Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 123 of 207
Found at i:37335959 original size:18 final size:18
Alignment explanation
Indices: 37335936--37335971 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
37335926 AGGGTTTGTT
37335936 TCACGTTCTCCCTTTCCC
1 TCACGTTCTCCCTTTCCC
37335954 TCACGTTCTCCCTTTCCC
1 TCACGTTCTCCCTTTCCC
37335972 AAGTAGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.50, G:0.06, T:0.39
Consensus pattern (18 bp):
TCACGTTCTCCCTTTCCC
Found at i:37338689 original size:23 final size:24
Alignment explanation
Indices: 37338644--37338689 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
37338634 TGAGATACTA
** *
37338644 ACCTTTTTGTTTATAATCTTTTTG
1 ACCTTTTCATTTATAATCATTTTG
37338668 ACCTTTTCATTTAT-ATCATTTT
1 ACCTTTTCATTTATAATCATTTT
37338690 CAAACTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.20, C:0.15, G:0.04, T:0.61
Consensus pattern (24 bp):
ACCTTTTCATTTATAATCATTTTG
Found at i:37338970 original size:33 final size:34
Alignment explanation
Indices: 37338943--37339011 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 34
37338933 GTTGCCACCA
*
37338943 CTAGTCGGATAAACCGACAATGAGTTGCGCCCAGCG
1 CTAGTCAGATAAACCGACAATGAGTTGCGCCCA--G
37338979 CTAGTCAGATAAACCGAC-ATGAGTTGCGCCCAG
1 CTAGTCAGATAAACCGACAATGAGTTGCGCCCAG
37339012 TGCTAGTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 1 0.03
35 14 0.44
36 17 0.53
ACGTcount: A:0.29, C:0.28, G:0.26, T:0.17
Consensus pattern (34 bp):
CTAGTCAGATAAACCGACAATGAGTTGCGCCCAG
Found at i:37338990 original size:36 final size:36
Alignment explanation
Indices: 37338943--37339033 Score: 139
Period size: 35 Copynumber: 2.6 Consensus size: 36
37338933 GTTGCCACCA
37338943 CTAGTCGGATAAACCGACAATGAGTTGCGCCCAGCG
1 CTAGTCGGATAAACCGACAATGAGTTGCGCCCAGCG
* *
37338979 CTAGTCAGATAAACCGAC-ATGAGTTGCGCCCAGTG
1 CTAGTCGGATAAACCGACAATGAGTTGCGCCCAGCG
* *
37339014 CTAGTTGGATAAACTGACAA
1 CTAGTCGGATAAACCGACAA
37339034 ATACATACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
35 31 0.63
36 18 0.37
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (36 bp):
CTAGTCGGATAAACCGACAATGAGTTGCGCCCAGCG
Found at i:37345602 original size:16 final size:17
Alignment explanation
Indices: 37345581--37345614 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
37345571 AATATTAGGG
*
37345581 GCAAAAGTGT-AATTTT
1 GCAAAAGTATGAATTTT
37345597 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
37345614 G
1 G
37345615 GACTGAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:37347172 original size:12 final size:12
Alignment explanation
Indices: 37347155--37347182 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
37347145 TTAGGTAGTT
37347155 ACACGGCCTAGC
1 ACACGGCCTAGC
37347167 ACACGGCCTAGC
1 ACACGGCCTAGC
37347179 ACAC
1 ACAC
37347183 AGGCGTGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.43, G:0.21, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:37349469 original size:27 final size:27
Alignment explanation
Indices: 37349414--37349467 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
37349404 TAATAATTTA
*
37349414 TTTTAAATATTTCATTAATAAATTGGG
1 TTTTAAATATTTCATTAATAAAGTGGG
*
37349441 TTTTAATTAATTT-ATTAATTAAAGTGG
1 TTTTAAAT-ATTTCATTAA-TAAAGTGG
37349468 TTAAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (27 bp):
TTTTAAATATTTCATTAATAAAGTGGG
Found at i:37366942 original size:131 final size:131
Alignment explanation
Indices: 37366708--37366970 Score: 508
Period size: 131 Copynumber: 2.0 Consensus size: 131
37366698 AAACAAAGGT
37366708 ATCAATAATTATTTTGTGGTATCGATATTTTATGAGAAAGTATCGATACTTAAATAAAAATCAAT
1 ATCAATAATTATTTTGTGGTATCGATATTTTATGAGAAAGTATCGATACTTAAATAAAAATCAAT
* *
37366773 ACCATTTTGATATTCTATTTATTTTAAGACTGTACATAATAACAAGTATCAATACCAATGCCAAA
66 ACCATTTTGATATTCTATTTATTTTAAGACTATACATAATAACAAGTATCAATACCAACGCCAAA
37366838 A
131 A
37366839 ATCAATAATTATTTTGTGGTATCGATATTTTATGAGAAAGTATCGATACTTAAATAAAAATCAAT
1 ATCAATAATTATTTTGTGGTATCGATATTTTATGAGAAAGTATCGATACTTAAATAAAAATCAAT
37366904 ACCATTTTGATATTCTATTTATTTTAAGACTATACATAATAACAAGTATCAATACCAACGCCAAA
66 ACCATTTTGATATTCTATTTATTTTAAGACTATACATAATAACAAGTATCAATACCAACGCCAAA
37366969 A
131 A
37366970 A
1 A
37366971 CATCGATACA
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 130 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.36
Consensus pattern (131 bp):
ATCAATAATTATTTTGTGGTATCGATATTTTATGAGAAAGTATCGATACTTAAATAAAAATCAAT
ACCATTTTGATATTCTATTTATTTTAAGACTATACATAATAACAAGTATCAATACCAACGCCAAA
A
Found at i:37372933 original size:19 final size:18
Alignment explanation
Indices: 37372898--37372945 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
37372888 AATTCACATC
*
37372898 TCATTTCATCATTTCATATT
1 TCATTTC-TCATCTCATA-T
37372918 TCATTTCTCATCTCATAT
1 TCATTTCTCATCTCATAT
37372936 TCATTTCTCA
1 TCATTTCTCA
37372946 ACTTTGTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 11 0.41
19 9 0.33
20 7 0.26
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.52
Consensus pattern (18 bp):
TCATTTCTCATCTCATAT
Found at i:37373690 original size:20 final size:20
Alignment explanation
Indices: 37373652--37373690 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37373642 TTACACAATT
*
37373652 CAATTTTCACATTAAATTTC
1 CAATTTTCACACTAAATTTC
* *
37373672 CAATTTTTACACTATATTT
1 CAATTTTCACACTAAATTT
37373691 GCATAAACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (20 bp):
CAATTTTCACACTAAATTTC
Found at i:37375805 original size:43 final size:43
Alignment explanation
Indices: 37375758--37376003 Score: 282
Period size: 43 Copynumber: 5.7 Consensus size: 43
37375748 ACGCAATTAA
** *
37375758 ACTAGCACACACAGTGCATCATCAAATAATACTAAAGCAACAT
1 ACTAGCACACACAGTGCATCATCGGATAATACTGAAGCAACAT
* *
37375801 ACTAGCACACATAGTGCATCATCGGATAA-AATCGAAGCAACAT
1 ACTAGCACACACAGTGCATCATCGGATAATACT-GAAGCAACAT
* * * * *
37375844 ACT-GCCACACATAGTGCATCATCGAATAA-AATCAAAGAAACAT
1 ACTAG-CACACACAGTGCATCATCGGATAATACT-GAAGCAACAT
* *
37375887 ACTAGCACACACAGTGTATCATCGGATAATACCGAAGCAACAT
1 ACTAGCACACACAGTGCATCATCGGATAATACTGAAGCAACAT
* * *
37375930 ACTGGCACACACAGTGCATCATCGGATAATACCGAAGCGACAT
1 ACTAGCACACACAGTGCATCATCGGATAATACTGAAGCAACAT
* * *
37375973 ACTGGCAGACATAGTGCATCATCGGATAATA
1 ACTAGCACACACAGTGCATCATCGGATAATA
37376004 TCAAAGTATA
Statistics
Matches: 179, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.02
43 174 0.97
44 2 0.01
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (43 bp):
ACTAGCACACACAGTGCATCATCGGATAATACTGAAGCAACAT
Found at i:37375908 original size:129 final size:129
Alignment explanation
Indices: 37375758--37376009 Score: 378
Period size: 129 Copynumber: 2.0 Consensus size: 129
37375748 ACGCAATTAA
* *
37375758 ACTAGCACACACAGTGCATCATCAAATAATACTAAAGCAACATACTAGCACACATAGTGCATCAT
1 ACTAGCACACACAGTGCATCATCAAATAATACCAAAGCAACATACTAGCACACACAGTGCATCAT
*
37375823 CGGATAAAATCGAAGCAACATACTGCCACACATAGTGCATCATCGAATAAAATCAAAGAAACAT
66 CGGATAAAACCGAAGCAACATACTGCCACACATAGTGCATCATCGAATAAAATCAAAGAAACAT
* ** * *
37375887 ACTAGCACACACAGTGTATCATCGGATAATACCGAAGCAACATACTGGCACACACAGTGCATCAT
1 ACTAGCACACACAGTGCATCATCAAATAATACCAAAGCAACATACTAGCACACACAGTGCATCAT
* * * * * *
37375952 CGGATAATACCGAAGCGACATACTGGCAGACATAGTGCATCATCGGATAATATCAAAG
66 CGGATAAAACCGAAGCAACATACTGCCACACATAGTGCATCATCGAATAAAATCAAAG
37376010 TATAACTTGC
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 109 1.00
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (129 bp):
ACTAGCACACACAGTGCATCATCAAATAATACCAAAGCAACATACTAGCACACACAGTGCATCAT
CGGATAAAACCGAAGCAACATACTGCCACACATAGTGCATCATCGAATAAAATCAAAGAAACAT
Found at i:37376002 original size:86 final size:86
Alignment explanation
Indices: 37375762--37376003 Score: 340
Period size: 86 Copynumber: 2.8 Consensus size: 86
37375752 AATTAAACTA
* *
37375762 GCACACACAGTGCATCATCAAATAATACTAAAGCAACATACTAGCACACATAGTGCATCATCGGA
1 GCACACACAGTGCATCATCGAATAATACCAAAGCAACATACTAGCACACATAGTGCATCATCGGA
* *
37375827 TAAAATCGAAGCAACATACTG
66 TAATACCGAAGCAACATACTG
* * * * * * *
37375848 CCACACATAGTGCATCATCGAATAAAATCAAAGAAACATACTAGCACACACAGTGTATCATCGGA
1 GCACACACAGTGCATCATCGAATAATACCAAAGCAACATACTAGCACACATAGTGCATCATCGGA
37375913 TAATACCGAAGCAACATACTG
66 TAATACCGAAGCAACATACTG
* * * * *
37375934 GCACACACAGTGCATCATCGGATAATACCGAAGCGACATACTGGCAGACATAGTGCATCATCGGA
1 GCACACACAGTGCATCATCGAATAATACCAAAGCAACATACTAGCACACATAGTGCATCATCGGA
37375999 TAATA
66 TAATA
37376004 TCAAAGTATA
Statistics
Matches: 133, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 133 1.00
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (86 bp):
GCACACACAGTGCATCATCGAATAATACCAAAGCAACATACTAGCACACATAGTGCATCATCGGA
TAATACCGAAGCAACATACTG
Found at i:37379419 original size:24 final size:23
Alignment explanation
Indices: 37379392--37379450 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 23
37379382 AAGCATCTCA
*
37379392 ATATTGGCTCTCTTGAGCTTCAT
1 ATATTGGCTCTCTGGAGCTTCAT
*
37379415 GATATATGGCTCTCTGGAGCTTCCT
1 -ATAT-TGGCTCTCTGGAGCTTCAT
37379440 ATTATTGGCTC
1 A-TATTGGCTC
37379451 ATATGAGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (23 bp):
ATATTGGCTCTCTGGAGCTTCAT
Found at i:37388133 original size:20 final size:21
Alignment explanation
Indices: 37388092--37388133 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37388082 CATAGATTAA
* *
37388092 TATAGTAGAATTATGAAGTTT
1 TATAGTAGAATAATGAAATTT
37388113 TATAGTAGAA-AATGAAATTT
1 TATAGTAGAATAATGAAATTT
37388133 T
1 T
37388134 GTTGATAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (21 bp):
TATAGTAGAATAATGAAATTT
Found at i:37388782 original size:24 final size:24
Alignment explanation
Indices: 37388732--37388782 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
37388722 AGCATCCCGT
* *
37388732 TATTAGCTCACATGATCATCTTGA
1 TATTAGCTCACATGATCATCCTAA
* * *
37388756 TATTAGCTCTCTTGATCTTCCTAA
1 TATTAGCTCACATGATCATCCTAA
37388780 TAT
1 TAT
37388783 ATGGCTCTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (24 bp):
TATTAGCTCACATGATCATCCTAA
Found at i:37388840 original size:27 final size:25
Alignment explanation
Indices: 37388772--37388840 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
37388762 CTCTCTTGAT
*
37388772 CTTCCTAATATATGGCTCTTTGGAG
1 CTTCCTGATATATGGCTCTTTGGAG
* * *
37388797 CTTCCCGAT-TAAAGGCTCTTTCATGAG
1 CTTCCTGATAT-ATGGCTCTTT--GGAG
37388824 CTTCCTGATATATGGCT
1 CTTCCTGATATATGGCT
37388841 ATCCGGAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
24 1 0.03
25 16 0.47
27 16 0.47
28 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
CTTCCTGATATATGGCTCTTTGGAG
Found at i:37392191 original size:37 final size:37
Alignment explanation
Indices: 37392141--37392219 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
37392131 TTATTACGAA
* * *
37392141 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
37392178 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
37392215 GTCTT
1 GTCTT
37392220 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:37392416 original size:47 final size:47
Alignment explanation
Indices: 37392338--37392795 Score: 783
Period size: 47 Copynumber: 9.7 Consensus size: 47
37392328 CCCTTCGGGA
* * * * * *
37392338 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37392385 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37392432 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37392479 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37392526 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37392573 CTTATGACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37392620 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37392667 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37392714 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37392761 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
37392796 AGAATCCTAA
Statistics
Matches: 393, Mismatches: 17, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
46 1 0.00
47 392 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37397116 original size:18 final size:18
Alignment explanation
Indices: 37397093--37397161 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 18
37397083 AATTTTTGTC
37397093 ATAAAATAATTAATTTTT
1 ATAAAATAATTAATTTTT
*
37397111 ATAAAATAATTAA--ATT
1 ATAAAATAATTAATTTTT
*
37397127 GT---AT---TAATTTTT
1 ATAAAATAATTAATTTTT
37397139 ATAAAATAATTAATTTTT
1 ATAAAATAATTAATTTTT
37397157 ATAAA
1 ATAAA
37397162 TTGCATGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
10 3 0.08
12 3 0.08
13 2 0.05
15 2 0.05
16 3 0.08
18 26 0.67
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (18 bp):
ATAAAATAATTAATTTTT
Found at i:37397163 original size:28 final size:28
Alignment explanation
Indices: 37397104--37397163 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
37397094 TAAAATAATT
*
37397104 AATTTTTATAAAATAATTAAATTGTATT
1 AATTTTTATAAAATAATTAAATTGTATA
* *
37397132 AATTTTTATAAAATAATTAATTTTTATA
1 AATTTTTATAAAATAATTAAATTGTATA
37397160 AATT
1 AATT
37397164 GCATGATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
AATTTTTATAAAATAATTAAATTGTATA
Found at i:37399280 original size:35 final size:32
Alignment explanation
Indices: 37399200--37399262 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
37399190 GTTTTGGGAC
37399200 CACAATTTTACGAGCAAGTTCGTAAATATTAA
1 CACAATTTTACGAGCAAGTTCGTAAATATTAA
37399232 CACAATTTTACGAGCAAGTTCGTAAATATTA
1 CACAATTTTACGAGCAAGTTCGTAAATATTA
37399263 TTATTTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (32 bp):
CACAATTTTACGAGCAAGTTCGTAAATATTAA
Found at i:37403795 original size:3 final size:3
Alignment explanation
Indices: 37403782--37403817 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
37403772 GTTAATTCAT
*
37403782 GAA GTA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
37403818 AATATGGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:37407952 original size:36 final size:36
Alignment explanation
Indices: 37407901--37407970 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
37407891 GCCACTACTA
*
37407901 CACATGGGCAATGGGTAGAGG-TTCAGAGTTTGTCGT
1 CACATGGGCAATGGGTAAAGGTTTC-GAGTTTGTCGT
37407937 CACATGGG-AAGTGGGTAAAGGTTTCGAGTTTGTC
1 CACATGGGCAA-TGGGTAAAGGTTTCGAGTTTGTC
37407971 ATCATGTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 2 0.06
36 26 0.84
37 3 0.10
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.29
Consensus pattern (36 bp):
CACATGGGCAATGGGTAAAGGTTTCGAGTTTGTCGT
Found at i:37435648 original size:6 final size:6
Alignment explanation
Indices: 37435634--37435674 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
37435624 TTTTTTTTAA
*
37435634 AAATAG AAATTG AAAATAG AATATAG AAATAG AAATAG AAA
1 AAATAG AAATAG -AAATAG AA-ATAG AAATAG AAATAG AAA
37435675 ACATTCTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.20
Consensus pattern (6 bp):
AAATAG
Found at i:37435651 original size:13 final size:13
Alignment explanation
Indices: 37435633--37435675 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
37435623 TTTTTTTTTA
*
37435633 AAAATAGAAATTG
1 AAAATAGAAATAG
37435646 AAAATAGAATATAG
1 AAAATAGAA-ATAG
37435660 -AAATAGAAATAG
1 AAAATAGAAATAG
37435672 AAAA
1 AAAA
37435676 CATTCTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 4 0.15
13 20 0.74
14 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (13 bp):
AAAATAGAAATAG
Found at i:37435659 original size:20 final size:19
Alignment explanation
Indices: 37435636--37435673 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
37435626 TTTTTTAAAA
*
37435636 ATAGAAATTGAAAATAGAAT
1 ATAGAAATAG-AAATAGAAT
37435656 ATAGAAATAGAAATAGAA
1 ATAGAAATAGAAATAGAA
37435674 AACATTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (19 bp):
ATAGAAATAGAAATAGAAT
Found at i:37442809 original size:22 final size:22
Alignment explanation
Indices: 37442761--37442809 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
37442751 GATCTGTTTA
37442761 TGGGACGATTGAGAGCCCCTCG
1 TGGGACGATTGAGAGCCCCTCG
* * *
37442783 GGGGACG-TATGAGAGCCCTTTG
1 TGGGACGAT-TGAGAGCCCCTCG
37442805 TGGGA
1 TGGGA
37442810 TGAATGGAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.18, C:0.20, G:0.41, T:0.20
Consensus pattern (22 bp):
TGGGACGATTGAGAGCCCCTCG
Found at i:37442888 original size:26 final size:26
Alignment explanation
Indices: 37442859--37442930 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
37442849 GGAAGTCTGA
37442859 AAGGACTATCTATTGTGGAAGTCCAC
1 AAGGACTATCTATTGTGGAAGTCCAC
* *
37442885 AAGGACTATCTATTGTGAAAGTCCGC
1 AAGGACTATCTATTGTGGAAGTCCAC
* * *
37442911 AAAGACTACCTATTGAGGAA
1 AAGGACTATCTATTGTGGAA
37442931 ATTCTATCGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (26 bp):
AAGGACTATCTATTGTGGAAGTCCAC
Found at i:37443794 original size:23 final size:22
Alignment explanation
Indices: 37443735--37443794 Score: 52
Period size: 23 Copynumber: 2.6 Consensus size: 22
37443725 AATGTGGATT
37443735 ACAAATAATAAACAATAGAATTTA
1 ACAAAT-ATAAACAATAG-ATTTA
*
37443759 ACACATA-ACAACAATAG-TTTAA
1 ACAAATATA-AACAATAGATTT-A
37443781 ACAAATCATAAACA
1 ACAAAT-ATAAACA
37443795 TACTAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 3 0.10
22 7 0.23
23 14 0.47
24 6 0.20
ACGTcount: A:0.60, C:0.15, G:0.03, T:0.22
Consensus pattern (22 bp):
ACAAATATAAACAATAGATTTA
Found at i:37444061 original size:49 final size:49
Alignment explanation
Indices: 37444008--37444102 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
37443998 CCATAAACAA
* *
37444008 AATATTGTGGTCTAGCCACAAGATAATGCAG-ATGCACAGCTAGATATAG
1 AATATTGTGGACAAGCCACAAGATAATGCAGAAT-CACAGCTAGATATAG
* * *
37444057 AATATTGTGGACAAGCCACTAGATAGTGCAGAATTACAGCTAGATA
1 AATATTGTGGACAAGCCACAAGATAATGCAGAATCACAGCTAGATA
37444103 CTTCCTCTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 38 0.95
50 2 0.05
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (49 bp):
AATATTGTGGACAAGCCACAAGATAATGCAGAATCACAGCTAGATATAG
Found at i:37444210 original size:36 final size:34
Alignment explanation
Indices: 37444170--37444266 Score: 97
Period size: 35 Copynumber: 2.7 Consensus size: 34
37444160 TTTTACAGTA
* *
37444170 GGCATGCTGTACATGCGAACCAAAATTAGAAATAAT
1 GGCATGCT-TACATGCGAATCAAAATCAG-AATAAT
* *
37444206 GGCATGCTCAACATGC-AAGTCAAAATCAGATTAAT
1 GGCATGCT-TACATGCGAA-TCAAAATCAGAATAAT
*
37444241 AGCATGCTTCACATGCGAATCAAAAT
1 GGCATGCTT-ACATGCGAATCAAAAT
37444267 ATCAGAGTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
35 27 0.53
36 24 0.47
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.23
Consensus pattern (34 bp):
GGCATGCTTACATGCGAATCAAAATCAGAATAAT
Found at i:37450464 original size:6 final size:6
Alignment explanation
Indices: 37450402--37450472 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
37450392 AAACATAAAC
* * * * ** *
37450402 AAATTA AAATAA AAATAA AAATTA AATTAA AACTAA AAGGAA AGATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
37450450 GAATAAA AAATAA AAATAA AAAT
1 AAAT-AA AAATAA AAATAA AAAT
37450473 TTTAAAATTT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
6 46 0.90
7 5 0.10
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:37462651 original size:25 final size:25
Alignment explanation
Indices: 37462622--37462715 Score: 98
Period size: 25 Copynumber: 3.8 Consensus size: 25
37462612 GTTACCAATT
*
37462622 TCAGCTCTTATGAGCTTACCGATAC
1 TCAGCTCGTATGAGCTTACCGATAC
* *
37462647 TCAGCTCGTATGAGCTTACCGTTAT
1 TCAGCTCGTATGAGCTTACCGATAC
* * * * *
37462672 TCAGCTCGGAGGATCTTACCGTTAT
1 TCAGCTCGTATGAGCTTACCGATAC
* *
37462697 TCAGCTCGAAGGAGCTTAC
1 TCAGCTCGTATGAGCTTAC
37462716 TGTTTACAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (25 bp):
TCAGCTCGTATGAGCTTACCGATAC
Found at i:37473501 original size:21 final size:20
Alignment explanation
Indices: 37473468--37473506 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37473458 CATCTAAGTT
*
37473468 AAAAAGAAGAAAGTAACATG
1 AAAAAGAAGAAAGAAACATG
*
37473488 AAAAAGATGAAAAGAAACA
1 AAAAAGAAG-AAAGAAACA
37473507 ACTAAAACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.69, C:0.05, G:0.18, T:0.08
Consensus pattern (20 bp):
AAAAAGAAGAAAGAAACATG
Found at i:37481012 original size:12 final size:12
Alignment explanation
Indices: 37480995--37481021 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37480985 AAGTTGCACA
37480995 GGCACGGACACG
1 GGCACGGACACG
37481007 GGCACGGACACG
1 GGCACGGACACG
37481019 GGC
1 GGC
37481022 TGGGATACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.33, G:0.44, T:0.00
Consensus pattern (12 bp):
GGCACGGACACG
Found at i:37485254 original size:13 final size:13
Alignment explanation
Indices: 37485236--37485260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37485226 ACACAGGTGT
37485236 GTGGCTTGGTCGC
1 GTGGCTTGGTCGC
37485249 GTGGCTTGGTCG
1 GTGGCTTGGTCG
37485261 TGTGAGCCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.48, T:0.32
Consensus pattern (13 bp):
GTGGCTTGGTCGC
Found at i:37495680 original size:3 final size:3
Alignment explanation
Indices: 37495674--37495725 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
37495664 GAAAATGAGA
* *
37495674 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAA AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
37495722 AAG A
1 AAG A
37495726 CTTTGTTGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37496155 original size:17 final size:17
Alignment explanation
Indices: 37496130--37496163 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37496120 CATAAGTATA
37496130 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
*
37496147 TATTTTCATTACATTTT
1 TATTGTCATTACATTTT
37496164 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:37497161 original size:34 final size:35
Alignment explanation
Indices: 37497106--37497172 Score: 127
Period size: 34 Copynumber: 1.9 Consensus size: 35
37497096 AGTTGTTTTC
37497106 TGATTGTTTGATTTTTACAGAAATTTTATAGAAAT
1 TGATTGTTTGATTTTTACAGAAATTTTATAGAAAT
37497141 TGATTGTTTGA-TTTTACAGAAATTTTATAGAA
1 TGATTGTTTGATTTTTACAGAAATTTTATAGAA
37497173 TTTTTAATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 21 0.66
35 11 0.34
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.48
Consensus pattern (35 bp):
TGATTGTTTGATTTTTACAGAAATTTTATAGAAAT
Found at i:37500049 original size:21 final size:21
Alignment explanation
Indices: 37500025--37500067 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37500015 TAAATTTAAC
*
37500025 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
* *
37500046 TCAATTCAGTCCAATTCATAT
1 TCAATTCAATACAATTCATAT
37500067 T
1 T
37500068 TAAGGTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:37518316 original size:47 final size:47
Alignment explanation
Indices: 37518250--37518680 Score: 664
Period size: 47 Copynumber: 9.1 Consensus size: 47
37518240 GAAATGATAG
37518250 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37518297 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
37518346 TAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
37518393 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37518440 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37518487 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
37518536 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37518583 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
37518630 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37518677 TAAG
1 TAAG
37518681 TCCCGAAGGG
Statistics
Matches: 357, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 265 0.74
49 92 0.26
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:37518419 original size:96 final size:96
Alignment explanation
Indices: 37518250--37518680 Score: 690
Period size: 96 Copynumber: 4.5 Consensus size: 96
37518240 GAAATGATAG
*
37518250 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
37518315 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* *
37518346 TAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
37518411 GTGATGAATGTGAAAGTG--TATATGTGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
37518440 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
37518505 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
37518536 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
37518601 GTGATGAATGTGAAAGTG--TATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*** * * * * * * *
37518630 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
37518681 TCCCGAAGGG
Statistics
Matches: 312, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
94 141 0.45
96 171 0.55
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:37518573 original size:190 final size:190
Alignment explanation
Indices: 37518250--37518680 Score: 736
Period size: 190 Copynumber: 2.3 Consensus size: 190
37518240 GAAATGATAG
*
37518250 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
37518315 GTGATGAATGTGAAAGTGTATATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAG
*
37518380 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
131 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37518440 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
37518505 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAG
37518570 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
37518630 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
37518681 TCCCGAAGGG
Statistics
Matches: 226, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
190 226 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (190 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:37518652 original size:143 final size:142
Alignment explanation
Indices: 37518250--37518680 Score: 679
Period size: 143 Copynumber: 3.0 Consensus size: 142
37518240 GAAATGATAG
* *
37518250 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
*
37518315 GTGATGAATGTGAAAGTGTATATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
37518380 TG-TATATGTGTGA
129 TGATATATATGTGA
*
37518393 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
*
37518458 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
37518523 TATATATATGTGA
131 -ATATATATGTGA
37518536 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
*** * * * * *
37518601 GTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
37518666 CATA-A-ATGTGA
131 -ATATATATGTGA
37518677 TAAG
1 TAAG
37518681 TCCCGAAGGG
Statistics
Matches: 269, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
141 55 0.20
142 1 0.00
143 213 0.79
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (142 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
ATATATATGTGA
Found at i:37518855 original size:37 final size:37
Alignment explanation
Indices: 37518799--37518877 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
37518789 CCGATCTCTA
* *
37518799 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
37518836 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37518873 AAGAC
1 AAGAC
37518878 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37522218 original size:72 final size:72
Alignment explanation
Indices: 37522118--37522434 Score: 399
Period size: 72 Copynumber: 4.4 Consensus size: 72
37522108 AACAACAATG
* * *
37522118 CTAAACTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGGTATTGAATTTATGTTCTACTTA
1 CTAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
37522183 TTTATGT
66 TTTATGT
* * *
37522190 CTAATATAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTTTACTTA
1 CTAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
37522255 TTTATGT
66 TTTATGT
* ** * *
37522262 TTAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCATTGGATATTGAATTTATGGTCTAATTA
1 CTAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
37522327 TTTATG-
66 TTTATGT
** * *
37522333 CTTAGGGCTAGTTTTATCAATAATTGTTTATGTTTGGTTTTTTGG-TATTAAATTTATGTTCTAC
1 C-TA-ATCTAGTTTTATCAATAGTTGTTTATGTTTGG-TTTTTGGATATTGAATTTATGTTCTAC
*
37522397 TTATTTAT-A
63 TTATTTATGT
* * *
37522406 CTAGAT-TAATTTTATTAATAGTTATTTAT
1 CTA-ATCTAGTTTTATCAATAGTTGTTTAT
37522435 ATATGATTTT
Statistics
Matches: 212, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
71 19 0.09
72 134 0.63
73 54 0.25
74 5 0.02
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.55
Consensus pattern (72 bp):
CTAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
TTTATGT
Found at i:37538329 original size:51 final size:48
Alignment explanation
Indices: 37538213--37538400 Score: 187
Period size: 51 Copynumber: 3.8 Consensus size: 48
37538203 AGTGGTCATG
* * *
37538213 TGTGAAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA-G-TTGGTCGCA
* * * *
37538263 TGTGTAGTACAATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-AG-TT-GGTCGCA
** *
37538314 TGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGACAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-AGT--TGGTCGCA
* * *
37538365 TGTGTAGTACTATGTGTAGGCTACTATGTGGACCGG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
37538401 TATCATTAAT
Statistics
Matches: 113, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
50 35 0.31
51 77 0.68
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (48 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAGTTGGTCGCA
Found at i:37538400 original size:102 final size:101
Alignment explanation
Indices: 37538213--37538400 Score: 270
Period size: 102 Copynumber: 1.9 Consensus size: 101
37538203 AGTGGTCATG
*
37538213 TGTGAAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTACAATGT
1 TGTGAAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACAATGT
*
37538278 GCAGGCTACTATGCGTACCGGATAGCTTCGATCGCA
66 GCAGGCTACTATGCGGACCGGATAGCTTCGATCGCA
* *** *
37538314 TGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGACAGTGAT-GGTCACATGTGTAGTACTAT
1 TGTGAAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGTACAAT
* *
37538378 GTGTAGGCTACTATGTGGACCGG
64 GTGCAGGCTACTATGCGGACCGG
37538401 TATCATTAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
101 33 0.43
102 39 0.51
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (101 bp):
TGTGAAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACAATGT
GCAGGCTACTATGCGGACCGGATAGCTTCGATCGCA
Found at i:37538468 original size:46 final size:43
Alignment explanation
Indices: 37538396--37538494 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
37538386 TACTATGTGG
*
37538396 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCGC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATC-C
* *
37538439 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
37538485 ACCGTGTATC
1 ACCG-GTATC
37538495 TGTTATTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 11 0.23
45 2 0.04
46 26 0.54
47 4 0.08
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:37538639 original size:16 final size:16
Alignment explanation
Indices: 37538618--37538649 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37538608 TGATTGAAAG
*
37538618 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
37538634 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
37538650 GTAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:37541427 original size:47 final size:47
Alignment explanation
Indices: 37541376--37541476 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
37541366 ATGGTTGGAC
* * *
37541376 TATGGCAAC-ATGTGATATGTGATTTCCGTATAAGACCATATCTGGGA
1 TATGGCAACGATGTGATATGTG-CTACCGTATAAGACCATAGCTGGGA
* * * * *
37541423 TATGGCATCGGTGTGATATGTGCTACTGTGTAAGACCATAGCTGGGC
1 TATGGCAACGATGTGATATGTGCTACCGTATAAGACCATAGCTGGGA
37541470 TATGGCA
1 TATGGCA
37541477 CCCATATGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
47 34 0.76
48 11 0.24
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (47 bp):
TATGGCAACGATGTGATATGTGCTACCGTATAAGACCATAGCTGGGA
Found at i:37544323 original size:101 final size:102
Alignment explanation
Indices: 37544242--37544428 Score: 270
Period size: 101 Copynumber: 1.8 Consensus size: 102
37544232 AAAGTGATGG
* **
37544242 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTTGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
* ** *
37544305 ACTATGTGTAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGTAGGCTACTATGTGTAAAGGAAAGCTTCGA
*
37544343 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
37544408 CTATGTGCAGGCTACTATGTG
66 CTATGTGTAGGCTACTATGTG
37544429 GACCGGTATC
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 40 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGTAGGCTACTATGTGTAAAGGAAAGCTTCGA
Found at i:37544362 original size:51 final size:50
Alignment explanation
Indices: 37544242--37544426 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 50
37544232 AAAGTGATGG
* * * *
37544242 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGT-AT-GA
** * *
37544292 TTGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAG-TAT-GA
* * * *
37544343 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGT-ATGA
37544394 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
37544427 TGGACCGGTA
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
50 36 0.32
51 74 0.66
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTATGA
Found at i:37544428 original size:26 final size:26
Alignment explanation
Indices: 37544347--37544428 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
37544337 CTTCGATCAC
37544347 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* *
37544373 ACGTGTA-T-CAGATAGTG-ATGG-TCAC-
1 ATGTGTAGTAC-TAT-GTGCA-GGCT-ACT
37544398 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
37544424 ATGTG
1 ATGTG
37544429 GACCGGTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:37544465 original size:101 final size:101
Alignment explanation
Indices: 37544248--37544434 Score: 277
Period size: 102 Copynumber: 1.8 Consensus size: 101
37544238 ATGGTCACGT
**
37544248 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCATGTGTAGTACTATGTG
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATGTG
* * * *
37544313 TAGGCTACTATGCGTACCGGATAGCTTCGATCACAT
66 CAGGCTACTATGCGGACCGGATAGCTTCAATCACAA
*
37544349 GTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGAT-GGTCACATGTGTAGTACTATG
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGTACTATG
*
37544413 TGCAGGCTACTATGTGGACCGG
64 TGCAGGCTACTATGCGGACCGG
37544435 TATCATTAAT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 35 0.45
102 39 0.50
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (101 bp):
GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATGTG
CAGGCTACTATGCGGACCGGATAGCTTCAATCACAA
Found at i:37544673 original size:16 final size:16
Alignment explanation
Indices: 37544652--37544683 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37544642 TGATCGAAAG
*
37544652 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
37544668 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
37544684 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:37545711 original size:20 final size:20
Alignment explanation
Indices: 37545686--37545760 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
37545676 TGTGGTTCAA
37545686 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTTAG
*
37545706 CTCATTCGTGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTTAG
* * *
37545726 CTCATTCGTGCTTAAGTCAG
1 CTCATTCGAGCTCAAGTTAG
*
37545746 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
37545761 TTTAACTCGT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTTAG
Found at i:37548008 original size:27 final size:27
Alignment explanation
Indices: 37547977--37548154 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37547967 TAAATTGTAC
37547977 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37548004 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37548030 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37548058 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37548086 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37548113 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37548140 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37548155 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37548091 original size:82 final size:81
Alignment explanation
Indices: 37547978--37548133 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37547968 AAATTGTACA
* *
37547978 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37548042 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37548059 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37548124 TGCGAGTTGA
65 TGCGAATTGA
37548134 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37548145 original size:82 final size:81
Alignment explanation
Indices: 37547974--37548154 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37547964 GATTAAATTG
* *
37547974 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37548039 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37548055 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37548119 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37548137 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37548155 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37551156 original size:10 final size:11
Alignment explanation
Indices: 37551105--37551159 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
37551095 GTATTACGGT
*
37551105 ATTGTAAAAAA
1 ATTGAAAAAAA
*
37551116 A-TAAAAAAAA
1 ATTGAAAAAAA
37551126 ACTTGAAAAAAA
1 A-TTGAAAAAAA
37551138 ATTGAAAAAAA
1 ATTGAAAAAAA
*
37551149 ATTCAAAAAAA
1 ATTGAAAAAAA
37551160 GTTTGTATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
10 8 0.21
11 21 0.55
12 9 0.24
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (11 bp):
ATTGAAAAAAA
Found at i:37551242 original size:24 final size:25
Alignment explanation
Indices: 37551204--37551250 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
37551194 AGTATTGAAG
*
37551204 AAAAAAAAGAAAAAAAATTCGAATT
1 AAAAAAAAGAAAAAAAAATCGAATT
*
37551229 AAAAAAAA-AGAAAAAAATCGAA
1 AAAAAAAAGAAAAAAAAATCGAA
37551251 ATTGAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.77, C:0.04, G:0.09, T:0.11
Consensus pattern (25 bp):
AAAAAAAAGAAAAAAAAATCGAATT
Found at i:37552136 original size:17 final size:15
Alignment explanation
Indices: 37552116--37552154 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
37552106 CGCAGCGAGA
37552116 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
37552133 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
37552148 AAGATGA
1 AA-ATGA
37552155 GTGGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:37553660 original size:20 final size:20
Alignment explanation
Indices: 37553635--37553689 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
37553625 TGTGGTTCAA
*
37553635 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
37553655 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
37553675 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
37553690 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:37554425 original size:54 final size:55
Alignment explanation
Indices: 37554323--37554426 Score: 158
Period size: 54 Copynumber: 1.9 Consensus size: 55
37554313 TTTAATGTGC
* * *
37554323 AGCAAAGACATGAATTAAATGAGATGTTCCCATGTATGGAACGTCATTAAAGGGA
1 AGCAAAGACATGAATTAAATGAGATATTCCCATGCATGGAACGGCATTAAAGGGA
37554378 AGCAAA-ACATGAATTAAATGAGATATTCACCATGCATGG-ACGGCATTAA
1 AGCAAAGACATGAATTAAATGAGATATTC-CCATGCATGGAACGGCATTAA
37554427 TGAAAGCATG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
54 30 0.67
55 15 0.33
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.23
Consensus pattern (55 bp):
AGCAAAGACATGAATTAAATGAGATATTCCCATGCATGGAACGGCATTAAAGGGA
Found at i:37558714 original size:12 final size:12
Alignment explanation
Indices: 37558684--37558728 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
37558674 AGTATTTGAG
37558684 AAAAAAA-TTCA
1 AAAAAAATTTCA
37558695 AAAAAAATTTCA
1 AAAAAAATTTCA
* *
37558707 AAAAAAATCGTGA
1 AAAAAAAT-TTCA
37558720 AAAAAAATT
1 AAAAAAATT
37558729 CATGAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 7 0.24
12 12 0.41
13 10 0.34
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.20
Consensus pattern (12 bp):
AAAAAAATTTCA
Found at i:37558722 original size:13 final size:14
Alignment explanation
Indices: 37558694--37558739 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
37558684 AAAAAAATTC
*
37558694 AAAAAAAATT--TC
1 AAAAAAAATTCATG
*
37558706 AAAAAAAA-TCGTG
1 AAAAAAAATTCATG
37558719 AAAAAAAATTCATG
1 AAAAAAAATTCATG
37558733 AAAAAAA
1 AAAAAAA
37558740 TAGAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 1 0.03
12 8 0.28
13 9 0.31
14 11 0.38
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.17
Consensus pattern (14 bp):
AAAAAAAATTCATG
Found at i:37558740 original size:13 final size:12
Alignment explanation
Indices: 37558682--37558740 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 12
37558672 TAAGTATTTG
37558682 AGAAAAAAATTC
1 AGAAAAAAATTC
37558694 A-AAAAAAATTTC
1 AGAAAAAAA-TTC
37558706 A-AAAAAAA-TC
1 AGAAAAAAATTC
*
37558716 GTGAAAAAAAATTC
1 -AG-AAAAAAATTC
37558730 ATGAAAAAAAT
1 A-GAAAAAAAT
37558741 AGAAGAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
10 2 0.05
11 7 0.18
12 12 0.31
13 15 0.38
14 3 0.08
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.19
Consensus pattern (12 bp):
AGAAAAAAATTC
Found at i:37563282 original size:21 final size:23
Alignment explanation
Indices: 37563237--37563283 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
37563227 TCACCTGCAA
* *
37563237 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
37563260 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
37563281 TAA
1 TAA
37563284 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:37568623 original size:15 final size:15
Alignment explanation
Indices: 37568603--37568642 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
37568593 TAGCTTCTTC
37568603 TTTTTTTTCACGAAT
1 TTTTTTTTCACGAAT
*
37568618 TTTTTTTTCATGAAT
1 TTTTTTTTCACGAAT
37568633 TTTTTTTTCA
1 TTTTTTTTCA
37568643 ACTTGATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTTTTTTCACGAAT
Found at i:37568698 original size:11 final size:11
Alignment explanation
Indices: 37568682--37568726 Score: 72
Period size: 11 Copynumber: 4.0 Consensus size: 11
37568672 GGAAACCATT
37568682 TTTTTTTTGAA
1 TTTTTTTTGAA
37568693 TTTTTTTTTGAA
1 -TTTTTTTTGAA
37568705 TTTTTTTTGAA
1 TTTTTTTTGAA
*
37568716 ATTTTTTTGAA
1 TTTTTTTTGAA
37568727 GAAACTACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 21 0.66
12 11 0.34
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:37568698 original size:12 final size:12
Alignment explanation
Indices: 37568681--37568723 Score: 70
Period size: 12 Copynumber: 3.6 Consensus size: 12
37568671 TGGAAACCAT
37568681 TTTTTTTTTGAA
1 TTTTTTTTTGAA
37568693 TTTTTTTTTGAA
1 TTTTTTTTTGAA
37568705 -TTTTTTTTGAAA
1 TTTTTTTTTG-AA
37568717 TTTTTTT
1 TTTTTTT
37568724 GAAGAAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.31
12 14 0.48
13 6 0.21
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:37580468 original size:20 final size:19
Alignment explanation
Indices: 37580443--37580509 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
37580433 ACTGCCTTCA
37580443 AGCTCATTCAGCTCAATTTT
1 AGCTCATTCAGCTC-ATTTT
*
37580463 AGCTCA-ACGAGCTCATTTCT
1 AGCTCATTC-AGCTCATTT-T
37580483 AGCTCACTT-AGCTCATTTT
1 AGCTCA-TTCAGCTCATTTT
37580502 AGCTCATT
1 AGCTCATT
37580510 TTAGTTGCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 2 0.05
19 12 0.29
20 27 0.66
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (19 bp):
AGCTCATTCAGCTCATTTT
Found at i:37580505 original size:10 final size:10
Alignment explanation
Indices: 37580472--37580513 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
37580462 TAGCTCAACG
37580472 AGCTCATTTCT
1 AGCTCATTT-T
*
37580483 AGCTCA-CTT
1 AGCTCATTTT
37580492 AGCTCATTTT
1 AGCTCATTTT
37580502 AGCTCATTTT
1 AGCTCATTTT
37580512 AG
1 AG
37580514 TTGCAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 7 0.25
10 15 0.54
11 6 0.21
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (10 bp):
AGCTCATTTT
Found at i:37585803 original size:21 final size:23
Alignment explanation
Indices: 37585758--37585804 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
37585748 TCACCTGCAA
* *
37585758 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
37585781 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
37585802 TAA
1 TAA
37585805 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:37588992 original size:13 final size:12
Alignment explanation
Indices: 37588958--37588990 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
37588948 AGGAAATTTG
37588958 AAAAAAAAATTC
1 AAAAAAAAATTC
37588970 AAAAAAAAATTC
1 AAAAAAAAATTC
37588982 AAAAAAAAA
1 AAAAAAAAA
37588991 ATCGAAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:37590083 original size:48 final size:47
Alignment explanation
Indices: 37590004--37590109 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
37589994 GAGTGTCATG
*
37590004 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
37590052 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
37590100 GAAAAAGAAA
1 GAAAAAGAAA
37590110 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:37597223 original size:15 final size:14
Alignment explanation
Indices: 37597187--37597220 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
37597177 ACGAAAAAAA
37597187 TTTTTTCACGAATT
1 TTTTTTCACGAATT
37597201 TTTTTTCACGAATT
1 TTTTTTCACGAATT
37597215 TTTTTT
1 TTTTTT
37597221 TCAACTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTTTTCACGAATT
Found at i:37597281 original size:13 final size:13
Alignment explanation
Indices: 37597263--37597295 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
37597253 GGAAACCAAA
37597263 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
37597276 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
37597289 TTTTTTT
1 TTTTTTT
37597296 GAAGAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:37598332 original size:21 final size:23
Alignment explanation
Indices: 37598287--37598333 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
37598277 TCACCTGCAA
* *
37598287 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
37598310 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
37598331 TAA
1 TAA
37598334 TCATAACACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:37605988 original size:9 final size:10
Alignment explanation
Indices: 37605964--37605992 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
37605954 GAGTTTGTTG
37605964 GAGCTAAAAT
1 GAGCTAAAAT
37605974 GAGCTAAAA-
1 GAGCTAAAAT
37605983 GAGCTAAAAT
1 GAGCTAAAAT
37605993 CGAACTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.17
Consensus pattern (10 bp):
GAGCTAAAAT
Found at i:37606002 original size:19 final size:19
Alignment explanation
Indices: 37605964--37606001 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37605954 GAGTTTGTTG
*
37605964 GAGCTAAAATGAGCTAAAA
1 GAGCTAAAATGAACTAAAA
37605983 GAGCTAAAATCGAACTAAA
1 GAGCTAAAAT-GAACTAAA
37606002 GTCAGCTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.13, G:0.18, T:0.16
Consensus pattern (19 bp):
GAGCTAAAATGAACTAAAA
Found at i:37608755 original size:34 final size:34
Alignment explanation
Indices: 37608717--37608792 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
37608707 AGATTTAAAC
*
37608717 AAATTAATTACTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTGAGCTAAACTA
37608751 AAATTAATTACTAACACTTATTTGAGCTAAACTA
1 AAATTAATTACTAACACTTATTTGAGCTAAACTA
*
37608785 AACTTAAT
1 AAATTAAT
37608793 AAACTTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTGAGCTAAACTA
Found at i:37608797 original size:9 final size:9
Alignment explanation
Indices: 37608783--37608809 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
37608773 TGAGCTAAAC
37608783 TAAACTTAA
1 TAAACTTAA
37608792 TAAACTTAA
1 TAAACTTAA
37608801 TAAACTTAA
1 TAAACTTAA
37608810 ATAACAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAACTTAA
Found at i:37610704 original size:6 final size:6
Alignment explanation
Indices: 37610695--37610732 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
37610685 TCGCTTGCAA
* *
37610695 TTTCTT TTTCTT TTTCTT TTTCAT TTTCTA TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
37610733 CCACTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:37610722 original size:24 final size:24
Alignment explanation
Indices: 37610671--37610732 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
37610661 TCTCTCACTT
*
37610671 TTTCGATTTCTTTTTCGCTTGCAA
1 TTTCTATTTCTTTTTCGCTTGCAA
* ** * *
37610695 TTTCTTTTTCTTTTTCTTTTTCAT
1 TTTCTATTTCTTTTTCGCTTGCAA
37610719 TTTCTATTTCTTTT
1 TTTCTATTTCTTTT
37610733 CCACTTTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.08, C:0.18, G:0.05, T:0.69
Consensus pattern (24 bp):
TTTCTATTTCTTTTTCGCTTGCAA
Found at i:37610751 original size:18 final size:18
Alignment explanation
Indices: 37610700--37610751 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
37610690 TGCAATTTCT
* *
37610700 TTTTCTTTTTCTTTTTCA
1 TTTTCTATTTCTTTTCCA
37610718 TTTTCTATTTCTTTTCCA
1 TTTTCTATTTCTTTTCCA
37610736 CTTTT-TATTTCTTTTC
1 -TTTTCTATTTCTTTTC
37610752 TTCCTCTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 27 0.87
19 4 0.13
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTCTATTTCTTTTCCA
Found at i:37611723 original size:4 final size:4
Alignment explanation
Indices: 37611714--37611750 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
37611704 ACAACTTGAT
37611714 TTTA TTTA TTTA TTTA -TT- TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
37611751 TTTTCACGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 4 0.13
4 27 0.87
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:37611736 original size:18 final size:18
Alignment explanation
Indices: 37611713--37611752 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
37611703 TACAACTTGA
37611713 TTTTATTTATTTATTTAT
1 TTTTATTTATTTATTTAT
37611731 TTTTATTTATTTATTTAT
1 TTTTATTTATTTATTTAT
37611749 TTTT
1 TTTT
37611753 TTCACGTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTATTTATTTATTTAT
Found at i:37611737 original size:14 final size:14
Alignment explanation
Indices: 37611718--37611746 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37611708 CTTGATTTTA
37611718 TTTATTTATTTATT
1 TTTATTTATTTATT
37611732 TTTATTTATTTATT
1 TTTATTTATTTATT
37611746 T
1 T
37611747 ATTTTTTTCA
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:37613403 original size:26 final size:26
Alignment explanation
Indices: 37613368--37613419 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
37613358 AATGTGAAAG
*
37613368 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
37613394 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
37613420 TTTCATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:37613538 original size:105 final size:105
Alignment explanation
Indices: 37613290--37613659 Score: 608
Period size: 102 Copynumber: 3.6 Consensus size: 105
37613280 TGTATATAAA
** * * *
37613290 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
37613354 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
37613393 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
37613458 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
37613499 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
37613564 TGAAA--T-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
37613601 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
37613660 ATAACGGCTA
Statistics
Matches: 255, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
102 87 0.34
103 26 0.10
104 42 0.16
105 68 0.27
106 32 0.13
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:37615388 original size:30 final size:30
Alignment explanation
Indices: 37615352--37615421 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
37615342 AAGGAAAAAT
37615352 AAAATCAAGATTCACTTTCTTGTTTTCAAG
1 AAAATCAAGATTCACTTTCTTGTTTTCAAG
37615382 AAAATCAAGATTCACTTTCTTGTTTTCAAG
1 AAAATCAAGATTCACTTTCTTGTTTTCAAG
37615412 AAAATCAAGA
1 AAAATCAAGA
37615422 AACCGAATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (30 bp):
AAAATCAAGATTCACTTTCTTGTTTTCAAG
Found at i:37615433 original size:30 final size:30
Alignment explanation
Indices: 37615369--37615433 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
37615359 AGATTCACTT
** **
37615369 TCTTGTTTTCAAGAAAATCAAGATTCACTT
1 TCTTGTTTTCAAGAAAATCAAGAAACACAA
37615399 TCTTGTTTTCAAGAAAATCAAGAAAC-CGAA
1 TCTTGTTTTCAAGAAAATCAAGAAACAC-AA
37615429 TCTTG
1 TCTTG
37615434 GTCTAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (30 bp):
TCTTGTTTTCAAGAAAATCAAGAAACACAA
Found at i:37625380 original size:34 final size:34
Alignment explanation
Indices: 37625342--37625451 Score: 193
Period size: 34 Copynumber: 3.2 Consensus size: 34
37625332 TGATTTAAAC
*
37625342 AAATTAATTACTAACACTTATTTGAGTTGAACTA
1 AAATTAATTACTAACACTTATTTGAGCTGAACTA
*
37625376 AAATTAATTACTAACACTTATTTGAGCTGAACTG
1 AAATTAATTACTAACACTTATTTGAGCTGAACTA
37625410 AAATTAATTACTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTGAGCTGAACTA
*
37625444 AAGTTAAT
1 AAATTAAT
37625452 AAACTAACTC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 72 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTGAGCTGAACTA
Found at i:37626105 original size:5 final size:6
Alignment explanation
Indices: 37626024--37626133 Score: 53
Period size: 6 Copynumber: 18.0 Consensus size: 6
37626014 TCAATCTCAA
* * * ** **
37626024 TTTCTT TTTCAAT TTTCTTT TCTTCGT TTTCTT TTT-TC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** ** *
37626074 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCTT TCACACT TTT-TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT
37626122 TTTCTT TTTCTT
1 TTTCTT TTTCTT
37626134 CTTTTTCGTT
Statistics
Matches: 72, Mismatches: 27, Indels: 10
0.66 0.25 0.09
Matches are distributed among these distances:
5 6 0.08
6 52 0.72
7 11 0.15
8 3 0.04
ACGTcount: A:0.07, C:0.19, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:37626123 original size:24 final size:24
Alignment explanation
Indices: 37626074--37626133 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
37626064 ACTTTTTCGA
**
37626074 TTTCTTTTTCTTTTGCAATTTCTT
1 TTTCTTTTTCTTTCACAATTTCTT
* *
37626098 TTTCTTTTTCTTTCACACTTTTTT
1 TTTCTTTTTCTTTCACAATTTCTT
37626122 TTTCTTTTTCTT
1 TTTCTTTTTCTT
37626134 CTTTTTCGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTCTTTTTCTTTCACAATTTCTT
Found at i:37628439 original size:20 final size:20
Alignment explanation
Indices: 37628411--37628450 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37628401 TTAGAAACTA
* *
37628411 AATTGAGCTCGAATGAGCTG
1 AATTAAGCTCAAATGAGCTG
37628431 AATTAAGCTCAAATGAGCTG
1 AATTAAGCTCAAATGAGCTG
37628451 GTTGGAGCTG
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:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
AATTAAGCTCAAATGAGCTG
Found at i:37631345 original size:20 final size:20
Alignment explanation
Indices: 37631320--37631366 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
37631310 ACTACCTTCA
37631320 AGCTCATTC-AGCTCAATTTT
1 AGCTCATTCGAGCTC-ATTTT
*
37631340 AGCTCA-ACGAGCTCATTTT
1 AGCTCATTCGAGCTCATTTT
37631359 AGCTCATT
1 AGCTCATT
37631367 TTAGTTGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (20 bp):
AGCTCATTCGAGCTCATTTT
Found at i:37633019 original size:28 final size:29
Alignment explanation
Indices: 37632965--37633044 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 29
37632955 GGAAAATGAA
37632965 AAAGAAAAGAGTTCAGAAAAAGAGAGAGG
1 AAAGAAAAGAGTTCAGAAAAAGAGAGAGG
* * *
37632994 AAAG-AAAGAGTTGA-AAACAAGTGAGA-A
1 AAAGAAAAGAGTTCAGAAA-AAGAGAGAGG
37633021 AAGAGAAAACGAGTT-AGAAAAAGA
1 AA-AGAAAA-GAGTTCAGAAAAAGA
37633045 AAAAGAGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
27 5 0.12
28 18 0.43
29 11 0.26
30 8 0.19
ACGTcount: A:0.60, C:0.04, G:0.28, T:0.09
Consensus pattern (29 bp):
AAAGAAAAGAGTTCAGAAAAAGAGAGAGG
Found at i:37633047 original size:18 final size:19
Alignment explanation
Indices: 37633006--37633047 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
37632996 AGAAAGAGTT
37633006 GAAAACAAGTGAGAAAAGA
1 GAAAACAAGTGAGAAAAGA
* *
37633025 GAAAACGAGTTAGAAAA-A
1 GAAAACAAGTGAGAAAAGA
37633043 GAAAA
1 GAAAA
37633048 AGAGAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.64, C:0.05, G:0.24, T:0.07
Consensus pattern (19 bp):
GAAAACAAGTGAGAAAAGA
Found at i:37644231 original size:20 final size:20
Alignment explanation
Indices: 37644206--37644258 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
37644196 AACTAAAGTA
37644206 AGCTAAAAATGAGCTCATTG
1 AGCTAAAAATGAGCTCATTG
* *
37644226 AGCTAAGAACGAGCTCATTG
1 AGCTAAAAATGAGCTCATTG
*
37644246 AGCTAAAATTGAG
1 AGCTAAAAATGAG
37644259 TTGAATTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (20 bp):
AGCTAAAAATGAGCTCATTG
Found at i:37646406 original size:20 final size:21
Alignment explanation
Indices: 37646383--37646433 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
37646373 GGGTTAAGAT
37646383 TGAGCTGAA-TTGAGCTCGAA
1 TGAGCTGAACTTGAGCTCGAA
*
37646403 TGAGCT-AACTTGAGCTCGAG
1 TGAGCTGAACTTGAGCTCGAA
37646423 TGAGCTGAACT
1 TGAGCTGAACT
37646434 AAGTTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 22 0.79
21 4 0.14
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (21 bp):
TGAGCTGAACTTGAGCTCGAA
Found at i:37649875 original size:13 final size:12
Alignment explanation
Indices: 37649857--37649890 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
37649847 TTACAACATG
37649857 AATTTTTTTTTCA
1 AATTTTTTTTT-A
*
37649870 AATTTTTTTTTG
1 AATTTTTTTTTA
37649882 AATTTTTTT
1 AATTTTTTT
37649891 CAAAACTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (12 bp):
AATTTTTTTTTA
Found at i:37651266 original size:25 final size:25
Alignment explanation
Indices: 37651217--37651268 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 25
37651207 ATAGACTTAG
37651217 ACAAATTAAAACATGCATTAAATAAA
1 ACAAATTAAAACA-GCATTAAATAAA
37651243 ACAAA-TAAAACA-CATTTAACATAAA
1 ACAAATTAAAACAGCA-TTAA-ATAAA
37651268 A
1 A
37651269 ATTAATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 2 0.08
24 4 0.17
25 13 0.54
26 5 0.21
ACGTcount: A:0.63, C:0.13, G:0.02, T:0.21
Consensus pattern (25 bp):
ACAAATTAAAACAGCATTAAATAAA
Found at i:37651401 original size:21 final size:19
Alignment explanation
Indices: 37651376--37651424 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
37651366 AACTAAAGTA
37651376 AGCTAAAAAATGAGCTCATTG
1 AGCTAAAAAA--AGCTCATTG
* *
37651397 TGCTAAGAACAAGCTCATTG
1 AGCTAA-AAAAAGCTCATTG
37651417 AGCTAAAA
1 AGCTAAAA
37651425 TTGAGCTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.08
20 14 0.58
21 5 0.21
22 3 0.12
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.22
Consensus pattern (19 bp):
AGCTAAAAAAAGCTCATTG
Found at i:37651431 original size:20 final size:19
Alignment explanation
Indices: 37651382--37651431 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
37651372 AGTAAGCTAA
*
37651382 AAAATGAGCTCATTGTGCT
1 AAAATGAGCTCATTGAGCT
**
37651401 AAGAACAAGCTCATTGAGCT
1 AA-AATGAGCTCATTGAGCT
37651421 AAAATTGAGCT
1 AAAA-TGAGCT
37651432 GAATTGAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (19 bp):
AAAATGAGCTCATTGAGCT
Found at i:37661768 original size:25 final size:25
Alignment explanation
Indices: 37661735--37661981 Score: 210
Period size: 25 Copynumber: 9.9 Consensus size: 25
37661725 AAACCAAACC
* * *
37661735 AAGCCTTTGTGGTGAGTTATTTGGA
1 AAGCCTTTGTGGTGAATTATCTGTA
* * **
37661760 AAGCTTTTGTGGTGAACTATCTAAA
1 AAGCCTTTGTGGTGAATTATCTGTA
*
37661785 AAGCCTTTGTGGTGAGTTATCTGTA
1 AAGCCTTTGTGGTGAATTATCTGTA
* *
37661810 AAGCCTTTATGGCGAATTATCTG-A
1 AAGCCTTTGTGGTGAATTATCTGTA
* * * *
37661834 GAAGTCTCTATGGTGAATTATTTGTA
1 -AAGCCTTTGTGGTGAATTATCTGTA
* *
37661860 AAGCCTTTGTGGCGAGTTATCTGTA
1 AAGCCTTTGTGGTGAATTATCTGTA
** *
37661885 AAGCCTTTGTGGCAAATTATTTGTA
1 AAGCCTTTGTGGTGAATTATCTGTA
* **
37661910 AAGCCTTTATGGTGAATTATCTAAA
1 AAGCCTTTGTGGTGAATTATCTGTA
* * *
37661935 AAGCTTTTATGG-CAAGTTATCTGTA
1 AAGCCTTTGTGGTGAA-TTATCTGTA
* * *
37661960 AAGTCTTTATGGCGAATTATCT
1 AAGCCTTTGTGGTGAATTATCT
37661982 AAAACATCTT
Statistics
Matches: 178, Mismatches: 40, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
24 3 0.02
25 172 0.97
26 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (25 bp):
AAGCCTTTGTGGTGAATTATCTGTA
Found at i:37661794 original size:50 final size:50
Alignment explanation
Indices: 37661735--37661985 Score: 261
Period size: 50 Copynumber: 5.0 Consensus size: 50
37661725 AAACCAAACC
* * * * * *
37661735 AAGCCTTTGTGGTGAGTTATTTGGAAAGCTTTTGTGGTGAACTATCTAAA
1 AAGCCTTTGTGGTGAATTATTTGTAAAGCCTTTATGGCGAATTATCTAAA
* * * *
37661785 AAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTATGGCGAATTATCTGAG
1 AAGCCTTTGTGGTGAATTATTTGTAAAGCCTTTATGGCGAATTATCTAAA
* * * * * **
37661835 AAGTCTCTATGGTGAATTATTTGTAAAGCCTTTGTGGCGAGTTATCTGTA
1 AAGCCTTTGTGGTGAATTATTTGTAAAGCCTTTATGGCGAATTATCTAAA
** *
37661885 AAGCCTTTGTGGCAAATTATTTGTAAAGCCTTTATGGTGAATTATCTAAA
1 AAGCCTTTGTGGTGAATTATTTGTAAAGCCTTTATGGCGAATTATCTAAA
* * * * *
37661935 AAGCTTTTATGG-CAAGTTATCTGTAAAGTCTTTATGGCGAATTATCTAAA
1 AAGCCTTTGTGGTGAA-TTATTTGTAAAGCCTTTATGGCGAATTATCTAAA
37661985 A
1 A
37661986 CATCTTTGTG
Statistics
Matches: 167, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 2 0.01
50 165 0.99
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (50 bp):
AAGCCTTTGTGGTGAATTATTTGTAAAGCCTTTATGGCGAATTATCTAAA
Found at i:37661863 original size:75 final size:75
Alignment explanation
Indices: 37661769--37661981 Score: 284
Period size: 75 Copynumber: 2.8 Consensus size: 75
37661759 AAAGCTTTTG
* *
37661769 TGGTGAACTATCTAAAAAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTATGGCGAATTATCTG-
1 TGGTGAATTATCTAAAAAGCCTTTGTGGCGAGTTATCTGTAAAGCCTTTATGGCGAATTATCTGT
*
37661833 AGAAGTCTCTA
66 A-AAGCCTCTA
* ** * * *
37661844 TGGTGAATTATTTGTAAAGCCTTTGTGGCGAGTTATCTGTAAAGCCTTTGTGGCAAATTATTTGT
1 TGGTGAATTATCTAAAAAGCCTTTGTGGCGAGTTATCTGTAAAGCCTTTATGGCGAATTATCTGT
*
37661909 AAAGCCTTTA
66 AAAGCCTCTA
* * * *
37661919 TGGTGAATTATCTAAAAAGCTTTTATGGCAAGTTATCTGTAAAGTCTTTATGGCGAATTATCT
1 TGGTGAATTATCTAAAAAGCCTTTGTGGCGAGTTATCTGTAAAGCCTTTATGGCGAATTATCT
37661982 AAAACATCTT
Statistics
Matches: 117, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
75 116 0.99
76 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.38
Consensus pattern (75 bp):
TGGTGAATTATCTAAAAAGCCTTTGTGGCGAGTTATCTGTAAAGCCTTTATGGCGAATTATCTGT
AAAGCCTCTA
Found at i:37661991 original size:25 final size:24
Alignment explanation
Indices: 37661914--37661998 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
37661904 TTTGTAAAGC
* *
37661914 CTTTATGGTGAATTATCTAAAAAG
1 CTTTATGGCGAATTATCTAAAAAT
* *
37661938 CTTTTATGGC-AAGTTATCTGTAAAGT
1 C-TTTATGGCGAA-TTATCT-AAAAAT
37661964 CTTTATGGCGAATTATCTAAAACAT
1 CTTTATGGCGAATTATCTAAAA-AT
*
37661989 CTTTGTGGCG
1 CTTTATGGCG
37661999 TATTGTATGG
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
24 6 0.12
25 37 0.76
26 6 0.12
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (24 bp):
CTTTATGGCGAATTATCTAAAAAT
Found at i:37665177 original size:22 final size:23
Alignment explanation
Indices: 37665146--37665188 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
37665136 ACCTTTTTGA
37665146 ACCATTACCAATTCGTACCAAAT
1 ACCATTACCAATTCGTACCAAAT
*
37665169 ACCA-TACCATTTCGTACCAA
1 ACCATTACCAATTCGTACCAA
37665189 TTCCTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.33, G:0.05, T:0.26
Consensus pattern (23 bp):
ACCATTACCAATTCGTACCAAAT
Found at i:37670921 original size:22 final size:23
Alignment explanation
Indices: 37670890--37670932 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
37670880 ACCTTTTTGA
37670890 ACCATTACCAATTCGTACCAAAT
1 ACCATTACCAATTCGTACCAAAT
*
37670913 ACCA-TACCATTTCGTACCAA
1 ACCATTACCAATTCGTACCAA
37670933 TTCCTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.33, G:0.05, T:0.26
Consensus pattern (23 bp):
ACCATTACCAATTCGTACCAAAT
Found at i:37672604 original size:20 final size:19
Alignment explanation
Indices: 37672581--37672645 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
37672571 AAGCTTAAAC
37672581 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
37672601 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
37672621 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
37672641 GAGCT
1 GAGCT
37672646 GGGAAAACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:37672634 original size:30 final size:29
Alignment explanation
Indices: 37672576--37672645 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 29
37672566 AAGCCAAGCT
37672576 TAAACGAGCTAAAGTAAGCTAAATTGAGC
1 TAAACGAGCTAAAGTAAGCTAAATTGAGC
* *
37672605 TCAAACGAGCTAAATTAAGCT-CATGTGAGC
1 T-AAACGAGCTAAAGTAAGCTAAAT-TGAGC
37672635 TAAATCGAGCT
1 TAAA-CGAGCT
37672646 GGGAAAACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 6 0.17
30 30 0.83
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (29 bp):
TAAACGAGCTAAAGTAAGCTAAATTGAGC
Found at i:37681274 original size:18 final size:17
Alignment explanation
Indices: 37681249--37681282 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
37681239 AAATAAAAGT
37681249 AAAGTATAAAAAGTATA
1 AAAGTATAAAAAGTATA
*
37681266 AAAGATATAACAAGTAT
1 AAAG-TATAAAAAGTAT
37681283 TATATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAGTATAAAAAGTATA
Found at i:37682366 original size:17 final size:17
Alignment explanation
Indices: 37682307--37682371 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
37682297 AATTAAGTCA
*
37682307 ATAATTAATTTTTGAAA-
1 ATAATTAATTATT-AAAT
*
37682324 AAAATTAATTATTAAAT
1 ATAATTAATTATTAAAT
* *
37682341 ATAAATAATTAGTTTAAT
1 ATAATTAATTA-TTAAAT
37682359 -TAATTAATT-TTAA
1 ATAATTAATTATTAA
37682372 TTGAATAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
15 3 0.08
16 3 0.08
17 28 0.72
18 5 0.13
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATAATTAATTATTAAAT
Found at i:37682436 original size:16 final size:16
Alignment explanation
Indices: 37682417--37682450 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37682407 ATATTTTAGC
37682417 TTTATCGTATTAAAAT
1 TTTATCGTATTAAAAT
* *
37682433 TTTATTGTATTAGAAT
1 TTTATCGTATTAAAAT
37682449 TT
1 TT
37682451 GTGTAAACGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (16 bp):
TTTATCGTATTAAAAT
Found at i:37685361 original size:27 final size:27
Alignment explanation
Indices: 37685329--37685505 Score: 228
Period size: 27 Copynumber: 6.6 Consensus size: 27
37685319 TACGCCACTA
* * *
37685329 AAAGGCTTTTATTTCATATTACGCTAC
1 AAAGGCTTTTCTTTCATATTATGCCAC
37685356 AAAGGCTTTTCTTTCATATTATGCCAC
1 AAAGGCTTTTCTTTCATATTATGCCAC
* * * *
37685383 AAAGTCTTTCCTTTTATATTATGCTAC
1 AAAGGCTTTTCTTTCATATTATGCCAC
* * *
37685410 AAAGTCTTTCCTTTCATATTACGCCAC
1 AAAGGCTTTTCTTTCATATTATGCCAC
37685437 AAAGGCTTTTCTTTCATATTATGCCAC
1 AAAGGCTTTTCTTTCATATTATGCCAC
*** *
37685464 AAATTATTTTCTTTCATATTATGCCAT
1 AAAGGCTTTTCTTTCATATTATGCCAC
37685491 AAAGGCTTTTCTTTC
1 AAAGGCTTTTCTTTC
37685506 CTAACATGTT
Statistics
Matches: 130, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 130 1.00
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.44
Consensus pattern (27 bp):
AAAGGCTTTTCTTTCATATTATGCCAC
Done.