Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 44 of 75
Found at i:14111456 original size:27 final size:27
Alignment explanation
Indices: 14111424--14111693 Score: 246
Period size: 27 Copynumber: 10.0 Consensus size: 27
14111414 TTTCATCTCT
**
14111424 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* ** *
14111451 TGGGGGTATTTTGGTTATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* *
14111478 T-GAGGGTATTTC-GATTATTTTACCTTA
1 TAG-GGGTATTTCAG-TCATTTTACCCTA
* * *
14111505 TGGGGGTATTTCAGTTATTCTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
14111532 TAGGGGTATTTCAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* *
14111559 TAGGGGTATTTCGGTCATTTTACCCAA
1 TAGGGGTATTTCAGTCATTTTACCCTA
** * *
14111586 TAGGGGTATTTTGGTTATTTTACCGTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
14111613 -ACGGGGTATTTTAGTCATTTTA-CCTA
1 TA-GGGGTATTTCAGTCATTTTACCCTA
* * * *
14111639 TAAGGGCATTTCGGTCATTTTACCTTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
14111666 T-GCGGGTATTTC-GATTATTTTACCCTA
1 TAG-GGGTATTTCAG-TCATTTTACCCTA
14111693 T
1 T
14111694 TTTAGGGTCT
Statistics
Matches: 203, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
26 23 0.11
27 178 0.88
28 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
TAGGGGTATTTCAGTCATTTTACCCTA
Found at i:14111566 original size:81 final size:81
Alignment explanation
Indices: 14111426--14111693 Score: 310
Period size: 81 Copynumber: 3.3 Consensus size: 81
14111416 TCATCTCTTA
** * * * *
14111426 GGGGTATAACAGTCATTTTACCCTATGGGGGTATTTTGGTTATTTTACCCTAT-GAGGGTATTTC
1 GGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTTAGTCATTTTACCCTATAG-GGGTATTTC
* *
14111490 GATTATTTTACCTTATG
65 GGTCATTTTACCTTATG
* *
14111507 GGGGTATTTCAGTTATTCTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCG
1 GGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTTAGTCATTTTACCCTATAGGGGTATTTCG
** *
14111572 GTCATTTTACCCAATA
66 GTCATTTTACCTTATG
** * * *
14111588 GGGGTATTTTGGTTATTTTACCGTA-ACGGGGTATTTTAGTCATTTTA-CCTATAAGGGCATTTC
1 GGGGTATTTCAGTTATTTTACCCTATA-GGGGTATTTTAGTCATTTTACCCTATAGGGGTATTTC
14111651 GGTCATTTTACCTTATG
65 GGTCATTTTACCTTATG
*
14111668 CGGGTATTTC-GATTATTTTACCCTAT
1 GGGGTATTTCAG-TTATTTTACCCTAT
14111694 TTTAGGGTCT
Statistics
Matches: 157, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 49 0.31
81 106 0.68
82 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (81 bp):
GGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTTAGTCATTTTACCCTATAGGGGTATTTCG
GTCATTTTACCTTATG
Found at i:14113140 original size:17 final size:16
Alignment explanation
Indices: 14113118--14113150 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
14113108 TCAAGGTCTC
14113118 CCTACAGTTTCCAGTTT
1 CCTACAGTTT-CAGTTT
14113135 CCTACAGTTTCAGTTT
1 CCTACAGTTTCAGTTT
14113151 ACTCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.42
Consensus pattern (16 bp):
CCTACAGTTTCAGTTT
Found at i:14113827 original size:34 final size:34
Alignment explanation
Indices: 14113764--14113829 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
14113754 ATCATCAGTA
* *
14113764 GGGCCTTTGCCCAAATTCAGTAATAGTATCAGCG
1 GGGCCTTGGCCCAAATTCAGTAACAGTATCAGCG
14113798 GGGCCTTGGCCCATAA-T-AGTAACAGGTATCAG
1 GGGCCTTGGCCCA-AATTCAGTAACA-GTATCAG
14113830 TCATGCAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.21
34 20 0.71
35 2 0.07
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (34 bp):
GGGCCTTGGCCCAAATTCAGTAACAGTATCAGCG
Found at i:14114323 original size:27 final size:27
Alignment explanation
Indices: 14114295--14114689 Score: 438
Period size: 27 Copynumber: 14.4 Consensus size: 27
14114285 TATAACAGTT
* *
14114295 ATTTTACCCAATGGGGGTATTTCGATT
1 ATTTTACCCTATGGGGGTATTTCGATC
* * * *
14114322 ATTTTACCTTATGGGGGTGTTTCGCTT
1 ATTTTACCCTATGGGGGTATTTCGATC
* * *
14114349 ATTCTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
14114376 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
*
14114403 ATTTTACCCTATGGGGCTATTTTATATTTC-AGTC
1 ATTTTACCCTATGGGG-------GTATTTCGA-TC
* *
14114437 ATTTTACCCTATGAGGGTCTTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
14114464 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
* ** *
14114491 ATTTTAACCTATACGGGTATTTCTATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
14114518 ATTTTACCTTATGAGGGTATTTC-AGTC
1 ATTTTACCCTATGGGGGTATTTCGA-TC
*
14114545 ATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
14114572 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
14114599 ATTTTACCCTAT-GGGTTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGATC
*
14114625 ATTTTACCCTAT-GGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
* **
14114651 ATTTTACCTTATGGGGGTATTTTAATC
1 ATTTTACCCTATGGGGGTATTTCGATC
14114678 ATTTTACCCTAT
1 ATTTTACCCTAT
14114690 TTTAGGGTAT
Statistics
Matches: 311, Mismatches: 45, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
26 47 0.15
27 238 0.77
28 2 0.01
33 1 0.00
34 23 0.07
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGATC
Found at i:14115423 original size:24 final size:25
Alignment explanation
Indices: 14115384--14115431 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
14115374 CTCCCTAAAT
*
14115384 CCCAATATTCTCTCCTCAAATCTCC
1 CCCAATATCCTCTCCTCAAATCTCC
*
14115409 CCCAATATCCT-TCCTCAATTCTC
1 CCCAATATCCTCTCCTCAAATCTC
14115432 TCTATGACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.23, C:0.44, G:0.00, T:0.33
Consensus pattern (25 bp):
CCCAATATCCTCTCCTCAAATCTCC
Found at i:14115905 original size:28 final size:28
Alignment explanation
Indices: 14115874--14115936 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
14115864 TAGCAACCAC
*
14115874 CATT-GCACGCACCACCCAGCAGCTCCCG
1 CATTAGCACGC-CCACCCAGCAGCTCACG
* *
14115902 CATTAGCTCGCCCACCCTGCAGCTCACG
1 CATTAGCACGCCCACCCAGCAGCTCACG
*
14115930 CACTAGC
1 CATTAGC
14115937 TCCCGCCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.21, C:0.48, G:0.17, T:0.14
Consensus pattern (28 bp):
CATTAGCACGCCCACCCAGCAGCTCACG
Found at i:14115937 original size:28 final size:28
Alignment explanation
Indices: 14115885--14115938 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
14115875 ATTGCACGCA
* *
14115885 CCACCCAGCAGCTCCCGCATTAGCTCGC
1 CCACCCAGCAGCTCACGCACTAGCTCGC
*
14115913 CCACCCTGCAGCTCACGCACTAGCTC
1 CCACCCAGCAGCTCACGCACTAGCTC
14115939 CCGCCAACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.19, C:0.50, G:0.17, T:0.15
Consensus pattern (28 bp):
CCACCCAGCAGCTCACGCACTAGCTCGC
Found at i:14118607 original size:2 final size:2
Alignment explanation
Indices: 14118600--14118629 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14118590 ATATGCTTAA
14118600 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14118630 CATATGTACT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14125830 original size:14 final size:14
Alignment explanation
Indices: 14125811--14125849 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14125801 TTGTTTCACT
14125811 GAAAATGACTTCTA
1 GAAAATGACTTCTA
* * *
14125825 GAAAATGATTTTTG
1 GAAAATGACTTCTA
14125839 GAAAATGACTT
1 GAAAATGACTT
14125850 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGACTTCTA
Found at i:14136941 original size:25 final size:25
Alignment explanation
Indices: 14136907--14136956 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
14136897 CCATACCTCC
*
14136907 CTCGGGGAGGCTTACCGGATAATAA
1 CTCGGGGAGGCTTACCGGACAATAA
14136932 CTCGGGGAGGCTTACCGGACAATAA
1 CTCGGGGAGGCTTACCGGACAATAA
14136957 AGTAATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.32, T:0.18
Consensus pattern (25 bp):
CTCGGGGAGGCTTACCGGACAATAA
Found at i:14140720 original size:189 final size:189
Alignment explanation
Indices: 14140390--14140773 Score: 581
Period size: 189 Copynumber: 2.0 Consensus size: 189
14140380 GATTCTGAGC
*
14140390 TTAACTCATGATTTTGGTTATAATGCTTAGCTGACAAGAGAGTGAAAGCTTTGACGTTCAGAAAA
1 TTAACTCATGATTTTGGTTATAATGCTTAGCTGACAAGAGAGTGAAAGCTTTGACGTTCAAAAAA
* * * *
14140455 GCTAAGTAGATGAGAAGGCAAAGAAGTGTCAAGTGAGTTTCTGCACACTATCCCTAAAATGCTAA
66 GCTAAGGAGAGGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCTAA
* *
14140520 GTATATTTAAGATCATATAGATATATGAGTATCCACCATTTTAGTTCTATAAGCATGAA
131 GTACATTTAAGATCATACAGATATATGAGTATCCACCATTTTAGTTCTATAAGCATGAA
* * * *
14140579 TTAACTTATGATTTTGGTTATAATGCTTAGCTGCCAAGAGATTGGAAGCTTTGACGTTCAAAAAA
1 TTAACTCATGATTTTGGTTATAATGCTTAGCTGACAAGAGAGTGAAAGCTTTGACGTTCAAAAAA
* * * **
14140644 GCTAAGCGA-AGGAGGAGGCAAGGAAGTGTCAAATGAGTTTCTGCACACTATACTTGGAATGCTA
66 GCTAAG-GAGAGGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCTA
* * *
14140708 AGTACGTTTAAGATCGTACAGATATATGAGTATCCACCATTTTAGTTCTGTAAGCATGAA
130 AGTACATTTAAGATCATACAGATATATGAGTATCCACCATTTTAGTTCTATAAGCATGAA
14140768 TTAACT
1 TTAACT
14140774 ATTATTTCAT
Statistics
Matches: 175, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
189 174 0.99
190 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (189 bp):
TTAACTCATGATTTTGGTTATAATGCTTAGCTGACAAGAGAGTGAAAGCTTTGACGTTCAAAAAA
GCTAAGGAGAGGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCTAA
GTACATTTAAGATCATACAGATATATGAGTATCCACCATTTTAGTTCTATAAGCATGAA
Found at i:14144721 original size:7 final size:7
Alignment explanation
Indices: 14144709--14144735 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14144699 ACCAGTAAAT
14144709 ATTAATA
1 ATTAATA
14144716 ATTAATA
1 ATTAATA
14144723 ATTAATA
1 ATTAATA
14144730 ATTAAT
1 ATTAAT
14144736 GACTCAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTAATA
Found at i:14152432 original size:15 final size:15
Alignment explanation
Indices: 14152397--14152432 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14152387 GCTTAATATT
14152397 TAAAATTTAAAAAAA
1 TAAAATTTAAAAAAA
* *
14152412 TTAAATTTAAAACAA
1 TAAAATTTAAAAAAA
14152427 TAAAAT
1 TAAAAT
14152433 ATATTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAATTTAAAAAAA
Found at i:14152610 original size:18 final size:18
Alignment explanation
Indices: 14152575--14152611 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14152565 TGATTTTTTG
* *
14152575 AATTCGAATAACTTGAAT
1 AATTCGAATAAATCGAAT
14152593 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
14152611 A
1 A
14152612 TCAAACTATA
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:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:14153391 original size:9 final size:9
Alignment explanation
Indices: 14153374--14153404 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14153364 NNGAGTTGAT
14153374 TCGAATAAC
1 TCGAATAAC
*
14153383 TCGATTAAC
1 TCGAATAAC
14153392 TCGAATAAC
1 TCGAATAAC
14153401 TCGA
1 TCGA
14153405 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:14153577 original size:16 final size:16
Alignment explanation
Indices: 14153556--14153599 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
14153546 ACTTTCCATC
14153556 AAACTTTTACTCCCCA
1 AAACTTTTACTCCCCA
** *
14153572 AAACTTTTTTTTCCCCT
1 AAAC-TTTTACTCCCCA
14153589 AAACTTTTACT
1 AAACTTTTACT
14153600 TCTCACCCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (16 bp):
AAACTTTTACTCCCCA
Found at i:14154707 original size:18 final size:18
Alignment explanation
Indices: 14154684--14154720 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
14154674 TTGTTATTGT
14154684 AATATTGAAATTAATTAA
1 AATATTGAAATTAATTAA
14154702 AATATTGAAATTAATTAA
1 AATATTGAAATTAATTAA
14154720 A
1 A
14154721 TTAACTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AATATTGAAATTAATTAA
Found at i:14172538 original size:7 final size:7
Alignment explanation
Indices: 14172526--14172596 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
14172516 CAACCCAATT
14172526 TTTATTA
1 TTTATTA
14172533 TTTATTTA
1 TTTA-TTA
14172541 TTTATTA
1 TTTATTA
* *
14172548 TTTTTTC
1 TTTATTA
*
14172555 TTTGCCTTA
1 TTT--ATTA
14172564 TTTATTAA
1 TTTATT-A
14172572 TTTA-T-
1 TTTATTA
14172577 TTTATTA
1 TTTATTA
14172584 TTTATTA
1 TTTATTA
*
14172591 CTTATT
1 TTTATT
14172597 TGGATATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
5 4 0.08
6 1 0.02
7 30 0.58
8 12 0.23
9 5 0.10
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:14173613 original size:101 final size:100
Alignment explanation
Indices: 14173424--14173614 Score: 226
Period size: 101 Copynumber: 1.9 Consensus size: 100
14173414 AAGAACATGT
* * * *
14173424 TGGGTTGAGTAACCAGGGTGGAGTGCTTGGGTGTCATCTCTCTTCGCGTCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCAGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCGATATG
* ** *
14173489 TTCTTAAGTAAAACTTATAATAAATTAGGAGTCTGC
66 TCCAAAAGTAAAAC-AATAATAAATTAGGAGTCTGC
* *
14173525 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCAGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTC-G-ATA
14173590 T-TCCAAAAGCATAAAA-AAT-ATAAAT
64 TGTCCAAAAG--TAAAACAATAATAAAT
14173615 AATAAATAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
101 60 0.79
102 8 0.11
103 3 0.04
104 5 0.07
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (100 bp):
TGGGCTGAGTAACCAGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTCGATATG
TCCAAAAGTAAAACAATAATAAATTAGGAGTCTGC
Found at i:14173622 original size:4 final size:4
Alignment explanation
Indices: 14173609--14173660 Score: 65
Period size: 4 Copynumber: 13.2 Consensus size: 4
14173599 CATAAAAAAT
14173609 ATAA AT-A ATAA ATAA AT-- ATAA ATCAAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA AT--AA ATAA ATAA ATAA ATAA ATAA
14173656 ATAA A
1 ATAA A
14173661 GAAAGAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 2 0.05
3 3 0.07
4 34 0.79
6 4 0.09
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:14173623 original size:20 final size:20
Alignment explanation
Indices: 14173600--14173660 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 20
14173590 TTCCAAAAGC
14173600 ATAAAAAATATAAATAATAA
1 ATAAAAAATATAAATAATAA
*
14173620 AT---AAATATAAATCA-AA
1 ATAAAAAATATAAATAATAA
*
14173636 ATAAATAA-ATAAATAAATAA
1 ATAAAAAATATAAAT-AATAA
14173656 ATAAA
1 ATAAA
14173661 GAAAGAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
16 4 0.12
17 11 0.33
18 6 0.18
19 3 0.09
20 9 0.27
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
ATAAAAAATATAAATAATAA
Found at i:14178433 original size:131 final size:131
Alignment explanation
Indices: 14178170--14178417 Score: 300
Period size: 131 Copynumber: 1.9 Consensus size: 131
14178160 TATTGTCGCG
* * * * * *
14178170 AATTCTTAATTAAAAGCATAACGACAAAATAAATTGTTGTTAAATGCTAAAATATTAACATCAAC
1 AATTCTTAATTAAAAACACAACAACAAAATAAATTATTGGTAAATGCTAAAATATTAACAACAAC
* * * * *
14178235 ATTAAAATGTCATTATCTAATTTAATTTTCATGTTATTAATCACAACAATAAGGTTACTCATTAT
66 ATTAAAATGTCATTATATAATTTAATTTTCATATTACTAATCACAAAAATAAGATTACTCATTAT
14178300 A
131 A
* **
14178301 AATTCTTAA-TAAAATACACAACAACAAAATAAATTATTGGTAAATGTTATTATATTAACAACAA
1 AATTCTTAATTAAAA-ACACAACAACAAAATAAATTATTGGTAAATGCTAAAATATTAACAACAA
** * **
14178365 TTTTAAAATGTTATTATATAATTTAATTTTTTTAATTACTAATCACAAAAATA
65 CATTAAAATGTCATTATATAATTTAATTTTCAT-ATTACTAATCACAAAAATA
14178418 CAATTTTTTA
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
130 5 0.05
131 76 0.78
132 16 0.16
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (131 bp):
AATTCTTAATTAAAAACACAACAACAAAATAAATTATTGGTAAATGCTAAAATATTAACAACAAC
ATTAAAATGTCATTATATAATTTAATTTTCATATTACTAATCACAAAAATAAGATTACTCATTAT
A
Found at i:14179249 original size:15 final size:15
Alignment explanation
Indices: 14179224--14179265 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
14179214 TTGATGAAAA
*
14179224 TATATTTTATTGT-T
1 TATATTATATTGTAT
*
14179238 TATTATTATATTATAT
1 TA-TATTATATTGTAT
14179254 TATATTATATTG
1 TATATTATATTG
14179266 ACACTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 18 0.78
16 3 0.13
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (15 bp):
TATATTATATTGTAT
Found at i:14183195 original size:13 final size:13
Alignment explanation
Indices: 14183125--14183214 Score: 117
Period size: 13 Copynumber: 6.9 Consensus size: 13
14183115 AGTTCTTTAT
14183125 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
14183138 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
14183151 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
14183164 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
14183177 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
14183190 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
14183203 TGCTTTTGAAAA
1 TGCTTTTGAAAA
14183215 TTTTAAGTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 67 1.00
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:14183463 original size:20 final size:19
Alignment explanation
Indices: 14183438--14183484 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
14183428 ATTAATTATT
14183438 TATAAAATTTAATTAGAATA
1 TATAAAATTTAATTA-AATA
* * *
14183458 TATAAACTATATTTAAATA
1 TATAAAATTTAATTAAATA
14183477 TA-AAAATT
1 TATAAAATT
14183485 AAATATTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAAAATTTAATTAAATA
Found at i:14184178 original size:7 final size:7
Alignment explanation
Indices: 14184146--14184177 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14184136 AGAGGGAACC
14184146 AGCAAAG
1 AGCAAAG
14184153 AGCAAAG
1 AGCAAAG
14184160 AGCAAAG
1 AGCAAAG
*
14184167 AGCAGAG
1 AGCAAAG
14184174 AGCA
1 AGCA
14184178 GTGTAGTAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.53, C:0.16, G:0.31, T:0.00
Consensus pattern (7 bp):
AGCAAAG
Found at i:14184218 original size:21 final size:21
Alignment explanation
Indices: 14184176--14184220 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14184166 GAGCAGAGAG
* * * *
14184176 CAGTGTAGTAGCAGAGGGAAC
1 CAGTGTAGCAGCAAAAGAAAC
14184197 CAGTGTAGCAGCAAAAGAAAC
1 CAGTGTAGCAGCAAAAGAAAC
14184218 CAG
1 CAG
14184221 CAAAGAGCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.18, G:0.31, T:0.11
Consensus pattern (21 bp):
CAGTGTAGCAGCAAAAGAAAC
Found at i:14184228 original size:52 final size:52
Alignment explanation
Indices: 14184124--14184229 Score: 126
Period size: 52 Copynumber: 2.0 Consensus size: 52
14184114 GGGCAGAGAA
* *
14184124 CAGTGTAGCAGCAGAGGGAACCAGCAAAGAGCAAAGAGCAAAGAGCAGAGAG
1 CAGTGTAGCAGCAGAGGGAACCAGCAAAGAGCAAAGAGCAAACAGCAAAGAG
* ***
14184176 CAGTGTAGTAGCAGAGGGAACCAGTGTAGCAGCAAA-AG-AAACCAGCAAAGAG
1 CAGTGTAGCAGCAGAGGGAACCAGCAAAG-AGCAAAGAGCAAA-CAGCAAAGAG
14184228 CA
1 CA
14184230 AAGAGCAGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 3 0.07
52 37 0.80
53 6 0.13
ACGTcount: A:0.43, C:0.18, G:0.32, T:0.07
Consensus pattern (52 bp):
CAGTGTAGCAGCAGAGGGAACCAGCAAAGAGCAAAGAGCAAACAGCAAAGAG
Found at i:14185248 original size:72 final size:73
Alignment explanation
Indices: 14185155--14185329 Score: 221
Period size: 72 Copynumber: 2.4 Consensus size: 73
14185145 AAAATCACAT
* * *
14185155 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
14185219 GACCAAAC
66 AACCAAAC
* * *
14185227 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAA
14185290 AAACCAAAC
65 AAACCAAAC
* * * *
14185299 ATAAATAAATGTTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
14185330 TTGTTGTTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
71 1 0.01
72 83 0.95
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
AACCAAAC
Found at i:14185774 original size:18 final size:18
Alignment explanation
Indices: 14185751--14185798 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
14185741 TCCATCAATT
*
14185751 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
14185769 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
14185787 TGAACATCATTT
1 TGAACATCATTT
14185799 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:14187104 original size:114 final size:106
Alignment explanation
Indices: 14186868--14187110 Score: 355
Period size: 107 Copynumber: 2.2 Consensus size: 106
14186858 NNNNNNNNNN
14186868 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
1 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAA-TATTATTATTGCTAC
*
14186933 TGACAAAATTTTACATTCTTTTCTGTAATTTTACAAAGTTTT
65 TAACAAAATTTTACATTCTTTTCTGTAATTTTACAAAGTTTT
*
14186975 TAATTAATATTTATGTAATTAAAAATGGTCCCTTTAAGATGATTATT-A-ATTATTATTGCTACT
1 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATATTATTATTGCTACT
14187038 AACAAAATTTTACATTCTTTTACATTCATTTCTGTAATTTTACAAAGTTTT
66 AACAAAATTTTACA-----TT-C--T--TTTCTGTAATTTTACAAAGTTTT
14187089 TAATTAATATTTATGTAATTAA
1 TAATTAATATTTATGTAATTAA
14187111 TATTTATGTA
Statistics
Matches: 124, Mismatches: 2, Indels: 13
0.89 0.01 0.09
Matches are distributed among these distances:
104 28 0.23
106 1 0.01
107 46 0.37
109 2 0.02
110 1 0.01
112 1 0.01
114 45 0.36
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (106 bp):
TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATATTATTATTGCTACT
AACAAAATTTTACATTCTTTTCTGTAATTTTACAAAGTTTT
Found at i:14187109 original size:15 final size:15
Alignment explanation
Indices: 14187089--14187125 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
14187079 ACAAAGTTTT
14187089 TAATTAATATTTATG
1 TAATTAATATTTATG
14187104 TAATTAATATTTATG
1 TAATTAATATTTATG
14187119 TAATTAA
1 TAATTAA
14187126 AAATAGTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TAATTAATATTTATG
Found at i:14189096 original size:19 final size:19
Alignment explanation
Indices: 14189072--14189242 Score: 90
Period size: 19 Copynumber: 8.1 Consensus size: 19
14189062 GTGGTGGAGA
*
14189072 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
14189091 AGAGGAACAAAGAACCAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGC
* * *
14189116 AGAGGAAGAAATAACCAGT
1 AGAGGAACAAAGAACCAGC
14189135 AGAGGAACAAAGAACCAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGC
* * *
14189160 AGAGGAAGAAATAACCAGT
1 AGAGGAACAAAGAACCAGC
14189179 AGAGGAACAAAGAACCAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGC
* *
14189204 AGAGGAAGAAATAACCAGC
1 AGAGGAACAAAGAACCAGC
*
14189223 AAAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
14189242 A
1 A
14189243 CCAGCAAAGG
Statistics
Matches: 116, Mismatches: 18, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
19 65 0.56
21 3 0.03
23 2 0.02
25 46 0.40
ACGTcount: A:0.51, C:0.22, G:0.25, T:0.03
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:14189110 original size:25 final size:25
Alignment explanation
Indices: 14189082--14189317 Score: 220
Period size: 25 Copynumber: 10.2 Consensus size: 25
14189072 AGAGGAACAA
14189082 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
14189107 AGCACCAGCAGAGG----AAGAA--
1 AGCACCAGCAGAGGAACAAAGAACC
** *
14189126 ATAACCAGTAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
14189151 AGCACCAGCAGAGG----AAGAA--
1 AGCACCAGCAGAGGAACAAAGAACC
** *
14189170 ATAACCAGTAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
14189195 AGCACCAGCAGAGGAAGAAATAACC
1 AGCACCAGCAGAGGAACAAAGAACC
14189220 AG---CA--A-AGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
14189239 AGCACCAGCAAAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
14189264 AACACCAGCAGAAGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* * *
14189289 AGCACCAGCAGAGGATCAATGAAGC
1 AGCACCAGCAGAGGAACAAAGAACC
14189314 AGCA
1 AGCA
14189318 GAGGAACAAA
Statistics
Matches: 169, Mismatches: 24, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
19 36 0.21
20 1 0.01
21 10 0.06
22 4 0.02
23 10 0.06
24 1 0.01
25 107 0.63
ACGTcount: A:0.50, C:0.24, G:0.23, T:0.03
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:14189139 original size:44 final size:44
Alignment explanation
Indices: 14189085--14189330 Score: 334
Period size: 44 Copynumber: 5.5 Consensus size: 44
14189075 GGAACAAAGC
14189085 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
*
14189129 ACCAGTAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
*
14189173 ACCAGTAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
* *
14189217 ACCAGCAAAGGAACAAAGAACCAGCACCAGCAAAGGAACAAAGAACCA-A
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGG----AAGAA--ATA
* **
14189266 CACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGG-ATCAATGA
1 -ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAAT-A
*
14189311 AGCAGCAGAGGAACAAAGAA
1 ACCAGCAGAGGAACAAAGAA
14189331 GCAACGATGA
Statistics
Matches: 182, Mismatches: 11, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
43 1 0.01
44 138 0.76
45 3 0.02
48 5 0.03
49 1 0.01
50 34 0.19
ACGTcount: A:0.51, C:0.23, G:0.24, T:0.03
Consensus pattern (44 bp):
ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATA
Found at i:14189202 original size:69 final size:69
Alignment explanation
Indices: 14189129--14189335 Score: 213
Period size: 69 Copynumber: 3.0 Consensus size: 69
14189119 GGAAGAAATA
* *
14189129 ACCAGTAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATAACCAGTAGAGGAACAAAGAAC
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATAACCAGCAGAGGAACAAAGAAC
*
14189194 CAGC
66 CAAC
* * * * ** ** *
14189198 ACCAGCAGAGGAAGAAATAACCAGCA-AAGGA-ACAAAGAACCAGCACCAGCAAAGGAACAAAGA
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAA--ATAACCAGCAGAGGAACAAAGA
14189261 ACCAAC
64 ACCAAC
* ** *
14189267 ACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGG-ATCAATGAAGCAGCAGAGGAACAAAGAA
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAAT-AACCAGCAGAGGAACAAAGAA
*
14189331 GCAAC
65 CCAAC
14189336 GATGAGAGAA
Statistics
Matches: 107, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
67 6 0.06
68 4 0.04
69 91 0.85
70 5 0.05
71 1 0.01
ACGTcount: A:0.51, C:0.23, G:0.23, T:0.03
Consensus pattern (69 bp):
ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAAGAAATAACCAGCAGAGGAACAAAGAAC
CAAC
Found at i:14189318 original size:19 final size:19
Alignment explanation
Indices: 14189294--14189333 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
14189284 GAACCAGCAC
* *
14189294 CAGCAGAGGATCAATGAAG
1 CAGCAGAGGAACAAAGAAG
14189313 CAGCAGAGGAACAAAGAAG
1 CAGCAGAGGAACAAAGAAG
14189332 CA
1 CA
14189334 ACGATGAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.30, T:0.05
Consensus pattern (19 bp):
CAGCAGAGGAACAAAGAAG
Found at i:14192176 original size:90 final size:90
Alignment explanation
Indices: 14191893--14192186 Score: 272
Period size: 90 Copynumber: 3.3 Consensus size: 90
14191883 ACATTAGGTT
* * * * * *
14191893 GTGGATAAACCACAAAAGTTGCAGGTTAATATGCTGTCAGATGGTTGTGAGTGTACAACATATTT
1 GTGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTT
* * * * * *
14191958 TCAGATGAGGGCTGTCAG-AATATG
66 GCAAATAAGAGCTGACAGAAATTTG
* * * * * * *
14191982 GATGGATGAACCACCAATATTGTAGGTTAATAGGTTGTCAGATGGTTGTTAATACACAACGTATT
1 G-TGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATT
* * * *
14192047 TGTAAATAAGAGCT-ACAAAAAAATGG
65 TGCAAATAAGAGCTGAC-AGAAATTTG
* * * *
14192073 GTGGATGAGCCACCAATGTTGTAGGTTAATACGCTGCCAGATGGTTGTGAATGCACAACATAATT
1 GTGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTT
*
14192138 GCAAATAAGAGCTGCCAGATAATTTG
66 GCAAATAAGAGCTGACAGA-AATTTG
14192164 G-GGATAAACCACCAGA-GTTGTAG
1 GTGGATAAACCACCA-ATGTTGTAG
14192187 ATTTATTAAT
Statistics
Matches: 161, Mismatches: 38, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
89 2 0.01
90 148 0.92
91 11 0.07
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (90 bp):
GTGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTT
GCAAATAAGAGCTGACAGAAATTTG
Found at i:14195991 original size:36 final size:36
Alignment explanation
Indices: 14195946--14196071 Score: 170
Period size: 34 Copynumber: 3.6 Consensus size: 36
14195936 ACCTAATGCT
14195946 CAAATCAATTCGGCAATATATATATGTATACATATA
1 CAAATCAATTCGGCAATATATATATGTATACATATA
*
14195982 CAAATCAATTCGAC-A-ATATATATGTATACATATA
1 CAAATCAATTCGGCAATATATATATGTATACATATA
* * * *
14196016 CAAATCAATTCAGCAATGTATATA--TATATATATT
1 CAAATCAATTCGGCAATATATATATGTATACATATA
*
14196050 TAAATCAATTCGGCAATATATA
1 CAAATCAATTCGGCAATATATA
14196072 AAACATATAC
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 58 0.73
35 2 0.03
36 19 0.24
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.34
Consensus pattern (36 bp):
CAAATCAATTCGGCAATATATATATGTATACATATA
Found at i:14202203 original size:44 final size:46
Alignment explanation
Indices: 14202154--14202246 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
14202144 TTACACCTAT
* * *
14202154 ATTCCATTCAACCAAACACAAGAA-TACC-ATTATGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCC
*
14202198 ATTCCATTCAACTAAACAAAAGAATTACCTATTACGCATCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCC
14202244 ATT
1 ATT
14202247 ACACCTCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.51
45 4 0.09
46 17 0.40
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCC
Found at i:14203716 original size:4 final size:4
Alignment explanation
Indices: 14203709--14203756 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
14203699 TGCATGCATG
14203709 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
14203757 ACCATTAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:14204319 original size:15 final size:16
Alignment explanation
Indices: 14204287--14204319 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14204277 GGATCTTTTT
*
14204287 CAAAAATTACTTATTA
1 CAAAAATTACTTAATA
14204303 CAAAAATTAC-TAATA
1 CAAAAATTACTTAATA
14204318 CA
1 CA
14204320 TATATGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (16 bp):
CAAAAATTACTTAATA
Found at i:14205149 original size:16 final size:16
Alignment explanation
Indices: 14205113--14205150 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
14205103 AACTAAAATG
*
14205113 TAAACAAATTTAAAAA
1 TAAATAAATTTAAAAA
*
14205129 T-AATAAATTTGAAAA
1 TAAATAAATTTAAAAA
14205144 TAAATAA
1 TAAATAA
14205151 TAAGAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAATAAATTTAAAAA
Found at i:14207465 original size:46 final size:46
Alignment explanation
Indices: 14207395--14207579 Score: 273
Period size: 46 Copynumber: 4.0 Consensus size: 46
14207385 CCTGGAAAAG
14207395 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
* * *
14207441 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
* * *
14207487 TATGAAAAGTAGGTATGGTGTTTC-AGTAAAGAAAACTATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGA-TAAAGAAAACCATACTGAGT
* * *
14207533 TGTGAAAAGTAGGTATGGTATTTCCATTAACAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
14207579 T
1 T
14207580 ATAGCAATGT
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
46 124 0.99
47 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
Found at i:14209695 original size:89 final size:89
Alignment explanation
Indices: 14209557--14209749 Score: 262
Period size: 89 Copynumber: 2.2 Consensus size: 89
14209547 TATTTCTCTG
* * *
14209557 CAAACTCAGGGAGGCAAGGCTGGTATCTTCGATCAGCTTCGTTGTCAATACAGGAAGACAAGATT
1 CAAACTCAGGGAGGCAAGGCTGGTATCTTCGATCAGATTCCTTGCCAATACAGGAAGACAAGATT
* *
14209622 TGCTATCGCCAGTCTGCTCTGCTT
66 TGCTATCGCCAGTCTGCTCCGCTA
* * * * *
14209646 CAAACTTAGGGAGGCAAGGCTGGTGTCTTTGATCTGATTCACTT-CCAATACAGGAAGACAATAT
1 CAAACTCAGGGAGGCAAGGCTGGTATCTTCGATCAGATTC-CTTGCCAATACAGGAAGACAAGAT
* *
14209710 TTTCTATCGTCAGTCTGCTCCGCTA
65 TTGCTATCGCCAGTCTGCTCCGCTA
14209735 CAAACTCAGGGAGGC
1 CAAACTCAGGGAGGC
14209750 GAGACTTGTA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 88 0.98
90 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (89 bp):
CAAACTCAGGGAGGCAAGGCTGGTATCTTCGATCAGATTCCTTGCCAATACAGGAAGACAAGATT
TGCTATCGCCAGTCTGCTCCGCTA
Found at i:14209828 original size:44 final size:44
Alignment explanation
Indices: 14209771--14210291 Score: 348
Period size: 44 Copynumber: 11.7 Consensus size: 44
14209761 CTTCAATCCC
* * *
14209771 CTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTG
* * * ** *
14209815 CTCTACTGCAACTTCAGAGAGATAAG---ATTCGCCATGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTG
* *
14209856 CTCTACTGCAACTGT-AGAGAGATAAGATCTGTGATTTATAGCTTTAATCTG
1 CTCCACTGCAACT-TCAGGGAGATAAGA--T-T-A--T-TAGCTTTAATCTG
* * ** * *
14209907 TTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-ATTAGCTTTAATCTG
* * * *
14209952 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTATTAGCTTTAATCTG
* *
14209996 CTCCATTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTG
* * * ** * *
14210040 CTCAACTGTAACTTCAGGGAGATAAG---ATTCGCCATGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTG
* * *
14210081 CTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATC--
1 CTCCACTGCAACTTCAGGGAGATAAGA--T-T-A--T-TAGCTTTAATCTG
* * * * * *
14210130 CATCCCACTGCAACTTTAGAGAAATAAGATTCACTATCTTTAGTCTG
1 C-T-CCACTGCAACTTCAGGGAGATAAGATT-ATTAGCTTTAATCTG
* * * *
14210177 CTCCACTGCAACTTCAGGGAGATAAGACT-TCA-CTTCAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTG
*
14210219 CTCCACTGCAACTTCAGGGAGATAGGATTATT-GACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTAG-CTTTAATCTG
* *
14210263 CTCCACTACAAATTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
14210292 TGCCATCTTC
Statistics
Matches: 371, Mismatches: 75, Indels: 62
0.73 0.15 0.12
Matches are distributed among these distances:
41 67 0.18
42 35 0.09
43 4 0.01
44 123 0.33
45 68 0.18
46 3 0.01
47 1 0.00
48 5 0.01
49 3 0.01
50 4 0.01
51 58 0.16
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTG
Found at i:14209864 original size:41 final size:41
Alignment explanation
Indices: 14209810--14210108 Score: 152
Period size: 41 Copynumber: 6.8 Consensus size: 41
14209800 ATTGGCTTTA
* *
14209810 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCCATG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATG
* * * **
14209851 ATCTGCTCTACTGCAACTGT-AGAGAGATAAGATCTGTGATTTATAG
1 ATCTGCTCCACTGCAACT-TCAGGGAGATAAGAT-T-CG--CCAT-G
* * * *
14209897 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTT
1 -----ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC---CATG
* * *
14209946 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCG--CCAT-G
* * * ** *
14209991 ATCCGCTCCATTGCAACTTCAGGGAGATAAGATTATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAG---ATTCGCCATG
* *
14210035 ATCTGCTCAACTGTAACTTCAGGGAGATAAGATTCGCCATG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATG
* * * *
14210076 ATCTACTCTACTACAACTTCAGAGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
14210109 CTGTGATTTA
Statistics
Matches: 201, Mismatches: 33, Indels: 48
0.71 0.12 0.17
Matches are distributed among these distances:
41 65 0.32
42 2 0.01
43 1 0.00
44 60 0.30
45 35 0.17
46 5 0.02
47 2 0.01
49 1 0.00
50 3 0.01
51 27 0.13
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (41 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATG
Found at i:14210112 original size:225 final size:225
Alignment explanation
Indices: 14209751--14210297 Score: 875
Period size: 225 Copynumber: 2.4 Consensus size: 225
14209741 CAGGGAGGCG
* *
14209751 AGACTTGTAACTTCAATCCCCTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGC
1 AGACTTGTAACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGC
* * * *
14209816 TCTACTGCAACTTCAGAGAGATAAGATTCGCCATGATCTGCTCTACTGCAACTGTAGAGAGATAA
66 TCAACTGCAACTTCAGGGAGATAAGATTCGCCATGATCTACTCTACTACAACTGTAGAGAGATAA
** * * *
14209881 GATCTGTGATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTT
131 GATCTGTGATTTATAGCTTTAATCCATCCCACTGCAACTTCAGAGAAATAAGATTCACTATCTTT
14209946 AGTCTGCTCCACTGCAACTTCAGGGAGATA
196 AGTCTGCTCCACTGCAACTTCAGGGAGATA
* *
14209976 AGACTTGTAACTTCAATCCGCTCCATTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGC
1 AGACTTGTAACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGC
*
14210041 TCAACTGTAACTTCAGGGAGATAAGATTCGCCATGATCTACTCTACTACAACT-TCAGAGAGATA
66 TCAACTGCAACTTCAGGGAGATAAGATTCGCCATGATCTACTCTACTACAACTGT-AGAGAGATA
*
14210105 AGATCTGTGATTTATAGCTTTAATCCATCCCACTGCAACTTTAGAGAAATAAGATTCACTATCTT
130 AGATCTGTGATTTATAGCTTTAATCCATCCCACTGCAACTTCAGAGAAATAAGATTCACTATCTT
14210170 TAGTCTGCTCCACTGCAACTTCAGGGAGATA
195 TAGTCTGCTCCACTGCAACTTCAGGGAGATA
* *
14210201 AGAC-T-TCACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGACTTTAATCTGC
1 AGACTTGTAACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGC
* * * *
14210264 TCCACTACAAATTCAGGGAGATAAGATTTGCCAT
66 TCAACTGCAACTTCAGGGAGATAAGATTCGCCAT
14210298 CTTCTTCAAT
Statistics
Matches: 297, Mismatches: 24, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
223 83 0.28
224 2 0.01
225 212 0.71
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (225 bp):
AGACTTGTAACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGC
TCAACTGCAACTTCAGGGAGATAAGATTCGCCATGATCTACTCTACTACAACTGTAGAGAGATAA
GATCTGTGATTTATAGCTTTAATCCATCCCACTGCAACTTCAGAGAAATAAGATTCACTATCTTT
AGTCTGCTCCACTGCAACTTCAGGGAGATA
Found at i:14217241 original size:15 final size:16
Alignment explanation
Indices: 14217221--14217253 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14217211 AAATGTAAAC
*
14217221 AAATTT-AAAAATAAT
1 AAATTTGAAAAAAAAT
14217236 AAATTTGAAAAAAAAT
1 AAATTTGAAAAAAAAT
14217252 AA
1 AA
14217254 TAAGGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AAATTTGAAAAAAAAT
Found at i:14218133 original size:17 final size:17
Alignment explanation
Indices: 14218111--14218154 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
14218101 ATTACAAAAT
*
14218111 CATATCTTCTAAGATTG
1 CATATCTTATAAGATTG
14218128 CATATCATATATAAGATTG
1 CATATC-T-TATAAGATTG
14218147 CATATCTT
1 CATATCTT
14218155 TAAAGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 2 0.08
19 15 0.62
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (17 bp):
CATATCTTATAAGATTG
Found at i:14218162 original size:17 final size:17
Alignment explanation
Indices: 14218111--14218162 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
14218101 ATTACAAAAT
14218111 CATATCTTCT-AAGATTG
1 CATATCTT-TAAAGATTG
*
14218128 CATATCATATATAAGATTG
1 CATATC-TTTA-AAGATTG
14218147 CATATCTTTAAAGATT
1 CATATCTTTAAAGATT
14218163 ATGTTTTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 13 0.43
18 4 0.13
19 13 0.43
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (17 bp):
CATATCTTTAAAGATTG
Found at i:14218493 original size:2 final size:2
Alignment explanation
Indices: 14218486--14218515 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14218476 TTGGAAATTA
14218486 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
14218516 NNNNNNNNNN
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:14220820 original size:20 final size:22
Alignment explanation
Indices: 14220783--14220822 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
14220773 TTGTATTATT
*
14220783 TTATATTATGTTATTTTATATA
1 TTATATTATGTTAATTTATATA
14220805 TTAT-TTATG-TAATTTATA
1 TTATATTATGTTAATTTATA
14220823 ACATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TTATATTATGTTAATTTATATA
Found at i:14221262 original size:7 final size:7
Alignment explanation
Indices: 14221238--14221276 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
14221228 AAAATTTTAA
14221238 TAAATA-
1 TAAATAT
*
14221244 TAAATAA
1 TAAATAT
*
14221251 AAAATAT
1 TAAATAT
14221258 TAAATAT
1 TAAATAT
14221265 TAAATAT
1 TAAATAT
14221272 TAAAT
1 TAAAT
14221277 TAAAAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
TAAATAT
Found at i:14221263 original size:14 final size:14
Alignment explanation
Indices: 14221239--14221291 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
14221229 AAATTTTAAT
14221239 AAATA-TAAATAAA
1 AAATATTAAATAAA
**
14221252 AAATATTAAATATT
1 AAATATTAAATAAA
14221266 AAATATTAAATTAAA
1 AAATATTAAA-TAAA
14221281 AAATATATAAA
1 AAATAT-TAAA
14221292 AATATTCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 5 0.15
14 16 0.48
15 8 0.24
16 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATATTAAATAAA
Found at i:14223992 original size:40 final size:40
Alignment explanation
Indices: 14223880--14223992 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
14223870 AGCGGCACTT
* * *
14223880 TTAGCGGCGTTTGGAGCAAAAACGCTGCTAAAGAGTGAGCA
1 TTAGCGGCGTTT-AAGGAAAAGCGCTGCTAAAGAGTGAGCA
* ***
14223921 TTAGCGGCGTTTAAGTAAAAGCGCCATTAAAGAGTGAGCA
1 TTAGCGGCGTTTAAGGAAAAGCGCTGCTAAAGAGTGAGCA
* *
14223961 TTAGTGGCGTTTAAGGAGAAGCGCTGCTAAAG
1 TTAGCGGCGTTTAAGGAAAAGCGCTGCTAAAG
14223993 CGTCGCTAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 48 0.80
41 12 0.20
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGTTTAAGGAAAAGCGCTGCTAAAGAGTGAGCA
Found at i:14224259 original size:112 final size:112
Alignment explanation
Indices: 14223988--14224663 Score: 1082
Period size: 112 Copynumber: 6.0 Consensus size: 112
14223978 GAAGCGCTGC
* *
14223988 TAAAGCGTCGCTAAAGAGTGAGCATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
1 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
* *
14224053 ACGGTGCCGTTCTGTGGCCTTTATGGGGGGGAAATAGTGGCGTTTATTG
66 ACGGTGCCGTTTTGTGGCC-TT-TGGGGGGGAATTAGTGGCGTTTATTG
* *
14224102 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACACCCAA
1 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
*
14224167 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAGTTAGTGGCGTTTATTG
66 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAATTAGTGGCGTTTATTG
* * * *
14224214 TAAAGCACCGCTAAAGACTGAACATTAGCAACGTTTATAAAAAACGCCGCAAATAATACACCCAA
1 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
* * *
14224279 ACGGTGCCGTTTTGTGGCCTTCGAGGGGGACTTAGTGGCGTTTATTG
66 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAATTAGTGGCGTTTATTG
* * *
14224326 TGAATCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAATGCCGCAAATAATACACCCAG
1 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
* *
14224391 ACGGTGCCGTTTTTTGGCCTTTGGGGGGGAATTCGTGGCGTTTATTG
66 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAATTAGTGGCGTTTATTG
*
14224438 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATGAAAAACGCCGCAAATAATACACCCAG
1 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
* *
14224503 ACGGTGCCGTTTTTTGGCCTTTGGGGGGGAATTCGTGGCGTTTATTG
66 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAATTAGTGGCGTTTATTG
* *
14224550 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCATTTATAAAAAAACGCCGTAAATAATACACCCA
1 TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTAT-AAAAAACGCCGCAAATAATACACCCA
* * *
14224615 GACGGTGCCGTTTTGTGTCCTTTGGGGGGGCATTAGTGGCGTTTTTTG
65 GACGGTGCCGTTTTGTGGCCTTTGGGGGGGAATTAGTGGCGTTTATTG
14224663 T
1 T
14224664 TTATGCGCCG
Statistics
Matches: 523, Mismatches: 38, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
112 374 0.72
113 70 0.13
114 79 0.15
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (112 bp):
TAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAATTAGTGGCGTTTATTG
Found at i:14226165 original size:84 final size:84
Alignment explanation
Indices: 14226075--14226351 Score: 509
Period size: 84 Copynumber: 3.3 Consensus size: 84
14226065 TAAACTTTTG
*
14226075 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACAAAAACGGTGTCGTTTCTG
1 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
14226140 TTCACAGATGTAATATTTA
66 TTCACAGATGTAATATTTA
**
14226159 GTGGCGTTTTTAGGAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
1 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
*
14226224 TTCACAGATGTCATATTTA
66 TTCACAGATGTAATATTTA
14226243 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
1 GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
14226308 TTCACAGATGTAATATTTA
66 TTCACAGATGTAATATTTA
14226327 GTGGCGTTTTTACCAAAAACGCCAC
1 GTGGCGTTTTTACC-AAAACGCCAC
14226352 TAAACGGTGT
Statistics
Matches: 185, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
84 175 0.95
85 10 0.05
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (84 bp):
GTGGCGTTTTTACCAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
TTCACAGATGTAATATTTA
Found at i:14226498 original size:253 final size:254
Alignment explanation
Indices: 14226213--14226719 Score: 998
Period size: 253 Copynumber: 2.0 Consensus size: 254
14226203 ACGAAAACGG
14226213 TGTCGTTTCTGTTCACAGATGTCATATTTAGTGGCGTTTTTACCAAAACGCCACAAAAAATGCAA
1 TGTCGTTTCTGTTCACAGATGTCATATTTAGTGGCGTTTTTACCAAAACGCCACAAAAAATGCAA
14226278 TTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTTTTTACCAA
66 TTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTTTTTACCAA
14226343 AAACGCCACTAAACGGTGTTAATATAATCGCTAAACGACGCCGTTTCCAGAACAGATTTTTAACT
131 AAACGCCACTAAACGGTGTTAATATAATCGCTAAACGACGCCGTTTCCAGAACAGATTTTTAACT
14226408 TAGAATAATTTATTGAAAACGTCAACGTTTGGCTTAAAAACGGCGCCGTTTCTGTTAAA
196 TAGAATAATTTATTGAAAACGTCAACGTTTGGCTTAAAAACGGCGCCGTTTCTGTTAAA
*
14226467 TGTCGTTTCT-TTCACAGATGTCATGTTTAGTGGCGTTTTTACCAAAACGCCACAAAAAATGCAA
1 TGTCGTTTCTGTTCACAGATGTCATATTTAGTGGCGTTTTTACCAAAACGCCACAAAAAATGCAA
14226531 TTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTTTTTACCAA
66 TTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTTTTTACCAA
14226596 AAACGCCACTAAACGGTGTTAATATAATCGCTAAACGACGCCGTTTCCAGAACAGATTTTTAACT
131 AAACGCCACTAAACGGTGTTAATATAATCGCTAAACGACGCCGTTTCCAGAACAGATTTTTAACT
14226661 TAGAATAATTTATTGAAAACGTCAACGTTTGGCTTAAAAACGGCGCCGTTTCTGTTAAA
196 TAGAATAATTTATTGAAAACGTCAACGTTTGGCTTAAAAACGGCGCCGTTTCTGTTAAA
14226720 AGGTTTAATT
Statistics
Matches: 252, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
253 242 0.96
254 10 0.04
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (254 bp):
TGTCGTTTCTGTTCACAGATGTCATATTTAGTGGCGTTTTTACCAAAACGCCACAAAAAATGCAA
TTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTTTTTACCAA
AAACGCCACTAAACGGTGTTAATATAATCGCTAAACGACGCCGTTTCCAGAACAGATTTTTAACT
TAGAATAATTTATTGAAAACGTCAACGTTTGGCTTAAAAACGGCGCCGTTTCTGTTAAA
Found at i:14227948 original size:11 final size:11
Alignment explanation
Indices: 14227928--14227956 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14227918 GAATATCTCA
14227928 AACT-ATGGGT
1 AACTAATGGGT
14227938 AACTAATGGGT
1 AACTAATGGGT
14227949 AACTAATG
1 AACTAATG
14227957 TATTATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:14228736 original size:17 final size:17
Alignment explanation
Indices: 14228714--14228911 Score: 150
Period size: 17 Copynumber: 10.6 Consensus size: 17
14228704 GTTAAATTTA
*
14228714 TTACTAAAATACATTAC
1 TTACTAAAATAAATTAC
14228731 TTACTAAAATAAATTAC
1 TTACTAAAATAAATTAC
14228748 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TAAA-TTAC
*
14228771 TTACTAAAATACATTAC
1 TTACTAAAATAAATTAC
14228788 TTACTAAAATAAATTAC
1 TTACTAAAATAAATTAC
14228805 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TAAA-TTAC
*
14228828 TTACTAAAATACATTAC
1 TTACTAAAATAAATTAC
14228845 TTACTAAAATAAATTAC
1 TTACTAAAATAAATTAC
14228862 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TAAA-TTAC
*
14228885 TTACTAAAATACATTAC
1 TTACTAAAATAAATTAC
14228902 TTACTAAAAT
1 TTACTAAAAT
14228912 TTGTTTAAAT
Statistics
Matches: 151, Mismatches: 6, Indels: 48
0.74 0.03 0.23
Matches are distributed among these distances:
16 9 0.06
17 94 0.62
23 39 0.26
24 9 0.06
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (17 bp):
TTACTAAAATAAATTAC
Found at i:14228787 original size:40 final size:40
Alignment explanation
Indices: 14228731--14228940 Score: 196
Period size: 40 Copynumber: 5.4 Consensus size: 40
14228721 AATACATTAC
14228731 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
*
14228771 TTACTAAAATACATTACTTACTAAAA------TAAA-TTA
1 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
* *
14228804 CTTACTAAAAT---TT-GTT--T-AAATTTATTACTAAAATACATTA
1 -TTACTAAAATAAATTACTTACTAAAATTTGTT--T-AAAT---TTA
14228844 CTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 -TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
*
14228885 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
*
14228925 TTACTAATAATTAATT
1 TTACTAA-AATAAATT
14228941 TATTAAAGAG
Statistics
Matches: 141, Mismatches: 7, Indels: 43
0.74 0.04 0.23
Matches are distributed among these distances:
27 3 0.02
28 1 0.01
30 2 0.01
31 2 0.01
33 3 0.02
34 14 0.10
35 1 0.01
36 3 0.02
40 85 0.60
41 9 0.06
43 2 0.01
44 6 0.04
45 1 0.01
46 1 0.01
47 8 0.06
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.44
Consensus pattern (40 bp):
TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
Found at i:14228793 original size:57 final size:57
Alignment explanation
Indices: 14228705--14228911 Score: 414
Period size: 57 Copynumber: 3.6 Consensus size: 57
14228695 CGATTGAATG
14228705 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
14228762 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
14228819 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
14228876 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
14228912 TTGTTTAAAT
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 150 1.00
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.42
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
Found at i:14229089 original size:72 final size:72
Alignment explanation
Indices: 14229008--14229152 Score: 263
Period size: 72 Copynumber: 2.0 Consensus size: 72
14228998 ATAAAATATA
* **
14229008 AAAAAATATGTGGAATATTAATATTGACTATTAAAATAGCATGTTATTTTATTAAATATTATTAA
1 AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
14229073 TAATTAT
66 TAATTAT
14229080 AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
1 AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
14229145 TAATTAT
66 TAATTAT
14229152 A
1 A
14229153 TTAGTAATGT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (72 bp):
AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
TAATTAT
Found at i:14236373 original size:56 final size:56
Alignment explanation
Indices: 14236297--14236408 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
14236287 AAAGTATGCA
14236297 AGGTTATTTTTGGATTCTTTTGACTCTTCTTGCGCCCTTAAGCTTGTCCAAAATCT
1 AGGTTATTTTTGGATTCTTTTGACTCTTCTTGCGCCCTTAAGCTTGTCCAAAATCT
** *
14236353 AGGTTATTTTTTTATTCTTTTGACTCTTCTTGTGCCCTTAAGCTTGTCCAAAATCT
1 AGGTTATTTTTGGATTCTTTTGACTCTTCTTGCGCCCTTAAGCTTGTCCAAAATCT
14236409 CTTTGTCATT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (56 bp):
AGGTTATTTTTGGATTCTTTTGACTCTTCTTGCGCCCTTAAGCTTGTCCAAAATCT
Found at i:14236835 original size:23 final size:23
Alignment explanation
Indices: 14236808--14237149 Score: 165
Period size: 23 Copynumber: 14.7 Consensus size: 23
14236798 ACTACATATT
14236808 ACAAATTTGGACAGCACT-TATAC
1 ACAAATTTGGACAGCA-TGTATAC
* * *
14236831 ACAAAATAT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCATGTATAC
*
14236854 ACAAAATTT-GACAGCAT-TGATTC
1 AC-AAATTTGGACAGCATGT-ATAC
* * ** *
14236877 ACCAAAATTGGTCAGCATACATAT
1 A-CAAATTTGGACAGCATGTATAC
14236901 ACAAATTTGGACAGCACT-TATAC
1 ACAAATTTGGACAGCA-TGTATAC
* *
14236924 ACAAAATAT-AACAGCATGTATGTAC
1 AC-AAATTTGGACAGCATGTA--TAC
14236949 A-AAATTT-GACAGCATTGCT-T-C
1 ACAAATTTGGACAGCA-TG-TATAC
* * **
14236970 ACCAAAATTGGGCAGCATACATAC
1 A-CAAATTTGGACAGCATGTATAC
14236994 ACAAATTTGGACAGCACT-TATAC
1 ACAAATTTGGACAGCA-TGTATAC
* * *
14237017 ACAAAATTT-AACAGAATGTATAT
1 AC-AAATTTGGACAGCATGTATAC
* *
14237040 ACAAAATTGGACAGCAT-TGATTC
1 ACAAATTTGGACAGCATGT-ATAC
* * ** *
14237063 ACCAAAATTGGGCAGCATACATAT
1 A-CAAATTTGGACAGCATGTATAC
*
14237087 ACAAATTTGGACAGCATTTATAC
1 ACAAATTTGGACAGCATGTATAC
* *
14237110 ACAAAATTT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCATGTATAC
14237133 ACAAAATTT-GACAGCAT
1 AC-AAATTTGGACAGCAT
14237150 TGATTTATCA
Statistics
Matches: 245, Mismatches: 48, Indels: 52
0.71 0.14 0.15
Matches are distributed among these distances:
21 2 0.01
22 11 0.04
23 164 0.67
24 63 0.26
25 5 0.02
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (23 bp):
ACAAATTTGGACAGCATGTATAC
Found at i:14236911 original size:93 final size:93
Alignment explanation
Indices: 14236800--14237180 Score: 654
Period size: 93 Copynumber: 4.1 Consensus size: 93
14236790 CTAACTATAC
14236800 TACATATTACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGA
1 TACATA-TACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGA
*
14236865 CAGCATTGATTCACCAAAATTGGTCAGCA
65 CAGCATTGATTCACCAAAATTGGGCAGCA
*
14236894 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATGTACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
*
14236959 AGCATTGCTTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
* * * *
14236987 TACATACACAAATTTGGACAGCACTTATACACAAAATTTAACAGAATGTATATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
14237052 AGCATTGATTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
* *
14237080 TACATATACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTATATACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
* *
14237145 AGCATTGATTTATCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
14237173 TACATATA
1 TACATATA
14237181 ACAATTGGGC
Statistics
Matches: 272, Mismatches: 15, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
93 266 0.98
94 6 0.02
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (93 bp):
TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
AGCATTGATTCACCAAAATTGGGCAGCA
Found at i:14237194 original size:46 final size:45
Alignment explanation
Indices: 14236858--14237196 Score: 213
Period size: 46 Copynumber: 7.3 Consensus size: 45
14236848 GTATATACAA
* *
14236858 AATTTGACAGCATTGATTCACCAAAATTGGTCAGCATACATAT-AC
1 AATTGGACAGCATTGATTCA-CAAAATTGGGCAGCATACATATAAC
* ** ** * *
14236903 AAATTTGGACAGCACTT-ATACACAAAATAT-AACAGCATGTATGTACAA
1 -AA-TTGGACAGCA-TTGATTCACAAAAT-TGGGCAGCATACATATA-AC
* * *
14236951 AATTTGACAGCATTGCTTCACCAAAATTGGGCAGCATACATA-CAC
1 AATTGGACAGCATTGATTCA-CAAAATTGGGCAGCATACATATAAC
* *** * ** *
14236996 AAATTTGGACAGCACTT-ATACACAAAATTTAACAGAATGTATATACAA
1 -AA-TTGGACAGCA-TTGATTCACAAAATTGGGCAGCATACATATA-AC
14237044 AATTGGACAGCATTGATTCACCAAAATTGGGCAGCATACATAT-AC
1 AATTGGACAGCATTGATTCA-CAAAATTGGGCAGCATACATATAAC
* * *** ** *
14237089 AAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTATATACAA
1 -AA-TTGGACAGCATTGATTCACAAAATTGGGCAGCATACATATA-AC
* *
14237137 AATTTGACAGCATTGATTTATCAAAATTGGGCAGCATACATATAAC
1 AATTGGACAGCATTGATTCA-CAAAATTGGGCAGCATACATATAAC
*
14237183 AATTGGGCAGCATT
1 AATTGGACAGCATT
14237197 TAAGCATAAC
Statistics
Matches: 216, Mismatches: 57, Indels: 40
0.69 0.18 0.13
Matches are distributed among these distances:
45 6 0.03
46 107 0.50
47 96 0.44
48 7 0.03
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (45 bp):
AATTGGACAGCATTGATTCACAAAATTGGGCAGCATACATATAAC
Found at i:14237955 original size:28 final size:28
Alignment explanation
Indices: 14237919--14238045 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
14237909 ATTTAATAAG
* * *
14237919 CTCGCACACTTAGTGCTCAATAATCAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
* * *
14237947 CTCGTACACTTAGTGCTTTACCATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
14237975 CTCGCACACTTAGTGCTCTACAATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
*
14238003 CTCGCACACTTAGTGCTCTATAATTAAA
1 CTCGCACACTTAGTGCTCTACAATTAAA
*
14238031 TTCGCACACTTAGTG
1 CTCGCACACTTAGTG
14238046 TCGAAAATCA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 88 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
CTCGCACACTTAGTGCTCTACAATTAAA
Found at i:14240797 original size:17 final size:17
Alignment explanation
Indices: 14240775--14240818 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
14240765 ACAAAATCCA
14240775 AATTTATTTTCCAATTT
1 AATTTATTTTCCAATTT
*
14240792 AATTTAATTTCCAATTT
1 AATTTATTTTCCAATTT
14240809 -ATTTAATTTT
1 AATTT-ATTTT
14240819 TTATTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTATTTTCCAATTT
Found at i:14241748 original size:18 final size:20
Alignment explanation
Indices: 14241721--14241762 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
14241711 TGACTAATTA
14241721 CTTACAAATG-TAT-GATAC
1 CTTACAAATGATATCGATAC
* *
14241739 CTTACCAATGATATCGATAT
1 CTTACAAATGATATCGATAC
14241759 CTTA
1 CTTA
14241763 AGTCAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
CTTACAAATGATATCGATAC
Found at i:14246360 original size:20 final size:21
Alignment explanation
Indices: 14246325--14246370 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
14246315 GTCTTAAAAA
14246325 TTTTAAATAATTTAAT-TATT
1 TTTTAAATAATTTAATATATT
14246345 TTTTAAAT-ATTATAATATATT
1 TTTTAAATAATT-TAATATATT
*
14246366 ATTTA
1 TTTTA
14246371 TAACTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 12 0.52
21 8 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTAAATAATTTAATATATT
Found at i:14251179 original size:12 final size:13
Alignment explanation
Indices: 14251150--14251179 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
14251140 TAGAGTTTTT
14251150 TTTTTACTTTTAA
1 TTTTTACTTTTAA
14251163 TTTTT-CTTTTAA
1 TTTTTACTTTTAA
14251175 TTTTT
1 TTTTT
14251180 TTCACTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTACTTTTAA
Found at i:14251203 original size:27 final size:28
Alignment explanation
Indices: 14251147--14251204 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
14251137 TTTTAGAGTT
* *
14251147 TTTTTTTTACTTTTAATTTTTCTTTTAA
1 TTTTTTTCACTTTTAATTTTTCTTTGAA
*
14251175 TTTTTTTCACTTTT-CTTCTTTC-TTGAA
1 TTTTTTTCACTTTTAATT-TTTCTTTGAA
14251202 TTT
1 TTT
14251205 AGTATATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (28 bp):
TTTTTTTCACTTTTAATTTTTCTTTGAA
Found at i:14251314 original size:21 final size:20
Alignment explanation
Indices: 14251286--14251325 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14251276 TATTAAAAAT
* *
14251286 TAAATCAAACAAATTTTTAA
1 TAAATCAAAAAAATATTTAA
14251306 TAAACTCAAAAAAATATTTA
1 TAAA-TCAAAAAAATATTTA
14251326 TTTTCAGGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATCAAAAAAATATTTAA
Found at i:14253151 original size:20 final size:20
Alignment explanation
Indices: 14253115--14253152 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14253105 TAACGAGGCA
14253115 AATTTTATATTACATTTTGG
1 AATTTTATATTACATTTTGG
*
14253135 AATTATTAT-TTAGATTTT
1 AATT-TTATATTACATTTT
14253153 TTTAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (20 bp):
AATTTTATATTACATTTTGG
Found at i:14253804 original size:18 final size:18
Alignment explanation
Indices: 14253778--14253812 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14253768 AGGTGTGTTT
* *
14253778 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
14253796 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
14253813 TCCTTTTCCA
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:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:14254374 original size:29 final size:29
Alignment explanation
Indices: 14254332--14254421 Score: 153
Period size: 29 Copynumber: 3.1 Consensus size: 29
14254322 TAATAAAAAC
14254332 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
14254361 CCTAATTTAATTAAAAATCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
14254390 CCTAATTTAATTAAAAACCCTAAACCTTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
14254420 CC
1 CC
14254422 CTAAACCCTA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 48 0.84
30 9 0.16
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:14254412 original size:47 final size:46
Alignment explanation
Indices: 14254361--14254502 Score: 186
Period size: 47 Copynumber: 3.1 Consensus size: 46
14254351 CTAACCCTAA
*
14254361 CCTAATTTAATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAA-TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
14254408 CCTAA--ACCTT---AACCCTAAACCCTAACCTAATTTAATTAAAAAC
1 CCTAATTA-ATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAAC
*
14254451 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAA-TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
14254498 CCTAA
1 CCTAA
14254503 CNNNNNNNNN
Statistics
Matches: 83, Mismatches: 4, Indels: 16
0.81 0.04 0.16
Matches are distributed among these distances:
42 5 0.06
43 31 0.37
44 1 0.01
45 4 0.05
46 1 0.01
47 35 0.42
48 6 0.07
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (46 bp):
CCTAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
Found at i:14254423 original size:13 final size:13
Alignment explanation
Indices: 14254405--14254434 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14254395 TTTAATTAAA
*
14254405 AACCCTAAACCTT
1 AACCCTAAACCCT
14254418 AACCCTAAACCCT
1 AACCCTAAACCCT
14254431 AACC
1 AACC
14254435 TAATTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:14254430 original size:43 final size:44
Alignment explanation
Indices: 14254379--14254502 Score: 164
Period size: 43 Copynumber: 2.8 Consensus size: 44
14254369 AATTAAAAAT
*
14254379 CCTAACCCTAACCTAATTTAATTAAAAACCCTAAAC-CTT-AAC
1 CCTAACCCTAACCTAATTTAATTAAAAACCCTAAACTATTAAAC
14254421 CCTAAACCCTAACCTAATTTAATTAAAAACCCT-AACTTAATTAAAAAC
1 CCT-AACCCTAACCTAATTTAATTAAAAACCCTAAAC-T-ATT--AAAC
*
14254469 CCTAACCCTAACCTAACTTAATTAAAAACCCTAA
1 CCTAACCCTAACCTAATTTAATTAAAAACCCTAA
14254503 CNNNNNNNNN
Statistics
Matches: 72, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
42 6 0.08
43 29 0.40
45 2 0.03
47 28 0.39
48 7 0.10
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (44 bp):
CCTAACCCTAACCTAATTTAATTAAAAACCCTAAACTATTAAAC
Found at i:14254460 original size:18 final size:18
Alignment explanation
Indices: 14254433--14254474 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
14254423 TAAACCCTAA
*
14254433 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
14254451 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
14254469 CCTAAC
1 CCTAAC
14254475 CCTAACCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:14254705 original size:10 final size:10
Alignment explanation
Indices: 14254690--14254714 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14254680 TTTGGACTTA
14254690 ATAATTTTAC
1 ATAATTTTAC
14254700 ATAATTTTAC
1 ATAATTTTAC
14254710 ATAAT
1 ATAAT
14254715 GTTAGATTTG
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:14270207 original size:49 final size:47
Alignment explanation
Indices: 14270152--14270278 Score: 139
Period size: 49 Copynumber: 2.7 Consensus size: 47
14270142 GTTTTCACAT
* * *
14270152 TGCCATAGTCCAACTATGGTCTTACATGTAATCACATATCACATACCGA
1 TGCCATAGTCCAACTATGGTCTTACATGGAATCACAAAT--CATAACGA
* * * * *
14270201 TGCCATAGCCCAGCTATAGTCTTACACGGAATCACAAATCATAATGA
1 TGCCATAGTCCAACTATGGTCTTACATGGAATCACAAATCATAACGA
*
14270248 TGCCATATTCCAGA-TATGGTCTTACATGGAA
1 TGCCATAGTCCA-ACTATGGTCTTACATGGAA
14270279 ATTTCCTAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
47 31 0.48
49 33 0.52
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (47 bp):
TGCCATAGTCCAACTATGGTCTTACATGGAATCACAAATCATAACGA
Found at i:14270270 original size:47 final size:48
Alignment explanation
Indices: 14270152--14270278 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 48
14270142 GTTTTCACAT
* * *
14270152 TGCCATAGTCCA-ACTATGGTCTTACATGTAATCACATATCACATACCGA
1 TGCCATAGTCCAGA-TATGGTCTTACATGGAATCACAAAT-ACATAACGA
* * * * *
14270201 TGCCATAGCCCAGCTATAGTCTTACACGGAATCACAAAT-CATAATGA
1 TGCCATAGTCCAGATATGGTCTTACATGGAATCACAAATACATAACGA
*
14270248 TGCCATATTCCAGATATGGTCTTACATGGAA
1 TGCCATAGTCCAGATATGGTCTTACATGGAA
14270279 ATTTCCTAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
47 32 0.50
49 32 0.50
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (48 bp):
TGCCATAGTCCAGATATGGTCTTACATGGAATCACAAATACATAACGA
Found at i:14272478 original size:51 final size:51
Alignment explanation
Indices: 14272402--14272584 Score: 212
Period size: 51 Copynumber: 3.6 Consensus size: 51
14272392 CGGACTCACA
* * * *
14272402 TAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * *
14272453 TAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* ** *
14272504 TAGTAGCCTGCACATAGTACTACACATATGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
14272554 TAGTAGCCTACACATAGTACTACACACGTGA
1 TAGTAGCCTACACATAGTACTACACACGTGA
14272585 TCGAAGCTAT
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
50 38 0.35
51 69 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:14272580 original size:101 final size:102
Alignment explanation
Indices: 14272400--14272595 Score: 333
Period size: 101 Copynumber: 1.9 Consensus size: 102
14272390 TGCGGACTCA
*
14272400 CATAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTACA
1 CATAGTAGCATGCACATAGTACTACACATATGACCATCACTATCCGATACACGTAGTAGCCTACA
14272465 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * *
14272502 CATAGTAGCCTGCACATAGTACTACACATATGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCATGCACATAGTACTACACATATGACC-ATCACTATCCGATACACGTAGTAGCCTAC
14272565 ACATAGTACTACACACGTGATCGAAGCTATC
65 ACATAGTACTACACACGTGATCGAAGCTATC
14272596 ACTTTNNNNN
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
101 51 0.57
102 34 0.38
103 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCATGCACATAGTACTACACATATGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:14275429 original size:13 final size:13
Alignment explanation
Indices: 14275411--14275436 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14275401 GTTTAAGAAA
14275411 AAAACCATTTGTT
1 AAAACCATTTGTT
14275424 AAAACCATTTGTT
1 AAAACCATTTGTT
14275437 TACGTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:14276605 original size:19 final size:19
Alignment explanation
Indices: 14276583--14276623 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
14276573 AAACTAAAAC
14276583 AAAAAAAACAAATA-AATA
1 AAAAAAAACAAATATAATA
*
14276601 AAAAACAACAAATATAATA
1 AAAAAAAACAAATATAATA
14276620 AAAA
1 AAAA
14276624 GTTCAGTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (19 bp):
AAAAAAAACAAATATAATA
Found at i:14277199 original size:11 final size:11
Alignment explanation
Indices: 14277183--14277216 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
14277173 GTCCGTAAGA
14277183 AAAATTATTTT
1 AAAATTATTTT
14277194 AAAATTATTTT
1 AAAATTATTTT
14277205 AAAATTATTTT
1 AAAATTATTTT
14277216 A
1 A
14277217 TGGTCTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:14277481 original size:21 final size:22
Alignment explanation
Indices: 14277456--14277496 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
14277446 CGCACAAACT
14277456 AAAACAAAAAAT-AAATAAATA
1 AAAACAAAAAATAAAATAAATA
14277477 AAAACAAAAAATAAAATAAA
1 AAAACAAAAAATAAAATAAA
14277497 AAGTTCAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (22 bp):
AAAACAAAAAATAAAATAAATA
Found at i:14277593 original size:15 final size:15
Alignment explanation
Indices: 14277573--14277601 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14277563 AATACCCACT
14277573 AAACCCAATTAACCC
1 AAACCCAATTAACCC
14277588 AAACCCAATTAACC
1 AAACCCAATTAACC
14277602 TAGCCCAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACCCAATTAACCC
Found at i:14277625 original size:878 final size:863
Alignment explanation
Indices: 14275852--14277580 Score: 2996
Period size: 878 Copynumber: 2.0 Consensus size: 863
14275842 TATCTCTGAC
* * *
14275852 CATCCCATTACACCATATAGGGTTAAAAACACCCACCCATCCCAACACACCATATAGTGTCGATA
1 CATCCCATTACACCAGATAAGGTCAAAAACACCCACCCATCCCAACACACCATATAGTGTCGATA
14275917 CAACACATGACAGAATAACATGTAATCAAGCTGCCAAAATATAAGCGAAAGGTCGCCGTACTGAT
66 CAACACATGACAGAATAACATGTAATCAAGCTGCCAAAATATAAGCGAAAGGTCGCCGTACTGAT
14275982 CACTTCCTCCACATATGCAAATCTCACCCGAAACACAGATATAGAATACAGAATTAACATGCTGA
131 CACTTCCTCCACATATGCAAATCTCACCCGAAACACAGATATAGAATACAGAATTAACATGCTGA
*
14276047 ACATACCCGTATACAGATAACATATATATATACTTAAACAGAACAGTTAGACATACACATCAATG
196 ACATACCCGTATACAGATAACATATATACATACTTAAACAGAACAGTTAGACATACACATCAATG
*
14276112 TCCTACTCAAATTAGACTATTAGAATATCATATCCTAAAAATTAGGGTTTGGTTAGCCCTTATCA
261 TCCTACTCAAATTAGACTATTAGAATATCATATCCCAAAAATTAGGGTTTGGTTAGCCCTTATCA
* *
14276177 ACTCTACGGCAGGCCTACAGTCGATCTGAACGACCTGTGTGACCCTAGAGAAAATTTTAGAATTT
326 ACTCTACGGCAGGCCCACAGTCGATCTGAACGACCTGTGCGACCCTAGAGAAAATTTTAGAATTT
*
14276242 TAAGCCCATGTAACAGCCCGTTTTTAGTGAAATCAGAATAGTGGTTTCGAGACCACAAATTCGAG
391 TAAGCCCATGTAACAGCCCGTTTTTAGTGAAATCAGAATAGTGGTTTCAAGACCACAAATTCGAG
14276307 TCCGTAAGAAAAATTATTTTAAAATTATTTTATGGTCTACCATATGATAGGAATATCATATAAAA
456 TCCGTAAGAAAAATTATTTTAAAATTATTTTATGGTCTACCATATGATAGGAATATCATATAAAA
14276372 ATTTTGTTAAGAAAATTTTACCGATTACATGTTTAATTGATAAAAGAATCAAATTGCATGAAATG
521 ATTTTGTTAAGAAAATTTTACCGATTACATGTTTAATTGATAAAAGAATCAAATTGCATGAAATG
14276437 CAAAAGTTAAGTTCTAGTAGCTATAAGTATCAAATAGCTATGAAATTCAAAATTTGAGATCCTTA
586 CAAAAGTTAAGTTCTAGTAGCTATAAGTATCAAATAGCTATGAAATTCAAAATTTGAGATCCTTA
* * * *
14276502 TATGGCAAATAAACCATTAAGAATAATTTGTAGATAATTATTGTAATAGCCCATTTTGCCTGGGC
651 TATGGAAAATAAACCATTAAGAAGAATTTGTAGATAAGTATTGTAATAGCCCATTTTGCCCGGGC
* * *
14276567 CCGTACAAACTAAAACAAAAAAAACAAATAAATAAAAAACAACAAATATAATAAAAAGTTCAGTC
716 CCGCACAAACTAAAAC-AAAAAAACAAATAAATAAAAAACAAAAAATAAAATAAAAAGTTCAGTC
*
14276632 CAAACATCCAATTACATTACTCAGCCCAAAACAAATAAATCCATTACATTAGCCCAAATACCTAC
780 CAAACATCCAATTACATTACTCAGCCCAAAACAAATAAATCCATTACATTAGCCCAAATACCCAC
*
14276697 TAAATCCAACTACCTCTAA
845 TAAACCCAACTACCTCTAA
* * *
14276716 CCATCCCATTACACCATATAGGGTTAAAAACACCCACCCATCCCAACACACCATATAGTGTCGAT
1 -CATCCCATTACACCAGATAAGGTCAAAAACACCCACCCATCCCAACACACCATATAGTGTCGAT
* *
14276781 ACAACACATGATAGAATCACATGTAATCAAGCTGCCAAAATATAAGCGAAAGGTCGCCGTACTGA
65 ACAACACATGACAGAATAACATGTAATCAAGCTGCCAAAATATAAGCGAAAGGTCGCCGTACTGA
*
14276846 TCACTTCCTCCACATATGCAAATCTCACTCGAAACACAGATATAGAATACAGAATTAACATGCTG
130 TCACTTCCTCCACATATGCAAATCTCACCCGAAACACAGATATAGAATACAGAATTAACATGCTG
14276911 AACATACCCGTATACAGATAACACATATATACATACTTAAACAGAACAGTTAGACATACACATCA
195 AACATACCCGTATACAGAT-A-ACATATATACATACTTAAACAGAACAGTTAGACATACACATCA
*
14276976 ATGTCCTACTCAGATTAGACTATTAGAATATCATATCCCAAAAATTAGGGTTTGGTTAGCCCTTA
258 ATGTCCTACTCAAATTAGACTATTAGAATATCATATCCCAAAAATTAGGGTTTGGTTAGCCCTTA
14277041 TCAACTCTACGGCAGGCCCACAGTCGATC-GAAACGACCTGTGCGACCCTAGAGAAAATTTTAGA
323 TCAACTCTACGGCAGGCCCACAGTCGATCTG-AACGACCTGTGCGACCCTAGAGAAAATTTTAGA
* * *
14277105 ATTTTAGGCCCATGTAACAGCTCGTTTTTAGTGAAATCAGAATAGTGGTTTTAAGACCACAAATT
387 ATTTTAAGCCCATGTAACAGCCCGTTTTTAGTGAAATCAGAATAGTGGTTTCAAGACCACAAATT
*
14277170 CGAGTCCGTAAGAAAAATTATTTTAAAATTATTTTAAAATTATTTTATGGTCTACCGTATGATAG
452 CGAGTCCGTAAG-------A----AAAATTATTTTAAAATTATTTTATGGTCTACCATATGATAG
* *
14277235 GTATATCATATAAAAATTTTGTTAAGAAAATTTTATCGATTACATGTTTAATTGATAAAAGAATC
506 GAATATCATATAAAAATTTTGTTAAGAAAATTTTACCGATTACATGTTTAATTGATAAAAGAATC
*
14277300 AAATTGCATGAAATGCAAAAGTTGAGTTCTAGTAGCTATAAGTATCAAATAGCTATGAAATTCAA
571 AAATTGCATGAAATGCAAAAGTTAAGTTCTAGTAGCTATAAGTATCAAATAGCTATGAAATTCAA
14277365 AATTTGAGATCCTTATATGGAAAATAAACCATTAAGAAGAATTTGTAGATAAGTATTGTAATAGC
636 AATTTGAGATCCTTATATGGAAAATAAACCATTAAGAAGAATTTGTAGATAAGTATTGTAATAGC
*
14277430 CCATTTTGCCCGGGCCCGCACAAACTAAAAC-AAAAAATAAATAAAT-AAAAACAAAAAATAAAA
701 CCATTTTGCCCGGGCCCGCACAAACTAAAACAAAAAAACAAATAAATAAAAAACAAAAAATAAAA
*
14277493 TAAAAAGTTCAGTCCAAACGTCCAATTACATTACTCAGCCCAAAACAAATAAATCCATTACATTA
766 TAAAAAGTTCAGTCCAAACATCCAATTACATTACTCAGCCCAAAACAAATAAATCCATTACATTA
14277558 GCCCAAATACCCACTAAACCCAA
831 GCCCAAATACCCACTAAACCCAA
14277581 TTAACCCAAA
Statistics
Matches: 823, Mismatches: 27, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
865 210 0.26
866 2 0.00
867 238 0.29
874 1 0.00
875 100 0.12
876 14 0.02
878 258 0.31
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (863 bp):
CATCCCATTACACCAGATAAGGTCAAAAACACCCACCCATCCCAACACACCATATAGTGTCGATA
CAACACATGACAGAATAACATGTAATCAAGCTGCCAAAATATAAGCGAAAGGTCGCCGTACTGAT
CACTTCCTCCACATATGCAAATCTCACCCGAAACACAGATATAGAATACAGAATTAACATGCTGA
ACATACCCGTATACAGATAACATATATACATACTTAAACAGAACAGTTAGACATACACATCAATG
TCCTACTCAAATTAGACTATTAGAATATCATATCCCAAAAATTAGGGTTTGGTTAGCCCTTATCA
ACTCTACGGCAGGCCCACAGTCGATCTGAACGACCTGTGCGACCCTAGAGAAAATTTTAGAATTT
TAAGCCCATGTAACAGCCCGTTTTTAGTGAAATCAGAATAGTGGTTTCAAGACCACAAATTCGAG
TCCGTAAGAAAAATTATTTTAAAATTATTTTATGGTCTACCATATGATAGGAATATCATATAAAA
ATTTTGTTAAGAAAATTTTACCGATTACATGTTTAATTGATAAAAGAATCAAATTGCATGAAATG
CAAAAGTTAAGTTCTAGTAGCTATAAGTATCAAATAGCTATGAAATTCAAAATTTGAGATCCTTA
TATGGAAAATAAACCATTAAGAAGAATTTGTAGATAAGTATTGTAATAGCCCATTTTGCCCGGGC
CCGCACAAACTAAAACAAAAAAACAAATAAATAAAAAACAAAAAATAAAATAAAAAGTTCAGTCC
AAACATCCAATTACATTACTCAGCCCAAAACAAATAAATCCATTACATTAGCCCAAATACCCACT
AAACCCAACTACCTCTAA
Found at i:14279471 original size:18 final size:18
Alignment explanation
Indices: 14279448--14279483 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
14279438 TTATTTAAGC
14279448 TTTATTA-AAAATTATAAA
1 TTTATTATAAAA-TATAAA
14279466 TTTATTATAAAATATAAA
1 TTTATTATAAAATATAAA
14279484 AGCTCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTATTATAAAATATAAA
Found at i:14280297 original size:19 final size:19
Alignment explanation
Indices: 14280264--14280313 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
14280254 AGAGCGTTTG
*
14280264 TTTTATTATTTTTTTATAAA
1 TTTTATTATTTTTTAAT-AA
14280284 TTTTATTATTTTTTAATAA
1 TTTTATTATTTTTTAATAA
*
14280303 TTTTATAATTT
1 TTTTATTATTT
14280314 ATATACCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTATTTTTTAATAA
Found at i:14280375 original size:10 final size:10
Alignment explanation
Indices: 14280350--14280428 Score: 67
Period size: 10 Copynumber: 7.9 Consensus size: 10
14280340 TAAGAGCGTN
*
14280350 TATATTTTAA
1 TATATTTTTA
14280360 TA-ATTTTTA
1 TATATTTTTA
14280369 TATATTTTTA
1 TATATTTTTA
*
14280379 -ATAATATTCTA
1 TAT-AT-TTTTA
14280390 TACT-TTTTTA
1 TA-TATTTTTA
14280400 TATATTTTTA
1 TATATTTTTA
*
14280410 T-TATTTTTT
1 TATATTTTTA
14280419 TATCATTTTT
1 TAT-ATTTTT
14280429 CTCCACATGT
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
9 19 0.33
10 25 0.44
11 11 0.19
12 1 0.02
13 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (10 bp):
TATATTTTTA
Found at i:14286777 original size:38 final size:39
Alignment explanation
Indices: 14286721--14286801 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
14286711 CATCGTCAAT
* * *
14286721 AGAAGCTCATAGAGCTGGTCTACACGAA-CACAC-CAAC
1 AGAAGCTCAAAGAGCTGGTCCACACGAATCACACGAAAC
*
14286758 AGAAGCTCAAAAGAGCTGGTCCACCCGAATCACACGAAAC
1 AGAAGCTC-AAAGAGCTGGTCCACACGAATCACACGAAAC
14286798 AGAA
1 AGAA
14286802 AGTATAACGC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 8 0.22
38 17 0.46
39 5 0.14
40 7 0.19
ACGTcount: A:0.41, C:0.28, G:0.20, T:0.11
Consensus pattern (39 bp):
AGAAGCTCAAAGAGCTGGTCCACACGAATCACACGAAAC
Found at i:14288228 original size:31 final size:31
Alignment explanation
Indices: 14288188--14288261 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
14288178 ACGGCCTGTT
14288188 ACAGAACTCGTAAAAGAAGATTCATAGATATG
1 ACAG-ACTCGTAAAAGAAGATTCATAGATATG
* * * **
14288220 ACAGACTCGCACATGTGGATTCATAGATATG
1 ACAGACTCGTAAAAGAAGATTCATAGATATG
* *
14288251 GCAAACTCGTA
1 ACAGACTCGTA
14288262 CATGGGAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (31 bp):
ACAGACTCGTAAAAGAAGATTCATAGATATG
Found at i:14288265 original size:31 final size:30
Alignment explanation
Indices: 14288206--14288277 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 30
14288196 CGTAAAAGAA
*
14288206 GATTCATAGATATGACAGACTCGCACATGTG
1 GATTCATAGATATGACAAACTCGCACATG-G
* *
14288237 GATTCATAGATATGGCAAACTCGTACATGG
1 GATTCATAGATATGACAAACTCGCACATGG
14288267 GAATTCATAGA
1 G-ATTCATAGA
14288278 AGAAGATTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 2 0.05
31 35 0.95
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (30 bp):
GATTCATAGATATGACAAACTCGCACATGG
Found at i:14288302 original size:45 final size:45
Alignment explanation
Indices: 14288237--14288337 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
14288227 CGCACATGTG
* * *
14288237 GATTCATAGATATGGCAAACTCGTACATGGGAATTCATAGAAGAA
1 GATTCATAGATATAGAAAACTCATACATGGGAATTCATAGAAGAA
* * * **
14288282 GATTCTTAGATATAGAAAACTTATACATGTGAATTTGTAGAAGAA
1 GATTCATAGATATAGAAAACTCATACATGGGAATTCATAGAAGAA
*
14288327 GATTTATAGAT
1 GATTCATAGAT
14288338 TTGACGGACT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (45 bp):
GATTCATAGATATAGAAAACTCATACATGGGAATTCATAGAAGAA
Found at i:14294193 original size:9 final size:10
Alignment explanation
Indices: 14294179--14294221 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
14294169 ATTAATATCC
14294179 AAAT-AAGTA
1 AAATAAAGTA
*
14294188 AAATAAAATA
1 AAATAAAGTA
14294198 AAATAAAGTAA
1 AAATAAAGT-A
14294209 TAAATAAAGTA
1 -AAATAAAGTA
14294220 AA
1 AA
14294222 GAAAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 14 0.48
11 2 0.07
12 9 0.31
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (10 bp):
AAATAAAGTA
Found at i:14294213 original size:22 final size:21
Alignment explanation
Indices: 14294179--14294258 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 21
14294169 ATTAATATCC
14294179 AAATAAGTAAAATAAAATAAAAT
1 AAATAA-T-AAATAAAATAAAAT
*
14294202 AAAGTAATAAATAAAGTAAAGA-
1 AAA-TAATAAATAAAATAAA-AT
*
14294224 AAA-AATATAA-ATAATAAAAGT
1 AAATAATA-AATAAAATAAAA-T
14294245 AAATAA-AAATAAAA
1 AAATAATAAATAAAA
14294259 ATTAGGTTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
19 1 0.02
20 12 0.26
21 9 0.20
22 16 0.35
23 5 0.11
24 3 0.07
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (21 bp):
AAATAATAAATAAAATAAAAT
Found at i:14294215 original size:17 final size:16
Alignment explanation
Indices: 14294192--14294237 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
14294182 TAAGTAAAAT
14294192 AAAATAAAATAAAGTAA
1 AAAATAAAATAAAG-AA
* *
14294209 TAAATAAAGTAAAGAA
1 AAAATAAAATAAAGAA
14294225 AAAATATAAATAA
1 AAAATA-AAATAA
14294238 TAAAAGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
AAAATAAAATAAAGAA
Found at i:14294247 original size:13 final size:12
Alignment explanation
Indices: 14294202--14294253 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
14294192 AAAATAAAAT
14294202 AAAGT-AATAAA
1 AAAGTAAATAAA
*
14294213 TAAAGTAAAGAAA
1 -AAAGTAAATAAA
*
14294226 AAATATAAATAATA
1 AAA-GTAAATAA-A
14294240 AAAGTAAATAAA
1 AAAGTAAATAAA
14294252 AA
1 AA
14294254 TAAAAATTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 11 0.33
13 18 0.55
14 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (12 bp):
AAAGTAAATAAA
Found at i:14294777 original size:16 final size:16
Alignment explanation
Indices: 14294720--14294780 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 16
14294710 AATAAATAAT
14294720 AAAATAAAA-TAAAGTA
1 AAAATAAAAGTAAA-TA
14294736 ATAAAT-AAAGTAAATAATA
1 A-AAATAAAAGT--A-AATA
14294755 AATAATAAAAGTAAATA
1 AA-AATAAAAGTAAATA
14294772 AAAATAAAA
1 AAAATAAAA
14294781 ATTAGGTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
16 11 0.29
17 11 0.29
18 2 0.05
19 7 0.18
20 7 0.18
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAATAAAAGTAAATA
Found at i:14299262 original size:67 final size:65
Alignment explanation
Indices: 14299190--14299539 Score: 191
Period size: 67 Copynumber: 5.3 Consensus size: 65
14299180 ATTTTATTTG
* * * *
14299190 AGTTAGCTGATTTAATATTGTAACTCTGAACAGCTCACTGATTTAATATCGTAGTTAATATCATT
1 AGTTAGCTGATTTAATATCGTAACTCTGAA-AGCTCATTGATTTAATATCGCAGCTAATATCATT
14299255 A
65 A
* * * * *
14299256 AGGTTAGCTAATTTAATATCCTAAC-CT--AAGTTCATTTGATTTAAGATTACGAACAAG-T-TT
1 A-GTTAGCTGATTTAATATCGTAACTCTGAAAGCTCA-TTGATTTAATA-T-CG--C-AGCTAAT
* *
14299316 AT-GTTG
59 ATCATTA
* * ** * * *
14299322 AGTTAGCTAATTTAAGATCACAACTCTGAACAGCTCACTAATTTAATATCGCAGCTGATATCATT
1 AGTTAGCTGATTTAATATCGTAACTCTGAA-AGCTCATTGATTTAATATCGCAGCTAATATCATT
14299387 AA
65 -A
* * * ** * *
14299389 AGTTAGTTTATTTAATATCGTAAC-CT--AAGTTCATTTGATTTAATAT--CATGAAACATTTTA
1 AGTTAGCTGATTTAATATCGTAACTCTGAAAGCTCA-TTGATTTAATATCGCA-GCTA-ATATCA
*
14299449 TTTT
63 -TTA
* * * * *
14299453 AGTTAGCTGATTTAATATTGCAGCTCTGAAAAGCTCATTGATTTAATATCACAGCTGATATCATT
1 AGTTAGCTGATTTAATATCGTAACTCTG-AAAGCTCATTGATTTAATATCGCAGCTAATATCATT
14299518 A
65 A
*
14299519 AGGTTAGCTGATTTAAGATCG
1 A-GTTAGCTGATTTAATATCG
14299540 CAACCTAAGT
Statistics
Matches: 210, Mismatches: 48, Indels: 51
0.68 0.16 0.17
Matches are distributed among these distances:
62 2 0.01
63 13 0.06
64 46 0.22
65 28 0.13
66 19 0.09
67 76 0.36
68 17 0.08
69 9 0.04
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (65 bp):
AGTTAGCTGATTTAATATCGTAACTCTGAAAGCTCATTGATTTAATATCGCAGCTAATATCATTA
Found at i:14299519 original size:131 final size:131
Alignment explanation
Indices: 14299097--14299596 Score: 619
Period size: 131 Copynumber: 3.8 Consensus size: 131
14299087 TTGATTTAGA
* * * *
14299097 TGATTTAAGATCGCACCTGATATCATTAAGGTT-GACTGATTTAATATCACAACTTAAGTTCATT
1 TGATTTAATATCGCAGCTGATATCATTAAGGTTAG-CTGATTTAATATCGCAACCTAAGTTCATT
* * *
14299161 TGATTTAAGATAATGAACAATTTTATTTGAGTTAGCTGATTTAATATTGTAACTCTGAACAGCTC
65 TGATTTAAGATCACGAACAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAACAGCTC
14299226 AC
130 AC
* * * *
14299228 TGATTTAATATCGTAGTTAATATCATTAAGGTTAGCTAATTTAATATC-CTAACCTAAGTTCATT
1 TGATTTAATATCGCAGCTGATATCATTAAGGTTAGCTGATTTAATATCGC-AACCTAAGTTCATT
* * * * **
14299292 TGATTTAAGATTACGAACAAGTTTATGTTGAGTTAGCTAATTTAAGATCACAACTCTGAACAGCT
65 TGATTTAAGATCACGAACAATTTTAT-TTGAGTTAGCTGATTTAATATTGCAACTCTGAACAGCT
14299357 CAC
129 CAC
* * * * *
14299360 TAATTTAATATCGCAGCTGATATCATTAAAGTTAGTTTATTTAATATCGTAACCTAAGTTCATTT
1 TGATTTAATATCGCAGCTGATATCATTAAGGTTAGCTGATTTAATATCGCAACCTAAGTTCATTT
* * * * *
14299425 GATTTAATATCATGAA-ACATTTTATTTTAGTTAGCTGATTTAATATTGCAGCTCTGAAAAGCTC
66 GATTTAAGATCACGAACA-ATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAACAGCTC
*
14299489 AT
130 AC
* * *
14299491 TGATTTAATATCACAGCTGATATCATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTTATTT
1 TGATTTAATATCGCAGCTGATATCATTAAGGTTAGCTGATTTAATATCGCAACCTAAGTTCATTT
* * * * *
14299556 AATTTAACATCACGAACAATTTTATGTGAGCTAGTTGATTT
66 GATTTAAGATCACGAACAATTTTATTTGAGTTAGCTGATTT
14299597 TAGATCACAA
Statistics
Matches: 313, Mismatches: 50, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
130 1 0.00
131 199 0.64
132 113 0.36
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (131 bp):
TGATTTAATATCGCAGCTGATATCATTAAGGTTAGCTGATTTAATATCGCAACCTAAGTTCATTT
GATTTAAGATCACGAACAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAACAGCTCA
C
Found at i:14299582 original size:263 final size:262
Alignment explanation
Indices: 14299099--14299608 Score: 693
Period size: 263 Copynumber: 1.9 Consensus size: 262
14299089 GATTTAGATG
* *
14299099 ATTTAAGATCGCACCTGATATCATTAAGGTTGACTGATTTAATATCACAACTTAAGTTCATTTGA
1 ATTTAAGATCGCACCTGATATCATTAAAGTTGACTGATTTAATATCACAACCTAAGTTCATTTGA
* *
14299164 TTTAAGATAATGAACAATTTTATTTGAGTTAGCTGATTTAATATTGTAACTCTGAACAGCTCACT
66 TTTAAGATAATGAACAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAAAAGCTCACT
** * * *
14299229 GATTTAATATCGTAGTTAATATCATTAAGGTTAGCTAATTTAATATCCTAACCTAAGTTCATTTG
131 GATTTAATATCACAGCTAATATCATTAAGGTTAGCTAATTTAAGATCCTAACCTAAGTTCATTTA
* * *
14299294 ATTTAAGATTACGAACAAGTTTATGTTGAGTTAGCTAATTTAAGATCACAACTCTGAACAGCTCA
196 ATTTAACATCACGAACAAGTTTATG-TGAGCTAGCTAATTTAAGATCACAACTCTGAACAGCTCA
14299359 CTA
260 CTA
* * * * **
14299362 ATTTAATATCGCAGCTGATATCATTAAAGTT-AGTTTATTTAATATCGTAACCTAAGTTCATTTG
1 ATTTAAGATCGCACCTGATATCATTAAAGTTGA-CTGATTTAATATCACAACCTAAGTTCATTTG
* * * *
14299426 ATTTAATATCATGAA-ACATTTTATTTTAGTTAGCTGATTTAATATTGCAGCTCTGAAAAGCTCA
65 ATTTAAGATAATGAACA-ATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAAAAGCTCA
* * * *
14299490 TTGATTTAATATCACAGCTGATATCATTAAGGTTAGCTGATTTAAGATCGC-AACCTAAGTTTAT
129 CTGATTTAATATCACAGCTAATATCATTAAGGTTAGCTAATTTAAGATC-CTAACCTAAGTTCAT
* * * *
14299554 TTAATTTAACATCACGAACAATTTTATGTGAGCTAGTTGATTTTAGATCACAACT
193 TTAATTTAACATCACGAACAAGTTTATGTGAGCTAGCTAATTTAAGATCACAACT
14299609 GATATTATTA
Statistics
Matches: 214, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
262 25 0.12
263 188 0.88
264 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (262 bp):
ATTTAAGATCGCACCTGATATCATTAAAGTTGACTGATTTAATATCACAACCTAAGTTCATTTGA
TTTAAGATAATGAACAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCTGAAAAGCTCACT
GATTTAATATCACAGCTAATATCATTAAGGTTAGCTAATTTAAGATCCTAACCTAAGTTCATTTA
ATTTAACATCACGAACAAGTTTATGTGAGCTAGCTAATTTAAGATCACAACTCTGAACAGCTCAC
TA
Found at i:14299612 original size:100 final size:100
Alignment explanation
Indices: 14299490--14299675 Score: 237
Period size: 100 Copynumber: 1.9 Consensus size: 100
14299480 GAAAAGCTCA
* * * * *
14299490 TTGATTTAATATCACAGCTGATATCATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTTATT
1 TTGATTTAAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
*
14299555 TAATTTAACATCACGAACAATTTTATGTGAGCTAG
66 CAATTTAACATCACGAACAATTTTATGTGAGCTAG
* * * * * *
14299590 TTGATTTTAGATCACAACTGATATTATTAAGGTTTGTTGATTCAAGATTGAAACCTATGTTCATT
1 TTGATTTAAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
* * *
14299655 CGATTTAAGATCATGAACAAT
66 CAATTTAACATCACGAACAAT
14299676 CGCACTTGAG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 71 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (100 bp):
TTGATTTAAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
CAATTTAACATCACGAACAATTTTATGTGAGCTAG
Found at i:14299691 original size:100 final size:100
Alignment explanation
Indices: 14299490--14299698 Score: 231
Period size: 100 Copynumber: 2.1 Consensus size: 100
14299480 GAAAAGCTCA
* * * * * *
14299490 TTGATTTAATATCACAGCTGATATCATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTTATT
1 TTGATTTTAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
* ***
14299555 TAATTTAACATCACGAACAATTTTATGTGAGCTAG
66 CAATTTAACATCACGAACAATCGCATGTGAGCTAG
* * * * *
14299590 TTGATTTTAGATCACAACTGATATTATTAAGGTTTGTTGATTCAAGATTGAAACCTATGTTCATT
1 TTGATTTTAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
* * * *
14299655 CGATTTAAGATCATGAACAATCGCACT-TGAGTTAG
66 CAATTTAACATCACGAACAATCGCA-TGTGAGCTAG
14299690 TTGATTTTA
1 TTGATTTTA
14299699 CAATCTTTTT
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
100 88 0.99
101 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.39
Consensus pattern (100 bp):
TTGATTTTAGATCACAACTGATATCATTAAGGTTAGCTGATTCAAGATCGAAACCTAAGTTCATT
CAATTTAACATCACGAACAATCGCATGTGAGCTAG
Found at i:14303773 original size:23 final size:23
Alignment explanation
Indices: 14303745--14303828 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
14303735 AAATTTAGTA
14303745 TATTTTAAATTTATTAACAATAT
1 TATTTTAAATTTATTAACAATAT
14303768 TATTTT-AATATTA-TAACATAGTAT
1 TATTTTAAAT-TTATTAACA-A-TAT
* * **** *
14303792 TATTCTAAATGTATCGTTAACAT
1 TATTTTAAATTTATTAACAATAT
14303815 TATTTTAAATTTAT
1 TATTTTAAATTTAT
14303829 CATGTACAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
22 8 0.17
23 24 0.51
24 11 0.23
25 4 0.09
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTTTAAATTTATTAACAATAT
Found at i:14311938 original size:25 final size:25
Alignment explanation
Indices: 14311895--14311949 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
14311885 TCTCTCGAGT
* **
14311895 CATATAACAGAAAGTTCATGTGAGC
1 CATATAACAGAAAGCTCATAAGAGC
* *
14311920 CATATAACGGGAAGCTCATAAGAGC
1 CATATAACAGAAAGCTCATAAGAGC
14311945 CATAT
1 CATAT
14311950 TCAGGAAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (25 bp):
CATATAACAGAAAGCTCATAAGAGC
Found at i:14312032 original size:25 final size:25
Alignment explanation
Indices: 14312001--14312070 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 25
14311991 AGCCATATAG
* *
14312001 GGAAGCTCTGGAGAGCCATTAATCA
1 GGAAGCTCCGAAGAGCCATTAATCA
* * *
14312026 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTC-CGAAGAGCCATTAATCA
14312052 GGAAGCTCCGAAGAGCCAT
1 GGAAGCTCCGAAGAGCCAT
14312071 ATAACGGGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 17 0.46
26 20 0.54
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (25 bp):
GGAAGCTCCGAAGAGCCATTAATCA
Found at i:14312078 original size:25 final size:25
Alignment explanation
Indices: 14311916--14312084 Score: 100
Period size: 25 Copynumber: 6.8 Consensus size: 25
14311906 AAGTTCATGT
**
14311916 GAGCCATATAACGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCCGAA
* * *
14311941 GAGCCATAT-TCAGGAAGCTCCGGA
1 GAGCCATATAACGGGAAGCTCCGAA
* * * * *
14311965 TAGACATATATCGAGAAG-TTC-AA
1 GAGCCATATAACGGGAAGCTCCGAA
* *
14311988 GCGAGCCATAT-A-GGGAAGCTCTGGA
1 --GAGCCATATAACGGGAAGCTCCGAA
* *
14312013 GAGCCAT-TAATCAGGAAGCTCACAAA
1 GAGCCATATAA-CGGGAAGCTC-CGAA
*
14312039 GAGCC-TTTAATCGGGAAGCTCCGAA
1 GAGCCATATAA-CGGGAAGCTCCGAA
*
14312064 GAGCCATATAACGGGACGCTC
1 GAGCCATATAACGGGAAGCTC
14312085 ATAAGAGTTG
Statistics
Matches: 107, Mismatches: 26, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
22 1 0.01
23 14 0.13
24 20 0.19
25 49 0.46
26 23 0.21
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCCGAA
Found at i:14325239 original size:58 final size:58
Alignment explanation
Indices: 14325176--14325291 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
14325166 ACAATCCAAG
14325176 TATATCCTAGTTCTCATTCGGGTAGATACTACAATGTATTATCATAAATAAATTCTAA
1 TATATCCTAGTTCTCATTCGGGTAGATACTACAATGTATTATCATAAATAAATTCTAA
14325234 TATATCCTAGTTCTCATTCGGGTAGATACTACAATGTATTATCATAAATAAATTCTAA
1 TATATCCTAGTTCTCATTCGGGTAGATACTACAATGTATTATCATAAATAAATTCTAA
14325292 CAACATTAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (58 bp):
TATATCCTAGTTCTCATTCGGGTAGATACTACAATGTATTATCATAAATAAATTCTAA
Found at i:14331555 original size:68 final size:68
Alignment explanation
Indices: 14331443--14331570 Score: 213
Period size: 68 Copynumber: 1.9 Consensus size: 68
14331433 CCAGTTACTC
* *
14331443 CAACCATATGTTTTGAATAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAAATGG
1 CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAAAGAGAAAATGAGAGAAAAAAAATGG
14331508 CAG
66 CAG
*
14331511 CAACCATGTGTTTTGAAGAA-AAAAAGTGGTGTTTGGCAAAAGAGAAAATGAGAGAAAAAA
1 CAACCATATGTTTTGAAGAAGAAAAA-TGGTGTTTGGCAAAAGAGAAAATGAGAGAAAAAA
14331571 TTTTGTTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
67 5 0.09
68 51 0.91
ACGTcount: A:0.48, C:0.07, G:0.25, T:0.20
Consensus pattern (68 bp):
CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAAAGAGAAAATGAGAGAAAAAAAATGG
CAG
Found at i:14338352 original size:12 final size:10
Alignment explanation
Indices: 14338323--14338353 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
14338313 AATTTTGAAT
14338323 TATTTTATTA
1 TATTTTATTA
14338333 TATTTTATTA
1 TATTTTATTA
14338343 TATTTT-TTA
1 TATTTTATTA
14338352 TA
1 TA
14338354 ATTATTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATTTTATTA
Found at i:14338358 original size:18 final size:20
Alignment explanation
Indices: 14338323--14338360 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
14338313 AATTTTGAAT
*
14338323 TATTTTATTATATTTTATTA
1 TATTTTATTATATATTATTA
14338343 TATTTT-TTATA-ATTATTA
1 TATTTTATTATATATTATTA
14338361 AACAACTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTATTATATATTATTA
Found at i:14344095 original size:3 final size:3
Alignment explanation
Indices: 14344087--14344265 Score: 358
Period size: 3 Copynumber: 59.7 Consensus size: 3
14344077 GAAATAATTC
14344087 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14344135 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14344183 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14344231 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14344266 ATGGAGATAA
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 176 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.