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 62 of 75
Found at i:19818365 original size:16 final size:16
Alignment explanation
Indices: 19818344--19818379 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
19818334 TGGTTCGCTA
19818344 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
*
19818360 TAATGGATTAGAGGCG
1 TAATGGAATAGAGGCG
19818376 TAAT
1 TAAT
19818380 AGCAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (16 bp):
TAATGGAATAGAGGCG
Found at i:19818423 original size:45 final size:44
Alignment explanation
Indices: 19818359--19818455 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
19818349 GAATAGAGGC
*
19818359 GTAATGGATTAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
19818404 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
19818448 GGAATGGA
1 GTAATGGA
19818456 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:19818687 original size:26 final size:28
Alignment explanation
Indices: 19818657--19818720 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
19818647 TAATACTATA
*
19818657 AAATATAATTTAA-AATAAT-TATTATT
1 AAATATAATTTAATAATAATATATAATT
19818683 AAATATAATTTAATAATAATATATAATT
1 AAATATAATTTAATAATAATATATAATT
* *
19818711 TAATAAAATT
1 AAATATAATT
19818721 CTTAGTATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATATAATTTAATAATAATATATAATT
Found at i:19818777 original size:120 final size:120
Alignment explanation
Indices: 19818542--19818903 Score: 656
Period size: 120 Copynumber: 3.0 Consensus size: 120
19818532 NNNNNNNNNN
19818542 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT--AATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
19818605 ATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
66 ATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
*
19818660 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
* *
19818725 GTATGAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
66 ATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
*
19818780 TATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
* *
19818845 ATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAA
66 ATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
19818900 TATA
1 TATA
19818904 GATTAATAAT
Statistics
Matches: 233, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
118 54 0.23
120 179 0.77
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
ATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
Found at i:19822573 original size:98 final size:98
Alignment explanation
Indices: 19822349--19822543 Score: 320
Period size: 98 Copynumber: 2.0 Consensus size: 98
19822339 ATGCAATAAA
* * *
19822349 ACTTTAAAAGAACATCCA-TTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGAT
1 ACTTTAAAAGAACATCCACTT-ATCCAAGATTTAAGAAACCACAACCAATACGTTAGGGCACAAT
*
19822413 CCCTTTAGAATCCCAAACTCGGAATATTTCCTTT
65 CCCTTTAGAATCCCAAACTCGAAATATTTCCTTT
*
19822447 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACAACCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACAACCAATACGTTAGGGCACAATC
*
19822512 CCTTTAGAATCTCAAACTCGAAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGAAATATTTCCTT
19822544 CATGATTTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 88 0.98
99 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACAACCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGAAATATTTCCTTT
Found at i:19824578 original size:44 final size:44
Alignment explanation
Indices: 19824530--19824892 Score: 202
Period size: 44 Copynumber: 8.2 Consensus size: 44
19824520 CTGCAACTTC
*
19824530 AGGGAGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTTGCAATCTTCAATCTGCTCCACTACTGCTT
* * * * * * *
19824574 AGGGAGATAAGATCTT-CAATCTTAAATTTTCTCCGCTGCTACTC
1 AGGGAGATAAGAT-TTGCAATCTTCAATCTGCTCCACTACTGCTT
* ** **** *
19824618 AGGGAGACAAGGCTTGGTGGC-TCAAATCTACTTCCCACTA-T-CTT
1 AGGGAGATAAGATTTGCAATCTTC-AATCTGC-T-CCACTACTGCTT
* * * *
19824662 -GGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCAATCTTCAATCTGCTCCACTACTGCTT
* * * * * *
19824706 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCATTGCTGCTT
1 AGGGAGATAAGATTTGCAATCTTCAATCTGCTCCACTACTGCTT
* ** **** *
19824750 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAAGATTTGCAATCTTCAATCTGC-T-CCACTACTGCTT
* * ** *
19824794 -GGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCAATCTTCAATCTGCTCCACTACTGCTT
* * * * *
19824838 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTC
1 AGGGAGATAAGATTTGCAATCTTCAATCTGCTCCACTACTGCTT
19824882 AGGGAGATAAG
1 AGGGAGATAAG
19824893 GCTGGTGGGC
Statistics
Matches: 227, Mismatches: 76, Indels: 32
0.68 0.23 0.10
Matches are distributed among these distances:
42 12 0.05
43 11 0.05
44 184 0.81
45 12 0.05
46 8 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATTTGCAATCTTCAATCTGCTCCACTACTGCTT
Found at i:19824622 original size:132 final size:132
Alignment explanation
Indices: 19824534--19824900 Score: 592
Period size: 132 Copynumber: 2.8 Consensus size: 132
19824524 AACTTCAGGG
* * * *
19824534 AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTAA
1 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
** * * * *
19824599 ATTTTCTCCGCTGCTACTCAGGGAGACAAGGCTTGGTGGCTCAAATCTACTTCCCACTATCTTGG
66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
19824664 AA
131 AA
19824666 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* *
19824731 ACCTTCTCCATTGCTGCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
19824796 AA
131 AA
*
19824798 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* *
19824863 ACCTTCTCCACTACTGCTCAGGGAGATAAGGC-TGGTGG
66 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGG
19824901 GCTANNNNNN
Statistics
Matches: 218, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
131 6 0.03
132 212 0.97
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
AA
Found at i:19840750 original size:98 final size:98
Alignment explanation
Indices: 19840526--19840720 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
19840516 ATGCAATAAA
* * *
19840526 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
19840591 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
*
19840624 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
*
19840689 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
19840721 CATGATTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:19844257 original size:14 final size:14
Alignment explanation
Indices: 19844234--19844281 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
19844224 TCCTCCCTGC
*
19844234 CTTCTTCATTTTCT
1 CTTCTACATTTTCT
*
19844248 CTTCTACATTTTCC
1 CTTCTACATTTTCT
*
19844262 CTTCGATCATTTTCT
1 CTTCTA-CATTTTCT
*
19844277 TTTCT
1 CTTCT
19844282 TTTTCCAGCA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.10, C:0.29, G:0.02, T:0.58
Consensus pattern (14 bp):
CTTCTACATTTTCT
Found at i:19850049 original size:2 final size:2
Alignment explanation
Indices: 19850042--19850066 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19850032 AAACATGACC
19850042 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19850067 CTCAAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19851002 original size:20 final size:20
Alignment explanation
Indices: 19850989--19851047 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
19850979 GTGCAGTCAG
19850989 GGGCACAAAAGTGCAAACAA
1 GGGCACAAAAGTGCAAACAA
19851009 GGGCACAAAAGTGCAAACAA
1 GGGCACAAAAGTGCAAACAA
* **
19851029 GGACACCGAAGTGCAAACA
1 GGGCACAAAAGTGCAAACA
19851048 GCGGCACTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.47, C:0.22, G:0.25, T:0.05
Consensus pattern (20 bp):
GGGCACAAAAGTGCAAACAA
Found at i:19855833 original size:3 final size:3
Alignment explanation
Indices: 19855812--19855868 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
19855802 CGTATGGAAG
* * *
19855812 TAA TAA TAC TAA TAC TAA TAA TATA TAA TAAA TAA TAGA TAA T-A CAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TA-A TAA TAA TAA
19855859 TAA TAA TAA T
1 TAA TAA TAA T
19855869 GCAATTTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 1 0.02
3 34 0.77
4 9 0.20
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19855847 original size:14 final size:14
Alignment explanation
Indices: 19855813--19855873 Score: 70
Period size: 14 Copynumber: 4.2 Consensus size: 14
19855803 GTATGGAAGT
*
19855813 AATAATACTAATAC
1 AATAATAATAATAC
19855827 TAATAATATATAATA-
1 -AATAATA-ATAATAC
19855842 AATAATAGATAATAC
1 AATAATA-ATAATAC
*
19855857 AATAATAATAATGC
1 AATAATAATAATAC
19855871 AAT
1 AAT
19855874 TTAATAACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
14 22 0.54
15 14 0.34
16 5 0.12
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (14 bp):
AATAATAATAATAC
Found at i:19856767 original size:3 final size:3
Alignment explanation
Indices: 19856746--19856802 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
19856736 CGTATGGAAG
* * *
19856746 TAA TAA TAC TAA TAC TAA TAA TATA TAA TAAA TAA TAGA TAA T-A CAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TA-A TAA TAA TAA
19856793 TAA TAA TAA T
1 TAA TAA TAA T
19856803 GCAATTTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 1 0.02
3 34 0.77
4 9 0.20
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19856781 original size:14 final size:14
Alignment explanation
Indices: 19856747--19856807 Score: 70
Period size: 14 Copynumber: 4.2 Consensus size: 14
19856737 GTATGGAAGT
*
19856747 AATAATACTAATAC
1 AATAATAATAATAC
19856761 TAATAATATATAATA-
1 -AATAATA-ATAATAC
19856776 AATAATAGATAATAC
1 AATAATA-ATAATAC
*
19856791 AATAATAATAATGC
1 AATAATAATAATAC
19856805 AAT
1 AAT
19856808 TTAATAACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
14 22 0.54
15 14 0.34
16 5 0.12
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (14 bp):
AATAATAATAATAC
Found at i:19859476 original size:27 final size:28
Alignment explanation
Indices: 19859440--19859493 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
19859430 TCGAAATTCA
*
19859440 AACTTTAATTA-TAAAATAATTAATTTG
1 AACTTAAATTATTAAAATAATTAATTTG
* *
19859467 AACTTAAATTATTAACATATTTAATTT
1 AACTTAAATTATTAAAATAATTAATTT
19859494 TAATTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (28 bp):
AACTTAAATTATTAAAATAATTAATTTG
Found at i:19861672 original size:35 final size:35
Alignment explanation
Indices: 19861626--19861694 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
19861616 ATGAAAATAT
*
19861626 ATTTTGTTTAACTTAACTTGCAAGCAATCTCTTAG
1 ATTTTATTTAACTTAACTTGCAAGCAATCTCTTAG
*
19861661 ATTTTATTTAACTTGACTTGCAAGCAATCTCTTA
1 ATTTTATTTAACTTAACTTGCAAGCAATCTCTTA
19861695 AAATTTGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.43
Consensus pattern (35 bp):
ATTTTATTTAACTTAACTTGCAAGCAATCTCTTAG
Found at i:19870358 original size:5 final size:5
Alignment explanation
Indices: 19870350--19870375 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
19870340 GAGATGGAAT
19870350 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
19870376 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:19870375 original size:26 final size:26
Alignment explanation
Indices: 19870324--19870375 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
19870314 TGAAGTTTTC
* * *
19870324 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
19870350 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
19870376 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:19871887 original size:29 final size:29
Alignment explanation
Indices: 19871855--19871914 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
19871845 ACTCTTGAAG
19871855 TTGATATTCATTTCGTCAATACCTTGTGA
1 TTGATATTCATTTCGTCAATACCTTGTGA
19871884 TTGATATTCATTTCGTCAATACCTTGTGA
1 TTGATATTCATTTCGTCAATACCTTGTGA
19871913 TT
1 TT
19871915 TCTTCTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (29 bp):
TTGATATTCATTTCGTCAATACCTTGTGA
Found at i:19873635 original size:48 final size:48
Alignment explanation
Indices: 19873537--19873632 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
19873527 TTTTTCTAAT
*
19873537 ATTATATATTATTTTTATTAGTTCATATTTTAATAATAATTATATTAA
1 ATTATATATTATTTTTATTAATTCATATTTTAATAATAATTATATTAA
* *
19873585 ATTATTTATTATTTTTATTAAATT-ATA-TTTAATTAA-AATTCTATTAA
1 ATTATATATTATTTTTATT-AATTCATATTTTAA-TAATAATTATATTAA
19873632 A
1 A
19873633 ATTTAATAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 16 0.37
48 24 0.56
49 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (48 bp):
ATTATATATTATTTTTATTAATTCATATTTTAATAATAATTATATTAA
Found at i:19873648 original size:6 final size:6
Alignment explanation
Indices: 19873637--19873665 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19873627 ATTAAAATTT
19873637 AATAAC AATAAC AATAAC AATAAC AATAA
1 AATAAC AATAAC AATAAC AATAAC AATAA
19873666 TCATTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAC
Found at i:19873802 original size:49 final size:49
Alignment explanation
Indices: 19873743--19873851 Score: 175
Period size: 49 Copynumber: 2.2 Consensus size: 49
19873733 CATCTATTTT
*
19873743 ATTCAACCAAAAGCAAGAATACTATTATAATTTTATTCTATTC-CATTCC
1 ATTCAACCAAAAGCAAGAATACTATTATAATTCTATTCTA-TCACATTCC
* *
19873792 ATTCAACCAAATGCAAGAATACTATTATAGTTCTATTCTATCACATTCC
1 ATTCAACCAAAAGCAAGAATACTATTATAATTCTATTCTATCACATTCC
19873841 ATTCAACCAAA
1 ATTCAACCAAA
19873852 CAATTGAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 2 0.04
49 54 0.96
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (49 bp):
ATTCAACCAAAAGCAAGAATACTATTATAATTCTATTCTATCACATTCC
Found at i:19879379 original size:46 final size:44
Alignment explanation
Indices: 19879327--19879419 Score: 105
Period size: 45 Copynumber: 2.1 Consensus size: 44
19879317 CAATGAATAG
* *
19879327 AAATAGATAAATGAAAAACATTCAGAAATGATTATGGGTTTCTCCA
1 AAATAGAGAAATG-AAAACATTCAGAAATGAATATGGGTTTCT-CA
* * ** *
19879373 AAATAGAGAAATGGAATCATTTGGAAATGAATGTGGGTTTCTCA
1 AAATAGAGAAATGAAAACATTCAGAAATGAATATGGGTTTCTCA
19879417 AAA
1 AAA
19879420 CACAAAAAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 5 0.12
45 23 0.57
46 12 0.30
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (44 bp):
AAATAGAGAAATGAAAACATTCAGAAATGAATATGGGTTTCTCA
Found at i:19880966 original size:15 final size:14
Alignment explanation
Indices: 19880948--19880983 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
19880938 TTTTTATAAT
19880948 AATAAAATAAAAGAA
1 AATAAAATAAAA-AA
*
19880963 AATAACATAAAAAA
1 AATAAAATAAAAAA
19880977 AATAAAA
1 AATAAAA
19880984 GTTCAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (14 bp):
AATAAAATAAAAAA
Found at i:19892212 original size:24 final size:24
Alignment explanation
Indices: 19892185--19892232 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
19892175 AAAGAAAGAA
19892185 AGAAACTACTTTGTATTCCCAATG
1 AGAAACTACTTTGTATTCCCAATG
* *
19892209 AGAAACTGCTTTGTATTCCTAATG
1 AGAAACTACTTTGTATTCCCAATG
19892233 TCTTTTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (24 bp):
AGAAACTACTTTGTATTCCCAATG
Found at i:19894950 original size:56 final size:56
Alignment explanation
Indices: 19894871--19894983 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
19894861 TTTGATATTT
* * *
19894871 CATGTACCATCATTTTCAAGAATTTTGCGTACATACCGGTAATAGTTCGTTTCAAA
1 CATGTACCATAATTTTCAAGAATTTCGCGTACATACCGGTAATAGTTCATTTCAAA
*
19894927 CATGTACCATAATTTTCATGAATTTCGCGTACATACCGGTAATAGTTCATTTCAAA
1 CATGTACCATAATTTTCAAGAATTTCGCGTACATACCGGTAATAGTTCATTTCAAA
19894983 C
1 C
19894984 TCATGTTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (56 bp):
CATGTACCATAATTTTCAAGAATTTCGCGTACATACCGGTAATAGTTCATTTCAAA
Found at i:19917179 original size:127 final size:128
Alignment explanation
Indices: 19917037--19917292 Score: 496
Period size: 127 Copynumber: 2.0 Consensus size: 128
19917027 TATAATAATG
19917037 GTCTAATTACCATTTAAGGTCACTCACATTCCAATTTCATAACAATTTGACACATTTTACTTATA
1 GTCTAATTACCATTTAAGGTCACTCACATTCCAATTTCATAACAATTTGACACATTTTACTTATA
19917102 GAACTCAAATTTTACACCTTATGCAATTTAGTCTTTTTTATCAAATTAAGCA-CAAACGATAA
66 GAACTCAAATTTTACACCTTATGCAATTTAGTCTTTTTTATCAAATTAAGCAGCAAACGATAA
19917164 GTCTAATTACCATTTAAGGTCACTCACATTCCAATTTCATAACAATTTGACACATTTTACTTATA
1 GTCTAATTACCATTTAAGGTCACTCACATTCCAATTTCATAACAATTTGACACATTTTACTTATA
19917229 GAACTCAAATTTTACACCTTATGCAATTTAGTCTTTTTTATCAAATTAAGCATGCAAACGATAA
66 GAACTCAAATTTTACACCTTATGCAATTTAGTCTTTTTTATCAAATTAAGCA-GCAAACGATAA
19917293 AATTTCTTAA
Statistics
Matches: 127, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
127 117 0.92
129 10 0.08
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (128 bp):
GTCTAATTACCATTTAAGGTCACTCACATTCCAATTTCATAACAATTTGACACATTTTACTTATA
GAACTCAAATTTTACACCTTATGCAATTTAGTCTTTTTTATCAAATTAAGCAGCAAACGATAA
Found at i:19921705 original size:59 final size:53
Alignment explanation
Indices: 19921606--19921744 Score: 136
Period size: 54 Copynumber: 2.5 Consensus size: 53
19921596 ACTAGGGTCT
* * * * * *
19921606 GGATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCATTGCAGG
1 GGATTTAGCCTGGACTGGTAATCCCGA-CCAAACTCATT--AGT--TTAT-ATTACAAG
19921665 GGATTTAGCCTGGACTGGTAATCCCGA-CAATACTCTATTAGTTTATATTACAAG
1 GGATTTAGCCTGGACTGGTAATCCCGACCAA-ACTC-ATTAGTTTATATTACAAG
*
19921719 GGATTTAGCCTGAACTGGTAATCCCG
1 GGATTTAGCCTGGACTGGTAATCCCG
19921745 CTGTAAGGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
54 31 0.44
55 3 0.04
57 6 0.08
58 3 0.04
59 28 0.39
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (53 bp):
GGATTTAGCCTGGACTGGTAATCCCGACCAAACTCATTAGTTTATATTACAAG
Found at i:19926285 original size:10 final size:9
Alignment explanation
Indices: 19926270--19926320 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
19926260 ATATTTTATG
19926270 TTTTATTTCT
1 TTTTATTT-T
19926280 TTTTATTTT
1 TTTTATTTT
*
19926289 TCTT-TTTT
1 TTTTATTTT
*
19926297 TGTTATTTGT
1 TTTTATTT-T
19926307 TTTTATTTT
1 TTTTATTTT
19926316 ATTTT
1 -TTTT
19926321 TTAGACTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
8 7 0.20
9 8 0.23
10 20 0.57
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (9 bp):
TTTTATTTT
Found at i:19926320 original size:24 final size:23
Alignment explanation
Indices: 19926246--19926322 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 23
19926236 ATTATTTAGA
*
19926246 TTTTATTTAGTTTTATATTTTA-TG
1 TTTTATTT-GTTTT-TATTTTATTT
* *
19926270 TTTTATTTCTTTTTATTTTTCTTTTT
1 TTTTATTTGTTTTTA--TTT-TATTT
19926296 TTGTTATTTGTTTTTATTTTATTT
1 TT-TTATTTGTTTTTATTTTATTT
19926320 TTT
1 TTT
19926323 AGACTTATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
22 2 0.05
23 5 0.12
24 17 0.40
25 4 0.09
26 3 0.07
27 12 0.28
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (23 bp):
TTTTATTTGTTTTTATTTTATTT
Found at i:19928644 original size:21 final size:21
Alignment explanation
Indices: 19928597--19928646 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
19928587 GTTAAATCTA
*
19928597 ATCTTAGAAATATTCAATCGT
1 ATCTTGGAAATATTCAATCGT
19928618 ATCTTGGAAATATTCAATCGT
1 ATCTTGGAAATATTCAATCGT
19928639 ATCTTGGA
1 ATCTTGGA
19928647 CGGCCAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (21 bp):
ATCTTGGAAATATTCAATCGT
Found at i:19929788 original size:14 final size:14
Alignment explanation
Indices: 19929766--19929804 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
19929756 AGGAAATTCC
19929766 ATTAGATTAATTTA
1 ATTAGATTAATTTA
19929780 GATTA-ATTAATTTA
1 -ATTAGATTAATTTA
19929794 ATTAGATTAAT
1 ATTAGATTAAT
19929805 AAATATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (14 bp):
ATTAGATTAATTTA
Found at i:19929803 original size:9 final size:9
Alignment explanation
Indices: 19929766--19929804 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
19929756 AGGAAATTCC
19929766 ATTAGATTA
1 ATTAGATTA
19929775 ATTTAGATTA
1 A-TTAGATTA
19929785 ATTA-ATTTA
1 ATTAGA-TTA
19929794 ATTAGATTA
1 ATTAGATTA
19929803 AT
1 AT
19929805 AAATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.04
9 16 0.59
10 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (9 bp):
ATTAGATTA
Found at i:19933862 original size:3 final size:3
Alignment explanation
Indices: 19933856--19933892 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
19933846 CTAGTAGTAG
19933856 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
19933893 TTGAAAGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:19933999 original size:42 final size:43
Alignment explanation
Indices: 19933922--19934002 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 43
19933912 CTTGAAGTAA
* *
19933922 ATAATAAATAATAAAAATGATATAATTAGACAAATATACATAT
1 ATAAAAAATAATAAAAATGAAATAATTAGACAAATATACATAT
* *
19933965 ATAAAAAATAA-ACAAATGAAATAAATTATA-AAATATAC
1 ATAAAAAATAATAAAAATGAAAT-AATTAGACAAATATAC
19934003 TAATTCATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 17 0.52
43 16 0.48
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (43 bp):
ATAAAAAATAATAAAAATGAAATAATTAGACAAATATACATAT
Found at i:19934883 original size:11 final size:13
Alignment explanation
Indices: 19934867--19934900 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
19934857 TACGCGTAAG
19934867 AAAGAAAAA-C-A
1 AAAGAAAAATCAA
19934878 AAAGAAAAATCAA
1 AAAGAAAAATCAA
19934891 AAAGAAAAAT
1 AAAGAAAAAT
19934901 AGATCTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 1 0.05
13 11 0.52
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAGAAAAATCAA
Found at i:19936359 original size:11 final size:13
Alignment explanation
Indices: 19936343--19936376 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
19936333 TACGCGTAAG
19936343 AAAGAAAAA-C-A
1 AAAGAAAAATCAA
19936354 AAAGAAAAATCAA
1 AAAGAAAAATCAA
19936367 AAAGAAAAAT
1 AAAGAAAAAT
19936377 AGATCTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 1 0.05
13 11 0.52
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAGAAAAATCAA
Found at i:19947178 original size:19 final size:19
Alignment explanation
Indices: 19947138--19947179 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
19947128 GTCTCTTTTC
* *
19947138 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
19947157 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
19947176 GCAT
1 GCAT
19947180 CAAAGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:19949043 original size:14 final size:14
Alignment explanation
Indices: 19949024--19949052 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19949014 TGAGCAAATA
19949024 TTCTTTCATTCTTT
1 TTCTTTCATTCTTT
19949038 TTCTTTCATTCTTT
1 TTCTTTCATTCTTT
19949052 T
1 T
19949053 GGATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (14 bp):
TTCTTTCATTCTTT
Found at i:19951546 original size:132 final size:132
Alignment explanation
Indices: 19951374--19952378 Score: 1627
Period size: 132 Copynumber: 7.6 Consensus size: 132
19951364 CAGCGAAGCT
* *
19951374 GATCAAAGATGGCAGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTA
1 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
19951439 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
19951504 CA
131 CA
* * *
19951506 GATCAAAGATGGCAGATTTTACCTCTCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTA
1 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
* * *
19951571 CTTTCCTGGGCAGCAGTTGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGGG
66 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
19951636 CA
131 CA
* * *
19951638 GATCAAATATGG-TGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCT
1 GATCAAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
19951702 ACTTCCCTGGACAGCAGTGGAATAGATTAAAGATTTCAGATCCTATCTCCCTAAGCAGTAGTGGA
65 ACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
*
19951767 GCG
130 GCA
*
19951770 GATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
1 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
*
19951835 CTTCCCTGGGCAGCAGTGAAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
19951900 CA
131 CA
* ** * * *
19951902 GATCAAAGATAGCAGATTTTACCTCCCTAAGGTTCCAGTAGAGTATATTGAAGCCAGTAATTCTA
1 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
* * *
19951967 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTTTCCCTAAGCAGTAGTGGGG
66 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
19952032 CA
131 CA
* * *
19952034 GATCAAAGATGG-TGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAATCCAGTAATTCT
1 GATCAAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
19952098 ACTTCCTTGGGCAGCAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCTTAAGCAGTAGTGGA
65 ACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
*
19952163 GCG
130 GCA
19952166 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
1 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
*
19952231 CCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
19952296 CA
131 CA
* * * * *
19952298 GATCAAAGATGACAGATTTTACCTCCCTGAGGTTGCAGTAGAGTATATTGAAGCCAGTAATTCTA
1 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
19952363 CTTCCCTGGGCAGCAG
66 CTTCCCTGGGCAGCAG
19952379 NNNNNNNNNN
Statistics
Matches: 798, Mismatches: 71, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
131 2 0.00
132 794 0.99
133 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
CA
Found at i:19952115 original size:396 final size:395
Alignment explanation
Indices: 19951374--19952378 Score: 1803
Period size: 396 Copynumber: 2.5 Consensus size: 395
19951364 CAGCGAAGCT
* *
19951374 GATCAAAGATGGCAGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTA
1 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
19951439 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
* *
19951504 CAGATCAAAGATGGCAGATTTTACCTCTCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTC
131 CAGATCAAAGAT-GCAGATTTTACCTCCCTGAGGTTACAGTAGAGTATATTGAAGCCAGTAATTC
* *
19951569 TACTTTCCTGGGCAGCAGTTGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
195 TACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
*
19951634 GGCAGATCAAATATGGTGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
260 GGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
19951699 TCTACTTCCCTGGACAGCAGTGGAATAGATTAAAGATTTCAGATCCTATCTCCCTAAGCAGTAGT
325 TCTACTTCCCTGGACAGCAGTGGAATAGATTAAAGATTTCAGATCCTATCTCCCTAAGCAGTAGT
19951764 GGAGCG
390 GGAGCG
*
19951770 GATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
1 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
*
19951835 CTTCCCTGGGCAGCAGTGAAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
* *
19951900 CAGATCAAAGATAGCAGATTTTACCTCCCTAAGGTTCCAGTAGAGTATATTGAAGCCAGTAATTC
131 CAGATCAAAGAT-GCAGATTTTACCTCCCTGAGGTTACAGTAGAGTATATTGAAGCCAGTAATTC
* *
19951965 TACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTTTCCCTAAGCAGTAGTGG
195 TACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
*
19952030 GGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAATCCAGTAAT
260 GGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * *
19952095 TCTACTTCCTTGGGCAGCAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCTTAAGCAGTAGT
325 TCTACTTCCCTGGACAGCAGTGGAATAGATTAAAGATTTCAGATCCTATCTCCCTAAGCAGTAGT
19952160 GGAGCG
390 GGAGCG
19952166 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
1 GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
*
19952231 CCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
19952296 CAGATCAAAGATGACAGATTTTACCTCCCTGAGGTTGCAGTAGAGTATATTGAAGCCAGTAATTC
131 CAGATCAAAGATG-CAGATTTTACCTCCCTGAGGTTACAGTAGAGTATATTGAAGCCAGTAATTC
19952361 TACTTCCCTGGGCAGCAG
195 TACTTCCCTGGGCAGCAG
19952379 NNNNNNNNNN
Statistics
Matches: 584, Mismatches: 24, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
395 1 0.00
396 583 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (395 bp):
GATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCAAAGATGCAGATTTTACCTCCCTGAGGTTACAGTAGAGTATATTGAAGCCAGTAATTCT
ACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGG
GCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATT
CTACTTCCCTGGACAGCAGTGGAATAGATTAAAGATTTCAGATCCTATCTCCCTAAGCAGTAGTG
GAGCG
Found at i:19952280 original size:44 final size:44
Alignment explanation
Indices: 19952105--19952326 Score: 112
Period size: 44 Copynumber: 5.0 Consensus size: 44
19952095 TCTACTTCCT
* *
19952105 TGGGCAGCAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCT
1 TGGGCAGCAGTGGAATAGATTAAAGATTTCAGATCTTACCTCCC
** * *** * ** *
19952149 TAAGCAGTAGTGGAGCGGATCAAAGATGGCAGATTTTACCTCCC
1 TGGGCAGCAGTGGAATAGATTAAAGATTTCAGATCTTACCTCCC
* * * * *
19952193 TGTGGTTA-CAGTGGAGTACATTGAAG---CCAGTAAT-TCTACCTCCC
1 TG-GG-CAGCAGTGGAATAGATTAAAGATTTCAG--ATCT-TACCTCCC
* *
19952237 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC
1 TGGGCAGCAGTGGAATAGATTAAAGATTTCAGATCTTACCTCCC
** * ** * ** *
19952281 TAAGCAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCCC
1 TGGGCAGCAGTGGAATAGATTAAAGATTTCAGATCTTACCTCCC
19952325 TG
1 TG
19952327 AGGTTGCAGT
Statistics
Matches: 129, Mismatches: 39, Indels: 20
0.69 0.21 0.11
Matches are distributed among these distances:
42 4 0.03
43 19 0.15
44 88 0.68
45 14 0.11
46 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
TGGGCAGCAGTGGAATAGATTAAAGATTTCAGATCTTACCTCCC
Found at i:19954096 original size:26 final size:26
Alignment explanation
Indices: 19954032--19954109 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 26
19954022 TATTTAATAC
*
19954032 ATATATATATGCATGTTTTTT-TTAT
1 ATATATATATGCATGTTTTTTATAAT
*
19954057 CTAGTATACT-TGCATGTTTTTTATAAT
1 ATA-TATA-TATGCATGTTTTTTATAAT
*
19954084 ATATATATATGCAT-TTTTATA-AAT
1 ATATATATATGCATGTTTTTTATAAT
19954108 AT
1 AT
19954110 TTTTTACTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
24 5 0.11
25 9 0.20
26 25 0.56
27 6 0.13
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.54
Consensus pattern (26 bp):
ATATATATATGCATGTTTTTTATAAT
Found at i:19955034 original size:89 final size:89
Alignment explanation
Indices: 19954855--19955033 Score: 324
Period size: 88 Copynumber: 2.0 Consensus size: 89
19954845 ATTATTTTTT
*
19954855 AAGGTGGGCCGATAACACCTTAATAAAAGAATCGGTGGCGACTCTAGTTTTGTTTTTTAAAGTCG
1 AAGGTGGGCCGATAACACCTTAATAAAAGAATCGGTGGCGACTCCAGTTTTGTTTTTTAAAGTCG
*
19954920 ACAACTAAATTTTTGGTTTCAAAA
66 ACAACTAAATTTTTGATTTCAAAA
*
19954944 AAGGTGGGCCGATAACACCTTAAT-AAAGGATCGGTGGCGACTCCAGTTTTGTTTTTTAAAGTCG
1 AAGGTGGGCCGATAACACCTTAATAAAAGAATCGGTGGCGACTCCAGTTTTGTTTTTTAAAGTCG
19955008 ACAACTAAATTTTTGATTTCAAAA
66 ACAACTAAATTTTTGATTTCAAAA
19955032 AA
1 AA
19955034 ACGGTTCTGA
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 63 0.72
89 24 0.28
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (89 bp):
AAGGTGGGCCGATAACACCTTAATAAAAGAATCGGTGGCGACTCCAGTTTTGTTTTTTAAAGTCG
ACAACTAAATTTTTGATTTCAAAA
Found at i:19955911 original size:3 final size:3
Alignment explanation
Indices: 19955903--19956040 Score: 122
Period size: 3 Copynumber: 45.3 Consensus size: 3
19955893 AAGTTTTCTT
19955903 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * ** *
19955951 TTA TTA TTA -TA TTA TCTG TGAA CTGG TGA TCTGA CCA GTT- TGA TTA
1 TTA TTA TTA TTA TTA T-TA T-TA -TTA TTA T-T-A TTA -TTA TTA TTA
19955997 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19956041 CTGTGAACTG
Statistics
Matches: 112, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
2 7 0.06
3 101 0.90
4 2 0.02
5 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:19956041 original size:75 final size:76
Alignment explanation
Indices: 19955917--19956068 Score: 297
Period size: 75 Copynumber: 2.0 Consensus size: 76
19955907 TATTATTATT
19955917 ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATTATCTGTGAACTGGTGATC
1 ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATTATCTGTGAACTGGTGATC
19955982 TGACCAGTTTG
66 TGACCAGTTTG
19955993 ATTATTATTA-TATTATTATTATTATTATTATTATTATTATTATATTATCTGTGAACTGGTGATC
1 ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATTATCTGTGAACTGGTGATC
19956057 TGACCAGTTTG
66 TGACCAGTTTG
19956068 A
1 A
19956069 CTGCCGGTCC
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 66 0.87
76 10 0.13
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.53
Consensus pattern (76 bp):
ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATTATCTGTGAACTGGTGATC
TGACCAGTTTG
Found at i:19963630 original size:16 final size:16
Alignment explanation
Indices: 19963609--19963640 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19963599 TATTTAGTGC
19963609 TATTGTTAAATGATGT
1 TATTGTTAAATGATGT
19963625 TATTGTTAAATGATGT
1 TATTGTTAAATGATGT
19963641 ATCTAAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TATTGTTAAATGATGT
Found at i:19964139 original size:20 final size:20
Alignment explanation
Indices: 19964114--19964153 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19964104 CGTAAAATTA
*
19964114 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
19964134 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
19964154 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:19964143 original size:34 final size:35
Alignment explanation
Indices: 19964099--19964165 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
19964089 CAGTAAAATG
* *
19964099 TTTTCCGTAAAATTATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
19964133 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
19964166 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:19967192 original size:6 final size:6
Alignment explanation
Indices: 19967146--19967193 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
19967136 ATCAGGTGTC
* * *
19967146 AAGGG- AAGGGG AAGGGG AAGGGG AAGGGA AAGGGA AAGGGA AAGGGA
1 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA
19967193 A
1 A
19967194 GATCGGTGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
5 5 0.12
6 36 0.88
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (6 bp):
AAGGGA
Found at i:19967449 original size:12 final size:12
Alignment explanation
Indices: 19967432--19967457 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19967422 CCCTACACTT
19967432 AGCACTAATTCA
1 AGCACTAATTCA
19967444 AGCACTAATTCA
1 AGCACTAATTCA
19967456 AG
1 AG
19967458 ATTCTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (12 bp):
AGCACTAATTCA
Found at i:19968004 original size:20 final size:21
Alignment explanation
Indices: 19967979--19968017 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19967969 AAACATAAAC
19967979 AACTTTAC-ATTTTTTAAAGT
1 AACTTTACAATTTTTTAAAGT
19967999 AACTTTACAATTTTTTAAA
1 AACTTTACAATTTTTTAAA
19968018 ATTTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (21 bp):
AACTTTACAATTTTTTAAAGT
Found at i:19970869 original size:22 final size:24
Alignment explanation
Indices: 19970841--19970886 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
19970831 CCGAAATATA
19970841 TTAAATAT-ATA-TTTTTTATTTT
1 TTAAATATAATAGTTTTTTATTTT
19970863 TTAAATATAATAGTTTTTTATTTT
1 TTAAATATAATAGTTTTTTATTTT
19970887 AAGTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
TTAAATATAATAGTTTTTTATTTT
Found at i:19970888 original size:22 final size:21
Alignment explanation
Indices: 19970841--19970886 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 21
19970831 CCGAAATATA
19970841 TTAAATATATATTTTTTATTTT
1 TTAAATATATATTTTTTA-TTT
19970863 TTAAATATAATAGTTTTTTATTT
1 TTAAATAT-ATA-TTTTTTATTT
19970886 T
1 T
19970887 AAGTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.36
23 7 0.32
24 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTAAATATATATTTTTTATTT
Found at i:19976525 original size:23 final size:21
Alignment explanation
Indices: 19976469--19976527 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
19976459 ATGCCAAAAG
* *
19976469 AAGCCACAAAAGAACAACAGA
1 AAGCCATAAAAGAACAACAAA
*
19976490 AATCCATAAAAGAACAACAAA
1 AAGCCATAAAAGAACAACAAA
19976511 AAGCCATATAAAAGAAC
1 AAGCC--ATAAAAGAAC
19976528 GTACGAGAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 22 0.69
23 10 0.31
ACGTcount: A:0.63, C:0.20, G:0.10, T:0.07
Consensus pattern (21 bp):
AAGCCATAAAAGAACAACAAA
Found at i:19978384 original size:29 final size:30
Alignment explanation
Indices: 19978336--19978464 Score: 140
Period size: 30 Copynumber: 4.3 Consensus size: 30
19978326 GCAAAAAATA
* **
19978336 AAAATTACGTTTTAACCCCTGTACTTTT-T
1 AAAATTACATTTTAACCCCTAAACTTTTCT
*
19978365 AAAATTTACATTTTGA-CCCTAAACTTTTCT
1 AAAA-TTACATTTTAACCCCTAAACTTTTCT
*
19978395 AAAATTACATTTCAACCCCTAAAC-TTTCT
1 AAAATTACATTTTAACCCCTAAACTTTTCT
* *
19978424 CAAAATTACACTTTAACCACTAAAC-TTTCT
1 -AAAATTACATTTTAACCCCTAAACTTTTCT
19978454 AAAAATTACAT
1 -AAAATTACAT
19978465 CTTGGCCCTA
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
29 28 0.33
30 57 0.67
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTTCT
Found at i:19978400 original size:30 final size:29
Alignment explanation
Indices: 19978336--19978505 Score: 132
Period size: 30 Copynumber: 5.8 Consensus size: 29
19978326 GCAAAAAATA
* **
19978336 AAAATTACGTTTTAACCCCTGTACTTTT-T
1 AAAATTACATTTTAA-CCCTAAACTTTTCT
*
19978365 AAAATTTACATTTTGACCCTAAACTTTTCT
1 AAAA-TTACATTTTAACCCTAAACTTTTCT
*
19978395 AAAATTACATTTCAACCCCTAAAC-TTTCT
1 AAAATTACATTTTAA-CCCTAAACTTTTCT
*
19978424 CAAAATTACACTTTAACCACTAAAC-TTTCT
1 -AAAATTACATTTTAACC-CTAAACTTTTCT
* ** * *
19978454 AAAAATTACATCTTGGCCCTATA-TTTTCCC
1 -AAAATTACATTTTAACCCTAAACTTTT-CT
* *
19978484 AAAATTACATTTTTACCTTAAA
1 AAAATTACATTTTAACCCTAAA
19978506 TATTTTGTGT
Statistics
Matches: 114, Mismatches: 20, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
29 54 0.47
30 60 0.53
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (29 bp):
AAAATTACATTTTAACCCTAAACTTTTCT
Found at i:19978402 original size:59 final size:60
Alignment explanation
Indices: 19978334--19978464 Score: 160
Period size: 59 Copynumber: 2.2 Consensus size: 60
19978324 ATGCAAAAAA
* * ** * * *
19978334 TAAAAATTACGTTTTAACCCCTGTACTTT-TTAAAATTTACATTTTGACC-CTAAACTTTTC
1 TAAAAATTACATTTCAACCCCTAAACTTTCTCAAAA-TTACACTTTAACCACTAAAC-TTTC
19978394 T-AAAATTACATTTCAACCCCTAAACTTTCTCAAAATTACACTTTAACCACTAAACTTTC
1 TAAAAATTACATTTCAACCCCTAAACTTTCTCAAAATTACACTTTAACCACTAAACTTTC
19978453 TAAAAATTACAT
1 TAAAAATTACAT
19978465 CTTGGCCCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
59 39 0.64
60 22 0.36
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.38
Consensus pattern (60 bp):
TAAAAATTACATTTCAACCCCTAAACTTTCTCAAAATTACACTTTAACCACTAAACTTTC
Found at i:19979100 original size:20 final size:21
Alignment explanation
Indices: 19979067--19979122 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
19979057 GCAAAGGAAA
*
19979067 AAGA-GAAGAGAAAGAAG-AG
1 AAGAGGAAGAAAAAGAAGAAG
*
19979086 AAGGGGAAGAAAAAGAAGAAAG
1 AAGAGGAAGAAAAAGAAG-AAG
19979108 AAGAGGAA-AAAAAGA
1 AAGAGGAAGAAAAAGA
19979123 GGAGTGCCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 3 0.10
20 12 0.39
21 7 0.23
22 9 0.29
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (21 bp):
AAGAGGAAGAAAAAGAAGAAG
Found at i:19979120 original size:22 final size:23
Alignment explanation
Indices: 19979078--19979120 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19979068 AGAGAAGAGA
* *
19979078 AAGAAGAGAAGGGGAAGAAAAAG
1 AAGAAGAGAAGAGGAAAAAAAAG
19979101 AAGAA-AGAAGAGGAAAAAAA
1 AAGAAGAGAAGAGGAAAAAAA
19979121 GAGGAGTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
AAGAAGAGAAGAGGAAAAAAAAG
Found at i:19979247 original size:16 final size:17
Alignment explanation
Indices: 19979211--19979249 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
19979201 GTTTTGAAAG
*
19979211 AAAAAAACAAAGCAGCC
1 AAAAAAACAAAGCAGCA
19979228 AAAAAAACAAAGCAG-A
1 AAAAAAACAAAGCAGCA
19979244 AAAAAA
1 AAAAAA
19979250 TAAAAATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.74, C:0.15, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAGCAGCA
Found at i:19979401 original size:26 final size:26
Alignment explanation
Indices: 19979370--19979425 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
19979360 AAGCATACCA
*
19979370 AGCAGG-CCTCTAGGCCCGAATTCGGC
1 AGCAGGCCCTC-AGGCCCGAATCCGGC
*
19979396 AGCAGGCCCTCAGGCCCGAATCCTGC
1 AGCAGGCCCTCAGGCCCGAATCCGGC
19979422 AGCA
1 AGCA
19979426 AAAAAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.21, C:0.38, G:0.29, T:0.12
Consensus pattern (26 bp):
AGCAGGCCCTCAGGCCCGAATCCGGC
Found at i:19979952 original size:17 final size:17
Alignment explanation
Indices: 19979909--19979956 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
19979899 AAATAAATAA
19979909 TCGTGTTTCAAAAGTTT
1 TCGTGTTTCAAAAGTTT
*
19979926 TCATGTTTTCAAAA-TTT
1 TCGTG-TTTCAAAAGTTT
19979943 CTCGTGTTTCAAAA
1 -TCGTGTTTCAAAA
19979957 AATAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (17 bp):
TCGTGTTTCAAAAGTTT
Found at i:19980034 original size:16 final size:16
Alignment explanation
Indices: 19980015--19980063 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 16
19980005 AAAAAAACAG
19980015 TTTCCGTGTTTCAAAT
1 TTTCCGTGTTTCAAAT
19980031 TTT-CGTGTTTTCAAAAT
1 TTTCCGTG-TTTC-AAAT
19980048 TTTCTCGTGTTTCAAA
1 TTTC-CGTGTTTCAAA
19980064 AATTTTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.14
16 7 0.24
17 10 0.34
18 4 0.14
19 4 0.14
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.51
Consensus pattern (16 bp):
TTTCCGTGTTTCAAAT
Found at i:19980049 original size:17 final size:17
Alignment explanation
Indices: 19980019--19980070 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
19980009 AAACAGTTTC
19980019 CGTG-TTTC-AAATTTT
1 CGTGTTTTCAAAATTTT
19980034 CGTGTTTTCAAAATTTT
1 CGTGTTTTCAAAATTTT
19980051 C-TCGTGTTTCAAAAATTTT
1 CGT-GT-TTTC-AAAATTTT
19980070 C
1 C
19980071 AAATTCTCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.12
16 5 0.16
17 10 0.31
18 4 0.12
19 9 0.28
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (17 bp):
CGTGTTTTCAAAATTTT
Found at i:19980057 original size:19 final size:18
Alignment explanation
Indices: 19980015--19980070 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
19980005 AAAAAAACAG
19980015 TTTC-CGTGTTTC-AAA-
1 TTTCTCGTGTTTCAAAAT
19980030 TTT-TCGTGTTTTCAAAAT
1 TTTCTCGTG-TTTCAAAAT
19980048 TTTCTCGTGTTTCAAAAAT
1 TTTCTCGTGTTTC-AAAAT
19980067 TTTC
1 TTTC
19980071 AAATTCTCGT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.20
16 4 0.11
17 3 0.09
18 7 0.20
19 14 0.40
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.52
Consensus pattern (18 bp):
TTTCTCGTGTTTCAAAAT
Found at i:19980093 original size:26 final size:25
Alignment explanation
Indices: 19980049--19980097 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
19980039 TTTCAAAATT
19980049 TTCTCGTGTTTCAAAAATTTTCAAA
1 TTCTCGTGTTTCAAAAATTTTCAAA
19980074 TTCTCGTGTTTTCAAAAATTTTCA
1 TTCTCGTG-TTTCAAAAATTTTCA
19980098 TTTTTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (25 bp):
TTCTCGTGTTTCAAAAATTTTCAAA
Found at i:19980105 original size:44 final size:43
Alignment explanation
Indices: 19980023--19980109 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 43
19980013 AGTTTCCGTG
*
19980023 TTTCAAATTTTCGTGTTTTCAAAATTTTCTCGTGTTTCAAAAAT
1 TTTCAAATTCTCGTGTTTTCAAAATTTTCTC-TGTTTCAAAAAT
*
19980067 TTTCAAATTCTCGTGTTTTCAAAAATTTTCAT-TTTTTCAAAAA
1 TTTCAAATTCTCGTGTTTTC-AAAATTTTC-TCTGTTTCAAAAA
19980110 AAAATTTCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 29 0.74
45 9 0.23
46 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.49
Consensus pattern (43 bp):
TTTCAAATTCTCGTGTTTTCAAAATTTTCTCTGTTTCAAAAAT
Found at i:19980179 original size:18 final size:18
Alignment explanation
Indices: 19980071--19980197 Score: 85
Period size: 18 Copynumber: 6.6 Consensus size: 18
19980061 AAAAATTTTC
* *
19980071 AAATTCTCGTGTTTTCAA
1 AAATTTTCGTGTTTTAAA
* *
19980089 AAATTTTCATTTTTTCAAAAAA
1 AAATTTTCGTGTTTT----AAA
19980111 AAATTTCTCGTG-TTTAAA
1 AAATTT-TCGTGTTTTAAA
** **
19980129 ATTTTTTCGCATTTTAAA
1 AAATTTTCGTGTTTTAAA
*
19980147 AAATTTTTCGCGTTTTAAA
1 AAA-TTTTCGTGTTTTAAA
19980166 AAATTTTCGTGTTTTCTAAA
1 AAATTTTCGTG-TTT-TAAA
19980186 AAATTTTTCGTG
1 AAA-TTTTCGTG
19980198 CTTCAATGAG
Statistics
Matches: 85, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.04
18 33 0.39
19 20 0.24
20 7 0.08
21 8 0.09
22 11 0.13
23 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (18 bp):
AAATTTTCGTGTTTTAAA
Found at i:19980185 original size:20 final size:19
Alignment explanation
Indices: 19980108--19980197 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
19980098 TTTTTTCAAA
*
19980108 AAAAAATTTCTCGTG-TTT
1 AAAAAATTTTTCGTGTTTT
* **
19980126 -AAAATTTTTTCGCATTTT
1 AAAAAATTTTTCGTGTTTT
*
19980144 AAAAAATTTTTCGCGTTTT
1 AAAAAATTTTTCGTGTTTT
19980163 AAAAAA-TTTTCGTGTTTTCT
1 AAAAAATTTTTCGTG-TTT-T
19980183 AAAAAATTTTTCGTG
1 AAAAAATTTTTCGTG
19980198 CTTCAATGAG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.17
18 10 0.17
19 25 0.42
20 7 0.12
21 8 0.13
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (19 bp):
AAAAAATTTTTCGTGTTTT
Found at i:19984057 original size:9 final size:9
Alignment explanation
Indices: 19984011--19984057 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
19984001 ATTATGCCTA
19984011 AAAAAAAAC
1 AAAAAAAAC
19984020 AATAACAACAAC
1 AA-AA-AA-AAC
19984032 AAAAAAAAGC
1 AAAAAAAA-C
19984042 -AAAAAAAC
1 AAAAAAAAC
19984050 AAAAAAAA
1 AAAAAAAA
19984058 GAAGAAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 1 0.03
9 18 0.55
10 5 0.15
11 4 0.12
12 5 0.15
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:19984075 original size:21 final size:20
Alignment explanation
Indices: 19984010--19984066 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
19984000 TATTATGCCT
*
19984010 AAAAAAAAA-CAATAACAACA
1 AAAAAAAAAGCAA-AAAAACA
19984030 ACAAAAAAAAGCAAAAAAACA
1 A-AAAAAAAAGCAAAAAAACA
19984051 AAAAAAAGAAG-AAAAA
1 AAAAAAA-AAGCAAAAA
19984067 GAAGAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 12 0.36
21 18 0.55
22 3 0.09
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGCAAAAAAACA
Found at i:19985022 original size:76 final size:76
Alignment explanation
Indices: 19984927--19985774 Score: 1102
Period size: 76 Copynumber: 11.2 Consensus size: 76
19984917 TGTTTCTTTT
* *
19984927 ATTTCTGTTTTTTCAAAAAATCAAATCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCTGAG
1 ATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
19984992 GTA-TTTTTAA
66 GTATTTTTTAA
* * *
19985002 ATTTTTGTTTTTTTTCAAAAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGGATCACGCTG
1 ATTTCTG--TTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTG
*
19985067 AGGTATTTTTTTA
64 AGGTATTTTTTAA
* *
19985080 ATTTTTGTTTTTTCAAAAAATCAACTCATAATACAAAGGTGAGTTGAGCCTCGGGTCACGCTGAG
1 ATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
19985145 GTA-TTTTTAA
66 GTATTTTTTAA
19985155 ATTTCTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGA
1 ATTTCTG-TTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGA
*
19985220 GGTATTTTTTTTA
65 GGTA-TTTTTTAA
** **
19985233 ATTTCTG-TTTTTCAAAAAATCAACTC---AT--A-A--TGAGTTGAGCC-CGGACCATACTGAG
1 ATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
19985288 GTATTTCTTTTAA
66 GTA-TT-TTTTAA
*
19985301 ATTTCTG-TTTTTC-ACAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
1 ATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
19985364 GTATTTTTTTTAA
66 GTA--TTTTTTAA
* *
19985377 ATTTCTGTTTTTTCAAAAAATCAGCTCATAATACAGAGGTGAGTTGAGCCTCGGATCACGCTGAG
1 ATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
*
19985442 GTATTTTTTTTTA
66 GTA--TTTTTTAA
* *
19985455 ATTTTTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTAAGCCTCGGGTCACGCTGA
1 ATTTCTG-TTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGA
19985520 GGTA-TTTTTAA
65 GGTATTTTTTAA
19985531 ATTTCTGTTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTG
1 ATTTCTG-TTTTTTC-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTG
*
19985596 AGGTATTTTTTTA
64 AGGTATTTTTTAA
* ** * ** *
19985609 ATTTCTATTTTTTCAAAAAATCAACTCATAATTTAGAGGTGAGTTGAGCCTCGGGCCATACGGAG
1 ATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
*
19985674 GTGTTTCTTTTAA
66 GT-ATT-TTTTAA
* * * *
19985687 ATTTCTG-TTTTTC-ACAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTC
1 ATTTCTGTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGC-T-
*
19985750 GAGGTA-TTTTTCA
63 GAGGTATTTTTTAA
*
19985763 ATTTCTATTTTT
1 ATTTCTGTTTTT
19985775 CAAGGCTCAA
Statistics
Matches: 690, Mismatches: 55, Indels: 54
0.86 0.07 0.07
Matches are distributed among these distances:
67 27 0.04
68 29 0.04
70 3 0.00
71 1 0.00
72 1 0.00
73 3 0.00
75 29 0.04
76 256 0.37
77 164 0.24
78 114 0.17
79 63 0.09
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (76 bp):
ATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
GTATTTTTTAA
Found at i:19985100 original size:153 final size:153
Alignment explanation
Indices: 19984923--19985760 Score: 1113
Period size: 153 Copynumber: 5.5 Consensus size: 153
19984913 ACCCTGTTTC
* *
19984923 TTTT-ATTTCTGTTTTTTCAAAAAATCAAATCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
1 TTTTAATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACG
*
19984987 CTGAGGTA-TTTTTAAATTTTTGTTTTTTTTCAAAAAATCAACTCATAATATAGAGGTGAGTTGA
66 CTGAGGTATTTTTTAAATTTTTG-TTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGA
*
19985051 GCCTCGGATCACGCTGAGGTATTT
130 GCCTCGGGTCACGCTGAGGTATTT
* *
19985075 TTTTAATTTTTGTTTTTTCAAAAAATCAACTCATAATACAAAGGTGAGTTGAGCCTCGGGTCACG
1 TTTTAATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACG
*
19985140 CTGAGGTA-TTTTTAAATTTCTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAG
66 CTGAGGTATTTTTTAAATTTTTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAG
19985204 CCTCGGGTCACGCTGAGGTATTTT
131 CCTCGGGTCACGCTGAGGTA-TTT
** **
19985228 TTTTAATTTCTG-TTTTTCAAAAAATCAACTC---AT--A-A--TGAGTTGAGCC-CGGACCATA
1 TTTTAATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACG
* *
19985283 CTGAGGTATTTCTTTTAAATTTCTG--TTTTTC-ACAAATCAACTCATAATACAGAGGTGAGTTG
66 CTGAGGTA-TT-TTTTAAATTTTTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTG
19985345 AGCCTCGGGTCACGCTGAGGTATTTT
129 AGCCTCGGGTCACGCTGAGGTA-TTT
* *
19985371 TTTTAAATTTCTGTTTTTTCAAAAAATCAGCTCATAATACAGAGGTGAGTTGAGCCTCGGATCAC
1 TTTT-AATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAC
*
19985436 GCTGAGGTATTTTTTTTTAATTTTTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTT
65 GCTGAGGTA--TTTTTTAAATTTTTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTT
*
19985501 AAGCCTCGGGTCACGCTGAGGTA-TT
128 GAGCCTCGGGTCACGCTGAGGTATTT
*
19985526 TTTAAATTTCTGTTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTAATTTCTG-TTTTTTC-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
* * * **
19985591 CGCTGAGGTATTTTTTTAATTTCT-ATTTTTTCAAAAAATCAACTCATAATTTAGAGGTGAGTTG
64 CGCTGAGGTATTTTTTAAATTTTTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTG
* ** * *
19985655 AGCCTCGGGCCATACGGAGGTGTTT
129 AGCCTCGGGTCACGCTGAGGTATTT
* * *
19985680 CTTTTAAATTTCTG-TTTTTC-ACAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 -TTTT-AATTTCTGTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTC
*
19985743 ACACGTCGAGGTATTTTT
63 ACGC-T-GAGGTATTTTT
19985761 CAATTTCTAT
Statistics
Matches: 619, Mismatches: 39, Indels: 53
0.87 0.05 0.07
Matches are distributed among these distances:
143 73 0.12
144 25 0.04
145 19 0.03
146 14 0.02
147 1 0.00
148 2 0.00
149 2 0.00
150 1 0.00
151 1 0.00
152 99 0.16
153 181 0.29
154 55 0.09
155 29 0.05
156 66 0.11
157 51 0.08
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (153 bp):
TTTTAATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACG
CTGAGGTATTTTTTAAATTTTTGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAG
CCTCGGGTCACGCTGAGGTATTT
Found at i:19986292 original size:29 final size:29
Alignment explanation
Indices: 19986155--19986295 Score: 140
Period size: 30 Copynumber: 4.8 Consensus size: 29
19986145 TGTACTTTTT
*
19986155 AAAATTTACATTTTGACCCCAAACTTT-TC
1 AAAA-TTACATTTTGACCCTAAACTTTCTC
**
19986184 TAAAATTACATTTCAACCCCTAAACTTTCTC
1 -AAAATTACATTTTGA-CCCTAAACTTTCTC
* *
19986215 AAAATTACACTTTGACCACTAAACTTTCTA
1 AAAATTACATTTTGACC-CTAAACTTTCTC
* * * * *
19986245 AAAATTACATCTTGGCCCTATATTTTCCC
1 AAAATTACATTTTGACCCTAAACTTTCTC
*
19986274 AAAATTACATTTTTACCCTAAA
1 AAAATTACATTTTGACCCTAAA
19986296 TATTTTGTGT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
29 37 0.41
30 51 0.57
31 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTAAACTTTCTC
Found at i:19987045 original size:24 final size:25
Alignment explanation
Indices: 19987004--19987051 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
19986994 TTGAAAGAAA
* **
19987004 AAAACAAAGTAGCCAAAAA-AAAAT
1 AAAACAAAGCAGAAAAAAATAAAAT
19987028 AAAACAAAGCAGAAAAAAATAAAA
1 AAAACAAAGCAGAAAAAAATAAAA
19987052 ATAGAAGCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.75, C:0.10, G:0.08, T:0.06
Consensus pattern (25 bp):
AAAACAAAGCAGAAAAAAATAAAAT
Found at i:19987756 original size:17 final size:17
Alignment explanation
Indices: 19987713--19987760 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
19987703 AAATAAATAA
19987713 TCGTGTTTCAAAAGTTT
1 TCGTGTTTCAAAAGTTT
*
19987730 TCATGTTTTCAAAA-TTT
1 TCGTG-TTTCAAAAGTTT
19987747 CTCGTGTTTCAAAA
1 -TCGTGTTTCAAAA
19987761 AATAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (17 bp):
TCGTGTTTCAAAAGTTT
Found at i:19987854 original size:17 final size:18
Alignment explanation
Indices: 19987826--19987875 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
19987816 ACAGTTTCCC
19987826 TGTTTC-AAA-TTT-TCG
1 TGTTTCAAAATTTTCTCG
19987841 TGTTTTCAAAATTTTCTCG
1 TG-TTTCAAAATTTTCTCG
19987860 TGTTTCAAAAATTTTC
1 TGTTTC-AAAATTTTC
19987876 AAATTTTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.07
16 4 0.13
17 3 0.10
18 7 0.23
19 14 0.47
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (18 bp):
TGTTTCAAAATTTTCTCG
Found at i:19987862 original size:19 final size:19
Alignment explanation
Indices: 19987838--19988223 Score: 108
Period size: 17 Copynumber: 20.7 Consensus size: 19
19987828 TTTCAAATTT
19987838 TCGTGTTTTC-AAAATTTTC
1 TCGTG-TTTCAAAAATTTTC
19987857 TCGTGTTTCAAAAATTTTC
1 TCGTGTTTCAAAAATTTTC
19987876 AAATTTTCGTGTTTTCAAAAATTTTC
1 ------TCGTG-TTTCAAAAATTTTC
* * **
19987902 T-TTTTTTCAAAAAAAAAATTC
1 TCGTGTTTC---AAAAATTTTC
*
19987923 TCGTATTT-AAAAATTTT-
1 TCGTGTTTCAAAAATTTTC
*
19987940 TCGCGTTTTCAAAAA-TTT-
1 TCGTG-TTTCAAAAATTTTC
*
19987958 TCGTGTTTTCTAAAAA-CTT-
1 TCGTG-TTTC-AAAAATTTTC
** * *
19987977 TCGCATTTCACAAATCTTC
1 TCGTGTTTCAAAAATTTTC
**
19987996 AT-GT-TTTCAAAAAAAATTC
1 -TCGTGTTTC-AAAAATTTTC
* * *
19988015 TCGCGTTTCACAAATCTTC
1 TCGTGTTTCAAAAATTTTC
**
19988034 AT-GT-TTTCAAAAAAAAATTC
1 -TCGTGTTTC--AAAAATTTTC
* *
19988054 TCGTGTTTCAAAAA--ATG
1 TCGTGTTTCAAAAATTTTC
*
19988071 TCGTGTTTTAAAAATTTT-
1 TCGTGTTTCAAAAATTTTC
*
19988089 T-GTGTTTCTAAAA-TTT-
1 TCGTGTTTCAAAAATTTTC
*
19988105 TCGTGTTTTAAAAA--TTC
1 TCGTGTTTCAAAAATTTTC
*** *
19988122 TCGTGTTTCAAAAAAAATG
1 TCGTGTTTCAAAAATTTTC
* *
19988141 TTGTGTTTTAAAAA-TTT-
1 TCGTGTTTCAAAAATTTTC
*
19988158 TCGTGTTTCTAAAA-TTT-
1 TCGTGTTTCAAAAATTTTC
**
19988175 TCGTGTTT-AAAAAAATTC
1 TCGTGTTTCAAAAATTTTC
19988193 TCGTGTTTTCAAAAA--TTC
1 TCGTG-TTTCAAAAATTTTC
19988211 TCGTGTTT-AAAAA
1 TCGTGTTTCAAAAA
19988224 AACTTTCGTT
Statistics
Matches: 284, Mismatches: 47, Indels: 75
0.70 0.12 0.18
Matches are distributed among these distances:
16 15 0.05
17 81 0.29
18 61 0.21
19 70 0.25
20 21 0.07
21 13 0.05
22 4 0.01
25 5 0.02
26 14 0.05
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (19 bp):
TCGTGTTTCAAAAATTTTC
Found at i:19987895 original size:26 final size:28
Alignment explanation
Indices: 19987843--19987901 Score: 88
Period size: 26 Copynumber: 2.2 Consensus size: 28
19987833 AATTTTCGTG
19987843 TTTTCAAAATTTTCTCGTGTTTCAAAAA
1 TTTTCAAAATTTTCTCGTGTTTCAAAAA
19987871 TTTTC-AAA-TTT-TCGTGTTTTCAAAAA
1 TTTTCAAAATTTTCTCGTG-TTTCAAAAA
19987897 TTTTC
1 TTTTC
19987902 TTTTTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 5 0.17
26 17 0.57
27 3 0.10
28 5 0.17
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.51
Consensus pattern (28 bp):
TTTTCAAAATTTTCTCGTGTTTCAAAAA
Found at i:19987897 original size:18 final size:18
Alignment explanation
Indices: 19987876--19988243 Score: 202
Period size: 18 Copynumber: 20.2 Consensus size: 18
19987866 AAAAATTTTC
19987876 AAATTTTCGTGTTTTCAA
1 AAATTTTCGTGTTTTCAA
* *
19987894 AAATTTTCTTTTTTTCAAAAAAA
1 AAATTTTCGTGTTTTC-----AA
* *
19987917 AAATTCTCGT-ATTT-AA
1 AAATTTTCGTGTTTTCAA
*
19987933 AAATTTTTCGCGTTTTCAA
1 AAA-TTTTCGTGTTTTCAA
19987952 AAATTTTCGTGTTTTCTAA
1 AAATTTTCGTGTTTTC-AA
* ** *
19987971 AAACTTTCG-CATTTCAC
1 AAATTTTCGTGTTTTCAA
* *
19987988 AAATCTTCATGTTTTCAAAAA
1 AAATTTTCGTGTTTTC---AA
* * *
19988009 AAATTCTCGCG-TTTCAC
1 AAATTTTCGTGTTTTCAA
* *
19988026 AAATCTTCATGTTTTCAAAAAA
1 AAATTTTCGTGTTTTC----AA
*
19988048 AAATTCTCGTG-TTTCAA
1 AAATTTTCGTGTTTTCAA
* *
19988065 AAAATGTCGTGTTTT-AA
1 AAATTTTCGTGTTTTCAA
* *
19988082 AAATTTTTGTG-TTTCTA
1 AAATTTTCGTGTTTTCAA
19988099 AAATTTTCGTGTTTT-AA
1 AAATTTTCGTGTTTTCAA
*
19988116 AAATTCTCGTG-TTTCAAAAA
1 AAATTTTCGTGTTTTC---AA
*
19988136 AAATGTT-GTGTTTT-AA
1 AAATTTTCGTGTTTTCAA
*
19988152 AAATTTTCGTG-TTTCTA
1 AAATTTTCGTGTTTTCAA
**
19988169 AAATTTTCGTGTTTAAAA
1 AAATTTTCGTGTTTTCAA
*
19988187 AAATTCTCGTGTTTTCAA
1 AAATTTTCGTGTTTTCAA
* **
19988205 AAATTCTCGTGTTTAAAA
1 AAATTTTCGTGTTTTCAA
* * *
19988223 AAACTTTCGTTTTTTTAA
1 AAATTTTCGTGTTTTCAA
19988241 AAA
1 AAA
19988244 ATTCATGCTT
Statistics
Matches: 263, Mismatches: 58, Indels: 58
0.69 0.15 0.15
Matches are distributed among these distances:
16 22 0.08
17 78 0.30
18 97 0.37
19 18 0.07
20 14 0.05
21 12 0.05
22 12 0.05
23 10 0.04
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (18 bp):
AAATTTTCGTGTTTTCAA
Found at i:19987908 original size:26 final size:25
Alignment explanation
Indices: 19987851--19987909 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
19987841 TGTTTTCAAA
*
19987851 ATTTTCTCGTGTTTCAAAAATTTTC
1 ATTTTTTCGTGTTTCAAAAATTTTC
**
19987876 AAATTTTCGTGTTTTCAAAAATTTTC
1 ATTTTTTCGTG-TTTCAAAAATTTTC
*
19987902 TTTTTTTC
1 ATTTTTTC
19987910 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.56
Consensus pattern (25 bp):
ATTTTTTCGTGTTTCAAAAATTTTC
Found at i:19988062 original size:39 final size:38
Alignment explanation
Indices: 19987931--19988063 Score: 153
Period size: 38 Copynumber: 3.5 Consensus size: 38
19987921 TCTCGTATTT
* * * * * *
19987931 AAAAATTTTTCGCGTTTTCAAAAATTTTCGTGTTTTC-T
1 AAAAAATTCTCGCG-TTTCACAAATCTTCATGTTTTCAA
* *
19987969 AAAAACTT-TCGCATTTCACAAATCTTCATGTTTTCAA
1 AAAAAATTCTCGCGTTTCACAAATCTTCATGTTTTCAA
19988006 AAAAAATTCTCGCGTTTCACAAATCTTCATGTTTTCAAA
1 AAAAAATTCTCGCGTTTCACAAATCTTCATGTTTTC-AA
*
19988045 AAAAAATTCTCGTGTTTCA
1 AAAAAATTCTCGCGTTTCA
19988064 AAAAATGTCG
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
36 19 0.23
37 11 0.13
38 33 0.40
39 20 0.24
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (38 bp):
AAAAAATTCTCGCGTTTCACAAATCTTCATGTTTTCAA
Found at i:19988074 original size:17 final size:17
Alignment explanation
Indices: 19988046--19988223 Score: 171
Period size: 17 Copynumber: 10.3 Consensus size: 17
19988036 GTTTTCAAAA
*
19988046 AAAAATTCTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* * *
19988063 AAAAAATGTCGTGTTTT
1 AAAAATTTTCGTGTTTC
*
19988080 AAAAATTTTTGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
19988097 TAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTC
*
19988114 AAAAATTCTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
19988131 AAAAAAAATGTT-GTGTTTT
1 ---AAAAATTTTCGTGTTTC
19988150 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
19988167 TAAAATTTTCGTGTTTAA
1 AAAAATTTTCGTGTTT-C
*
19988185 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
19988203 AAAAATTCTCGTGTTT-
1 AAAAATTTTCGTGTTTC
19988219 AAAAA
1 AAAAA
19988224 AACTTTCGTT
Statistics
Matches: 132, Mismatches: 23, Indels: 13
0.79 0.14 0.08
Matches are distributed among these distances:
16 13 0.10
17 79 0.60
18 24 0.18
19 9 0.07
20 7 0.05
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:19988151 original size:70 final size:71
Alignment explanation
Indices: 19988044--19988207 Score: 271
Period size: 70 Copynumber: 2.3 Consensus size: 71
19988034 ATGTTTTCAA
*
19988044 AAAAAAATTCTCGTGTTTC--AAAAAATGTCGTGTTTTAAAAATTTTTGTGTTTCTAAAATTTTC
1 AAAAAAATTCTCGTGTTTCAAAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTTC
19988107 GTGTTT
66 GTGTTT
* *
19988113 -TAAAAATTCTCGTGTTTCAAAAAAAATGTTGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTTC
1 AAAAAAATTCTCGTGTTTCAAAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTTC
19988177 GTGTTT
66 GTGTTT
19988183 AAAAAAATTCTCGTGTTTTCAAAAA
1 AAAAAAATTCTCGTG-TTTCAAAAA
19988208 TTCTCGTGTT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
68 17 0.20
70 48 0.55
71 13 0.15
72 9 0.10
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (71 bp):
AAAAAAATTCTCGTGTTTCAAAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTTC
GTGTTT
Found at i:19988160 original size:53 final size:52
Alignment explanation
Indices: 19988046--19988275 Score: 195
Period size: 53 Copynumber: 4.4 Consensus size: 52
19988036 GTTTTCAAAA
* * * * *
19988046 AAAAATTCTCGTGTTTCAAAAAATGTCGTGTTT-TAAAAATTTTTGTGTTTCT
1 AAAAATTCTCGTGTTTTAAAAATTCTCGTGTTTAAAAAAATTCTTGTGTTT-T
* * *
19988098 -AAAATTTTCGTGTTTTAAAAATTCTCGTGTTTCAAAAAAAATGTTGTGTTTT
1 AAAAATTCTCGTGTTTTAAAAATTCTCGTGTTT-AAAAAAATTCTTGTGTTTT
* * *
19988150 AAAAATTTTCGTGTTTCT-AAAATTTTCGTGTTTAAAAAAATTCTCGTGTTTT
1 AAAAATTCTCGTGTTT-TAAAAATTCTCGTGTTTAAAAAAATTCTTGTGTTTT
* * * * *
19988202 CAAAAATTCTCGTGTTTAAAAAAACTT-TCGTTTTTTTAAAAAATTC--ATG-CTT
1 -AAAAATTCTCGTGTTT-TAAAAA-TTCTCG-TGTTTAAAAAAATTCTTGTGTTTT
*
19988254 CAAAATTCTCGTGTTTTAAAAA
1 AAAAATTCTCGTGTTTTAAAAA
19988276 AAATTTTCTC
Statistics
Matches: 150, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
50 5 0.03
51 43 0.29
52 19 0.13
53 60 0.40
54 8 0.05
55 15 0.10
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.45
Consensus pattern (52 bp):
AAAAATTCTCGTGTTTTAAAAATTCTCGTGTTTAAAAAAATTCTTGTGTTTT
Found at i:19989998 original size:25 final size:24
Alignment explanation
Indices: 19989970--19990061 Score: 69
Period size: 25 Copynumber: 3.7 Consensus size: 24
19989960 ACAGACCACA
* *
19989970 GCTCTTATGAGCGTCCTGATACTTG
1 GCTCTTATAAGCTTCCTGATA-TTG
* * *
19989995 GCTCTCATAAGCTTTCC-GTTATTTA
1 GCTCTTATAAGC-TTCCTGATA-TTG
* *
19990020 GCTCTTATAAGCATCCCGATATATG
1 GCTCTTATAAGCTTCCTGATAT-TG
*
19990045 GCTCTTATGAGCTTCCT
1 GCTCTTATAAGCTTCCT
19990062 AATTAATGGC
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
24 4 0.08
25 44 0.86
26 3 0.06
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (24 bp):
GCTCTTATAAGCTTCCTGATATTG
Found at i:19990107 original size:23 final size:23
Alignment explanation
Indices: 19990067--19990114 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
19990057 TTCCTAATTA
* * *
19990067 ATGGCTCTCTAGAGCTTCTCGAT
1 ATGGCTCGCTAGAACTTCCCGAT
*
19990090 ATGGCTCGCTTGAACTTCCCGAT
1 ATGGCTCGCTAGAACTTCCCGAT
19990113 AT
1 AT
19990115 ATAGCTATCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (23 bp):
ATGGCTCGCTAGAACTTCCCGAT
Found at i:19990359 original size:26 final size:25
Alignment explanation
Indices: 19990328--19990403 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 25
19990318 ACAGCTCTTA
19990328 TGAGCTCTCC-ATTATATGGCTCTTCG
1 TGAGCT-TCCAATTA-ATGGCTCTTCG
* * *
19990354 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTT-CCAATTAATGGCTCTTCG
19990380 TGAGCTTCCTAATTAATGGCTCTT
1 TGAGCTTCC-AATTAATGGCTCTT
19990404 TAGAGCTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 3 0.07
26 36 0.84
27 4 0.09
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (25 bp):
TGAGCTTCCAATTAATGGCTCTTCG
Found at i:19990404 original size:26 final size:26
Alignment explanation
Indices: 19990338--19990404 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
19990328 TGAGCTCTCC
* *
19990338 ATTATATGGCTCTTCGTGAGCTTCCCG
1 ATTA-ATGGCTCTTTGTGAGCTTCCCA
* *
19990365 ATTAAAGGCTCTTTGTGAGCTTCCTA
1 ATTAATGGCTCTTTGTGAGCTTCCCA
19990391 ATTAATGGCTCTTT
1 ATTAATGGCTCTTT
19990405 AGAGCTTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 31 0.89
27 4 0.11
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (26 bp):
ATTAATGGCTCTTTGTGAGCTTCCCA
Found at i:19994397 original size:26 final size:25
Alignment explanation
Indices: 19994345--19994406 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 25
19994335 CCTATAAGTG
19994345 TTCTGAAACTATACATGCTATGATA
1 TTCTGAAACTATACATGCTATGATA
* * *
19994370 TTCTAAAACTGATATATGTTATGATA
1 TTCTGAAACT-ATACATGCTATGATA
19994396 TTCTGAAACTA
1 TTCTGAAACTA
19994407 CTGTAGGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 10 0.31
26 22 0.69
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (25 bp):
TTCTGAAACTATACATGCTATGATA
Found at i:20001190 original size:19 final size:19
Alignment explanation
Indices: 20001163--20001201 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
20001153 TTATTCCAGC
*
20001163 AACTTAATTAACGAAGATG
1 AACTCAATTAACGAAGATG
*
20001182 AACTCAATTAACTAAGATG
1 AACTCAATTAACGAAGATG
20001201 A
1 A
20001202 GTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.26
Consensus pattern (19 bp):
AACTCAATTAACGAAGATG
Found at i:20003170 original size:140 final size:141
Alignment explanation
Indices: 20002907--20003188 Score: 557
Period size: 140 Copynumber: 2.0 Consensus size: 141
20002897 CTTAACTTAA
20002907 AAGTTCGGGGCATAAAAATTTACTTTCAAATTTAATTTCATCATTCATAATAAAGTTGTCCACCT
1 AAGTTCGGGGCATAAAAATTTACTTTCAAATTTAATTTCATCATTCATAATAAAGTTGTCCACCT
20002972 ATACAGTAGTCACTAAAATAATTATAATTCAAGATACGAAACTTGAAATTTAGATCCGTAAATTT
66 ATACAGTAGTCACTAAAATAATTATAATTCAAGATACGAAACTTGAAATTTAGATCCGTAAATTT
20003037 TCCCTGAAACT
131 TCCCTGAAACT
20003048 AAGTTCGGGG-ATAAAAATTTACTTTCAAATTTAATTTCATCATTCATAATAAAGTTGTCCACCT
1 AAGTTCGGGGCATAAAAATTTACTTTCAAATTTAATTTCATCATTCATAATAAAGTTGTCCACCT
20003112 ATACAGTAGTCACTAAAATAATTATAATTCAAGATACGAAACTTGAAATTTAGATCCGTAAATTT
66 ATACAGTAGTCACTAAAATAATTATAATTCAAGATACGAAACTTGAAATTTAGATCCGTAAATTT
20003177 TCCCTGAAACT
131 TCCCTGAAACT
20003188 A
1 A
20003189 GACTCATATA
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
140 131 0.93
141 10 0.07
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (141 bp):
AAGTTCGGGGCATAAAAATTTACTTTCAAATTTAATTTCATCATTCATAATAAAGTTGTCCACCT
ATACAGTAGTCACTAAAATAATTATAATTCAAGATACGAAACTTGAAATTTAGATCCGTAAATTT
TCCCTGAAACT
Found at i:20004375 original size:50 final size:48
Alignment explanation
Indices: 20004300--20004440 Score: 184
Period size: 44 Copynumber: 3.0 Consensus size: 48
20004290 CCTCTTATCA
*
20004300 CTTGTCCTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTCCG
1 CTTGTCC-TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT--G
*
20004350 CTTGTCACTGATCAGATAAGTGTAGCTAATGCTACCACTTATCAC-TTG
1 CTTGTC-CTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTG
*
20004398 C-CG--CTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
1 CTTGTCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
20004441 NNNNNNNNNN
Statistics
Matches: 85, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
44 37 0.44
45 1 0.01
47 1 0.01
48 2 0.02
50 27 0.32
51 17 0.20
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (48 bp):
CTTGTCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTG
Found at i:20032981 original size:31 final size:31
Alignment explanation
Indices: 20032940--20032998 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
20032930 ATTTAATGGA
* *
20032940 GAGTGGCCAAAATAGAAATGATCTAAAATGT
1 GAGTGACCAAAATAAAAATGATCTAAAATGT
*
20032971 GAGTGACCAAAATAAAAATGATTTAAAA
1 GAGTGACCAAAATAAAAATGATCTAAAA
20032999 CATTAATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (31 bp):
GAGTGACCAAAATAAAAATGATCTAAAATGT
Found at i:20037991 original size:20 final size:20
Alignment explanation
Indices: 20037924--20038025 Score: 65
Period size: 20 Copynumber: 5.4 Consensus size: 20
20037914 TTTATTTTAC
20037924 AATTTTTA-AA-TTTTTAAT
1 AATTTTTACAACTTTTTAAT
* * *
20037942 GATTTTCACAA-TCTTT--T
1 AATTTTTACAACTTTTTAAT
* *
20037959 AATTTGT-CAAACTTTTTGAT
1 AATTTTTAC-AACTTTTTAAT
*
20037979 AATTTTTACAACTTATTAAT
1 AATTTTTACAACTTTTTAAT
* **
20037999 -ATTTTTATAGTTTTTTAAT
1 AATTTTTACAACTTTTTAAT
20038018 AATTTTTA
1 AATTTTTA
20038026 ATTTTTTCTA
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
16 1 0.02
17 7 0.11
18 10 0.16
19 21 0.33
20 23 0.37
21 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (20 bp):
AATTTTTACAACTTTTTAAT
Found at i:20038729 original size:17 final size:17
Alignment explanation
Indices: 20038707--20038768 Score: 58
Period size: 16 Copynumber: 3.7 Consensus size: 17
20038697 TGTTGGGTCG
20038707 AATTTATAATAAATTAA
1 AATTTATAATAAATTAA
*
20038724 AATTTAAAAT-AATTAA
1 AATTTATAATAAATTAA
* *
20038740 AA-TCATAA-ATAATTTA
1 AATTTATAATA-AATTAA
20038756 AATTTATTAATAA
1 AATTTA-TAATAA
20038769 CACAGTTCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
15 4 0.11
16 15 0.43
17 11 0.31
18 4 0.11
19 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTTATAATAAATTAA
Found at i:20042206 original size:19 final size:18
Alignment explanation
Indices: 20042175--20042219 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
20042165 ACAAATGGAA
20042175 ATGAAATTAAAATGAAAT
1 ATGAAATTAAAATGAAAT
*
20042193 GTGAAATGTAAAATGAAAT
1 ATGAAAT-TAAAATGAAAT
20042212 ATGAAATT
1 ATGAAATT
20042220 GTGGAATGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.29
Consensus pattern (18 bp):
ATGAAATTAAAATGAAAT
Found at i:20050592 original size:30 final size:28
Alignment explanation
Indices: 20050538--20050597 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 28
20050528 CCGCATGGTC
*
20050538 TGAGACACATGCATGTGACTCAGCCGTG
1 TGAGACACATGCATGTGACACAGCCGTG
*
20050566 TGAGACACATGGCTTGGTGACACAGCCGTG
1 TGAGACACAT-GCAT-GTGACACAGCCGTG
20050596 TG
1 TG
20050598 TCATCAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.36
29 3 0.11
30 15 0.54
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (28 bp):
TGAGACACATGCATGTGACACAGCCGTG
Found at i:20051666 original size:7 final size:7
Alignment explanation
Indices: 20051654--20051759 Score: 59
Period size: 7 Copynumber: 15.0 Consensus size: 7
20051644 AAAAGAATAT
20051654 AATTGAG
1 AATTGAG
20051661 AATTGAG
1 AATTGAG
* * *
20051668 AAATAAT
1 AATTGAG
*
20051675 AATTAAG
1 AATTGAG
*
20051682 GATTGAGG
1 AATTGA-G
*
20051690 ATTTGAG
1 AATTGAG
*
20051697 GATTGAG
1 AATTGAG
*
20051704 GATTGAG
1 AATTGAG
*
20051711 AATTAAG
1 AATTGAG
* *
20051718 AAATGAA
1 AATTGAG
*
20051725 AATTGGG
1 AATTGAG
*
20051732 GATTGAG
1 AATTGAG
*
20051739 TATTGAG
1 AATTGAG
*
20051746 TATTGAG
1 AATTGAG
*
20051753 TATTGAG
1 AATTGAG
20051760 TTGAAAAGAA
Statistics
Matches: 76, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
7 71 0.93
8 5 0.07
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (7 bp):
AATTGAG
Found at i:20051697 original size:8 final size:7
Alignment explanation
Indices: 20051680--20051759 Score: 61
Period size: 7 Copynumber: 11.3 Consensus size: 7
20051670 ATAATAATTA
20051680 AGGATTG
1 AGGATTG
20051687 AGGATTTG
1 AGGA-TTG
20051695 AGGATTG
1 AGGATTG
20051702 AGGATTG
1 AGGATTG
* *
20051709 AGAATTA
1 AGGATTG
* *
20051716 AGAAATG
1 AGGATTG
**
20051723 AAAATTG
1 AGGATTG
*
20051730 GGGATTG
1 AGGATTG
*
20051737 AGTATTG
1 AGGATTG
*
20051744 AGTATTG
1 AGGATTG
*
20051751 AGTATTG
1 AGGATTG
20051758 AG
1 AG
20051760 TTGAAAAGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 54 0.89
8 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.34, T:0.31
Consensus pattern (7 bp):
AGGATTG
Found at i:20053530 original size:22 final size:22
Alignment explanation
Indices: 20053502--20053545 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20053492 ATTAAGCTAC
20053502 AACGTCCACAAAAACATAAAAT
1 AACGTCCACAAAAACATAAAAT
20053524 AACGTCCACAAAAACATAAAAT
1 AACGTCCACAAAAACATAAAAT
20053546 TTATGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.23, G:0.05, T:0.14
Consensus pattern (22 bp):
AACGTCCACAAAAACATAAAAT
Found at i:20058021 original size:12 final size:13
Alignment explanation
Indices: 20057988--20058030 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
20057978 AATATGAGTG
*
20057988 AAAATAATTATAT
1 AAAAAAATTATAT
*
20058001 AACAAAATTATA-
1 AAAAAAATTATAT
*
20058013 AAAAAAATTACAT
1 AAAAAAATTATAT
20058026 AAAAA
1 AAAAA
20058031 TCAAATATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAAAATTATAT
Found at i:20058801 original size:20 final size:19
Alignment explanation
Indices: 20058777--20058825 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
20058767 TTTTTTAATT
*
20058777 ATTTTAGAA-ATTGTTTATA
1 ATTTTAGAATATT-TTTAGA
*
20058796 ATTTTTATAATATTTTTAGA
1 A-TTTTAGAATATTTTTAGA
20058816 ATTTTAGAAT
1 ATTTTAGAAT
20058826 TTTAATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 9 0.36
20 13 0.52
21 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (19 bp):
ATTTTAGAATATTTTTAGA
Found at i:20058855 original size:28 final size:27
Alignment explanation
Indices: 20058769--20058863 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 27
20058759 CTTTTTAATT
20058769 TTTTAATTA--TTTTAGAAATTGTTTATAA
1 TTTTAATTATTTTTTAGAAA---TTTATAA
* * * *
20058797 TTTTTATAATATTTTTAGAATTTTAGAA
1 TTTTAATTAT-TTTTTAGAAATTTATAA
*
20058825 TTTTAATTATTTTTTATAAATTTATATA
1 TTTTAATTATTTTTTAGAAATTTATA-A
*
20058853 TTTTAAATATT
1 TTTTAATTATT
20058864 ATTTGTTTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
27 13 0.25
28 32 0.60
31 8 0.15
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTTAATTATTTTTTAGAAATTTATAA
Found at i:20059778 original size:22 final size:20
Alignment explanation
Indices: 20059748--20059787 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20059738 CAAACTTATT
**
20059748 TTTTTAAAATTATAAAAATA
1 TTTTTAAAAAAATAAAAATA
20059768 TTTTTAAAAAAATAAAAATA
1 TTTTTAAAAAAATAAAAATA
20059788 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTTTAAAAAAATAAAAATA
Found at i:20060530 original size:17 final size:17
Alignment explanation
Indices: 20060505--20060538 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20060495 ATAAATTTAA
*
20060505 ATAATATTTTAAATTTT
1 ATAAAATTTTAAATTTT
*
20060522 ATAAAATTTTTAATTTT
1 ATAAAATTTTAAATTTT
20060539 TTTATAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATAAAATTTTAAATTTT
Found at i:20060532 original size:18 final size:18
Alignment explanation
Indices: 20060469--20060553 Score: 55
Period size: 20 Copynumber: 4.3 Consensus size: 18
20060459 GGTTACTATT
* *
20060469 ATTTTTGAATTTTATTTAAT
1 ATTTTTAAATTTTA--TAAA
*
20060489 ATTTTTATAAATTTA-AATA
1 ATTTTTA-AATTTTATAA-A
20060508 ATATTTTAAATTTTATAAA
1 AT-TTTTAAATTTTATAAA
*
20060527 ATTTTTAATTTTTTTATAAA
1 ATTTTTAA--ATTTTATAAA
20060547 ATATTTT
1 AT-TTTT
20060554 TTGTCATTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
18 8 0.15
19 11 0.21
20 24 0.45
21 10 0.19
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (18 bp):
ATTTTTAAATTTTATAAA
Found at i:20061440 original size:27 final size:27
Alignment explanation
Indices: 20061405--20061549 Score: 132
Period size: 27 Copynumber: 5.4 Consensus size: 27
20061395 AAGTACCTTA
* *
20061405 TGTTTACTGTCCCGACAGACTATTCCT
1 TGTTTACTGTCCCGACGGACTATCCCT
*
20061432 TGTATACTGTCCCAGA-GGACTA-CCCT
1 TGTTTACTGTCCC-GACGGACTATCCCT
* *
20061458 ATGTTTACTATCCCGACGGACTATCCCA
1 -TGTTTACTGTCCCGACGGACTATCCCT
* * * *
20061486 TGTTTACTGTCTCGTCGGACTACCCCA
1 TGTTTACTGTCCCGACGGACTATCCCT
* * * * *
20061513 TGTTTACTATCCTGACGGGCTACCCCG
1 TGTTTACTGTCCCGACGGACTATCCCT
20061540 TGTTTACTGT
1 TGTTTACTGT
20061550 TGCGGTGGAC
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
26 5 0.05
27 87 0.90
28 5 0.05
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (27 bp):
TGTTTACTGTCCCGACGGACTATCCCT
Found at i:20061494 original size:54 final size:54
Alignment explanation
Indices: 20061398--20061549 Score: 171
Period size: 54 Copynumber: 2.8 Consensus size: 54
20061388 CCTGACGAAG
* * * * * *
20061398 TACCTTATGTTTACTGTCCCGACAGACTATTCCTTGTATACTGTCCCAG-AGGAC
1 TACCCTATGTTTACTATCCCGACGGACTATCCCATGTTTACTGTCCC-GTAGGAC
* *
20061452 TACCCTATGTTTACTATCCCGACGGACTATCCCATGTTTACTGTCTCGTCGGAC
1 TACCCTATGTTTACTATCCCGACGGACTATCCCATGTTTACTGTCCCGTAGGAC
* * * * *
20061506 TACCCCATGTTTACTATCCTGACGGGCTACCCCGTGTTTACTGT
1 TACCCTATGTTTACTATCCCGACGGACTATCCCATGTTTACTGT
20061550 TGCGGTGGAC
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 83 0.99
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (54 bp):
TACCCTATGTTTACTATCCCGACGGACTATCCCATGTTTACTGTCCCGTAGGAC
Found at i:20065467 original size:24 final size:24
Alignment explanation
Indices: 20065432--20065503 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
20065422 TACTTGGGTA
20065432 ATTTTCCATCAATTCATCCTTTGC
1 ATTTTCCATCAATTCATCCTTTGC
*
20065456 ATTTTCCGTCAATTCATCCTTTGC
1 ATTTTCCATCAATTCATCCTTTGC
* *
20065480 ATTTACCTTCAATTCATCCTTTGC
1 ATTTTCCATCAATTCATCCTTTGC
20065504 CACAGAACGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.46
Consensus pattern (24 bp):
ATTTTCCATCAATTCATCCTTTGC
Found at i:20065886 original size:14 final size:15
Alignment explanation
Indices: 20065867--20065901 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
20065857 CTTTTGCAAT
20065867 TTAGTCCCTCACT-A
1 TTAGTCCCTCACTAA
20065881 TTAGTCCCTCACTAA
1 TTAGTCCCTCACTAA
20065896 TTAGTC
1 TTAGTC
20065902 TACCAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.23, C:0.31, G:0.09, T:0.37
Consensus pattern (15 bp):
TTAGTCCCTCACTAA
Found at i:20073883 original size:25 final size:27
Alignment explanation
Indices: 20073833--20073883 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
20073823 CCAAATTATG
*
20073833 GCTCTAAACACAACATATACTATATAT
1 GCTCTAAACACAACATATAATATATAT
20073860 GCTC-AAAC-CAACATTATAAT-TATA
1 GCTCTAAACACAACA-TATAATATATA
20073884 ACTCCATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 9 0.41
26 9 0.41
27 4 0.18
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (27 bp):
GCTCTAAACACAACATATAATATATAT
Found at i:20077543 original size:18 final size:18
Alignment explanation
Indices: 20077520--20077557 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
20077510 AAGTAATCAA
20077520 GTAAGCGACTTGGTTGAT
1 GTAAGCGACTTGGTTGAT
20077538 GTAAGCGACTTGGTTGAT
1 GTAAGCGACTTGGTTGAT
20077556 GT
1 GT
20077558 CTTAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.34, T:0.34
Consensus pattern (18 bp):
GTAAGCGACTTGGTTGAT
Found at i:20081282 original size:41 final size:41
Alignment explanation
Indices: 20081237--20081773 Score: 1056
Period size: 41 Copynumber: 13.1 Consensus size: 41
20081227 TATACTTAAA
*
20081237 GTTTAAACTTTATATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081278 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081319 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081360 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081401 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081442 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081483 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081524 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081565 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081606 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081647 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081688 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
*
20081729 GTTTAAACTTTCTATGAAGTCTAATTATTTTGAGATATATG
1 GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
20081770 GTTT
1 GTTT
20081774 CCTTTTCAAT
Statistics
Matches: 494, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 494 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (41 bp):
GTTTAAACTTTCTATGAAGTCTAATTCTTTTGAGATATATG
Found at i:20085679 original size:46 final size:46
Alignment explanation
Indices: 20085606--20085744 Score: 199
Period size: 46 Copynumber: 3.0 Consensus size: 46
20085596 ACATTGCTAT
*
20085606 AACTTAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
* *
20085652 AACTCAGTATGGTTTTCTTTATC-GAAATACCATACATACTTTTCAC
1 AACTCAGTATGGTTTTCTTCA-CGGAAATACCATACCTACTTTTCAC
** * *
20085698 AACTCAGTATGGTTTTCTTCACTAAAATACCATGCCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
20085744 A
1 A
20085745 CTTTTCCATG
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
45 1 0.01
46 81 0.98
47 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
Found at i:20087630 original size:24 final size:24
Alignment explanation
Indices: 20087602--20087649 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
20087592 TAATCTAAAA
20087602 TATCTCCAACA-CAATCATTATTTT
1 TATCTCCAACATC-ATCATTATTTT
20087626 TATCTCCAACATCATCATTATTTT
1 TATCTCCAACATCATCATTATTTT
20087650 CTAGATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (24 bp):
TATCTCCAACATCATCATTATTTT
Found at i:20090714 original size:19 final size:19
Alignment explanation
Indices: 20090690--20090727 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20090680 GTGTATTTTG
*
20090690 GGGTCTCTGTTTTCGTAAA
1 GGGTCTCCGTTTTCGTAAA
20090709 GGGTCTCCGTTTTCGTAAA
1 GGGTCTCCGTTTTCGTAAA
20090728 ACGGACTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.18, G:0.26, T:0.39
Consensus pattern (19 bp):
GGGTCTCCGTTTTCGTAAA
Found at i:20091105 original size:10 final size:10
Alignment explanation
Indices: 20091045--20091104 Score: 57
Period size: 11 Copynumber: 5.6 Consensus size: 10
20091035 AGAAAAAACT
20091045 AGAAAAAGAA
1 AGAAAAAGAA
*
20091055 AGAAAGAACAA
1 AGAAA-AAGAA
*
20091066 ACGAAACAGAA
1 A-GAAAAAGAA
*
20091077 GGGAAAAAGAA
1 -AGAAAAAGAA
20091088 AGAAAAAGAAA
1 AGAAAAAG-AA
20091099 AGAAAA
1 AGAAAA
20091105 GGAGAAACAC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
10 12 0.30
11 24 0.60
12 4 0.10
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Done.