--67178 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
67144 AATGAAAAAG
67154 AAAATCTTAGT
1 AAAATCTTAGT
67165 AAAATCTTAGT
1 AAAATCTTAGT
67176 AAA
1 AAA
67179 TTGGAAGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (11 bp):
AAAATCTTAGT
Found at i:67833 original size:64 final size:64
Alignment explanation
Indices: 67732--67859 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
67722 GTGTTTAGAA
*
67732 ATAAATTAGATGAAGATGGAACCATAGTTAGAAACAAAGCTAGGCTAGTAGCAAAAAGTTATAG
1 ATAAATTAGATGAAAATGGAACCATAGTTAGAAACAAAGCTAGGCTAGTAGCAAAAAGTTATAG
*
67796 ATAAATTAGATGAAAATGGAACCATAGTTAGAAACAAAGCTAGGCTAGTAGCAAAAGGTTATAG
1 ATAAATTAGATGAAAATGGAACCATAGTTAGAAACAAAGCTAGGCTAGTAGCAAAAAGTTATAG
67860 TCAAGAGGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (64 bp):
ATAAATTAGATGAAAATGGAACCATAGTTAGAAACAAAGCTAGGCTAGTAGCAAAAAGTTATAG
Found at i:73216 original size:72 final size:72
Alignment explanation
Indices: 73099--73243 Score: 238
Period size: 72 Copynumber: 2.0 Consensus size: 72
73089 TGGGTTTTGA
*
73099 ACCCAAGCCACCTTTGTAGTAAAAGGTCATTGTGACTAATGCACCAAAGGTAAAC-TATGATCAT
1 ACCCAAGCCACCTTTGTAGTAAAAGGTCATTGTGACCAATGCACCAAAGGTAAACAT-TGATCAT
73163 TAAATAGC
65 TAAATAGC
* * *
73171 ACCCAGGCCACCTTTGTAGTAAAAGGTCATTGTGACCAATGCACCAAAGTTGAACATTGATCATT
1 ACCCAAGCCACCTTTGTAGTAAAAGGTCATTGTGACCAATGCACCAAAGGTAAACATTGATCATT
73236 AAATAGC
66 AAATAGC
73243 A
1 A
73244 AAAAAATATT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 67 0.99
73 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (72 bp):
ACCCAAGCCACCTTTGTAGTAAAAGGTCATTGTGACCAATGCACCAAAGGTAAACATTGATCATT
AAATAGC
Found at i:73427 original size:20 final size:20
Alignment explanation
Indices: 73404--73441 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
73394 AAAAGTTATG
73404 AAAAAAAT--TAAAAATAAA
1 AAAAAAATAATAAAAATAAA
73422 AAAAAAATAATAAAAATAAA
1 AAAAAAATAATAAAAATAAA
73442 GCAACTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAAATAATAAAAATAAA
Found at i:75291 original size:13 final size:13
Alignment explanation
Indices: 75273--75297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75263 CATAAAGTGT
75273 TGTATCGATACAA
1 TGTATCGATACAA
75286 TGTATCGATACA
1 TGTATCGATACA
75298 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:75313 original size:32 final size:33
Alignment explanation
Indices: 75253--75318 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
75243 TTGAACGATT
75253 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
75286 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
75318 T
1 T
75319 ATAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:82615 original size:13 final size:13
Alignment explanation
Indices: 82583--82645 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
82573 GTTCTTTTCC
*
82583 AAAAAAGAAA-CA
1 AAAAAAAAAAGCA
* *
82595 AAACAAAAAAGGA
1 AAAAAAAAAAGCA
*
82608 AAAAAAAAGAAACA
1 AAAAAAAA-AAGCA
*
82622 AACAAAAAAAGCA
1 AAAAAAAAAAGCA
*
82635 AACAAAAAAAG
1 AAAAAAAAAAG
82646 AAGAGAGGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 8 0.20
13 23 0.56
14 10 0.24
ACGTcount: A:0.81, C:0.10, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGCA
Found at i:82628 original size:17 final size:17
Alignment explanation
Indices: 82607--82644 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
82597 ACAAAAAAGG
82607 AAAAAAAAAG-AAACAA
1 AAAAAAAAAGCAAACAA
*
82623 ACAAAAAAAGCAAACAA
1 AAAAAAAAAGCAAACAA
82640 AAAAA
1 AAAAA
82645 GAAGAGAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGCAAACAA
Found at i:82631 original size:27 final size:28
Alignment explanation
Indices: 82582--82643 Score: 92
Period size: 27 Copynumber: 2.2 Consensus size: 28
82572 TGTTCTTTTC
*
82582 CAAAAAAGAAACAAAACAAAAAAGGAAA
1 CAAAAAAGAAACAAAACAAAAAAGCAAA
82610 -AAAAAAGAAAC-AAACAAAAAAAGCAAA
1 CAAAAAAGAAACAAAAC-AAAAAAGCAAA
82637 CAAAAAA
1 CAAAAAA
82644 AGAAGAGAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.13
27 21 0.68
28 6 0.19
ACGTcount: A:0.81, C:0.11, G:0.08, T:0.00
Consensus pattern (28 bp):
CAAAAAAGAAACAAAACAAAAAAGCAAA
Found at i:83627 original size:33 final size:33
Alignment explanation
Indices: 83590--83773 Score: 161
Period size: 30 Copynumber: 5.8 Consensus size: 33
83580 CCCACAGCTC
*
83590 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCTTTCTTAAAGTCCACAATTT
* * *** *
83623 AGTGGCATC--TCTTTC-CAAAGCCCACGGCTC
1 AGTGGCATCTTTCTTTCTTAAAGTCCACAATTT
* *
83653 AGTGGCATCTTTCCTTCTTAAAGTCCAAAATTT
1 AGTGGCATCTTTCTTTCTTAAAGTCCACAATTT
* * *** *
83686 AGTGGCATC--TCTTTC-CAAAGCCCACGGCTC
1 AGTGGCATCTTTCTTTCTTAAAGTCCACAATTT
83716 AGTGGCATCTTTCTTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCTTTCTTAAAGTCCACAATTT
*
83749 AGTGGCATC--TCTTTC-CAAAGTCCAC
1 AGTGGCATCTTTCTTTCTTAAAGTCCAC
83774 GACTCCGTGG
Statistics
Matches: 115, Mismatches: 30, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
30 44 0.38
31 16 0.14
32 11 0.10
33 44 0.38
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (33 bp):
AGTGGCATCTTTCTTTCTTAAAGTCCACAATTT
Found at i:83665 original size:63 final size:63
Alignment explanation
Indices: 83566--83836 Score: 393
Period size: 63 Copynumber: 4.3 Consensus size: 63
83556 AATTCTTCAA
*
83566 ATCTCTTTCCAAAGCCCACAGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
*
83629 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCAAAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
*
83692 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCTTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
* * * * * * **
83755 ATCTCTTTCCAAAGTCCACGACTCCGTGGCACCTTTTTCTT-TTCAAAGTCCACAACTCCGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATC-TTTCCTTCTT-AAAGTCCACAATTTAGTGGC
**
83819 A-CTCTTTTTAAAGCCCAC
1 ATCTCTTTCCAAAGCCCAC
83837 AACTCTATGG
Statistics
Matches: 190, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
63 167 0.88
64 23 0.12
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (63 bp):
ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
Found at i:83818 original size:97 final size:94
Alignment explanation
Indices: 83727--83923 Score: 220
Period size: 97 Copynumber: 2.1 Consensus size: 94
83717 GTGGCATCTT
* * * *
83727 TCTTTCTTAAAGTCCACAA-TTTAGTGGCA-TCTCTTTCCAAAGTCCACGACTCCGTGGCAC-CT
1 TCTTT-TTAAAGCCCACAACTCTA-TGGCACTCTCTTTCCAAAGCCCACAACTCCGTGGCACTCT
*
83789 TTTTCTTTTCAAAGTCCACAACTCCGTGGCAC
64 TTTTC-CTTCAAAGTCCACAACTCCGTGGCAC
* **
83821 TCTTTTTAAAGCCCACAACTCTATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTC
1 TCTTTTTAAAGCCCACAACTCTATGGCA-C--TCTCTTTCCAAAGCCCACAACTCCGTGGCACTC
* **
83886 TTTTTCCTTCTAAGTCCACAACTCTATGGCAC
63 TTTTTCCTTCAAAGTCCACAACTCCGTGGCAC
83918 TCTTTT
1 TCTTTT
83924 CCCCTTTTAA
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
93 17 0.20
94 8 0.09
97 54 0.63
98 7 0.08
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.36
Consensus pattern (94 bp):
TCTTTTTAAAGCCCACAACTCTATGGCACTCTCTTTCCAAAGCCCACAACTCCGTGGCACTCTTT
TTCCTTCAAAGTCCACAACTCCGTGGCAC
Found at i:83824 original size:126 final size:126
Alignment explanation
Indices: 83566--83872 Score: 395
Period size: 126 Copynumber: 2.4 Consensus size: 126
83556 AATTCTTCAA
83566 ATCTCTTTCCAAAGCCCACAGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCAT
1 ATCTCTTTCCAAAGCCCACAGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCAT
* * * *
83631 CTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCAAAATTTAGTGGC
66 CTCTTTCCAAAGCCCACGACTCAGTGGCACCTTTCCTTCTTAAAGTCCAAAACTCAGTGGC
* *
83692 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCTTTCTTAAAGTCCACAATTTAGTGGCAT
1 ATCTCTTTCCAAAGCCCACAGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCAT
* * * * *
83757 CTCTTTCCAAAGTCCACGACTCCGTGGCACCTTTTTCTT-TTCAAAGTCCACAACTCCGTGGC
66 CTCTTTCCAAAGCCCACGACTCAGTGGCACC-TTTCCTTCTT-AAAGTCCAAAACTCAGTGGC
** * * * * *
83819 A-CTCTTTTTAAAGCCCACAACTCTA-TGGCACCTTTTTCTTTTTAAAGCCCACAA
1 ATCTCTTTCCAAAGCCCACAGCTC-AGTGGCATC-TTTCCTTCTTAAAGTCCACAA
83873 CTCCGTGGCA
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
126 116 0.74
127 41 0.26
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (126 bp):
ATCTCTTTCCAAAGCCCACAGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCAT
CTCTTTCCAAAGCCCACGACTCAGTGGCACCTTTCCTTCTTAAAGTCCAAAACTCAGTGGC
Found at i:83836 original size:29 final size:29
Alignment explanation
Indices: 83792--83890 Score: 117
Period size: 29 Copynumber: 3.2 Consensus size: 29
83782 GGCACCTTTT
* *
83792 TCTTTTCAAAGTCCACAACTCCGTGGCAC
1 TCTTTTTAAAGCCCACAACTCCGTGGCAC
**
83821 TCTTTTTAAAGCCCACAACTCTATGGCACC
1 TCTTTTTAAAGCCCACAACTCCGTGGCA-C
83851 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC
1 ----TCTTTTTAAAGCCCACAACTCCGTGGCAC
83884 TCTTTTT
1 TCTTTTT
83891 CCTTCTAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
29 31 0.53
30 1 0.02
33 1 0.02
34 26 0.44
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.35
Consensus pattern (29 bp):
TCTTTTTAAAGCCCACAACTCCGTGGCAC
Found at i:83854 original size:63 final size:63
Alignment explanation
Indices: 83725--84090 Score: 233
Period size: 63 Copynumber: 5.6 Consensus size: 63
83715 CAGTGGCATC
* * ** ** * *
83725 TTTCTTTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGTCCACGACTCCGTGGCACCTT
1 TTTCTTT-TCAAAGTCCACAACTCCGTGGCA-CTCTTTTTAAAGTCCACAACTCCATGGCACCTT
* *
83790 TTTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCTATGGCACCTT
1 TTTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTCCATGGCACCTT
* * * *
83853 TTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTATGGCAC
1 TTTCTTTTCAAAGTCCACAACTCCGTGGCACTC--TTT--TT-AAAGTCCACAACTCCATGGCAC
83918 TCTT
61 -CTT
* * * * * ** * *
83922 TTCCCCTTTT-AAAGTCCACAACCCCATGGCACCTTGTTCCTTTTAAGTCCATGAGTCCGTGGCA
1 TT--TCTTTTCAAAGTCCACAACTCCGTGGCA-C-TCTT--TTTAAAGTCCACAACTCCATGGCA
83986 CC--
60 CCTT
* * *
83988 -TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTTCGTGGC
1 TTTCTTTTCAAAGTCCACAACTCCGTGGCACTC----T---TTTTAAAGTCCACAACTCCATGGC
84052 ACCTT
59 ACCTT
* *
84057 GTTCCTTTT--AAGTCCACAACTTCGTGGCA-TCTTT
1 -TTTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTT
84091 CACCCTTCTC
Statistics
Matches: 240, Mismatches: 37, Indels: 52
0.73 0.11 0.16
Matches are distributed among these distances:
61 2 0.01
62 1 0.00
63 64 0.27
64 38 0.16
65 11 0.05
66 1 0.00
67 23 0.10
68 23 0.10
69 41 0.17
70 22 0.09
71 12 0.05
72 2 0.01
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.35
Consensus pattern (63 bp):
TTTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTCCATGGCACCTT
Found at i:83951 original size:36 final size:33
Alignment explanation
Indices: 83765--84090 Score: 285
Period size: 34 Copynumber: 9.8 Consensus size: 33
83755 ATCTCTTTCC
* *
83765 AAAGTCCACGACTCCGTGGCACCTTTTTCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
83798 CAAAGTCCACAACTCCGTGGCA-C---TCTTTTT
1 -AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* ** *
83828 AAAGCCCACAACTCTATGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACC-TTTTCCTTTT
* *
83862 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGTCCACAACTCCGTGGCAC-C-TTTTCCTTTT
**
83897 -AAGTCCACAACTCTATGGCACTCTTTTCCCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTT--CCTTTT
* *
83932 AAAGTCCACAACCCCATGGCACCTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
** *
83966 -AAGTCCATGAGTCCGTGGCACC--TT-CTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
83995 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGTCCACAACTCCGTGGCAC-C-TTTT-CCTTTT
*
84032 AAAGTCCACAACTTCGTGGCACCTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* *
84066 -AAGTCCACAACTTCGTGGCATCTTT
1 AAAGTCCACAACTCCGTGGCACCTTT
84091 CACCCTTCTC
Statistics
Matches: 245, Mismatches: 28, Indels: 40
0.78 0.09 0.13
Matches are distributed among these distances:
29 23 0.09
30 8 0.03
31 17 0.07
32 2 0.01
33 45 0.18
34 81 0.33
35 23 0.09
36 41 0.17
37 5 0.02
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (33 bp):
AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:83985 original size:69 final size:72
Alignment explanation
Indices: 83833--84056 Score: 170
Period size: 69 Copynumber: 3.3 Consensus size: 72
83823 TTTTTAAAGC
* * * * *
83833 CCACAACTCTATGGCACC-T-TTTT--CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 CCACAACTCCATGGCACCTTCTTTTCCCCTTTTAAAGCCCACAACCCCATGGCACTCTTGTTCCT
83894 TCTAAGT
66 TCTAAGT
* *
83901 CCACAACTCTATGGCA-C-TCTTTTCCCCTTTTAAAGTCCACAACCCCATGGCAC-CTTGTTCCT
1 CCACAACTCCATGGCACCTTCTTTTCCCCTTTTAAAGCCCACAACCCCATGGCACTCTTGTTCCT
*
83963 TTTAAGT
66 TCTAAGT
** * * * * *
83970 CCATGAGTCCGTGGCACCTTCTTTT---C----AAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 CCACAACTCCATGGCACCTTCTTTTCCCCTTTTAAAGCCCACAACCCCATGGCACTCTTGTT-CC
*
84028 TTTTAAAGT
65 TTCT-AAGT
* *
84037 CCACAACTTCGTGGCACCTT
1 CCACAACTCCATGGCACCTT
84057 GTTCCTTTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
64 19 0.15
65 5 0.04
66 6 0.05
67 22 0.17
68 21 0.16
69 25 0.19
70 25 0.19
71 6 0.05
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (72 bp):
CCACAACTCCATGGCACCTTCTTTTCCCCTTTTAAAGCCCACAACCCCATGGCACTCTTGTTCCT
TCTAAGT
Found at i:84039 original size:100 final size:100
Alignment explanation
Indices: 83766--84085 Score: 357
Period size: 100 Copynumber: 3.2 Consensus size: 100
83756 TCTCTTTCCA
83766 AAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTC----T---
1 AAGTCCACGACTCCGTGGCACC---TTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTCCC
* * * *
83824 TTTTAAAGCCCACAACTCTATGGCACCTTTTTCTTTTT
63 TTTTAAAGTCCACAACTCCATGGCACCTTGTTCCTTTT
* * * * ** *
83862 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTATGGCACTCTTTTCCC
1 -AAGTCCACGACTCCGTGGCAC-CTTCTT--TTCAAAGTCCACAACTCCGTGGCACTCTTTTTCC
*
83927 CTTTTAAAGTCCACAACCCCATGGCACCTTGTTCCTTTT
62 CTTTTAAAGTCCACAACTCCATGGCACCTTGTTCCTTTT
* * *
83966 AAGTCCATGAGTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTCCCTTT
* *
84031 TAAAGTCCACAACTTCGTGGCACCTTGTTCCTTTT
66 TAAAGTCCACAACTCCATGGCACCTTGTTCCTTTT
* *
84066 AAGTCCACAACTTCGTGGCA
1 AAGTCCACGACTCCGTGGCA
84086 TCTTTCACCC
Statistics
Matches: 184, Mismatches: 29, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
95 4 0.02
97 43 0.23
98 1 0.01
100 81 0.44
102 5 0.03
103 17 0.09
104 33 0.18
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (100 bp):
AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTCCCTTT
TAAAGTCCACAACTCCATGGCACCTTGTTCCTTTT
Found at i:84129 original size:32 final size:33
Alignment explanation
Indices: 84092--84261 Score: 276
Period size: 32 Copynumber: 5.2 Consensus size: 33
84082 GGCATCTTTC
*
84092 ACCCTTCTC-AAAGCCCACAAAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
84124 ACCCTTCTC-AAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
84156 ACCTTTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
84189 A-CCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
84221 A-CCTTCTTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTC-TCTAAAGCCCACACAAGTCGGTGGCA
84254 ACCCTTCT
1 ACCCTTCT
84262 AAGTCCAATG
Statistics
Matches: 131, Mismatches: 4, Indels: 5
0.94 0.03 0.04
Matches are distributed among these distances:
32 75 0.57
33 51 0.39
34 5 0.04
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.20
Consensus pattern (33 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:84181 original size:65 final size:65
Alignment explanation
Indices: 84094--84261 Score: 279
Period size: 65 Copynumber: 2.6 Consensus size: 65
84084 CATCTTTCAC
*
84094 CCTTCTC-AAAGCCCACAAAAGTCGGTGGCAACCCTTCTC-AAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
84157 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA-CCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
84221 A
65 A
*
84222 CCTTCTTCTAAAGCCCACACAAGTTGGTGGCAACCCTTCT
1 CCTTC-TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
84262 AAGTCCAATG
Statistics
Matches: 98, Mismatches: 2, Indels: 7
0.92 0.02 0.07
Matches are distributed among these distances:
63 2 0.02
64 15 0.15
65 75 0.77
66 6 0.06
ACGTcount: A:0.27, C:0.35, G:0.18, T:0.20
Consensus pattern (65 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:84372 original size:43 final size:43
Alignment explanation
Indices: 84262--84561 Score: 357
Period size: 43 Copynumber: 6.7 Consensus size: 43
84252 CAACCCTTCT
*
84262 AAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC--C
84308 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCC
1 ---AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCC
**
84354 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCC
* * **
84397 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCC
* * *
84440 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC--C
* * **
84486 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACTTTT
1 ---AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCC
*
84532 AAGTCCAATATAGCTGGCCTTGAATCAGCA
1 AAGTCCAATGTAGCTGGCCTTGAATCAGCA
84562 TATCGGCATC
Statistics
Matches: 228, Mismatches: 17, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
43 149 0.65
44 1 0.00
46 1 0.00
48 3 0.01
49 74 0.32
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (43 bp):
AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:84395 original size:21 final size:21
Alignment explanation
Indices: 84371--84438 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
84361 ATGTAGCTGG
84371 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
84392 CCTTTAAGTC--CA-ATATCGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
84414 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
84435 CCTT
1 CCTT
84439 TAAGTCCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:84414 original size:24 final size:24
Alignment explanation
Indices: 84387--84457 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
84377 ATCAGCACAT
84387 TGGCACCTTTAAGTCCAATATCGC
1 TGGCACCTTTAAGTCCAATATCGC
* ** **
84411 TGG--CCTTGAA-T-CAGCA-CAT
1 TGGCACCTTTAAGTCCAATATCGC
84430 TGGCACCTTTAAGTCCAATATCGC
1 TGGCACCTTTAAGTCCAATATCGC
84454 TGGC
1 TGGC
84458 CTTGAATCAG
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 7 0.22
22 7 0.22
23 3 0.09
24 8 0.25
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (24 bp):
TGGCACCTTTAAGTCCAATATCGC
Found at i:84417 original size:22 final size:22
Alignment explanation
Indices: 84392--84460 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
84382 CACATTGGCA
84392 CCTTTAAGTCCAATATCGCTGG
1 CCTTTAAGTCCAATATCGCTGG
* * *
84414 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATCGCTGG
84435 CCTTTAAGTCCAATATCGCTGG
1 CCTTTAAGTCCAATATCGCTGG
84457 CCTT
1 CCTT
84461 GAATCAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATCGCTGG
Found at i:84422 original size:86 final size:88
Alignment explanation
Indices: 84256--84627 Score: 433
Period size: 92 Copynumber: 4.1 Consensus size: 88
84246 TGGTGGCAAC
* *
84256 CCTTCTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTTTAAGTCCAATG
84321 TAGCTGGCCTTGAATCAGCACATTGGCA
61 TAGCTGGCCTTGAATCAGCACATTGGCA
** * * *
84349 CCTCCAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATCGCT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATGTAGCT
84412 GGCCTTGAATCAGCACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
* *
84435 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTTTAAGTCCAATGT
*
84500 AGCTAGCCTTGAATCAGCACATTGGCA
62 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
84527 CTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCATCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA------CC-TCTTTAAGTCCAA
* *
84592 TGTAGCTAGCCTTGAATCAGCACATTGACA
59 TGTAGCTGGCCTTGAATCAGCACATTGGCA
84622 TCCTTT
1 -CCTTT
84628 TTCTCATCTT
Statistics
Matches: 246, Mismatches: 21, Indels: 21
0.85 0.07 0.07
Matches are distributed among these distances:
86 78 0.32
88 1 0.00
90 1 0.00
92 116 0.47
93 3 0.01
95 42 0.17
96 4 0.02
97 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (88 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCA
Found at i:84607 original size:52 final size:55
Alignment explanation
Indices: 84529--84649 Score: 158
Period size: 52 Copynumber: 2.3 Consensus size: 55
84519 CATTGGCACT
* * *
84529 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCAT-C-TTTTC-CATC
1 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATCGACATCCTTTTTCTCATC
* * *
84581 TTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCATC
1 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATCGACATCCTTTTTCTCATC
*
84636 TTTAAGCCCAATAT
1 TTTAAGTCCAATAT
84650 CGTTGGCCGT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 36 0.63
53 1 0.02
54 5 0.09
55 15 0.26
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.36
Consensus pattern (55 bp):
TTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATCGACATCCTTTTTCTCATC
Found at i:84773 original size:49 final size:49
Alignment explanation
Indices: 84698--84818 Score: 197
Period size: 49 Copynumber: 2.5 Consensus size: 49
84688 TTTCTCATCT
* *
84698 TCATCTTTGAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCG
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCG
* *
84747 TCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCACCT
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCG
*
84796 TTATCTTTAAGTCCAATATCGCT
1 TCATCTTTAAGTCCAATATCGCT
84819 AGCCGCATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.33
Consensus pattern (49 bp):
TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCG
Found at i:84781 original size:116 final size:118
Alignment explanation
Indices: 84577--84800 Score: 299
Period size: 116 Copynumber: 1.9 Consensus size: 118
84567 GCATCTTTTC
*
84577 CATCTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAG
1 CATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGACATCC----TCTCATCTTTAAG
* *
84642 CCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTT
62 CCCAATATCGTTGGCCGTGAATCAACACATTGGCACCTTTATCACTTTTCTCATCTT
* * * * * *
84699 CATCTTTGAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CC-GTCATCTTTAAGTCCA
1 CATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTCTCATCTTTAAGCCCA
* *
84762 ATATCGTTGGCCTTGAATCAGCACATTGGCACCTTTATC
66 ATATCGTTGGCCGTGAATCAACACATTGGCACCTTTATC
84801 TTTAAGTCCA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 49 0.54
121 2 0.02
122 40 0.44
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (118 bp):
CATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTCTCATCTTTAAGCCCA
ATATCGTTGGCCGTGAATCAACACATTGGCACCTTTATCACTTTTCTCATCTT
Found at i:84872 original size:218 final size:217
Alignment explanation
Indices: 84479--84963 Score: 563
Period size: 218 Copynumber: 2.2 Consensus size: 217
84469 ATATTGGCAC
* *
84479 CTTCTTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA-CTTTTAAGTCCAATAT
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTAAGTCCAATAT
* * * *
84543 AGCTGGCCTTGAATCAGCATATCGGCATCTTTTCCATCTTTAAGTTCAATGTAGCTAGCCTTGAA
66 AGCTGGCCTTGAATCAGCACATCGGCATCCTTT-CATCTTTAAGTCCAATATAGCTAGCC-TGAA
*
84608 TCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATT
129 TCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACATATT
*
84673 GG-CATCTTTATCACTTTTC-TCAT
194 GGTCAT-TTTATCACTCTTCATCAT
* *
84696 CTTCATCTTTGAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCC
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--C-T-TTTAAGTCC
* * * *
84761 AATATCGTTGGCCTTGAATCAGCACATTGGCA-CCTTT-ATCTTTAAGTCCAATATCGCTAGCC-
61 AATATAGCTGGCCTTGAATCAGCACATCGGCATCCTTTCATCTTTAAGTCCAATATAGCTAGCCT
** * ** *
84823 GCATATTGGCTC-TT-TTATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCTGTGAATCAAC
126 G-A-ATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAAC
* * *
84886 GTATTGGTCCTTTTATCACTCTTCATCTT
189 ATATTGGTCATTTTATCACTCTTCATCAT
* * * * * *
84915 CATCATCTTTAAGTCCAGTGTTGCAGGCCTTGAATCTGCACAGTGGCAC
1 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
84964 ATTGCAAAAC
Statistics
Matches: 228, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
217 44 0.19
218 65 0.29
219 49 0.21
220 27 0.12
221 1 0.00
222 5 0.02
223 37 0.16
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.36
Consensus pattern (217 bp):
CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTAAGTCCAATAT
AGCTGGCCTTGAATCAGCACATCGGCATCCTTTCATCTTTAAGTCCAATATAGCTAGCCTGAATC
AGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAATCAACATATTGG
TCATTTTATCACTCTTCATCAT
Found at i:85597 original size:13 final size:13
Alignment explanation
Indices: 85579--85635 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
85569 CATAAAGTGT
85579 TGTATCGATACAA
1 TGTATCGATACAA
85592 TGTATCGATACATAA
1 TGTATCGATAC--AA
85607 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
85624 TGTATCGATACA
1 TGTATCGATACA
85636 TGCAGGCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:85614 original size:32 final size:33
Alignment explanation
Indices: 85559--85636 Score: 149
Period size: 32 Copynumber: 2.4 Consensus size: 33
85549 TTCAACGATT
85559 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
85592 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
85624 TGTATCGATACAT
1 TGTATCGATACAT
85637 GCAGGCAAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 32 0.71
33 13 0.29
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:94778 original size:28 final size:28
Alignment explanation
Indices: 94738--94815 Score: 156
Period size: 28 Copynumber: 2.8 Consensus size: 28
94728 CATAACTCTG
94738 TTAAAGTCCACAACTCCGTGGCACCCTT
1 TTAAAGTCCACAACTCCGTGGCACCCTT
94766 TTAAAGTCCACAACTCCGTGGCACCCTT
1 TTAAAGTCCACAACTCCGTGGCACCCTT
94794 TTAAAGTCCACAACTCCGTGGC
1 TTAAAGTCCACAACTCCGTGGC
94816 GTCTGTTAGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.24
Consensus pattern (28 bp):
TTAAAGTCCACAACTCCGTGGCACCCTT
Found at i:95230 original size:12 final size:12
Alignment explanation
Indices: 95213--95237 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95203 TACACCAAGT
95213 ATGTATCGATAC
1 ATGTATCGATAC
95225 ATGTATCGATAC
1 ATGTATCGATAC
95237 A
1 A
95238 CAAAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:95230 original size:31 final size:31
Alignment explanation
Indices: 95195--95257 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
95185 TAGCCAAACT
* *
95195 TGTATCGATACAC-CAAGTATGTATCGATACA
1 TGTATCGATACACAAAAAT-TGTATCGATACA
95226 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
95257 T
1 T
95258 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (31 bp):
TGTATCGATACACAAAAATTGTATCGATACA
Found at i:99797 original size:13 final size:13
Alignment explanation
Indices: 99779--99816 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
99769 CATTTTTCTT
99779 TGTATCGATACAA
1 TGTATCGATACAA
*
99792 TGTATCGATACAC
1 TGTATCGATACAA
99805 TGTATCGATACA
1 TGTATCGATACA
99817 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:101659 original size:20 final size:20
Alignment explanation
Indices: 101634--101686 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
101624 GTTACAAGCT
101634 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
101654 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
101674 ATGTATCGATACA
1 ATGTATCGATACA
101687 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:103143 original size:20 final size:20
Alignment explanation
Indices: 103118--103174 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
103108 TACTGCCAGT
103118 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACATTTG
* *
103138 TTCATGTATCAATACA-ATG
1 TTCATGTATCGATACATTTG
**
103157 AACATGTATCGATACATT
1 TTCATGTATCGATACATT
103175 GTATCGATAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
TTCATGTATCGATACATTTG
Found at i:103179 original size:13 final size:13
Alignment explanation
Indices: 103161--103185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103151 ACAATGAACA
103161 TGTATCGATACAT
1 TGTATCGATACAT
103174 TGTATCGATACA
1 TGTATCGATACA
103186 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:103341 original size:21 final size:21
Alignment explanation
Indices: 103290--103343 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
103280 AAGTATTTTT
*
103290 ACTTAAAAATATTTGATTTAA
1 ACTTAAAAACATTTGATTTAA
**
103311 AGCTCGAAAACATTTG-TTTATA
1 A-CTTAAAAACATTTGATTTA-A
103333 ACTTAAAAACA
1 ACTTAAAAACA
103344 CTTTTTGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (21 bp):
ACTTAAAAACATTTGATTTAA
Found at i:104129 original size:33 final size:33
Alignment explanation
Indices: 104092--104158 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
104082 TTAAGAGAAC
*
104092 TAAAGTGCTCATCCATGAGCTGCGAGAGTGAAG
1 TAAAGTGCTCATCCATGAGCTGCGAAAGTGAAG
* * *
104125 TAAAGTGCTCATTCATGTGTTGCGAAAGTGAAG
1 TAAAGTGCTCATCCATGAGCTGCGAAAGTGAAG
104158 T
1 T
104159 GATCAACTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (33 bp):
TAAAGTGCTCATCCATGAGCTGCGAAAGTGAAG
Found at i:112903 original size:32 final size:32
Alignment explanation
Indices: 112867--112932 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
112857 AACGAATGGC
*
112867 GGCCGACAGTGGTTGCT-GACCACCGATGTGGT
1 GGCCGACAGTGGTTGCTAG-CCACCGACGTGGT
112899 GGCCGACAGTGGTTGCTAGCCACCGACGTGGT
1 GGCCGACAGTGGTTGCTAGCCACCGACGTGGT
112931 GG
1 GG
112933 TCGATCGTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.15, C:0.26, G:0.39, T:0.20
Consensus pattern (32 bp):
GGCCGACAGTGGTTGCTAGCCACCGACGTGGT
Found at i:115995 original size:13 final size:13
Alignment explanation
Indices: 115977--116033 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
115967 TTCAACGATT
115977 TGTATCGATACAA
1 TGTATCGATACAA
115990 TGTATCGATACATAA
1 TGTATCGATAC--AA
116005 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
116022 TGTATCGATACA
1 TGTATCGATACA
116034 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:116014 original size:19 final size:18
Alignment explanation
Indices: 115990--116050 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
115980 ATCGATACAA
115990 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
116009 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
116022 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
116041 TGTATCGATA
1 TGTATCGATA
116051 TAATGTAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 21 0.58
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:116017 original size:32 final size:32
Alignment explanation
Indices: 115976--116057 Score: 146
Period size: 32 Copynumber: 2.6 Consensus size: 32
115966 TTTCAACGAT
115976 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
116008 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
116040 TTGTATCGATATAATGTA
1 TTGTATCGATACAATGTA
116058 AGCTACTACC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:122792 original size:33 final size:33
Alignment explanation
Indices: 122747--123176 Score: 231
Period size: 33 Copynumber: 13.4 Consensus size: 33
122737 TGGGATCTCT
** *
122747 TTTTCAAAGTCCATGACTCAGTGGCATCTTTTTC
1 TTTT-AAAGTCCACAACTCAGTGGCACCTTTTTC
** *
122781 TTTTAAAGTCCATGACTGC-GTGGCACCTTTTCCC
1 TTTTAAAGTCCACAACT-CAGTGGCACCTTTT-TC
* *
122815 TTTT-AAGTTCACAACT-ATGTAGCACCTTTTTC
1 TTTTAAAGTCCACAACTCA-GTGGCACCTTTTTC
* *
122847 TTTTTAAGTCCACAACTTTA-TGGCACC-----C
1 TTTTAAAGTCCACAAC-TCAGTGGCACCTTTTTC
* * *
122875 TTTT-AAGTCCACAACTCCGTGGTACATTTTTC
1 TTTTAAAGTCCACAACTCAGTGGCACCTTTTTC
* * * *
122907 TTTTAAGGTCCATAACTCCGTGGCACCCTTTT-
1 TTTTAAAGTCCACAACTCAGTGGCACCTTTTTC
* * *
122939 TTTT-AAGTCCACAACTCTGTGGCATCTTTTTT
1 TTTTAAAGTCCACAACTCAGTGGCACCTTTTTC
* ** *
122971 TTTTTAAGTCCATGATTCTA-TGGCACCTTTTTC
1 TTTTAAAGTCCACAACTC-AGTGGCACCTTTTTC
* ** * ** *
123004 TTTTAAAATTTACAATTTTGTGACACC-----C
1 TTTTAAAGTCCACAACTCAGTGGCACCTTTTTC
*
123032 TTTTTAAGTCCACAACTTC-GTGGCACCTTTTT-
1 TTTTAAAGTCCACAAC-TCAGTGGCACCTTTTTC
* * * *
123064 TTTTTAAGTCCATAACTCCA-TGACATCTTTTTC
1 TTTTAAAGTCCACAACT-CAGTGGCACCTTTTTC
* *
123097 TTTTAAAGTCCACAACTCAGTGACACCTTTTCCC
1 TTTTAAAGTCCACAACTCAGTGGCACCTTTT-TC
* * *
123131 TTTT-AAGTTCACAACTCTA-TTGCACATTTTTC
1 TTTTAAAGTCCACAACTC-AGTGGCACCTTTTTC
*
123163 TTTTTAAGTCCACA
1 TTTTAAAGTCCACA
123177 CACCCTTTTA
Statistics
Matches: 307, Mismatches: 58, Indels: 63
0.72 0.14 0.15
Matches are distributed among these distances:
26 1 0.00
27 16 0.05
28 24 0.08
29 1 0.00
31 23 0.07
32 51 0.17
33 173 0.56
34 17 0.06
35 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.42
Consensus pattern (33 bp):
TTTTAAAGTCCACAACTCAGTGGCACCTTTTTC
Found at i:122888 original size:60 final size:60
Alignment explanation
Indices: 122812--122982 Score: 182
Period size: 60 Copynumber: 2.8 Consensus size: 60
122802 GGCACCTTTT
* * * **
122812 CCCTTTTAAGTTCACAACTATGTAGCACCTTTTTCTTTTTAAGTCCACAACTTTATGGCA
1 CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAGTCCACAACTCCATGGCA
* * * * *
122872 CCCTTTTAAGTCCACAACTCCGTGGTACATTTTTC-TTTTAAGGTCCATAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAA-GTCCACAACTCCATGGCA
* *
122932 CCCTTTTTTTTAAGTCCACAACTCTGTGGCATCTTTTTTTTTTTAAGTCCA
1 CCC----TTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAGTCCA
122983 TGATTCTATG
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
59 6 0.07
60 46 0.51
64 32 0.36
65 6 0.07
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.41
Consensus pattern (60 bp):
CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAGTCCACAACTCCATGGCA
Found at i:122896 original size:93 final size:92
Alignment explanation
Indices: 122780--122954 Score: 201
Period size: 93 Copynumber: 1.9 Consensus size: 92
122770 GCATCTTTTT
** * * * * *
122780 CTTTTAAAGTCCATGACTGCGTGGCACCTTTTCCCTTTTAA-GTTCACAACTATGTAGCACCTTT
1 CTTTTAAAGTCCACAACTCCGTGGCACATTTT-CCTTTTAAGGTCCACAACTACGTAGCACC-CT
122844 TTCTTTTTAAGTCCACAACTTTATGGCACC
64 TT-TTTTTAAGTCCACAACTTTATGGCACC
* * * * *
122874 CTTTT-AAGTCCACAACTCCGTGGTACATTTTTCTTTTAAGGTCCATAACTCCGTGGCACCCTTT
1 CTTTTAAAGTCCACAACTCCGTGGCACATTTTCCTTTTAAGGTCCACAACTACGTAGCACCCTTT
122938 TTTTTAAGTCCACAACT
66 TTTTTAAGTCCACAACT
122955 CTGTGGCATC
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
91 17 0.25
92 10 0.15
93 36 0.53
94 5 0.07
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (92 bp):
CTTTTAAAGTCCACAACTCCGTGGCACATTTTCCTTTTAAGGTCCACAACTACGTAGCACCCTTT
TTTTTAAGTCCACAACTTTATGGCACC
Found at i:122905 original size:27 final size:27
Alignment explanation
Indices: 122847--122905 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
122837 CACCTTTTTC
** *
122847 TTTTTAAGTCCACAACTTTATGGCACC
1 TTTTTAAGTCCACAACTCCATGGCACA
* * *
122874 CTTTTAAGTCCACAACTCCGTGGTACA
1 TTTTTAAGTCCACAACTCCATGGCACA
122901 TTTTT
1 TTTTT
122906 CTTTTAAGGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (27 bp):
TTTTTAAGTCCACAACTCCATGGCACA
Found at i:123487 original size:30 final size:28
Alignment explanation
Indices: 123365--123481 Score: 99
Period size: 29 Copynumber: 4.1 Consensus size: 28
123355 TTCATGATAT
* ** *
123365 CCTTTTTCAAGTCCACAACTCTGTGACA
1 CCTTTTTGAAGTCCACAACTCCATGGCA
* * * *
123393 TCTTTTTTTAAGTCCACAATTCCGTGGCA
1 -CCTTTTTGAAGTCCACAACTCCATGGCA
* * * *
123422 CCTTTTTAAAGTCCGCATAACTCTATGGTA
1 CCTTTTTGAAGT-C-CACAACTCCATGGCA
123452 CCTTTTTGAAGTCCACAACTCCATGGCA
1 CCTTTTTGAAGTCCACAACTCCATGGCA
123480 CC
1 CC
123482 CCTTTTCGAA
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
28 24 0.34
29 25 0.36
30 21 0.30
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (28 bp):
CCTTTTTGAAGTCCACAACTCCATGGCA
Found at i:123527 original size:31 final size:31
Alignment explanation
Indices: 123490--123621 Score: 122
Period size: 31 Copynumber: 4.2 Consensus size: 31
123480 CCCCTTTTCG
*
123490 AAGCCCACACAAGTCGGTGGTAACCCCTTCA
1 AAGCCCACACAAGTCGGTGGCAACCCCTTCA
*
123521 AAGCCCACACAAGTCGGTGGCAA-CCATTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCCTTC-A
* ** * ** *
123552 ATGCCCATGCATGTTAGTGGCAACCCTCTTAA
1 AAGCCCACACAAGTCGGTGGCAACCC-CTTCA
* * * *
123584 AAGCCCACACAAGTTGGTGGCATCTCCTTCT
1 AAGCCCACACAAGTCGGTGGCAACCCCTTCA
123615 AAGCCCA
1 AAGCCCA
123622 ATGTTGTTGG
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
30 5 0.06
31 50 0.63
32 22 0.28
33 2 0.03
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (31 bp):
AAGCCCACACAAGTCGGTGGCAACCCCTTCA
Found at i:123829 original size:52 final size:55
Alignment explanation
Indices: 123730--123867 Score: 155
Period size: 52 Copynumber: 2.6 Consensus size: 55
123720 AGTCCGATCA
* *
123730 CTGGCCTTGAATCAGCATATTGGCA-TCTT-T-ATCATTCCTAAACCCAATGTTG
1 CTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCATTCCTAAACCCAATGTCG
**
123782 CTGGCCTTGAATCAGCACATTGGCATTCTTCTCATC-TT-C-AAGTCCAATGTCG
1 CTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCATTCCTAAACCCAATGTCG
* **
123834 -TTGTTTGTGAATCAGCACATTGGCATTCTTCTCA
1 CTGGCCT-TGAATCAGCACATTGGCATTCTTCTCA
123868 CCTTTATCAT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
51 3 0.04
52 61 0.81
53 5 0.07
54 3 0.04
55 3 0.04
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (55 bp):
CTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCATTCCTAAACCCAATGTCG
Found at i:124142 original size:51 final size:52
Alignment explanation
Indices: 124038--124142 Score: 142
Period size: 51 Copynumber: 2.0 Consensus size: 52
124028 CTTCGCATCT
* * *
124038 TTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGTACTTTTCTCATTC
1 TTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTATCATTC
* *
124090 TTAAGCCTAATATC-CTTAGCCTT-AATTAGCATATTGGCACCTTTATCATTC
1 TTAAGCCCAATATCAC-TAGCCTTGAATCAGCATATTGGCACCTTTATCATTC
124141 TT
1 TT
124143 TTCATCTTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
51 27 0.57
52 20 0.43
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (52 bp):
TTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTATCATTC
Found at i:124902 original size:20 final size:21
Alignment explanation
Indices: 124862--124933 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
124852 CAACAATTTA
*
124862 TATCGATACAATAAG-GCAATG
1 TATCGATAC-ATAAGTGAAATG
124883 TATCGATACATAAGTG-AATG
1 TATCGATACATAAGTGAAATG
* * ***
124903 TATTGATAAATGCTTGAAATG
1 TATCGATACATAAGTGAAATG
124924 TATCGATACA
1 TATCGATACA
124934 AGACCATGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
20 20 0.48
21 22 0.52
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (21 bp):
TATCGATACATAAGTGAAATG
Found at i:125007 original size:20 final size:21
Alignment explanation
Indices: 124982--125036 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
124972 ATTTTTTAAA
124982 TATCGATACATTTCT-TATTG
1 TATCGATACATTTCTGTATTG
* *
125002 TATCGATACATTT-TGTGTTT
1 TATCGATACATTTCTGTATTG
125022 TATCGATACATTTCT
1 TATCGATACATTTCT
125037 CACTGTATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.51
Consensus pattern (21 bp):
TATCGATACATTTCTGTATTG
Found at i:128903 original size:12 final size:14
Alignment explanation
Indices: 128881--128914 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
128871 TGTTATCTTG
128881 AACCTTATATAG-TA
1 AACCTTATA-AGCTA
128895 AACCTTATAAGCTA
1 AACCTTATAAGCTA
128909 AACCTT
1 AACCTT
128915 GTCAACCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (14 bp):
AACCTTATAAGCTA
Found at i:133241 original size:27 final size:27
Alignment explanation
Indices: 133202--133256 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
133192 TTTTTTCTTG
*
133202 TAAGCCTACAACTCCGTGGCACCTTTT
1 TAAGCCCACAACTCCGTGGCACCTTTT
* *
133229 TAAGCCCATAACTCTGTGGCACCTTTT
1 TAAGCCCACAACTCCGTGGCACCTTTT
133256 T
1 T
133257 CTTTTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.33
Consensus pattern (27 bp):
TAAGCCCACAACTCCGTGGCACCTTTT
Found at i:133261 original size:33 final size:33
Alignment explanation
Indices: 133224--133410 Score: 135
Period size: 33 Copynumber: 6.0 Consensus size: 33
133214 TCCGTGGCAC
* *
133224 CTTTTTAAGCCCATAACTCTGTGGCACCTTTTT
1 CTTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* *
133257 CTTTTAAAGTCCACAACTCTATGGCACC-----
1 CTTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * * * *
133285 CTTTTTAACTCCACAACTTTGTAGCATC-TTTC
1 CTTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * * *
133317 CCTTTTAAGTCCATAACTCCGTGGTACCTTTTT
1 CTTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * *
133350 CTTTTAAAGTCCACAGCTCCGTGGCA-C----T
1 CTTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* *
133378 CTTTTTAAGTCCACAACTCCGTAGCACCTTTTT
1 CTTTTTAAGTCCACAACTCTGTGGCACCTTTTT
133411 TTAAAGTCCA
Statistics
Matches: 117, Mismatches: 27, Indels: 20
0.71 0.16 0.12
Matches are distributed among these distances:
28 46 0.39
29 1 0.01
32 21 0.18
33 49 0.42
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.38
Consensus pattern (33 bp):
CTTTTTAAGTCCACAACTCTGTGGCACCTTTTT
Found at i:133282 original size:60 final size:59
Alignment explanation
Indices: 133193--133349 Score: 165
Period size: 61 Copynumber: 2.6 Consensus size: 59
133183 AGAAAAACCT
* * *
133193 TTTTTCTTGTAAG-CCTACAACTCCGTGGCACCTTTTTAAGC-CCATAACTCTGTGGCACC
1 TTTTTCTTTTAAGTCC-ACAACTCCGTGGCACCTTTTTAA-CTCCACAACTCTGTAGCACC
** * *
133252 TTTTTCTTTTAAAGTCCACAACTCTATGGCACCCTTTTTAACTCCACAACTTTGTAGCATC
1 TTTTTCTTTT-AAGTCCACAACTCCGTGGCA-CCTTTTTAACTCCACAACTCTGTAGCACC
** * *
133313 TTTCCCTTTTAAGTCCATAACTCCGTGGTACCTTTTT
1 TTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
133350 CTTTTAAAGT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
59 16 0.20
60 32 0.40
61 33 0.41
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (59 bp):
TTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAACTCCACAACTCTGTAGCACC
Found at i:133292 original size:29 final size:28
Alignment explanation
Indices: 133257--133555 Score: 157
Period size: 28 Copynumber: 10.2 Consensus size: 28
133247 GCACCTTTTT
* *
133257 CTTTTAAAGTCCACAACTCTATGGCACC
1 CTTTTTAAGTCCACAACTCCATGGCACC
* *** *
133285 CTTTTTAACTCCACAACTTTGTAGCATCTTTC
1 CTTTTTAAGTCCACAACTCCATGGCA-C---C
* * * *
133317 CCTTTTAAGTCCATAACTCCGTGGTACC
1 CTTTTTAAGTCCACAACTCCATGGCACC
* * * *
133345 TTTTTCTTTTAAAGTCCACAGCTCCGTGGCACT
1 -----CTTTTTAAGTCCACAACTCCATGGCACC
* *
133378 CTTTTTAAGTCCACAACTCCGTAGCACC
1 CTTTTTAAGTCCACAACTCCATGGCACC
* * * * *
133406 TTTTTTTAAAGTCCATAGCACCATGGCATCT
1 -CTTTTT-AAGTCCACAACTCCATGGCA-CC
* ** *
133437 ATTTTTAAGTCCACAACTTTATGGTATCC
1 CTTTTTAAGTCCACAACTCCATGGCA-CC
* ** *
133466 TTTTTTAAGTCCGTAACTCCATGGCATC
1 CTTTTTAAGTCCACAACTCCATGGCACC
* * ***
133494 CTTTTTAAGTCCATAAATTTGTGGCACC
1 CTTTTTAAGTCCACAACTCCATGGCACC
*
133522 CTTTCTAAGTCCACAACTCCATGGCACC
1 CTTTTTAAGTCCACAACTCCATGGCACC
133550 CTTTTT
1 CTTTTT
133556 TGAAGCCTAC
Statistics
Matches: 201, Mismatches: 58, Indels: 24
0.71 0.20 0.08
Matches are distributed among these distances:
28 95 0.47
29 42 0.21
30 20 0.10
31 2 0.01
32 20 0.10
33 22 0.11
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (28 bp):
CTTTTTAAGTCCACAACTCCATGGCACC
Found at i:133350 original size:93 final size:93
Alignment explanation
Indices: 133226--133395 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
133216 CGTGGCACCT
* *
133226 TTTTAAGCCCATAACTCTGTGGCACCTTTTTCTTTTAAAGTCCACAACTCTATGGCACCCTTTTT
1 TTTTAAGCCCATAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCATGGCACCCTTTTT
133291 AACTCCACAACTTTGTAGCATCTTTCCC
66 AACTCCACAACTTTGTAGCATCTTTCCC
* * * * *
133319 TTTTAAGTCCATAACTCCGTGGTACCTTTTTCTTTTAAAGTCCACAGCTCCGTGGCACTCTTTTT
1 TTTTAAGCCCATAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCATGGCACCCTTTTT
*
133384 AAGTCCACAACT
66 AACTCCACAACT
133396 CCGTAGCACC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.29, G:0.11, T:0.38
Consensus pattern (93 bp):
TTTTAAGCCCATAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCATGGCACCCTTTTT
AACTCCACAACTTTGTAGCATCTTTCCC
Done.