Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 52 of 199
Found at i:15283657 original size:65 final size:65
Alignment explanation
Indices: 15283508--15284034 Score: 554
Period size: 65 Copynumber: 8.1 Consensus size: 65
15283498 TTTAATTGAC
*
15283508 AACCTTAAACCCTTAACCTAAAAACCCTAACCCTAACCCTTAAC-TTAAAACACC--AACCCTTA
1 AACC-TAAACCCTTAACTTAAAAACCCT-A----AACCCTTAACTTTAAAAC-CCTAAACCCTTA
*
15283570 AATTCAA
59 AATTAAA
* * * *
15283577 AACCTTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAAACCCT-AACCCTTAACTTAA
1 AACC-TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAAATTAA
15283641 A
65 A
* * * *
15283642 AACTCTAAACTCTTAACCTAAAAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAAATTAA
1 AAC-CTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAAATTAA
15283707 A
65 A
* * * *
15283708 AACCATAAACCCTTAACTTAAAAATCTTAAA-CCTTAA-ATTAAAACCCT-AACCCTTAACTTAA
1 AACC-TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAAATTAA
15283770 A
65 A
* * * *
15283771 AATCCTAAAACCTTAAATTAAAAACCCTAAACCCTAAAACTTTAAAACTCTAAACCCTTAAATTA
1 AA-CCTAAACCCTTAACTTAAAAACCCTAAACCCT-TAACTTTAAAACCCTAAACCCTTAAATTA
15283836 AA
64 AA
* * * * **
15283838 ACCCTAAACTCTTAACTT-AAAACCAT-AACTCTTAACTTTAAAACCCTAAACCCTTACCTTAAA
1 AACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAAATTAAA
* * * * * *
15283901 AATCGT-AACCCTTAAATTAAAAACCCTAAACCTTTAACTTTTAAACCATAAACCCTTAACTTAA
1 AA-CCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAAATTAA
15283965 A
65 A
* * *
15283966 AACCTTAACCCTTTAACTTAAAAATCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAA
1 AACCTAAACCC-TTAACTTAAAAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAAATTAA
15284030 A
65 A
15284031 AACC
1 AACC
15284035 CTATCCTTGT
Statistics
Matches: 391, Mismatches: 52, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
63 76 0.19
64 42 0.11
65 155 0.40
66 76 0.19
67 15 0.04
68 1 0.00
69 26 0.07
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (65 bp):
AACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAAATTAAA
Found at i:15285384 original size:127 final size:125
Alignment explanation
Indices: 15285098--15285664 Score: 809
Period size: 127 Copynumber: 4.5 Consensus size: 125
15285088 CAAACATGCT
*
15285098 ACTGTAGCAAAAGTGCGTCCAC-TGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC-T
1 ACTGTAGCAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* * * * * *
15285161 AAAAGCG-ATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACCT
66 GAAA-CGTTTTTTAAACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCA
*
15285221 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* *
15285286 GAAACGTTTTTTAAAACAATTTACTCAGAAACGTCAACTCGAAATTATTTCTTCCAGTACCA
66 GAAACGTTTTTT-AAACTATTTACTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACCA
* * *
15285348 ACTGTAGCAAAAGTGCGTCCACGTGGGTGTGGTTTCACAAATTCTTCTCATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
*
15285413 GAAGCGTTTTTTAAAACTATTTACTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAACGTTTTTT-AAACTATTTACTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACCA
*
15285475 ACTGTAGCAAAAGCGCGTCCACGAGGGCT-CGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGTGGG-TGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * *
15285539 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCACGACCT
65 TGAAACGTTTTTTAAACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCA
* * * * * * * *
15285600 ACTGTAGCAAAAGCGCATACACGTGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
15285665 TGATTTTATC
Statistics
Matches: 404, Mismatches: 33, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
123 21 0.05
124 41 0.10
125 72 0.18
126 69 0.17
127 200 0.50
128 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
GAAACGTTTTTTAAACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCA
Found at i:15289437 original size:16 final size:17
Alignment explanation
Indices: 15289407--15289455 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
15289397 TATGATTAAG
15289407 ATTTCAAAATATAAAAA
1 ATTTCAAAATATAAAAA
*
15289424 ATTT-AAAAT-TTAAAA
1 ATTTCAAAATATAAAAA
*
15289439 ATATC-AAAT-TAAAAA
1 ATTTCAAAATATAAAAA
15289454 AT
1 AT
15289456 AAAAATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 19 0.68
16 5 0.18
17 4 0.14
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTTCAAAATATAAAAA
Found at i:15289440 original size:15 final size:15
Alignment explanation
Indices: 15289412--15289465 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
15289402 TTAAGATTTC
*
15289412 AAAATATAAAAAATTT
1 AAAAT-TAAAAAATAT
*
15289428 AAAATTTAAAAATAT
1 AAAATTAAAAAATAT
*
15289443 CAAATTAAAAAATA-
1 AAAATTAAAAAATAT
15289457 AAAATTAAA
1 AAAATTAAA
15289466 TTCACAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
14 8 0.24
15 20 0.61
16 5 0.15
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATTAAAAAATAT
Found at i:15290994 original size:5 final size:5
Alignment explanation
Indices: 15290986--15291011 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15290976 GAGATGGAAT
15290986 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
15291012 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:15291011 original size:26 final size:26
Alignment explanation
Indices: 15290960--15291011 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
15290950 TGAAGTTTTC
* * *
15290960 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
15290986 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
15291012 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:15291744 original size:9 final size:9
Alignment explanation
Indices: 15291727--15291772 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
15291717 TCGAGTTGAT
15291727 TCGAATAAC
1 TCGAATAAC
*
15291736 TCGATTAAC
1 TCGAATAAC
15291745 TCGAATAAC
1 TCGAATAAC
15291754 TCG-ATGAAC
1 TCGAAT-AAC
15291763 TCGAATAAC
1 TCGAATAAC
15291772 T
1 T
15291773 TGATTCGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 2 0.06
9 29 0.88
10 2 0.06
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:15291750 original size:18 final size:18
Alignment explanation
Indices: 15291727--15291777 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
15291717 TCGAGTTGAT
15291727 TCGAATAACTCGATTAAC
1 TCGAATAACTCGATTAAC
*
15291745 TCGAATAACTCGATGAAC
1 TCGAATAACTCGATTAAC
*
15291763 TCGAATAACTTGATT
1 TCGAATAACTCGATT
15291778 CGTTTAACTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
TCGAATAACTCGATTAAC
Found at i:15300569 original size:15 final size:16
Alignment explanation
Indices: 15300543--15300613 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 16
15300533 AGGTTGCCAC
15300543 AAAGGCTTTCCTTTAT
1 AAAGGCTTTCCTTTAT
*
15300559 AAAGG-TTTCC--TAC
1 AAAGGCTTTCCTTTAT
*
15300572 AAAGGTTTTCCTTTAT
1 AAAGGCTTTCCTTTAT
*
15300588 AGAGG-TTTGCC---AT
1 AAAGGCTTT-CCTTTAT
15300601 AAAGGCTTTCCTT
1 AAAGGCTTTCCTT
15300614 GTAGAGGTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 15
0.70 0.06 0.24
Matches are distributed among these distances:
13 15 0.34
14 8 0.18
15 8 0.18
16 13 0.30
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.39
Consensus pattern (16 bp):
AAAGGCTTTCCTTTAT
Found at i:15300574 original size:29 final size:28
Alignment explanation
Indices: 15300517--15300699 Score: 154
Period size: 29 Copynumber: 6.4 Consensus size: 28
15300507 TATTGCCATG
* * *
15300517 AGGCTTTCTTTTTTAGAGGTTGCCACAA
1 AGGCTTTCCTTTATAGAGGTTTCCACAA
*
15300545 AGGCTTTCCTTTATAAAGGTTTCCTACAA
1 AGGCTTTCCTTTATAGAGGTTTCC-ACAA
* *
15300574 AGGTTTTCCTTTATAGAGGTTTGCCATAA
1 AGGCTTTCCTTTATAGAGGTTT-CCACAA
* *
15300603 AGGCTTTCC-TTGTAGAGGTTCACCACAA
1 AGGCTTTCCTTTATAGAGGTT-TCCACAA
* * * *
15300631 AGGC-TTCCTCTATAGAGGTTCGCCATAG
1 AGGCTTTCCTTTATAGAGGTT-TCCACAA
** ** *
15300659 AGATTTTCCTTTGCAGAGTTTTTCCACAA
1 AGGCTTTCCTTTATAGAG-GTTTCCACAA
15300688 AGGCTTTCCTTT
1 AGGCTTTCCTTT
15300700 TGGAAGTTTA
Statistics
Matches: 122, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
27 4 0.03
28 55 0.45
29 59 0.48
30 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (28 bp):
AGGCTTTCCTTTATAGAGGTTTCCACAA
Found at i:15300605 original size:58 final size:56
Alignment explanation
Indices: 15300521--15300657 Score: 152
Period size: 57 Copynumber: 2.4 Consensus size: 56
15300511 GCCATGAGGC
* * * *
15300521 TTTCTTTTTTAGAGG-TTGCCACAAAGGCTTTCCTTTATAAAGGTTTC-CTACAAAGG
1 TTTCCTTTATAGAGGTTTGCCATAAAGGCTTTCC-TTATAAAGG-TTCACCACAAAGG
* *
15300577 TTTTCCTTTATAGAGGTTTGCCATAAAGGCTTTCCTTGTAGAGGTTCACCACAAAGG
1 -TTTCCTTTATAGAGGTTTGCCATAAAGGCTTTCCTTATAAAGGTTCACCACAAAGG
* * *
15300634 CTTCCTCTATAGAGGTTCGCCATA
1 TTTCCTTTATAGAGGTTTGCCATA
15300658 GAGATTTTCC
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
56 24 0.35
57 28 0.41
58 17 0.25
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (56 bp):
TTTCCTTTATAGAGGTTTGCCATAAAGGCTTTCCTTATAAAGGTTCACCACAAAGG
Found at i:15300763 original size:28 final size:29
Alignment explanation
Indices: 15300720--15300784 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
15300710 CTATCAAGAG
*
15300720 TTTCCTTTGCATAGTTTTGCCACAAAATA
1 TTTCCTTTGCAGAGTTTTGCCACAAAATA
** *
15300749 TTTCCTTT-CAGAGTTTTGTTACAAAATC
1 TTTCCTTTGCAGAGTTTTGCCACAAAATA
*
15300777 TTTTCTTT
1 TTTCCTTT
15300785 TTCTAGCACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 23 0.74
29 8 0.26
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.49
Consensus pattern (29 bp):
TTTCCTTTGCAGAGTTTTGCCACAAAATA
Found at i:15313397 original size:7 final size:7
Alignment explanation
Indices: 15313379--15313461 Score: 88
Period size: 6 Copynumber: 12.1 Consensus size: 7
15313369 CTCTGAGTTA
15313379 GAAAATAT
1 GAAAA-AT
15313387 GAAAAAT
1 GAAAAAT
15313394 GAAAAAAT
1 G-AAAAAT
15313402 G-AAAAT
1 GAAAAAT
15313408 G-AAAAT
1 GAAAAAT
15313414 G-AAAAT
1 GAAAAAT
15313420 G-AAAAT
1 GAAAAAT
15313426 G-AAAAT
1 GAAAAAT
15313432 GAAAAAT
1 GAAAAAT
15313439 GAAAAAAT
1 G-AAAAAT
15313447 GAAAAA-
1 GAAAAAT
15313453 GTAAAAAT
1 G-AAAAAT
15313461 G
1 G
15313462 GAGAGGCTAA
Statistics
Matches: 70, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
6 31 0.44
7 19 0.27
8 20 0.29
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
GAAAAAT
Found at i:15314822 original size:44 final size:44
Alignment explanation
Indices: 15314773--15314860 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
15314763 TGTAAGGAAA
* *
15314773 TAGATTTAAGCCAGAAATATTATCTCCCTGAGATTACAGCGGAG
1 TAGATTGAAGCCAGAAATACTATCTCCCTGAGATTACAGCGGAG
** ** * *
15314817 TAGATTGAAGTTATTAATCCTATCTCCCTGAGATTACAGTGGAG
1 TAGATTGAAGCCAGAAATACTATCTCCCTGAGATTACAGCGGAG
15314861 CGGATTAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (44 bp):
TAGATTGAAGCCAGAAATACTATCTCCCTGAGATTACAGCGGAG
Found at i:15314885 original size:44 final size:44
Alignment explanation
Indices: 15314792--15315042 Score: 141
Period size: 44 Copynumber: 5.5 Consensus size: 44
15314782 GCCAGAAATA
* ** * * * **
15314792 TTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGTTATTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGAATC
* *
15314836 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATC
1 TTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGAATC
* * * * *
15314880 TTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAGTC
1 TTATCTCCCTGAGA-TTACAGT-G-G-AG--CGGATTAAAAT-AA---AGAA-TC
* * **
15314934 TTATCTCCCTGAGATTACAATGGAGCAGATTGAAGCT--AGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG-AATC
* * *
15314978 CTATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATC
1 TTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGAATC
*
15315022 TTATCTCTCTGA-AGTTACAGT
1 TTATCTCCCTGAGA-TTACAGT
15315043 AGAGTAGATC
Statistics
Matches: 155, Mismatches: 35, Indels: 34
0.69 0.16 0.15
Matches are distributed among these distances:
43 5 0.03
44 101 0.65
45 5 0.03
46 1 0.01
47 2 0.01
49 10 0.06
50 4 0.03
51 2 0.01
52 1 0.01
53 4 0.03
54 19 0.12
55 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGAATC
Found at i:15315030 original size:142 final size:142
Alignment explanation
Indices: 15314774--15315059 Score: 491
Period size: 142 Copynumber: 2.0 Consensus size: 142
15314764 GTAAGGAAAT
* * * * *
15314774 AGATTTAAGCCAGAAATATTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGTTATTAATCCTA
1 AGATTGAAGCCAGAAATATTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTA
15314839 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
66 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
15314904 GTAGATCGCATC
131 GTAGATCGCATC
* * *
15314916 AGATTGAAGCCAGAAGTCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGCTAGTAATCCTA
1 AGATTGAAGCCAGAAATATTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTA
*
15314981 TCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
66 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
15315046 GTAGATCGCATC
131 GTAGATCGCATC
15315058 AG
1 AG
15315060 GTCTTATCTC
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 135 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (142 bp):
AGATTGAAGCCAGAAATATTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTA
TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
GTAGATCGCATC
Found at i:15315194 original size:50 final size:50
Alignment explanation
Indices: 15315135--15315900 Score: 413
Period size: 50 Copynumber: 15.3 Consensus size: 50
15315125 GCAGTGGAAC
* * *
15315135 AGATTAAAGCCACAACGGTGAATTTTGCCTCCCTAACATTGTAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * * * ** * ** *
15315185 AGATTAAAGCTATAGCAGCGAATCTTACCTCCCTGGTAGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * *
15315235 ATATTAAAGCCACATCGGTGAGTCTTGCCTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * * * ** * * ** *
15315285 AGATTAAAGCTATAGCAGCGAATCTTACCTCCCTGGTAGTACAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
*
15315335 AGATTAAAGCCACATCGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * * * * *** *
15315385 AGATTAAAGCTACAGCAGCGAATCTT-ACTCCCCAGGCGA-TGCAGCGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTGAC-ATTGCAGTTAAAA
* *
15315435 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * * * *** *
15315485 AGATTAAAGCTACAACAGCGAATCTT-ACTCCCCAGGCGA-TGCAGCGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTGAC-ATTGCAGTTAAAA
* * * *
15315535 AGATTAAAGCCACAACGGTGAATCTTG-TTTCCTCAATATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCT-GACATTGCAGTTAAAA
* * * * * * * **
15315585 AGATTAAAGCTACAACAGTGAATCTTACCTCCCAGGCAATGCA-TTGGAGC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTT-AAAA
* * * *
15315635 AGATTAAAGCCACAACGGCGTATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * * * * *** * **
15315685 AGACTAAAGCCACAGCAGG-GAGTGTTACTTCCCTGGCAACACAGTGAAGC
1 AGATTAAAGCCACAAC-GGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
**
15315735 AGATTAAAGCCACAACGGTGAATCTTG-CTTTCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCT-GACATTGCAGTTAAAA
* * * * * * * * *
15315785 GGATTAAAGTCACAACGATAAATC-T-CACTCTCTCAGCTAGTGTAG-TAGAGCA
1 AGATTAAAGCCACAACGGTGAATCTTGC-CTCCCTGA-C-ATTGCAGTTA-A-AA
* * *
15315837 A-ATTAAAGCCACAACGGCGAATCTTGCTTCCCTGACATTGTAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * *
15315886 ATATTGAAGCTACAA
1 AGATTAAAGCCACAA
15315901 GCTACGAATC
Statistics
Matches: 512, Mismatches: 179, Indels: 50
0.69 0.24 0.07
Matches are distributed among these distances:
49 18 0.04
50 449 0.88
51 37 0.07
52 7 0.01
53 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
Found at i:15315281 original size:100 final size:100
Alignment explanation
Indices: 15315106--15315899 Score: 881
Period size: 100 Copynumber: 7.9 Consensus size: 100
15315096 AGAATTACAG
* * *
15315106 ATCTTATCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATTTTGCCTCCCTAA
1 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* *
15315171 CATTGTAGTTAAAAAGATTAAAGCTATAGCAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * * *
15315206 ATCTTACCTCCCTGGTAGTGCAGTGGAACATATTAAAGCCACATCGGTGAGTCTTGCCTCCCTGA
1 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
*
15315271 CATTGCAGTTAAAAAGATTAAAGCTATAGCAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * *
15315306 ATCTTACCTCCCTGGTAGTACAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCCTGA
1 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
15315371 CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * *
15315406 ATCTTA-CTCCCCAGGC-GATGCAGCGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
1 ATCTTACCT-CCCAGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
*
15315469 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
64 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * *
15315506 ATCTTA-CTCCCCAGGC-GATGCAGCGGAACAGATTAAAGCCACAACGGTGAATCTTG-TTTCCT
1 ATCTTACCT-CCCAGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
* * * *
15315568 CAATATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
64 -GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * * * * *
15315606 ATCTTACCTCCCAGGCAATGCATTGGAGCAGATTAAAGCCACAACGGCGTATCTTGCTTCCCCGA
1 ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* * *
15315671 CATTGCAGTTAAAAAGACTAAAGCCACAGCAGGGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * * *** **
15315706 GTGTTACTTCCCTGGCAACACAGT-GAAGCAGATTAAAGCCACAACGGTGAATCTTG-CTTTCTC
1 ATCTTACCTCCCAGGCAGTGCAGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT-
* *
15315769 GACATTGCAGTTAAAAGGATTAAAG-T-CA-CAACGATAA
64 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG---A
* * * * * * * *
15315806 ATCTCACTCTCTCA-GCTAGTGTAGTAGAGCAAATTAAAGCCACAACGGCGAATCTTGCTTCCCT
1 ATCTTAC-CTCCCAGGC-AGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
* * *
15315870 GACATTGTAGTTAAAAATATTGAAGCTACA
64 GACATTGCAGTTAAAAAGATTAAAGCTACA
15315900 AGCTACGAAT
Statistics
Matches: 598, Mismatches: 79, Indels: 31
0.84 0.11 0.04
Matches are distributed among these distances:
97 3 0.01
98 2 0.00
99 11 0.02
100 514 0.86
101 60 0.10
102 6 0.01
103 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
ATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
Found at i:15322743 original size:16 final size:16
Alignment explanation
Indices: 15322722--15322752 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15322712 TTCACTAATA
*
15322722 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
15322738 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
15322753 ACATTCAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:15323924 original size:19 final size:19
Alignment explanation
Indices: 15323900--15323939 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
15323890 ATTAATTTTG
15323900 ATCAAGTAAAATT-AAATTA
1 ATCAAGT-AAATTAAAATTA
*
15323919 ATCAAGTCAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
15323938 AT
1 AT
15323940 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:15324911 original size:12 final size:12
Alignment explanation
Indices: 15324896--15324940 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
15324886 TTTATTTATT
15324896 TTTTTAGTTTTA
1 TTTTTAGTTTTA
*
15324908 TTTTTATTTTTA
1 TTTTTAGTTTTA
15324920 TTTTTAGTTTTA
1 TTTTTAGTTTTA
15324932 TTTTTAGTT
1 TTTTTAGTT
15324941 GTTTTTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTAGTTTTA
Found at i:15324912 original size:6 final size:6
Alignment explanation
Indices: 15324886--15324937 Score: 70
Period size: 6 Copynumber: 8.7 Consensus size: 6
15324876 GATCATTGAG
* *
15324886 TTTATT TATT-TT TTTAGT TTTATT TTTATT TTTATT TTTAGT TTTATT
1 TTTATT T-TTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
15324934 TTTA
1 TTTA
15324938 GTTGTTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
5 2 0.05
6 36 0.90
7 2 0.05
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:15324923 original size:24 final size:24
Alignment explanation
Indices: 15324886--15324946 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
15324876 GATCATTGAG
15324886 TTTATTTATTTTTTTAGTTTTATT
1 TTTATTTATTTTTTTAGTTTTATT
15324910 TTTATTT-TTATTTTTAGTTTTATT
1 TTTATTTATT-TTTTTAGTTTTATT
* *
15324934 TTTAGTTGTTTTT
1 TTTATTTATTTTT
15324947 ATTGTTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.06
24 30 0.88
25 2 0.06
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.79
Consensus pattern (24 bp):
TTTATTTATTTTTTTAGTTTTATT
Found at i:15324957 original size:12 final size:11
Alignment explanation
Indices: 15324886--15324957 Score: 65
Period size: 12 Copynumber: 6.2 Consensus size: 11
15324876 GATCATTGAG
*
15324886 TTTATTTATTTT
1 TTTATTT-TATT
15324898 TTTAGTTTTATT
1 TTTA-TTTTATT
15324910 TTTATTTTTATT
1 TTTA-TTTTATT
15324922 TTTAGTTTTATT
1 TTTA-TTTTATT
* *
15324934 TTTA-GTTGTT
1 TTTATTTTATT
15324944 TTTATTGTTATT
1 TTTATT-TTATT
15324956 TT
1 TT
15324958 CTTTGACTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
10 8 0.16
12 39 0.78
13 3 0.06
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:15332127 original size:17 final size:18
Alignment explanation
Indices: 15332105--15332143 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15332095 ATGGGGTAGC
*
15332105 CTTTTAGGTT-TATTTTT
1 CTTTTAGCTTCTATTTTT
*
15332122 CTTTTATCTTCTATTTTT
1 CTTTTAGCTTCTATTTTT
15332140 CTTT
1 CTTT
15332144 GGTATTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.10, C:0.13, G:0.05, T:0.72
Consensus pattern (18 bp):
CTTTTAGCTTCTATTTTT
Found at i:15332523 original size:22 final size:22
Alignment explanation
Indices: 15332498--15332540 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
15332488 TATATGATTA
*
15332498 ATATGA-TTAAAATATATTATAT
1 ATATGAGTTAAAA-AAATTATAT
*
15332520 ATATTAGTTAAAAAAATTATA
1 ATATGAGTTAAAAAAATTATA
15332541 AATGAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
ATATGAGTTAAAAAAATTATAT
Found at i:15333059 original size:2 final size:2
Alignment explanation
Indices: 15333052--15333078 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15333042 TTTTACCCTT
15333052 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15333079 TAACTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15333223 original size:12 final size:12
Alignment explanation
Indices: 15333206--15333244 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
15333196 AGACGACTTC
15333206 ATATTGTATTAA
1 ATATTGTATTAA
*
15333218 ATATTGTA-TCA
1 ATATTGTATTAA
15333229 ATATTGTATTAA
1 ATATTGTATTAA
15333241 ATAT
1 ATAT
15333245 AGCACAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (12 bp):
ATATTGTATTAA
Found at i:15335768 original size:37 final size:37
Alignment explanation
Indices: 15335718--15335790 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
15335708 ATAACACTAA
*
15335718 GAGCTTTCAGTTTCCTAGAAATCCCCATATTTCAAGT
1 GAGCTTTCAGTTTCCTAGAAATCCACATATTTCAAGT
* * *
15335755 GAGC-TTCAAGTTTCCTGGACATCTACATATTTCAAG
1 GAGCTTTC-AGTTTCCTAGAAATCCACATATTTCAAG
15335791 GGAATACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 3 0.10
37 28 0.90
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (37 bp):
GAGCTTTCAGTTTCCTAGAAATCCACATATTTCAAGT
Found at i:15341326 original size:19 final size:20
Alignment explanation
Indices: 15341289--15341326 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15341279 AAATAAGCTC
*
15341289 TTAGGCTAGGCATTGACAAG
1 TTAGCCTAGGCATTGACAAG
15341309 TTAGCCTAGGCA-TGACAA
1 TTAGCCTAGGCATTGACAA
15341327 CCACATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (20 bp):
TTAGCCTAGGCATTGACAAG
Found at i:15350026 original size:22 final size:22
Alignment explanation
Indices: 15350001--15350042 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15349991 ATGATGATTG
15350001 ATATGT-TGAGATTGATATTTTA
1 ATATGTATGAGATT-ATATTTTA
*
15350023 ATATGTATGCGATTATATTT
1 ATATGTATGAGATTATATTT
15350043 GTGTTGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (22 bp):
ATATGTATGAGATTATATTTTA
Found at i:15352542 original size:21 final size:23
Alignment explanation
Indices: 15352513--15352554 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
15352503 CAGTGGCATC
15352513 GCAACCAAAC-AT-ACTTAATAT
1 GCAACCAAACAATAACTTAATAT
*
15352534 GCAATCAAACAATAACTTAAT
1 GCAACCAAACAATAACTTAAT
15352555 GAGTCGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 2 0.11
23 7 0.39
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (23 bp):
GCAACCAAACAATAACTTAATAT
Found at i:15359999 original size:121 final size:119
Alignment explanation
Indices: 15359787--15360022 Score: 357
Period size: 121 Copynumber: 2.0 Consensus size: 119
15359777 TTTTAATGTC
* *
15359787 TTTCTCATGCTCTAATAACCATGTGCATACTGGTTTCTATTTCAATGCTTATGACTATCGCTAGT
1 TTTCTCATGCTCTAATAACCATGTGCATACTGGTTTCTATTTCAATGCTTATGACCATCACTAGT
*
15359852 TAGTTGATGGACAAGAGGGAGCTAAACTCATGTAAAGAGTAGTTTCTTACATTG
66 TAGTTGATGGACAAGAGGGAGCTAAACTCATGTAAAGACTAGTTTCTTACATTG
* * *
15359906 TTTCTCATGCTTTGATAACCATGTTGTGCATACTGGTTT-TATTTCAATGCTTATGACCATTACT
1 TTTCTCATGCTCTAATAACCA---TGTGCATACTGGTTTCTATTTCAATGCTTATGACCATCACT
* * *
15359970 AGTTAGTTGATGGACAATATGGAGCTAAACTTATGTAAAGACTAGTTTCTTAC
63 AGTTAGTTGATGGACAAGAGGGAGCTAAACTCATGTAAAGACTAGTTTCTTAC
15360023 TTGGTGATAG
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
119 19 0.18
121 71 0.68
122 15 0.14
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (119 bp):
TTTCTCATGCTCTAATAACCATGTGCATACTGGTTTCTATTTCAATGCTTATGACCATCACTAGT
TAGTTGATGGACAAGAGGGAGCTAAACTCATGTAAAGACTAGTTTCTTACATTG
Found at i:15368700 original size:22 final size:22
Alignment explanation
Indices: 15368672--15368716 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15368662 TTTTTGGAAG
*
15368672 ATTGAATTGGCAAAACCACATA
1 ATTGAATTGGAAAAACCACATA
15368694 ATTGAATTGGAAAAACCACATA
1 ATTGAATTGGAAAAACCACATA
15368716 A
1 A
15368717 GCCGCGAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (22 bp):
ATTGAATTGGAAAAACCACATA
Found at i:15377238 original size:21 final size:21
Alignment explanation
Indices: 15377199--15377239 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15377189 CAACGGTGGC
* *
15377199 AGTGAGATTAGTTATTGTAGT
1 AGTGAGATTAGATACTGTAGT
*
15377220 AGTGAGATTGGATACTGTAG
1 AGTGAGATTAGATACTGTAG
15377240 CGGTGAGACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.02, G:0.32, T:0.37
Consensus pattern (21 bp):
AGTGAGATTAGATACTGTAGT
Found at i:15379228 original size:36 final size:36
Alignment explanation
Indices: 15379187--15379278 Score: 132
Period size: 36 Copynumber: 2.5 Consensus size: 36
15379177 GTGTTATCGG
*
15379187 GTGGATTGGCTCTTATGAGCATCTGGC-GTTTTTCAA
1 GTGGATTGGCTCTTATGAGCATCTGGCAGTTATT-AA
*
15379223 GTGGATTGGCTCTTATGAGCATCTGGCATGTTATTGA
1 GTGGATTGGCTCTTATGAGCATCTGGCA-GTTATTAA
*
15379260 GTGGATTAGCTCTTATGAG
1 GTGGATTGGCTCTTATGAG
15379279 TGATTGGCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
36 27 0.53
37 19 0.37
38 5 0.10
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.38
Consensus pattern (36 bp):
GTGGATTGGCTCTTATGAGCATCTGGCAGTTATTAA
Found at i:15379272 original size:37 final size:37
Alignment explanation
Indices: 15379178--15379291 Score: 135
Period size: 37 Copynumber: 3.1 Consensus size: 37
15379168 ACAATTGGTG
* *
15379178 TGTTATCGGGTGGATTGGCTCTTATGAGCATCTGGC-
1 TGTTATTGAGTGGATTGGCTCTTATGAGCATCTGGCA
* *
15379214 -GTTTTTCAAGTGGATTGGCTCTTATGAGCATCTGGCA
1 TGTTATT-GAGTGGATTGGCTCTTATGAGCATCTGGCA
* *
15379251 TGTTATTGAGTGGATTAGCTCTTATGAGTGAT-TGGCA
1 TGTTATTGAGTGGATTGGCTCTTATGAG-CATCTGGCA
15379288 TGTT
1 TGTT
15379292 TCATTTAGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
35 4 0.06
36 27 0.41
37 28 0.42
38 7 0.11
ACGTcount: A:0.18, C:0.13, G:0.30, T:0.39
Consensus pattern (37 bp):
TGTTATTGAGTGGATTGGCTCTTATGAGCATCTGGCA
Found at i:15383859 original size:25 final size:27
Alignment explanation
Indices: 15383831--15383887 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
15383821 CTTTATTAAA
*
15383831 TTAACAT-TAAAATT-AAGTAAAAAAT
1 TTAACATATAAAATTCAAATAAAAAAT
* *
15383856 TTAA-TTATAAAATTCAAATAAAACAT
1 TTAACATATAAAATTCAAATAAAAAAT
15383882 TTAACA
1 TTAACA
15383888 ACCGTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 1 0.04
25 11 0.44
26 13 0.52
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (27 bp):
TTAACATATAAAATTCAAATAAAAAAT
Found at i:15401521 original size:59 final size:61
Alignment explanation
Indices: 15401457--15401574 Score: 159
Period size: 62 Copynumber: 2.0 Consensus size: 61
15401447 ATCACTTTAA
* * ** * *
15401457 TATTAAATTAATATAATATTTA-T-CAAGATAAATTTTAGATTGAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAAAATTAAATTAAATTTAATATTAAATCT
15401516 TATTAAAATAATAGAATATTTATCTACAAGATAAAAATTAAATTAAATTTAATATTAAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAAAATTAAATTAAATTTAATATTAAA
15401575 ATAATCATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAAAATTAAATTAAATTTAATATTAAATCT
Found at i:15401651 original size:25 final size:25
Alignment explanation
Indices: 15401568--15401655 Score: 74
Period size: 25 Copynumber: 3.4 Consensus size: 25
15401558 TTAAATTTAA
*
15401568 TATTAAAATAATCATTTTAATATTAAAT
1 TATTAAAATAA--A-TTTAATATTAAAC
* * *
15401596 TAATAAAATATTATTT-ATGA-T-AAG
1 TATTAAAATA-AATTTAAT-ATTAAAC
15401620 TATTAAAATAAATTTAATATTAAAC
1 TATTAAAATAAATTTAATATTAAAC
15401645 TATTAAAATAA
1 TATTAAAATAA
15401656 TATTATTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 5 0.10
24 14 0.29
25 16 0.33
26 4 0.08
27 1 0.02
28 9 0.18
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
TATTAAAATAAATTTAATATTAAAC
Found at i:15402512 original size:16 final size:16
Alignment explanation
Indices: 15402491--15402521 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15402481 CTATTTATGC
*
15402491 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
15402507 AAAATACAAAAGACA
1 AAAATACAAAAGACA
15402522 TTATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:15404518 original size:28 final size:28
Alignment explanation
Indices: 15404478--15404584 Score: 178
Period size: 28 Copynumber: 3.8 Consensus size: 28
15404468 CTGTACCGAA
15404478 ACTGTATTGGGCTAAGGCCCACATTGTT
1 ACTGTATTGGGCTAAGGCCCACATTGTT
15404506 ACTGTATTGGGCTAAGGCCCACATTGTT
1 ACTGTATTGGGCTAAGGCCCACATTGTT
* *
15404534 ACTATAATGGGCTAAGGCCCACATTGTT
1 ACTGTATTGGGCTAAGGCCCACATTGTT
* *
15404562 AGTGTATTGGGCTAACGCCCACA
1 ACTGTATTGGGCTAAGGCCCACA
15404585 CTGTATTGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (28 bp):
ACTGTATTGGGCTAAGGCCCACATTGTT
Found at i:15405509 original size:24 final size:24
Alignment explanation
Indices: 15405461--15405507 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15405451 ACTGGTTATA
*
15405461 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
15405485 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
15405508 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:15406639 original size:28 final size:28
Alignment explanation
Indices: 15406599--15406706 Score: 180
Period size: 28 Copynumber: 3.9 Consensus size: 28
15406589 CTGTACCGAA
15406599 ACTGTATTGGGCTAAGGCCCACATTGTT
1 ACTGTATTGGGCTAAGGCCCACATTGTT
15406627 ACTGTATTGGGCTAAGGCCCACATTGTT
1 ACTGTATTGGGCTAAGGCCCACATTGTT
* *
15406655 ACTATAGTGGGCTAAGGCCCACATTGTT
1 ACTGTATTGGGCTAAGGCCCACATTGTT
* *
15406683 AGTGCATTGGGCTAAGGCCCACAT
1 ACTGTATTGGGCTAAGGCCCACAT
15406707 AGTATTGTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 74 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (28 bp):
ACTGTATTGGGCTAAGGCCCACATTGTT
Found at i:15406719 original size:28 final size:29
Alignment explanation
Indices: 15406599--15406719 Score: 153
Period size: 28 Copynumber: 4.3 Consensus size: 29
15406589 CTGTACCGAA
15406599 ACTG-TATTGGGCTAAGGCCCACATTGTT
1 ACTGTTATTGGGCTAAGGCCCACATTGTT
15406627 ACTG-TATTGGGCTAAGGCCCACATTGTT
1 ACTGTTATTGGGCTAAGGCCCACATTGTT
* *
15406655 ACT-ATAGTGGGCTAAGGCCCACATTGTT
1 ACTGTTATTGGGCTAAGGCCCACATTGTT
* * *
15406683 AGTG-CATTGGGCTAAGGCCCACATAG-T
1 ACTGTTATTGGGCTAAGGCCCACATTGTT
*
15406710 ATTGTTATTG
1 ACTGTTATTG
15406720 TAACGGGCTT
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
27 4 0.05
28 79 0.95
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (29 bp):
ACTGTTATTGGGCTAAGGCCCACATTGTT
Found at i:15420330 original size:20 final size:20
Alignment explanation
Indices: 15420307--15420358 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
15420297 TCGAATAGAG
15420307 CAGAACAGAACAAAATGGAA
1 CAGAACAGAACAAAATGGAA
* * * *
15420327 CAGAGCAGAGCAATATTGAA
1 CAGAACAGAACAAAATGGAA
15420347 CAGAACAGAACA
1 CAGAACAGAACA
15420359 GAACGGAGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.17, G:0.21, T:0.08
Consensus pattern (20 bp):
CAGAACAGAACAAAATGGAA
Found at i:15421424 original size:42 final size:42
Alignment explanation
Indices: 15421370--15421521 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 42
15421360 CTGCCTGGAA
* * *
15421370 ACACGCCCATGTCCTTGCCCGTGTGCCTCACATGACCTGGGC
1 ACACGCCTATGTCCTTGCCCGTGTGGCTCACATGGCCTGGGC
* * * *
15421412 ACACGCCTATGTCGTTGCCCATGTGGTTCACATGGCCTAGGC
1 ACACGCCTATGTCCTTGCCCGTGTGGCTCACATGGCCTGGGC
* * * * *
15421454 ACATGCCTATATCATTGCCCGTATGGCTCACACGGCCTGGGC
1 ACACGCCTATGTCCTTGCCCGTGTGGCTCACATGGCCTGGGC
* * *
15421496 ATACGCCTATGTCCCTGGCCGTGTGG
1 ACACGCCTATGTCCTTGCCCGTGTGG
15421522 TTCTAAATCG
Statistics
Matches: 88, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.16, C:0.34, G:0.26, T:0.24
Consensus pattern (42 bp):
ACACGCCTATGTCCTTGCCCGTGTGGCTCACATGGCCTGGGC
Found at i:15430812 original size:89 final size:89
Alignment explanation
Indices: 15430698--15430877 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 89
15430688 CTTAGTTTAA
15430698 TTTCATAGTTAAATAACCATTCGAATCTTAGTGTTAAACAAAACAATCATTATTAATGAAGATCT
1 TTTCATAGTTAAATAACCATTCGAATCTTAGTGTTAAACAAAACAATCATTATTAATGAAGATCT
15430763 AAGCTACTTAACAAATTTAAAATT
66 AAGCTACTTAACAAATTTAAAATT
*
15430787 TTTCATAGTTAAATAACCGTTCGAATCTTAGTGTTAAACAAAACAATCATTATTAATGAAGATCT
1 TTTCATAGTTAAATAACCATTCGAATCTTAGTGTTAAACAAAACAATCATTATTAATGAAGATCT
15430852 AAGCTACTTAACAAATTTAAAATT
66 AAGCTACTTAACAAATTTAAAATT
15430876 TT
1 TT
15430878 ATTCATATAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (89 bp):
TTTCATAGTTAAATAACCATTCGAATCTTAGTGTTAAACAAAACAATCATTATTAATGAAGATCT
AAGCTACTTAACAAATTTAAAATT
Found at i:15433333 original size:22 final size:22
Alignment explanation
Indices: 15433277--15433344 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
15433267 AATAGAATAT
* * *
15433277 TAGGCACCAAAGTCCAAATCAC
1 TAGGCACCAAAGTGCAAAACAG
* * *
15433299 TAAGCATCGAAGTGCAAAACAG
1 TAGGCACCAAAGTGCAAAACAG
15433321 TAGGCACCAAAGTGCAAAACAG
1 TAGGCACCAAAGTGCAAAACAG
15433343 TA
1 TA
15433345 AGTGCTAAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.44, C:0.24, G:0.19, T:0.13
Consensus pattern (22 bp):
TAGGCACCAAAGTGCAAAACAG
Found at i:15436490 original size:50 final size:50
Alignment explanation
Indices: 15436373--15436572 Score: 229
Period size: 50 Copynumber: 3.9 Consensus size: 50
15436363 TAATCATAAC
* ** *
15436373 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCG
* * **
15436424 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* *
15436474 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATGATCTCAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---G
* *
15436530 ATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15436573 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 47 0.38
51 33 0.26
53 5 0.04
56 40 0.32
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:15436960 original size:29 final size:31
Alignment explanation
Indices: 15436910--15436967 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
15436900 CCTCGACTCT
* *
15436910 AACTTTTTCAAAATTATGA-TTTTGCCCCTA
1 AACTTTTACAAAATTATCATTTTTGCCCCTA
*
15436940 AACTTTTACATAATTA-CATTTTTGCCCC
1 AACTTTTACAAAATTATCATTTTTGCCCC
15436968 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (31 bp):
AACTTTTACAAAATTATCATTTTTGCCCCTA
Found at i:15446590 original size:29 final size:30
Alignment explanation
Indices: 15446548--15446607 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
15446538 GAATTATTTG
* *
15446548 TAAAATTTTGTTGT-TCTTTTTGTAAATAT
1 TAAAAATTAGTTGTCTCTTTTTGTAAATAT
15446577 TAAAAATTAGTTGTCTCTTTTTGTAAATAT
1 TAAAAATTAGTTGTCTCTTTTTGTAAATAT
15446607 T
1 T
15446608 TTTAAATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (30 bp):
TAAAAATTAGTTGTCTCTTTTTGTAAATAT
Found at i:15447135 original size:12 final size:12
Alignment explanation
Indices: 15447118--15447146 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
15447108 TGTTGCTCCT
15447118 GCGCACCTGCTC
1 GCGCACCTGCTC
15447130 GCGCACCTGCTC
1 GCGCACCTGCTC
15447142 GCGCA
1 GCGCA
15447147 TCAACCTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.48, G:0.28, T:0.14
Consensus pattern (12 bp):
GCGCACCTGCTC
Found at i:15452627 original size:21 final size:20
Alignment explanation
Indices: 15452600--15452653 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
15452590 TCTAAGAAAA
*
15452600 TAAAAATAAAACAACTATAAGC
1 TAAAAATAAAA-AAATA-AAGC
15452622 -AAAAATAGAAAAAATAAAGC
1 TAAAAATA-AAAAAATAAAGC
15452642 TAAAAATAAAAA
1 TAAAAATAAAAA
15452654 TAAAATCAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 8 0.28
21 18 0.62
22 3 0.10
ACGTcount: A:0.72, C:0.07, G:0.06, T:0.15
Consensus pattern (20 bp):
TAAAAATAAAAAAATAAAGC
Found at i:15454310 original size:12 final size:12
Alignment explanation
Indices: 15454293--15454343 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
15454283 CAATAAAAAT
* *
15454293 AAATAAGCATAG
1 AAATAAGAATAA
15454305 AAATAAGAATAA
1 AAATAAGAATAA
*
15454317 AAATAAATAAATAA
1 AAAT-AA-GAATAA
15454331 AAATAA-AATAA
1 AAATAAGAATAA
15454342 AA
1 AA
15454344 TAATGAGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 7 0.21
12 14 0.41
13 4 0.12
14 9 0.26
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (12 bp):
AAATAAGAATAA
Found at i:15454315 original size:28 final size:27
Alignment explanation
Indices: 15454245--15454343 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 27
15454235 ATAAAAACAA
* *
15454245 ATAGAAAGAATAATAAGAAA-AAAAAAGC
1 ATAGAAATAA-AATAA-AAATAAATAAGC
* *
15454273 ATGATAAATACAATAAAAATAAATAAGC
1 AT-AGAAATAAAATAAAAATAAATAAGC
15454301 ATAGAAATAAGAATAAAAATAAATAA--
1 ATAGAAATAA-AATAAAAATAAATAAGC
*
15454327 ATAAAAATAAAATAAAA
1 ATAGAAATAAAATAAAA
15454344 TAATGAGGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
25 7 0.11
26 9 0.15
27 9 0.15
28 31 0.51
29 5 0.08
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (27 bp):
ATAGAAATAAAATAAAAATAAATAAGC
Found at i:15454330 original size:20 final size:19
Alignment explanation
Indices: 15454276--15454342 Score: 64
Period size: 19 Copynumber: 3.3 Consensus size: 19
15454266 AAAAAGCATG
15454276 ATAAATACAATAAAAAT-AA
1 ATAAATA-AATAAAAATAAA
*
15454295 ATAAGCATAGAAATAAGAATAAAA
1 ATAA--AT--AAATAAAAAT-AAA
15454319 ATAAATAAATAAAAATAAA
1 ATAAATAAATAAAAATAAA
15454338 ATAAA
1 ATAAA
15454343 ATAATGAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
19 12 0.30
20 9 0.22
21 2 0.05
22 10 0.25
23 1 0.03
24 6 0.15
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (19 bp):
ATAAATAAATAAAAATAAA
Found at i:15455524 original size:28 final size:28
Alignment explanation
Indices: 15455490--15455699 Score: 312
Period size: 28 Copynumber: 7.4 Consensus size: 28
15455480 TAACCTAACC
* *
15455490 CTAACCTAAATTAACTAAAACCCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
15455518 CTAACCTAAATTAATTTAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
15455547 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
15455575 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
15455603 CTAACCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
15455631 CTAACCTAAATAAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
15455660 CTAACCTAAATTAATTAAAAACCCAAAA
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
15455688 CTAAGCTAAATT
1 CTAACCTAAATT
15455700 TTTTTGGCTT
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
28 115 0.69
29 51 0.31
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (28 bp):
CTAACCTAAATTAATTAAAAACCCTAAT
Found at i:15455566 original size:57 final size:57
Alignment explanation
Indices: 15455483--15455699 Score: 337
Period size: 57 Copynumber: 3.8 Consensus size: 57
15455473 AAAACCCTAA
* * *
15455483 CCTAACCCTAACCTAAATTAACTAAAACCCCTAATCTAACCTAAATTAATTTAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
15455540 CCTAACCCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
* * *
15455597 CCTAA-TCTAACCTAAATTAATTTAAAACCCTAATCTAACCTAAATAAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
* * * *
15455653 CCTAAACCTAACCTAAATTAATTAAAAACCCAAAACTAAGCTAAATT
1 CCTAACCCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATT
15455700 TTTTTGGCTT
Statistics
Matches: 147, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
56 53 0.36
57 94 0.64
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (57 bp):
CCTAACCCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
Found at i:15455619 original size:85 final size:85
Alignment explanation
Indices: 15455483--15455699 Score: 337
Period size: 85 Copynumber: 2.6 Consensus size: 85
15455473 AAAACCCTAA
* * *
15455483 CCTAACCCTAACCTAAATTAACTAAAACCCCTAATCTAACCTAAATTAATTTAAAACCCTAACCC
1 CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAA-CC
*
15455548 TAACCTAAATTAATTAAAAAC
65 TAACCTAAATAAATTAAAAAC
* *
15455569 CCT-AATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAATCT
1 CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCT
15455633 AACCTAAATAAATTAAAAAC
66 AACCTAAATAAATTAAAAAC
* * *
15455653 CCTAAACCTAACCTAAATTAATTAAAAACCCAAAACTAAGCTAAATT
1 CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATT
15455700 TTTTTGGCTT
Statistics
Matches: 120, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
84 24 0.20
85 93 0.77
86 3 0.03
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (85 bp):
CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCT
AACCTAAATAAATTAAAAAC
Found at i:15455838 original size:10 final size:10
Alignment explanation
Indices: 15455823--15455847 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15455813 TTTTGGCTTA
15455823 ATAATTTTAC
1 ATAATTTTAC
15455833 ATAATTTTAC
1 ATAATTTTAC
15455843 ATAAT
1 ATAAT
15455848 GTTAGATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:15468276 original size:5 final size:5
Alignment explanation
Indices: 15468266--15468321 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
15468256 ATAATATTAT
15468266 TATTC TATTC TATTC TATTC TATTC TATTC TATTC TATTC TATTC TATTC
1 TATTC TATTC TATTC TATTC TATTC TATTC TATTC TATTC TATTC TATTC
15468316 TATTC T
1 TATTC T
15468322 TATATTTCTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTC
Found at i:15469787 original size:18 final size:18
Alignment explanation
Indices: 15469760--15469796 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15469750 TCATTGCACT
* *
15469760 ATTTTCAAACCATTTCAA
1 ATTTTAAAACCAATTCAA
15469778 ATTTTAAAACCAATTCAA
1 ATTTTAAAACCAATTCAA
15469796 A
1 A
15469797 ACAGTACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTTTAAAACCAATTCAA
Found at i:15472753 original size:31 final size:30
Alignment explanation
Indices: 15472718--15472776 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15472708 CACCCTTAAA
** *
15472718 ATATTTACACTATTGGCCCTTCAACTTTTTT
1 ATATTTACACT-TTAACCCTTCAAATTTTTT
*
15472749 ATATTTTCACTTTAACCCTTCAAATTTT
1 ATATTTACACTTTAACCCTTCAAATTTT
15472777 GAGTATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.25, C:0.22, G:0.03, T:0.49
Consensus pattern (30 bp):
ATATTTACACTTTAACCCTTCAAATTTTTT
Found at i:15473718 original size:28 final size:27
Alignment explanation
Indices: 15473654--15473718 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
15473644 TATTCAGTAT
*
15473654 CAGTACAGTGTGGGCCTTAGCCCAATA
1 CAGTACAGTGTGGGCCTAAGCCCAATA
* **
15473681 TAAAAACAGTGTGGGCCTAAGCCCAATA
1 -CAGTACAGTGTGGGCCTAAGCCCAATA
15473709 CAGTATCAGT
1 CAGTA-CAGT
15473719 ATGGTGCAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (27 bp):
CAGTACAGTGTGGGCCTAAGCCCAATA
Found at i:15474104 original size:27 final size:27
Alignment explanation
Indices: 15474065--15474217 Score: 173
Period size: 27 Copynumber: 5.7 Consensus size: 27
15474055 ACCCTAACAG
* *
15474065 GGGTATTACGGTAATTTTACCCATCGG
1 GGGTATTTCGGTAATTTTACCCATCGA
* *
15474092 GGGTATTTTGGTAATTTTACCTATCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
* *
15474119 GGGTATTTCGGTAAATTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
** * *
15474146 GGGTA-TTCAATAATTTTACTCATTGA
1 GGGTATTTCGGTAATTTTACCCATCGA
** *
15474172 GGGTATTTCTATAATTTTTCCCATCGA
1 GGGTATTTCGGTAATTTTACCCATCGA
*
15474199 GGGTATTTCGGTATTTTTA
1 GGGTATTTCGGTAATTTTA
15474218 GGCCCATTAC
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 20 0.19
27 83 0.81
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCATCGA
Found at i:15474215 original size:53 final size:54
Alignment explanation
Indices: 15474065--15474217 Score: 166
Period size: 53 Copynumber: 2.9 Consensus size: 54
15474055 ACCCTAACAG
* * * *
15474065 GGGTATTACGGTAATTTTACCCATCGGGGGTATTTTGGTAATTTTACCTATCGA
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCTATCGA
* * * ** *
15474119 GGGTATTTCGGTAAATTTACCCTTCGAGGGTA-TTCAATAATTTTA-CTCATTGA
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCT-ATCGA
* * *
15474172 GGGTATTTCTATAATTTTTCCCATCGAGGGTATTTCGGTATTTTTA
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTA
15474218 GGCCCATTAC
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 2 0.02
53 41 0.51
54 38 0.47
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCTATCGA
Found at i:15475304 original size:2 final size:2
Alignment explanation
Indices: 15475299--15475328 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15475289 ACCCAAAATC
15475299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15475329 CACATGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15475417 original size:41 final size:41
Alignment explanation
Indices: 15475360--15475545 Score: 318
Period size: 41 Copynumber: 4.5 Consensus size: 41
15475350 TTTAACATAT
* * *
15475360 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
15475401 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
15475442 TCACCGACACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
15475483 TCACCGGCAAGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
15475524 TCACCGGTACGTAGCCTGCTAG
1 TCACCGGCACGTAGCCTGCTAG
15475546 ACTTAAAGTC
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:15483859 original size:27 final size:27
Alignment explanation
Indices: 15483822--15483886 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
15483812 AGCAGAGCTG
*
15483822 CCAGT-ACAGT-ATATGTGGTAAAGCCA
1 CCAGTAACAGTAAT-TGTGGCAAAGCCA
*
15483848 CCAGTAACAGTAATTGTGGCAGAGCCA
1 CCAGTAACAGTAATTGTGGCAAAGCCA
*
15483875 CCAGAAACAGTA
1 CCAGTAACAGTA
15483887 CCTCCTCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 27 0.79
28 2 0.06
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGTAACAGTAATTGTGGCAAAGCCA
Found at i:15484061 original size:27 final size:26
Alignment explanation
Indices: 15484022--15484256 Score: 209
Period size: 27 Copynumber: 8.7 Consensus size: 26
15484012 CCCTAACGGG
* *
15484022 GGTATTACAGTAATTTTACCCATCAGA
1 GGTATTTCGGTAATTTTACCCATC-GA
*
15484049 GGTATTTCGGTAATTTTACCCATCTA
1 GGTATTTCGGTAATTTTACCCATCGA
* * *
15484075 GGGTATTTCGATAATTTTACCCTTTCGGG
1 -GGTATTTCGGTAATTTTACCC-ATC-GA
*** * *
15484104 GGTATTTTAATAATTTCACGCATCGA
1 GGTATTTCGGTAATTTTACCCATCGA
* *
15484130 GGGTATTTCAGTAATTTTACCCATCTA
1 -GGTATTTCGGTAATTTTACCCATCGA
* *
15484157 GGGTATTTTGGTAATTTTACACATCGAA
1 -GGTATTTCGGTAATTTTACCCATCG-A
**
15484185 GGTATTTTAGTAATTTTACCCATCGA
1 GGTATTTCGGTAATTTTACCCATCGA
* *
15484211 GAGTATTTTGATAATTTTACCCATCGA
1 G-GTATTTCGGTAATTTTACCCATCGA
*
15484238 GGGTATTTCGATAATTTTA
1 -GGTATTTCGGTAATTTTA
15484257 GGCCCATTAA
Statistics
Matches: 174, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
26 4 0.02
27 149 0.86
28 21 0.12
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACCCATCGA
Found at i:15484090 original size:54 final size:55
Alignment explanation
Indices: 15484006--15484256 Score: 273
Period size: 54 Copynumber: 4.6 Consensus size: 55
15483996 CCTAGCAGTC
* * * * *
15484006 ATTTTACCCTAACGGGGGTATTAC-AGTAATTTTACCCATCAGAGGTATTTCGGTA
1 ATTTTACCC-ATCGAGGGTATTTCGAGTAATTTTACCCATCAGAGGTATTTTGATA
* * * * *
15484061 ATTTTACCCATCTAGGGTATTTCGA-TAATTTTACCCTTTCGGGGGTATTTTAATA
1 ATTTTACCCATCGAGGGTATTTCGAGTAATTTTACCC-ATCAGAGGTATTTTGATA
* * *
15484116 ATTTCACGCATCGAGGGTATTTC-AGTAATTTTACCCATCTAG-GGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTCGAGTAATTTTACCCATC-AGAGGTATTTTGATA
* * *
15484170 ATTTTACACATCGAAGGTATTT-TAGTAATTTTACCCATC-GAGAGTATTTTGATA
1 ATTTTACCCATCGAGGGTATTTCGAGTAATTTTACCCATCAGAG-GTATTTTGATA
15484224 ATTTTACCCATCGAGGGTATTTCGA-TAATTTTA
1 ATTTTACCCATCGAGGGTATTTCGAGTAATTTTA
15484257 GGCCCATTAA
Statistics
Matches: 164, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 107 0.65
55 55 0.34
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (55 bp):
ATTTTACCCATCGAGGGTATTTCGAGTAATTTTACCCATCAGAGGTATTTTGATA
Found at i:15484144 original size:82 final size:82
Alignment explanation
Indices: 15484006--15484256 Score: 319
Period size: 82 Copynumber: 3.1 Consensus size: 82
15483996 CCTAGCAGTC
* ** *
15484006 ATTTTACCCTAACGGGGGTATTACAGTAATTTTACCCATC-AGAGGTATTTCGGTAATTTTACCC
1 ATTTTACCCTATCGGGGGTATTTTAGTAATTTTACCCATCGAG-GGTATTTCAGTAATTTTACCC
15484070 ATCTAGGGTATTTCGATA
65 ATCTAGGGTATTTCGATA
* * * *
15484088 ATTTTACCCTTTCGGGGGTATTTTAATAATTTCACGCATCGAGGGTATTTCAGTAATTTTACCCA
1 ATTTTACCCTATCGGGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCA
* *
15484153 TCTAGGGTATTTTGGTA
66 TCTAGGGTATTTCGATA
* ** * *
15484170 ATTTTACAC-ATCGAAGGTATTTTAGTAATTTTACCCATCGAGAGTATTT-TGATAATTTTACCC
1 ATTTTACCCTATCGGGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCAG-TAATTTTACCC
*
15484233 ATCGAGGGTATTTCGATA
65 ATCTAGGGTATTTCGATA
15484251 ATTTTA
1 ATTTTA
15484257 GGCCCATTAA
Statistics
Matches: 145, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 65 0.45
82 77 0.53
83 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (82 bp):
ATTTTACCCTATCGGGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCA
TCTAGGGTATTTCGATA
Found at i:15484227 original size:81 final size:82
Alignment explanation
Indices: 15484030--15484256 Score: 289
Period size: 81 Copynumber: 2.8 Consensus size: 82
15484020 GGGGTATTAC
* *
15484030 AGTAATTTTACCCATC-AGAGGTATTTCGGTAATTTTACCCATCTAGGGTATTTCGATAATTTTA
1 AGTAATTTTACCCATCGAGA-GTATTTTGATAATTTTACCCATCTAGGGTATTTCGATAATTTTA
* * **
15484094 CCCTTTCGGGGGTATTTT
65 CACTATCGAAGGTATTTT
* * * * * * *
15484112 AATAATTTCACGCATCGAGGGTA-TTTCAGTAATTTTACCCATCTAGGGTATTTTGGTAATTTTA
1 AGTAATTTTACCCATCGAGAGTATTTTGA-TAATTTTACCCATCTAGGGTATTTCGATAATTTTA
15484176 CAC-ATCGAAGGTATTTT
65 CACTATCGAAGGTATTTT
*
15484193 AGTAATTTTACCCATCGAGAGTATTTTGATAATTTTACCCATCGAGGGTATTTCGATAATTTTA
1 AGTAATTTTACCCATCGAGAGTATTTTGATAATTTTACCCATCTAGGGTATTTCGATAATTTTA
15484257 GGCCCATTAA
Statistics
Matches: 121, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
81 64 0.53
82 55 0.45
83 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (82 bp):
AGTAATTTTACCCATCGAGAGTATTTTGATAATTTTACCCATCTAGGGTATTTCGATAATTTTAC
ACTATCGAAGGTATTTT
Found at i:15489182 original size:6 final size:6
Alignment explanation
Indices: 15489173--15489198 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15489163 TCTTTTCTTT
15489173 TTTTAA TTTTAA TTTTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TT
15489199 AATTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:15493624 original size:21 final size:21
Alignment explanation
Indices: 15493598--15493637 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
15493588 TGATTTGTTT
15493598 TTTTGCTACTGTTCTTTCATG
1 TTTTGCTACTGTTCTTTCATG
*
15493619 TTTTGCTACTGTTTTTTCA
1 TTTTGCTACTGTTCTTTCA
15493638 CTTTTTGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.17, G:0.12, T:0.60
Consensus pattern (21 bp):
TTTTGCTACTGTTCTTTCATG
Found at i:15493643 original size:21 final size:20
Alignment explanation
Indices: 15493597--15493644 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
15493587 TTGATTTGTT
15493597 TTTTTGCTACTGTTCTTTCA
1 TTTTTGCTACTGTTCTTTCA
*
15493617 TGTTTTGCTACTGTTTTTTCA
1 T-TTTTGCTACTGTTCTTTCA
15493638 CTTTTTG
1 -TTTTTG
15493645 TCACTACCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.08, C:0.17, G:0.12, T:0.62
Consensus pattern (20 bp):
TTTTTGCTACTGTTCTTTCA
Found at i:15496771 original size:28 final size:29
Alignment explanation
Indices: 15496724--15496785 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
15496714 CACTAACCCT
** * **
15496724 TTTTTGTTACGTCTGTAACGGAGGTACCA
1 TTTTTGTTACAACTGTAACGAAAATACCA
15496753 TTTTTGTTACAACT-TAACGAAAATACCA
1 TTTTTGTTACAACTGTAACGAAAATACCA
15496781 TTTTT
1 TTTTT
15496786 ATCCCCGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (29 bp):
TTTTTGTTACAACTGTAACGAAAATACCA
Found at i:15498123 original size:16 final size:16
Alignment explanation
Indices: 15498098--15498144 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
15498088 GACCCAAATC
*
15498098 AAATAAATAAACAAAA
1 AAATATATAAACAAAA
15498114 AAATATATAAA-AAATA
1 AAATATATAAACAAA-A
*
15498130 AAA-ATAAAAACAAAA
1 AAATATATAAACAAAA
15498145 TTATTAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (16 bp):
AAATATATAAACAAAA
Found at i:15498266 original size:26 final size:27
Alignment explanation
Indices: 15498225--15498275 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
15498215 CAAACAGATC
15498225 CCAAATACCCACTTAACCTAGCCCAAA
1 CCAAATACCCACTTAACCTAGCCCAAA
*
15498252 CCAAA-ACCCAGTTAACCTAGCCCA
1 CCAAATACCCACTTAACCTAGCCCA
15498276 GCTAATGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.39, C:0.41, G:0.06, T:0.14
Consensus pattern (27 bp):
CCAAATACCCACTTAACCTAGCCCAAA
Found at i:15499612 original size:2 final size:2
Alignment explanation
Indices: 15499605--15499654 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
15499595 AATATAAAAG
15499605 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15499647 TA TA TA TA
1 TA TA TA TA
15499655 GAAGTTGAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15501989 original size:28 final size:28
Alignment explanation
Indices: 15501916--15501993 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
15501906 CTCTTTCCAA
15501916 TATTTTAACATTTTAATTTATCTCAACT
1 TATTTTAACATTTTAATTTATCTCAACT
* * *
15501944 TATTTCAATATTGTTAATTTAT-TCAAATT
1 TATTTTAACATT-TTAATTTATCTC-AACT
*
15501973 TATTTTAACCTTTTAATTTAT
1 TATTTTAACATTTTAATTTAT
15501994 ACATATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.56
Consensus pattern (28 bp):
TATTTTAACATTTTAATTTATCTCAACT
Found at i:15503414 original size:17 final size:18
Alignment explanation
Indices: 15503382--15503415 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15503372 TAATAAAAAA
*
15503382 TAAAAATTTGATTATTAG
1 TAAAAATATGATTATTAG
15503400 TAAAAATATGA-TATTA
1 TAAAAATATGATTATTA
15503416 AAAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TAAAAATATGATTATTAG
Found at i:15504629 original size:20 final size:19
Alignment explanation
Indices: 15504592--15504630 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15504582 AATTTTAAAA
*
15504592 TATTTTCAAAATACTTTTT
1 TATTTTCAAAATAATTTTT
*
15504611 TATTTTTAAAATAAATTTTT
1 TATTTTCAAAAT-AATTTTT
15504631 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTCAAAATAATTTTT
Found at i:15512856 original size:22 final size:23
Alignment explanation
Indices: 15512814--15512860 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
15512804 AAATAATTTA
*
15512814 AATTTAAAAATAATCACTAAAAT
1 AATTTAAAAATAATCAATAAAAT
15512837 AATTT-AAAATGAAT-AATAAAAT
1 AATTTAAAAAT-AATCAATAAAAT
15512859 AA
1 AA
15512861 GGTTGTGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (23 bp):
AATTTAAAAATAATCAATAAAAT
Found at i:15513460 original size:109 final size:109
Alignment explanation
Indices: 15513327--15513523 Score: 299
Period size: 109 Copynumber: 1.8 Consensus size: 109
15513317 ATCAATATAC
* * *
15513327 GAAAAAAGTAAAAAATTAATTCTCACAAAAAATATAGTGCCGACTATTGGCAGGCCACCACCAAA
1 GAAAAAAGTAAAAAATAAATTCTCACAAAAAAGATAGTGCCGACCATTGGCAGGCCACCACC-AA
15513392 ATTTTTTTTCTACATTTT-TCGTATACTGATACCTGCTATTGACAT
65 ATTTTTTTT-TACATTTTCTCGTATACTGATACCTGCTATTGACAT
* * *
15513437 GAAAAAAGTAAAAAA-AAATTCTCACAAAAAAGGTGGTGCCGACCATTGGCAGGCTACCACCAAA
1 GAAAAAAGTAAAAAATAAATTCTCACAAAAAAGATAGTGCCGACCATTGGCAGGCCACCACCAAA
*
15513501 TTTTTTTTTACTTTTTCTCGTAT
66 TTTTTTTTTACATTTTCTCGTAT
15513524 TCTGGTGTCG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 7 0.09
108 17 0.22
109 40 0.51
110 15 0.19
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (109 bp):
GAAAAAAGTAAAAAATAAATTCTCACAAAAAAGATAGTGCCGACCATTGGCAGGCCACCACCAAA
TTTTTTTTTACATTTTCTCGTATACTGATACCTGCTATTGACAT
Found at i:15514208 original size:18 final size:18
Alignment explanation
Indices: 15514170--15514211 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
15514160 GTTATACTTG
*
15514170 TTAAAAATTAAAAAAGCT
1 TTAAAAATTAAAAAAGAT
15514188 TTAAAAA-TAAAAAAGTAT
1 TTAAAAATTAAAAAAG-AT
15514206 TTAAAA
1 TTAAAA
15514212 GTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
TTAAAAATTAAAAAAGAT
Found at i:15514976 original size:21 final size:19
Alignment explanation
Indices: 15514952--15514992 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 19
15514942 ATCGAAAAAT
15514952 AAACTTTTAAATAATTTTTTA
1 AAACTTTTAAAT--TTTTTTA
15514973 AAACTTTTAAATTTTTTTA
1 AAACTTTTAAATTTTTTTA
15514992 A
1 A
15514993 TATTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
21 12 0.60
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
AAACTTTTAAATTTTTTTA
Found at i:15519807 original size:42 final size:42
Alignment explanation
Indices: 15519748--15519884 Score: 184
Period size: 42 Copynumber: 3.5 Consensus size: 42
15519738 ATTCATTGGT
15519748 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
* *
15519790 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-T---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
*
15519823 GGTTGCTAAGTGCTGATTCCACCATATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
15519865 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
15519885 CCCGAGGGGT
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
33 22 0.27
34 2 0.02
35 1 0.01
36 2 0.02
37 3 0.04
38 3 0.04
39 2 0.02
40 1 0.01
41 3 0.04
42 42 0.52
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
Found at i:15519833 original size:75 final size:75
Alignment explanation
Indices: 15519710--15519886 Score: 336
Period size: 75 Copynumber: 2.4 Consensus size: 75
15519700 ATTGAATATA
* *
15519710 AAGGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
15519775 CTTAAATGTG
66 CTTAAATGTG
15519785 AAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
15519850 CTTAAATGTG
66 CTTAAATGTG
15519860 AAGGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
15519887 CGAGGGGTTG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 100 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (75 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
CTTAAATGTG
Found at i:15519909 original size:102 final size:102
Alignment explanation
Indices: 15519788--15519988 Score: 366
Period size: 102 Copynumber: 2.0 Consensus size: 102
15519778 AAATGTGAAG
* *
15519788 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTT
*
15519853 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCGA
*
15519890 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTT
15519955 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
15519989 GACTCATTGG
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.30
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCATATCTT
AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCGA
Found at i:15523543 original size:21 final size:19
Alignment explanation
Indices: 15523502--15523547 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
15523492 GTTTCAATTG
* *
15523502 AGTTAAACATTTTCAATCA
1 AGTTAAACATTTTAAAACA
15523521 AGTTACAACTATTTTAAAACA
1 AGTTA-AAC-ATTTTAAAACA
15523542 AGTTAA
1 AGTTAA
15523548 TATTGCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 14 0.61
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.35
Consensus pattern (19 bp):
AGTTAAACATTTTAAAACA
Found at i:15529366 original size:57 final size:56
Alignment explanation
Indices: 15529258--15529388 Score: 133
Period size: 57 Copynumber: 2.3 Consensus size: 56
15529248 TTTCAGGTCA
* * * *
15529258 TTTTCATTT-TTCATTTTCTTTTTCTTTTTGGAGAAAACCACATTCATTTCCAAATT
1 TTTTCATTTCTCCATTTTCTTTTTCATTTTGGAGAAAACCAAATTCAGTTCCAAA-T
* *
15529314 TTTTCATTTCTCCATTTT-TATTTTCATTTTGGAGCAAATCATAATT-AGTTCCAAAT
1 TTTTCATTTCTCCATTTTCT-TTTTCATTTTGGAGAAAACCA-AATTCAGTTCCAAAT
*
15529370 GTTTCATATTTCTCCATTT
1 TTTTC--ATTTCTCCATTT
15529389 CACCATTTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
56 15 0.24
57 33 0.52
58 15 0.24
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (56 bp):
TTTTCATTTCTCCATTTTCTTTTTCATTTTGGAGAAAACCAAATTCAGTTCCAAAT
Found at i:15536565 original size:89 final size:89
Alignment explanation
Indices: 15536414--15536578 Score: 258
Period size: 89 Copynumber: 1.9 Consensus size: 89
15536404 AGAGATTCTA
* * * *
15536414 GCGTGTTATCGATTGGAAAGCTCTTATGAGCAATATGGCGTGTTATCGGGGGAGAATATTTAGAC
1 GCGTGTTATCGATTGCAAAGCTCTTATGAGCAATATGACATGTTATCAGGGGAGAATATTTAGAC
15536479 TACGGGCTTTGCACTGTGTATCTG
66 TACGGGCTTTGCACTGTGTATCTG
* * * *
15536503 GCGTGTTATCGATTGCAAAGGTCTTATGAGTAATTTGACATGTTATCAGGGGAGAATATTTAGCC
1 GCGTGTTATCGATTGCAAAGCTCTTATGAGCAATATGACATGTTATCAGGGGAGAATATTTAGAC
15536568 TACGGGCTTTG
66 TACGGGCTTTG
15536579 TATTATATGC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (89 bp):
GCGTGTTATCGATTGCAAAGCTCTTATGAGCAATATGACATGTTATCAGGGGAGAATATTTAGAC
TACGGGCTTTGCACTGTGTATCTG
Found at i:15552915 original size:123 final size:123
Alignment explanation
Indices: 15552580--15552926 Score: 617
Period size: 122 Copynumber: 2.8 Consensus size: 123
15552570 TTATTTTGAG
15552580 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
15552644 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATATTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCACGTAAGAAATAATTTTT
* *
15552703 TTGACGTTTCTGAGCAAATAGTATAAAATCGGCTCTACCAGGAT-CTATTTGAGAAGAAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
15552767 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCACGTAAGAAATAATTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCACGTAAGAAATAATTTTT
*
15552825 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGGGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
15552890 AAATCGCACCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
15552927 CAAGTTTGGG
Statistics
Matches: 214, Mismatches: 8, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
122 118 0.55
123 95 0.44
124 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCACGTAAGAAATAATTTTT
Found at i:15553235 original size:18 final size:18
Alignment explanation
Indices: 15553208--15553242 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15553198 CGGAAAAGGA
* *
15553208 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
15553226 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
15553243 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:15553326 original size:39 final size:39
Alignment explanation
Indices: 15553267--15553347 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
15553257 TCATAGGGAA
15553267 AGGCGGTTGCGTGGGCATCATCTGTTGAATTGCTGCGTC
1 AGGCGGTTGCGTGGGCATCATCTGTTGAATTGCTGCGTC
*
15553306 AGGCGGTTGCGTGGGTATCATCTGTTGAATTGCTGCGTC
1 AGGCGGTTGCGTGGGCATCATCTGTTGAATTGCTGCGTC
15553345 AGG
1 AGG
15553348 TGACTGCGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.14, C:0.19, G:0.37, T:0.31
Consensus pattern (39 bp):
AGGCGGTTGCGTGGGCATCATCTGTTGAATTGCTGCGTC
Found at i:15553356 original size:39 final size:39
Alignment explanation
Indices: 15553274--15553356 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
15553264 GAAAGGCGGT
**
15553274 TGCGTGGGCATCATCTGTTGAATTGCTGCGTCAGGCGGT
1 TGCGTGGGCATCATCTGTTGAATTGCTGCGTCAGGCGAC
* *
15553313 TGCGTGGGTATCATCTGTTGAATTGCTGCGTCAGGTGAC
1 TGCGTGGGCATCATCTGTTGAATTGCTGCGTCAGGCGAC
15553352 TGCGT
1 TGCGT
15553357 CGGTGCTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.13, C:0.19, G:0.35, T:0.33
Consensus pattern (39 bp):
TGCGTGGGCATCATCTGTTGAATTGCTGCGTCAGGCGAC
Found at i:15555047 original size:10 final size:10
Alignment explanation
Indices: 15555034--15555092 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
15555024 AAAATATAAA
*
15555034 AAAAAAAATT
1 AAAAAAATTT
**
15555044 AAAATTATTTT
1 AAAAAAAT-TT
15555055 AAAAAAATTT
1 AAAAAAATTT
15555065 AAAAAAATTT
1 AAAAAAATTT
**
15555075 AAAATTATTT
1 AAAAAAATTT
*
15555085 TAAAAAAT
1 AAAAAAAT
15555093 GAAATTGAGG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
10 30 0.79
11 8 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:15555148 original size:29 final size:29
Alignment explanation
Indices: 15555116--15555199 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
15555106 AATTGAAATT
15555116 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
15555145 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
15555167 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
15555196 AAAT
1 AAAT
15555200 TGAGAGGATT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 4 0.10
27 5 0.13
28 4 0.10
29 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.30
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:15555148 original size:51 final size:51
Alignment explanation
Indices: 15555093--15555207 Score: 212
Period size: 51 Copynumber: 2.3 Consensus size: 51
15555083 TTTAAAAAAT
*
15555093 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
15555144 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
15555195 GAAATTGAGAGGA
1 GAAATTGAGAGGA
15555208 TTAGAGAGGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:15557201 original size:18 final size:18
Alignment explanation
Indices: 15557178--15557220 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
15557168 TATGCATGTA
15557178 ATCTTAGTTTTACAAGTG
1 ATCTTAGTTTTACAAGTG
15557196 ATCTTAGTTTTACAAGTG
1 ATCTTAGTTTTACAAGTG
*
15557214 ATTTTAG
1 ATCTTAG
15557221 GGATGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (18 bp):
ATCTTAGTTTTACAAGTG
Found at i:15557571 original size:22 final size:22
Alignment explanation
Indices: 15557509--15557580 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
15557499 TTCGTTCAAA
* **
15557509 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
15557531 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
15557553 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
15557575 CATGAG
1 CATGAG
15557581 GGTTTATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:15570050 original size:57 final size:57
Alignment explanation
Indices: 15569975--15570091 Score: 198
Period size: 57 Copynumber: 2.1 Consensus size: 57
15569965 TCATCTCTTC
* *
15569975 TCTCATCGTTGGTTCTTTGTTCCTCTACTGCTTCTTTGATCCTCTACTGGTGCTGGT
1 TCTCATCGCTGGTCCTTTGTTCCTCTACTGCTTCTTTGATCCTCTACTGGTGCTGGT
* *
15570032 TCTCATCGCTGGTCCTTTGTTCCTCTGCTGCTTCTTTGATCCTCTGCTGGTGCTGGT
1 TCTCATCGCTGGTCCTTTGTTCCTCTACTGCTTCTTTGATCCTCTACTGGTGCTGGT
15570089 TCT
1 TCT
15570092 TTGTTCCTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.05, C:0.28, G:0.21, T:0.46
Consensus pattern (57 bp):
TCTCATCGCTGGTCCTTTGTTCCTCTACTGCTTCTTTGATCCTCTACTGGTGCTGGT
Found at i:15570085 original size:25 final size:25
Alignment explanation
Indices: 15570057--15570158 Score: 177
Period size: 25 Copynumber: 4.1 Consensus size: 25
15570047 TTTGTTCCTC
* *
15570057 TGCTGCTTCTTTGATCCTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
*
15570082 TGCTGGTTCTTTGTTCCTCTGTTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
15570107 TGCTGGTTCTTTGTTCCTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
15570132 TGCTGGTTCTTTGTTCCTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
15570157 TG
1 TG
15570159 AGTTTATCTT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 73 1.00
ACGTcount: A:0.01, C:0.24, G:0.27, T:0.48
Consensus pattern (25 bp):
TGCTGGTTCTTTGTTCCTCTGCTGG
Found at i:15570102 original size:44 final size:44
Alignment explanation
Indices: 15570039--15570155 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 44
15570029 GGTTCTCATC
*
15570039 GCTGGTCCTTTGTTCCTCTGCTGCTTCTTTGATCCTCTGCTGGT
1 GCTGGTTCTTTGTTCCTCTGCTGCTTCTTTGATCCTCTGCTGGT
* *
15570083 GCTGGTTCTTTGTTCCTCTGTTGGTGCTGGTTCTTTGTTCCTCTGCTGGT
1 GCTGGTTCTTTGTTCCTC------TGCTGCTTCTTTGATCCTCTGCTGGT
15570133 GCTGGTTCTTTGTTCCTCTGCTG
1 GCTGGTTCTTTGTTCCTCTGCTG
15570156 GTGAGTTTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
44 22 0.34
50 42 0.66
ACGTcount: A:0.01, C:0.26, G:0.26, T:0.48
Consensus pattern (44 bp):
GCTGGTTCTTTGTTCCTCTGCTGCTTCTTTGATCCTCTGCTGGT
Found at i:15570157 original size:19 final size:19
Alignment explanation
Indices: 15569984--15570082 Score: 85
Period size: 19 Copynumber: 5.2 Consensus size: 19
15569974 CTCTCATCGT
*
15569984 TGGTTCTTTGTTCCTCTAC
1 TGGTTCTTTGTTCCTCTGC
* * *
15570003 TGCTTCTTTGATCCTCTAC
1 TGGTTCTTTGTTCCTCTGC
* *
15570022 TGGTGC-TGGTT-CTCATCGC
1 TGGTTCTTTGTTCCTC-T-GC
*
15570041 TGGTCCTTTGTTCCTCTGC
1 TGGTTCTTTGTTCCTCTGC
* *
15570060 TGCTTCTTTGATCCTCTGC
1 TGGTTCTTTGTTCCTCTGC
15570079 TGGT
1 TGGT
15570083 GCTGGTTCTT
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
17 3 0.05
18 4 0.06
19 48 0.76
20 5 0.08
21 3 0.05
ACGTcount: A:0.05, C:0.28, G:0.20, T:0.46
Consensus pattern (19 bp):
TGGTTCTTTGTTCCTCTGC
Found at i:15572659 original size:18 final size:18
Alignment explanation
Indices: 15572632--15572697 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
15572622 AAAATATGAG
*
15572632 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
15572650 AAATGGTGTTCACATTTC
1 AAATGATGTTCACATTTC
15572668 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
15572686 AAATGATGTTCA
1 AAATGATGTTCA
15572698 AATTGATGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:15573275 original size:72 final size:72
Alignment explanation
Indices: 15573121--15573293 Score: 217
Period size: 72 Copynumber: 2.4 Consensus size: 72
15573111 AACAACAATG
* * * * *
15573121 CTAAACTAGTTTTATCAATAA-TTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATTAGTTTTATCAA-AAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
15573185 ATTTATGT
65 ATTTATGT
* *
15573193 GT-AATCTAGTTTTATTAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
1 CTAAAT-TAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
*
15573257 ATTT-TTT
65 ATTTATGT
*
15573264 ACTAAATTAGTTTTATCAATAGTTGTTTAT
1 -CTAAATTAGTTTTATCAAAAGTTGTTTAT
15573294 ATGTGATTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
71 6 0.07
72 77 0.90
73 3 0.03
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.54
Consensus pattern (72 bp):
CTAAATTAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTTA
TTTATGT
Found at i:15575335 original size:12 final size:13
Alignment explanation
Indices: 15575305--15575348 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
15575295 ATTTTATTCT
15575305 TCAAAAGCACTTC
1 TCAAAAGCACTTC
15575318 TCAAAAGCA-TTC
1 TCAAAAGCACTTC
* *
15575330 TGAAAAGCACTTT
1 TCAAAAGCACTTC
15575343 TCAAAA
1 TCAAAA
15575349 ACAATGAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:15575991 original size:25 final size:23
Alignment explanation
Indices: 15575963--15576009 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15575953 ATCAAAGACA
15575963 CTAAAAATATTAAAATAAATATTTT
1 CTAAAAA-ATTAAAA-AAATATTTT
*
15575988 CTAAAAAATTAAAAATATATTT
1 CTAAAAAATTAAAAAAATATTT
15576010 AAAAAAAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAAAAATTAAAAAAATATTTT
Found at i:15577379 original size:13 final size:14
Alignment explanation
Indices: 15577359--15577399 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
15577349 ATATGAAGAA
15577359 TATTATTTAAAATT
1 TATTATTTAAAATT
15577373 T-TTATTTTTAAAATT
1 TATTA--TTTAAAATT
15577388 TATTA-TTAAAAT
1 TATTATTTAAAAT
15577400 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:15577384 original size:15 final size:17
Alignment explanation
Indices: 15577359--15577395 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
15577349 ATATGAAGAA
15577359 TATTATTTAAAATTT-T
1 TATTATTTAAAATTTAT
15577375 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
15577391 TATTA
1 TATTA
15577396 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:15579307 original size:37 final size:37
Alignment explanation
Indices: 15579200--15580229 Score: 941
Period size: 37 Copynumber: 28.1 Consensus size: 37
15579190 AATGGAATAT
* *
15579200 TGATTCTACT-AAAGTGCTC-AACGAGTAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
*
15579235 TGATACTACTGAAAGTGCTC-AACGAGCAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * *
15579271 TGATCCTACTGAATGTGCTCAAACGAGAAATGTCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * *
15579308 TGATTATACTAAAAGTGCTCAAACAAACAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15579345 TGATACTACTGAAAGTGCT-TAACGAGTC-ATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAG-CAATATCTAC
* * *
15579381 TGATCCTACT-AAATGTGCTCATACGAGCAATGTCTAC
1 TGATTCTACTGAAA-GTGCTCAAACGAGCAATATCTAC
* * * *
15579418 TGATTCTACTGAAAGTTCTCAAACAAACAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * *
15579455 TGATACTAATGAAAGTGCTC-AACAATCAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * ** * *
15579491 TGATCCTATTGAATTTGCTCAAACGAGTAATGTCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15579528 TGGTTCTACTGAAAGTGCTTAAACGAGCAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
** * *
15579565 AAATTCTACTG-AAGTGCTC-AATGAGCAATATTTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * * * *
15579600 TGATCCTACTGAATGTACTCAAACGAGAAATGTCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15579637 TGATTCTACTG-AAGTGCTC-AATGAGCAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * *
15579672 TGGTTCTACTGAAAGTGCTCAAACGAGAAATGTCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15579709 TGATTCTACT-TAAGTGCTC-AACGAACAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * *
15579744 T-AGTTCTACTGAAAGTGCTC-AACAAGAAATATCTAT
1 TGA-TTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * *
15579780 TGATCCTATTGAATGTGCTCAAACGAGCAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15579817 TGATCCTACT-AAATGTGCTCAAACGAGCAATGTCTAC
1 TGATTCTACTGAAA-GTGCTCAAACGAGCAATATCTAC
* * *
15579854 TGGTTCTACTAAAAGTGCTC-AACGAGCAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * *
15579890 TGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * *
15579927 TGGTTCTACTG-AAGTGCTCAAGCGAGCAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
*
15579963 TG-TGTCTACTGAAAGTGCTC-AACGATCAATATCTAC
1 TGAT-TCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * * * *
15579999 TGATCCTACTGAATGTGCTTAAACGAGCAATGTTTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
*
15580036 TGATTCTACTG-AAGTGCTCAATCGAGCAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15580072 TGGTTCTACTGAATAGTTGCTCAAACGAGCAATATCCAC
1 TGATTCTACTGAA-AG-TGCTCAAACGAGCAATATCTAC
* * * * * * *
15580111 TGATTATACAGAATGTTTTCTCAAATGAGCAATACCCAC
1 TGATTCTACTGAAAG--TGCTCAAACGAGCAATATCTAC
* * * * * *
15580150 TGATTATACTGAATGTTTGCTGAAACGAGCGATATCCAA
1 TGATTCTACTGAAAG--TGCTCAAACGAGCAATATCTAC
* * * *
15580189 TGATTATACTGAATGCATGCTCAAACGAGCCATATCCAC
1 TGATTCTACTGAAAG--TGCTCAAACGAGCAATATCTAC
15580228 TG
1 TG
15580230 GTTACGTTAA
Statistics
Matches: 814, Mismatches: 154, Indels: 50
0.80 0.15 0.05
Matches are distributed among these distances:
34 1 0.00
35 78 0.10
36 287 0.35
37 321 0.39
38 9 0.01
39 118 0.14
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (37 bp):
TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
Found at i:15579323 original size:73 final size:73
Alignment explanation
Indices: 15579200--15580229 Score: 915
Period size: 73 Copynumber: 14.0 Consensus size: 73
15579190 AATGGAATAT
* * *
15579200 TGATTCTACT-AAAGTGCTC-AACGAGTAATATCTATTGATACTACTGAAAGTGCTCAACGAGCA
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTCAACGAGCA
15579263 ATATCTAC
66 ATATCTAC
* * * * * * * *
15579271 TGATCCTACTGAATGTGCTCAAACGAGAAATGTCTACTGATTATACTAAAAGTGCTCAAACAAAC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTC-AACGAGC
15579336 AATATCTAC
65 AATATCTAC
* * * * *
15579345 TGATACTACTGAAAGTGCT-TAACGAGTC-ATATCTACTGATCCTACT-AAATGTGCTCATACGA
1 TGATTCTACTGAATGTGCTCAAACGAG-CAATATCTATTGATTCTACTGAAA-GTGCTCA-ACGA
*
15579407 GCAATGTCTAC
63 GCAATATCTAC
* * * * * * * *
15579418 TGATTCTACTGAAAGTTCTCAAACAAACAATATCTATTGATACTAATGAAAGTGCTCAACAATCA
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTCAACGAGCA
15579483 ATATCTAC
66 ATATCTAC
* * * * * * * *
15579491 TGATCCTATTGAATTTGCTCAAACGAGTAATGTCTACTGGTTCTACTGAAAGTGCTTAAACGAGC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGC-TCAACGAGC
15579556 AATATCTAC
65 AATATCTAC
** * * * * * * *
15579565 AAATTCTACTGAA-GTGCTC-AATGAGCAATATTTACTGATCCTACTGAATGTACTCAAACGAGA
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTC-AACGAGC
* *
15579628 AATGTCTAT
65 AATATCTAC
* * *
15579637 TGATTCTACTGAA-GTGCTC-AATGAGCAATATCTATTGGTTCTACTGAAAGTGCTCAAACGAGA
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTC-AACGAGC
* *
15579700 AATGTCTAT
65 AATATCTAC
* * * * *
15579709 TGATTCTACTTAA-GTGCTC-AACGAACAATATCTACT-AGTTCTACTGAAAGTGCTCAACAAGA
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGA-TTCTACTGAAAGTGCTCAACGAGC
*
15579771 AATATCTAT
65 AATATCTAC
* * *
15579780 TGATCCTATTGAATGTGCTCAAACGAGCAATATCTATTGATCCTACT-AAATGTGCTCAAACGAG
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAA-GTGCTC-AACGAG
*
15579844 CAATGTCTAC
64 CAATATCTAC
* * * * *
15579854 TGGTTCTACTAAAAGTGCTC-AACGAGCAATATCTATTGATCCTACTGAATGTGCTCAAACGAGC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTC-AACGAGC
*
15579918 AATGTCTAC
65 AATATCTAC
* * *
15579927 TGGTTCTACTGAA-GTGCTCAAGCGAGCAATATCTATTG-TGTCTACTGAAAGTGCTCAACGATC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGAT-TCTACTGAAAGTGCTCAACGAGC
15579990 AATATCTAC
65 AATATCTAC
* * * *
15579999 TGATCCTACTGAATGTGCTTAAACGAGCAATGTTTATTGATTCTACTG-AAGTGCTCAATCGAGC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTCAA-CGAGC
15580063 AATATCTAC
65 AATATCTAC
* * * * * * * *
15580072 TGGTTCTACTGAATAGTTGCTCAAACGAGCAATATCCACTGATTATACAGAATGTTTTCTCAAAT
1 TGATTCTACTGAAT-G-TGCTCAAACGAGCAATATCTATTGATTCTACTGAAAG--TGCTC-AAC
* *
15580137 GAGCAATACCCAC
61 GAGCAATATCTAC
* * * * * * *
15580150 TGATTATACTGAATGTTTGCTGAAACGAGCGATATCCAATGATTATACTGAATGCATGCTCAAAC
1 TGATTCTACTGAATG--TGCTCAAACGAGCAATATCTATTGATTCTACTGAAAG--TGCTC-AAC
* *
15580215 GAGCCATATCCAC
61 GAGCAATATCTAC
15580228 TG
1 TG
15580230 GTTACGTTAA
Statistics
Matches: 795, Mismatches: 134, Indels: 53
0.81 0.14 0.05
Matches are distributed among these distances:
71 34 0.04
72 215 0.27
73 318 0.40
74 113 0.14
75 29 0.04
76 2 0.00
77 1 0.00
78 81 0.10
79 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (73 bp):
TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTCAACGAGCA
ATATCTAC
Found at i:15579381 original size:110 final size:109
Alignment explanation
Indices: 15579200--15580107 Score: 990
Period size: 110 Copynumber: 8.3 Consensus size: 109
15579190 AATGGAATAT
* *
15579200 TGATTCTACT-AAAGTGCTCAACGAGTAATATCTATTGATACTACTGAAAGTGCTCAACGAGCAA
1 TGATTCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGCTAAACGAGCAA
*
15579264 TATCTACTGATCCTACTGAATGTGCTCAAACGAGAAATGTCTAC
66 TATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * * * *
15579308 TGATTATACTAAAAGTGCTCAAACAAACAATATCTACTGATACTACTGAAAGTGCTTAACGAGTC
1 TGATTCTACTGAAAGTGCTC-AACGAGCAATATCTATTGATACTACTGAAAGTGCTAAACGAG-C
* *
15579373 -ATATCTACTGATCCTACTAAATGTGCTCATACGAGCAATGTCTAC
64 AATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * * * * *
15579418 TGATTCTACTGAAAGTTCTCAAACAAACAATATCTATTGATACTAATGAAAGTGCTCAACAATCA
1 TGATTCTACTGAAAGTGCTC-AACGAGCAATATCTATTGATACTACTGAAAGTGCTAAACGAGCA
* * *
15579483 ATATCTACTGATCCTATTGAATTTGCTCAAACGAGTAATGTCTAC
65 ATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * *** * * *
15579528 TGGTTCTACTGAAAGTGCTTAAACGAGCAATATCTACAAATTCTACTG-AAGTGCTCAATGAGCA
1 TGATTCTACTGAAAGTGC-TCAACGAGCAATATCTATTGATACTACTGAAAGTGCTAAACGAGCA
* * * *
15579592 ATATTTACTGATCCTACTGAATGTACTCAAACGAGAAATGTCTAT
65 ATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * *
15579637 TGATTCTACTG-AAGTGCTCAATGAGCAATATCTATTGGTTCTACTGAAAGTGCTCAAACGAGAA
1 TGATTCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGCT-AAACGAGCA
* * * * * *
15579701 ATGTCTATTGATTCTACTTAA-GTGCTC-AACGAACAATATCTAC
65 ATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * * *
15579744 T-AGTTCTACTGAAAGTGCTCAACAAGAAATATCTATTGATCCTATTGAATGTGCTCAAACGAGC
1 TGA-TTCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGCT-AAACGAGC
* *
15579808 AATATCTATTGATCCTACTAAATGTGCTCAAACGAGCAATGTCTAC
64 AATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * *
15579854 TGGTTCTACTAAAAGTGCTCAACGAGCAATATCTATTGATCCTACTGAATGTGCTCAAACGAGCA
1 TGATTCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGCT-AAACGAGCA
* * * * * *
15579919 ATGTCTACTGGTTCTACTGAA-GTGCTCAAGCGAGCAATATCTAT
65 ATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * *
15579963 TG-TGTCTACTGAAAGTGCTCAACGATCAATATCTACTGATCCTACTGAATGTGCTTAAACGAGC
1 TGAT-TCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGC-TAAACGAGC
* * * * * *
15580027 AATGTTTATTGATTCTACTGAA-GTGCTCAATCGAGCAATATCTAC
64 AATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
*
15580072 TGGTTCTACTGAATAGTTGCTCAAACGAGCAATATC
1 TGATTCTACTGAA-AG-TGCTC-AACGAGCAATATC
15580108 CACTGATTAT
Statistics
Matches: 686, Mismatches: 96, Indels: 32
0.84 0.12 0.04
Matches are distributed among these distances:
106 1 0.00
107 44 0.06
108 91 0.13
109 228 0.33
110 303 0.44
111 7 0.01
112 12 0.02
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (109 bp):
TGATTCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGCTAAACGAGCAA
TATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
Found at i:15580160 original size:78 final size:78
Alignment explanation
Indices: 15580059--15580203 Score: 202
Period size: 78 Copynumber: 1.9 Consensus size: 78
15580049 GTGCTCAATC
* * * * *
15580059 GAGCAATATCTACTGGTTCTACTGAATAG-TTGCTCAAACGAGCAATATCCACTGATTATACAGA
1 GAGCAATACCCACTGATTATACTGAAT-GTTTGCTCAAACGAGCAATATCCAATGATTATACAGA
15580123 ATGTTTTCTCAAAT
65 ATGTTTTCTCAAAT
* * *
15580137 GAGCAATACCCACTGATTATACTGAATGTTTGCTGAAACGAGCGATATCCAATGATTATACTGAA
1 GAGCAATACCCACTGATTATACTGAATGTTTGCTCAAACGAGCAATATCCAATGATTATACAGAA
15580202 TG
66 TG
15580204 CATGCTCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.02
78 57 0.98
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (78 bp):
GAGCAATACCCACTGATTATACTGAATGTTTGCTCAAACGAGCAATATCCAATGATTATACAGAA
TGTTTTCTCAAAT
Found at i:15591634 original size:27 final size:28
Alignment explanation
Indices: 15591590--15591668 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 28
15591580 GAATATTGGG
*
15591590 TTTCATTTAATTTCTAAAAGTATTTTTTA-T
1 TTTCATTT--TTT-TAAAAGTATTTTCTATT
*
15591620 TTTCATTTTTTTAAAA-TAGTTTCTATT
1 TTTCATTTTTTTAAAAGTATTTTCTATT
*
15591647 TTTTATTTTTTTAAAAGTATTT
1 TTTCATTTTTTTAAAAGTATTT
15591669 AATAAATAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
26 7 0.16
27 21 0.49
28 7 0.16
30 8 0.19
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTCATTTTTTTAAAAGTATTTTCTATT
Found at i:15592636 original size:24 final size:24
Alignment explanation
Indices: 15592621--15592671 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15592611 AATCAATGTC
15592621 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
** *
15592645 AAATATATTATATTAATAAATACT
1 AAATATATTATGCTAATAAATGCT
15592669 AAA
1 AAA
15592672 CCTTCTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:15595042 original size:17 final size:17
Alignment explanation
Indices: 15594998--15595049 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 17
15594988 TTTTACATTA
15594998 TTTTTTATTAATATTGT
1 TTTTTTATTAATATTGT
* *
15595015 TAAATTGTTATTATTATTGT
1 T---TTTTTATTAATATTGT
*
15595035 TTTTTTATTAGTATT
1 TTTTTTATTAATATT
15595050 ATTTATTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 13 0.46
20 15 0.54
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (17 bp):
TTTTTTATTAATATTGT
Done.