Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 117 of 228
Found at i:34498558 original size:45 final size:45
Alignment explanation
Indices: 34498494--34498580 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
34498484 GGATCCTCAG
* *
34498494 GATGAGTATGAGGACCTAGCTCGCTCCCCTCCTCCTTCGAGTCAA
1 GATGAGCACGAGGACCTAGCTCGCTCCCCTCCTCCTTCGAGTCAA
*
34498539 GATGAGCACGAGGACCTAGCTCGCTCCCCTCCTCCTTTGAGT
1 GATGAGCACGAGGACCTAGCTCGCTCCCCTCCTCCTTCGAGT
34498581 TACCCTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.18, C:0.34, G:0.23, T:0.24
Consensus pattern (45 bp):
GATGAGCACGAGGACCTAGCTCGCTCCCCTCCTCCTTCGAGTCAA
Found at i:34498877 original size:15 final size:16
Alignment explanation
Indices: 34498841--34498877 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
34498831 TTTTTGACTG
34498841 TATTT-TTTTTATTGT
1 TATTTGTTTTTATTGT
*
34498856 TAGTTGTTTTTATT-T
1 TATTTGTTTTTATTGT
34498871 TATTTGT
1 TATTTGT
34498878 GAGACTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.76
Consensus pattern (16 bp):
TATTTGTTTTTATTGT
Found at i:34509369 original size:15 final size:15
Alignment explanation
Indices: 34509351--34509390 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
34509341 ACGAATATTA
34509351 TAATATATTTCAATT
1 TAATATATTTCAATT
*
34509366 TAATAAATTT-AATT
1 TAATATATTTCAATT
34509380 TAAT-TATTTCA
1 TAATATATTTCA
34509391 TAGATCAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 4 0.18
14 9 0.41
15 9 0.41
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATATATTTCAATT
Found at i:34509381 original size:14 final size:15
Alignment explanation
Indices: 34509351--34509383 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34509341 ACGAATATTA
*
34509351 TAATATATTTCAATT
1 TAATAAATTTCAATT
34509366 TAATAAATTT-AATT
1 TAATAAATTTCAATT
34509380 TAAT
1 TAAT
34509384 TATTTCATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATAAATTTCAATT
Found at i:34509993 original size:20 final size:19
Alignment explanation
Indices: 34509968--34510017 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
34509958 GCTCGTATCG
34509968 GATTGCACTTTGGTGCCTCT
1 GATTGCACTTT-GTGCCTCT
*
34509988 GATTGCACATTTGTGCTTCT
1 GATTGCAC-TTTGTGCCTCT
34510008 -ATCTGCACTT
1 GAT-TGCACTT
34510018 CAATGCCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
GATTGCACTTTGTGCCTCT
Found at i:34527265 original size:15 final size:15
Alignment explanation
Indices: 34527242--34527277 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
34527232 CCTATTGGAC
34527242 ACATCACTAACAGAT
1 ACATCACTAACAGAT
* *
34527257 ACATGACTATCAGAT
1 ACATCACTAACAGAT
34527272 ACATCA
1 ACATCA
34527278 AAACTAGACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.22
Consensus pattern (15 bp):
ACATCACTAACAGAT
Found at i:34533658 original size:16 final size:16
Alignment explanation
Indices: 34533637--34533678 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
34533627 AACATGATTT
34533637 TTACTTTCTTCTTTAC
1 TTACTTTCTTCTTTAC
34533653 TTACTTTCTTCTTTAC
1 TTACTTTCTTCTTTAC
*
34533669 TTACTCTCTT
1 TTACTTTCTT
34533679 ACTTGTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (16 bp):
TTACTTTCTTCTTTAC
Found at i:34533687 original size:20 final size:20
Alignment explanation
Indices: 34533649--34533702 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
34533639 ACTTTCTTCT
* * *
34533649 TTACTTACTTTCTTCTTTAC
1 TTACTTGCTTACTTGTTTAC
34533669 TTACTCT-CTTACTTGTTTAC
1 TTACT-TGCTTACTTGTTTAC
34533689 TTACTTGCTTACTT
1 TTACTTGCTTACTT
34533703 AAATAACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.15, C:0.24, G:0.04, T:0.57
Consensus pattern (20 bp):
TTACTTGCTTACTTGTTTAC
Found at i:34534032 original size:50 final size:50
Alignment explanation
Indices: 34533970--34534102 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 50
34533960 CAATATCATA
* * * *
34533970 TCCCAGATATGGTCTTACACAGGA-GTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACACAGGACCTT-TCATATCGGTGCCAACGCCATG
*** *
34534020 TCCCAGACATGGTCTTACGGGGGACCTTTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACACAGGACCTTTCATATCGGTGCCAACGCCATG
* **
34534070 TCCCAGACATTGTCTTACATGGGACCTTTCATA
1 TCCCAGACATGGTCTTACACAGGACCTTTCATA
34534103 ACCTCAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
50 68 0.97
51 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACACAGGACCTTTCATATCGGTGCCAACGCCATG
Found at i:34535903 original size:14 final size:14
Alignment explanation
Indices: 34535884--34535923 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34535874 TTGATTGGCT
34535884 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
34535898 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
34535912 GGAAAATGTTTT
1 GTAAAATGTTTT
34535924 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:34535936 original size:34 final size:35
Alignment explanation
Indices: 34535892--34535958 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
34535882 CTGTAAAATG
* *
34535892 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
34535926 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
34535959 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:34535945 original size:20 final size:20
Alignment explanation
Indices: 34535907--34535946 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34535897 CGTAAAATGA
**
34535907 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
34535927 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
34535947 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:34544042 original size:26 final size:27
Alignment explanation
Indices: 34543987--34544055 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
34543977 GTGGGTTCAC
34543987 TAAAATGACCGAAATATCCCAAAAGTG
1 TAAAATGACCGAAATATCCCAAAAGTG
*
34544014 TAAAATGATCG-AATATCCCTAAAAG-G
1 TAAAATGACCGAAATATCCC-AAAAGTG
*
34544040 TAAAATGACTGAAATA
1 TAAAATGACCGAAATA
34544056 CCTTCATAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 18 0.49
27 19 0.51
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (27 bp):
TAAAATGACCGAAATATCCCAAAAGTG
Found at i:34544344 original size:21 final size:21
Alignment explanation
Indices: 34544305--34544344 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34544295 TATCTCCACA
**
34544305 TGGTGTGTTGGTGGTATGGGG
1 TGGTGTGTTGGTGAAATGGGG
*
34544326 TGGTGTGTTGGTTAAATGG
1 TGGTGTGTTGGTGAAATGG
34544345 CATGTATAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.50, T:0.40
Consensus pattern (21 bp):
TGGTGTGTTGGTGAAATGGGG
Found at i:34547037 original size:28 final size:28
Alignment explanation
Indices: 34546997--34547070 Score: 148
Period size: 28 Copynumber: 2.6 Consensus size: 28
34546987 CAAACGACTG
34546997 TGTCGCTTGGCCGTGTGTGACACGGCCA
1 TGTCGCTTGGCCGTGTGTGACACGGCCA
34547025 TGTCGCTTGGCCGTGTGTGACACGGCCA
1 TGTCGCTTGGCCGTGTGTGACACGGCCA
34547053 TGTCGCTTGGCCGTGTGT
1 TGTCGCTTGGCCGTGTGT
34547071 CATACATGGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.08, C:0.27, G:0.36, T:0.28
Consensus pattern (28 bp):
TGTCGCTTGGCCGTGTGTGACACGGCCA
Found at i:34558010 original size:33 final size:33
Alignment explanation
Indices: 34557968--34558031 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
34557958 AACAGTCTAG
* * *
34557968 GCCTGAGCCCTATTCAGTAACAGTACAGTGTGA
1 GCCTGAGCCCAATACAATAACAGTACAGTGTGA
* *
34558001 GCCTTAGCCCAATACAATAATAGTACAGTGT
1 GCCTGAGCCCAATACAATAACAGTACAGTGT
34558032 AATAATGCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (33 bp):
GCCTGAGCCCAATACAATAACAGTACAGTGTGA
Found at i:34558161 original size:26 final size:26
Alignment explanation
Indices: 34558127--34558206 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
34558117 AACACACCAA
*
34558127 TATCACAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* *
34558153 TATCGCAGCGAAGCTGCCAGTATTAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
*
34558179 TATCGCAGCAAAGCTGCTAGTAA-AG
1 TATCGCAGCAAAGCTGCCAGTAATAG
34558204 TAT
1 TAT
34558207 ATGTGGCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 5 0.10
26 43 0.90
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAATAG
Found at i:34558407 original size:26 final size:27
Alignment explanation
Indices: 34558371--34558433 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
34558361 GGCCCGGCCC
* * *
34558371 ATTTTTAAAAT-AAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAATT
34558397 ATTTTAAAAATAAAAAAATAAAAAAATT
1 ATTTTAAAAAT-AAAAAATAAAAAAATT
34558425 ATTTTAAAA
1 ATTTTAAAA
34558434 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 10 0.31
28 22 0.69
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAATAAAAAAATT
Found at i:34561744 original size:80 final size:81
Alignment explanation
Indices: 34561606--34561768 Score: 310
Period size: 80 Copynumber: 2.0 Consensus size: 81
34561596 CTTGAATTCA
34561606 TCAAATTGATCAATGAGGTAAATAATGATGTAGGAATCCCAACTTTAGCAAGAAGAATTGAGTCC
1 TCAAATTGATCAATGAGGTAAATAATGA-GTAGGAATCCCAACTTTAGCAAGAAGAATTGAGTCC
34561671 TTGTGCTCAAGAAATTG
65 TTGTGCTCAAGAAATTG
34561688 TCAAATTGATCAATGAGGTAAATAATGA-TAGGAATCCCAACTTTAGCAAGAAGAATTGAGTCCT
1 TCAAATTGATCAATGAGGTAAATAATGAGTAGGAATCCCAACTTTAGCAAGAAGAATTGAGTCCT
34561752 TGTGCTCAAGAAATTG
66 TGTGCTCAAGAAATTG
34561768 T
1 T
34561769 GAGGACAAAT
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
80 53 0.65
82 28 0.35
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (81 bp):
TCAAATTGATCAATGAGGTAAATAATGAGTAGGAATCCCAACTTTAGCAAGAAGAATTGAGTCCT
TGTGCTCAAGAAATTG
Found at i:34568342 original size:6 final size:6
Alignment explanation
Indices: 34568331--34568375 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
34568321 GGATTGCAAG
* * *
34568331 TTTCCA TTTCCA TTTTCA TTTTCG TTTCCA TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
34568376 TTAAAAACCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.13, C:0.27, G:0.02, T:0.58
Consensus pattern (6 bp):
TTTCCA
Found at i:34568362 original size:24 final size:24
Alignment explanation
Indices: 34568330--34568376 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
34568320 AGGATTGCAA
*
34568330 GTTTCCATTTCCATTTTCATTTTC
1 GTTTCCATTTCCATTTCCATTTTC
34568354 GTTTCCATTTCCATTTCCATTTT
1 GTTTCCATTTCCATTTCCATTTT
34568377 TAAAAACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.13, C:0.26, G:0.04, T:0.57
Consensus pattern (24 bp):
GTTTCCATTTCCATTTCCATTTTC
Found at i:34575088 original size:11 final size:10
Alignment explanation
Indices: 34575060--34575089 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
34575050 CTTACCCTTG
34575060 GTAAAATATT
1 GTAAAATATT
34575070 GTAAAATATT
1 GTAAAATATT
34575080 GTGAAAATAT
1 GT-AAAATAT
34575090 GTTCAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (10 bp):
GTAAAATATT
Found at i:34577623 original size:27 final size:27
Alignment explanation
Indices: 34577582--34577708 Score: 132
Period size: 27 Copynumber: 4.7 Consensus size: 27
34577572 CACACCAAAA
*
34577582 AAATGGAAGCCTTTGTGGCAATTTGTG
1 AAATGGAAGCCTTTGTGGCAATTTATG
* *
34577609 AATTGGAAGCCTTTGTGAC-ATTCTATG
1 AAATGGAAGCCTTTGTGGCAATT-TATG
* *
34577636 AAATGGAAGCCTTCGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATTTATG
* * *
34577663 AAATGGAAGGCTTTGTGGCGATCTATGG
1 AAATGGAAGCCTTTGTGGCAATTTAT-G
*
34577691 AAA-GGAACTCCTTTGTGG
1 AAATGGAA-GCCTTTGTGG
34577709 TGCATTCTAG
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
26 3 0.04
27 67 0.80
28 14 0.17
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATTTATG
Found at i:34577688 original size:54 final size:55
Alignment explanation
Indices: 34577582--34577697 Score: 148
Period size: 54 Copynumber: 2.1 Consensus size: 55
34577572 CACACCAAAA
* * * *
34577582 AAATGGAAGCCTTTGTGGCAATTTGTGAATTGGAAGCCTTTGTGACATTCTAT-G
1 AAATGGAAGCCTTCGTGGCAATCTATGAAATGGAAGCCTTTGTGACATTCTATGG
* *
34577636 AAATGGAAGCCTTCGTGGCAATCTATGAAATGGAAGGCTTTGTGGCGA-TCTATGG
1 AAATGGAAGCCTTCGTGGCAATCTATGAAATGGAAGCCTTTGTGAC-ATTCTATGG
34577691 AAA-GGAA
1 AAATGGAA
34577698 CTCCTTTGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
54 49 0.91
55 5 0.09
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (55 bp):
AAATGGAAGCCTTCGTGGCAATCTATGAAATGGAAGCCTTTGTGACATTCTATGG
Found at i:34584240 original size:40 final size:40
Alignment explanation
Indices: 34584185--34584349 Score: 208
Period size: 40 Copynumber: 4.1 Consensus size: 40
34584175 TTGAATGATG
* * *
34584185 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* *
34584225 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
34584265 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
34584305 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
34584345 TCCGG
1 TCCGG
34584350 TTAAATTCCG
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
39 2 0.02
40 101 0.91
41 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:34586723 original size:17 final size:17
Alignment explanation
Indices: 34586703--34586735 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34586693 CGAAAGCTTG
34586703 ATCAGGTTAGAAGCTCA
1 ATCAGGTTAGAAGCTCA
34586720 ATCAGGTTAGAAGCTC
1 ATCAGGTTAGAAGCTC
34586736 CTCGGAGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (17 bp):
ATCAGGTTAGAAGCTCA
Found at i:34592542 original size:45 final size:45
Alignment explanation
Indices: 34592473--34592649 Score: 198
Period size: 45 Copynumber: 4.0 Consensus size: 45
34592463 TACGTTACCC
* * * * * *
34592473 GGTACCATTGATTATAAATGTGGTTGTTGTGTGCTGACTCCATCG
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
*
34592518 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * **
34592563 GGTA-CTACTGATTATGAAGGTGGTTGCTATGTTTTGATTCCACCG
1 GGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * *
34592608 AGTATCATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCACC
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
34592650 ATGTACCTGT
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
43 6 0.05
44 12 0.11
45 94 0.83
46 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (45 bp):
GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
Found at i:34602401 original size:40 final size:40
Alignment explanation
Indices: 34602216--34602394 Score: 220
Period size: 40 Copynumber: 4.5 Consensus size: 40
34602206 ATGTCTGGGC
* * * * **
34602216 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGT
*
34602256 TAAGAT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
34602296 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
34602336 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
* *
34602376 TATGTCCCGAAAGCATTTG
1 TAAGTCCCGAAGGCATTTG
34602395 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 113 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:34602401 original size:80 final size:79
Alignment explanation
Indices: 34602262--34602427 Score: 210
Period size: 80 Copynumber: 2.1 Consensus size: 79
34602252 GGACTAAGAT
* * **
34602262 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAAGCATTTGAACGAG-TAGCT
*
34602326 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
34602342 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAAGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGATACTA-AATCCGGGCTAAGTCCCGAAAGCATTTGAACGAGTAGCT
* *
34602406 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
34602421 CCGAAGG
1 CCGAAGG
34602428 TATGTGATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 16 0.21
80 57 0.76
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAAGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:34613069 original size:17 final size:17
Alignment explanation
Indices: 34613047--34613084 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
34613037 TAAGTTGTCT
34613047 TTCTGGCAATGTAAACG
1 TTCTGGCAATGTAAACG
34613064 TTCTGGCAATGTAAACG
1 TTCTGGCAATGTAAACG
34613081 TTCT
1 TTCT
34613085 TACAATGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (17 bp):
TTCTGGCAATGTAAACG
Found at i:34613090 original size:17 final size:17
Alignment explanation
Indices: 34613047--34613091 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
34613037 TAAGTTGTCT
*
34613047 TTCTGGCAATGTAAACG
1 TTCTGACAATGTAAACG
*
34613064 TTCTGGCAATGTAAACG
1 TTCTGACAATGTAAACG
*
34613081 TTCTTACAATG
1 TTCTGACAATG
34613092 CCACTTCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (17 bp):
TTCTGACAATGTAAACG
Found at i:34614382 original size:8 final size:8
Alignment explanation
Indices: 34614369--34614393 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34614359 TTACAACTCC
34614369 TAACCACT
1 TAACCACT
34614377 TAACCACT
1 TAACCACT
34614385 TAACCACT
1 TAACCACT
34614393 T
1 T
34614394 CACTCCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (8 bp):
TAACCACT
Found at i:34620044 original size:12 final size:11
Alignment explanation
Indices: 34620019--34620056 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
34620009 GAACATGATG
34620019 AATTTTA-ATT
1 AATTTTATATT
34620029 AATTTTATAGTT
1 AATTTTATA-TT
34620041 AATTTT-TATT
1 AATTTTATATT
34620051 AATTTT
1 AATTTT
34620057 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:34627693 original size:39 final size:40
Alignment explanation
Indices: 34627598--34627820 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
34627588 TTGAATGATG
*
34627598 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
34627636 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
34627677 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34627716 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
34627755 TCCTGGTTAAGTCCCGAAGGCATTTATGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
34627794 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
34627821 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 92 0.57
40 56 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:34627842 original size:79 final size:79
Alignment explanation
Indices: 34627650--34627853 Score: 195
Period size: 79 Copynumber: 2.6 Consensus size: 79
34627640 GGACTAAGAT
** * * * *
34627650 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCTGGTTAAGTCCCGAAGGCATTTATGCGAGATACT
*
34627713 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** *
34627728 CCGAAGGCATTTGTGCGAGTTACTAAATCCTGGTTAAGTCCCGAAGGCATTTATGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCTGGTTAAGTCCCGAAGGCATTTATGCGAGA-TACT
*
34627792 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
34627808 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCTGGTTAAGTCCCGAAGG
34627854 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 36 0.33
79 46 0.43
80 25 0.23
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCTGGTTAAGTCCCGAAGGCATTTATGCGAGATACTA
ATACCGGGCTAAGC
Found at i:34644239 original size:39 final size:40
Alignment explanation
Indices: 34644144--34644366 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
34644134 TTGAATGATG
*
34644144 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
34644182 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
34644223 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34644262 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
34644301 TCCTGGTTAAGTCCCGAAGGCATTTATGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
34644340 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
34644367 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 92 0.57
40 56 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:34644388 original size:79 final size:79
Alignment explanation
Indices: 34644196--34644399 Score: 195
Period size: 79 Copynumber: 2.6 Consensus size: 79
34644186 GGACTAAGAT
** * * * *
34644196 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCTGGTTAAGTCCCGAAGGCATTTATGCGAGATACT
*
34644259 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** *
34644274 CCGAAGGCATTTGTGCGAGTTACTAAATCCTGGTTAAGTCCCGAAGGCATTTATGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCTGGTTAAGTCCCGAAGGCATTTATGCGAGA-TACT
*
34644338 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
34644354 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCTGGTTAAGTCCCGAAGG
34644400 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 36 0.33
79 46 0.43
80 25 0.23
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCTGGTTAAGTCCCGAAGGCATTTATGCGAGATACTA
ATACCGGGCTAAGC
Found at i:34652205 original size:25 final size:25
Alignment explanation
Indices: 34652177--34652227 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
34652167 CCCCCAAACA
34652177 TCCACTTATGATTTCAAACCAATCG
1 TCCACTTATGATTTCAAACCAATCG
34652202 TCCACTTATGATTTCAAACCAATCG
1 TCCACTTATGATTTCAAACCAATCG
34652227 T
1 T
34652228 TGAAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (25 bp):
TCCACTTATGATTTCAAACCAATCG
Found at i:34653917 original size:17 final size:16
Alignment explanation
Indices: 34653897--34653952 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
34653887 TGGTTTATCA
34653897 ATTTATTTCGTTTATTT
1 ATTTATTTC-TTTATTT
34653914 A-TT-TTTCTTTATTT
1 ATTTATTTCTTTATTT
* *
34653928 ATTTCTTTTCTTTAGTT
1 ATTT-ATTTCTTTATTT
34653945 ATTTATTT
1 ATTTATTT
34653953 GTATTCCCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 8 0.24
15 6 0.18
16 5 0.15
17 15 0.44
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (16 bp):
ATTTATTTCTTTATTT
Found at i:34653926 original size:14 final size:15
Alignment explanation
Indices: 34653902--34653931 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
34653892 TATCAATTTA
34653902 TTTCGTTTATTTATT
1 TTTCGTTTATTTATT
34653917 TTTC-TTTATTTATT
1 TTTCGTTTATTTATT
34653931 T
1 T
34653932 CTTTTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTCGTTTATTTATT
Found at i:34657623 original size:44 final size:44
Alignment explanation
Indices: 34657569--34657654 Score: 113
Period size: 44 Copynumber: 1.9 Consensus size: 44
34657559 GTAAAATAGA
*
34657569 AGTTGAGATAATTA-T-ATATTTAAAAATAATTATAATTTAATCAG
1 AGTTGAGATAATTATTAATATTT-AAAAT-ATTAAAATTTAATCAG
*
34657613 AGTTGTGATAATTATTACATATTTAAAATATTAAAATTTAAT
1 AGTTGAGATAATTATTA-ATATTTAAAATATTAAAATTTAAT
34657655 TTCTACTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
44 13 0.35
45 13 0.35
46 5 0.14
47 6 0.16
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (44 bp):
AGTTGAGATAATTATTAATATTTAAAATATTAAAATTTAATCAG
Found at i:34658143 original size:19 final size:18
Alignment explanation
Indices: 34658119--34658155 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
34658109 TCTTTAGAAT
34658119 TTTTTTAAAAAAATCATAA
1 TTTTTTAAAAAAAT-ATAA
*
34658138 TTTTTTGAAAAAATATAA
1 TTTTTTAAAAAAATATAA
34658156 AATTTGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTTTTAAAAAAATATAA
Found at i:34658159 original size:20 final size:20
Alignment explanation
Indices: 34658116--34658160 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
34658106 TATTCTTTAG
* *
34658116 AATTTTTTTAAAAAAATCAT
1 AATTTTTTGAAAAAAATCAA
34658136 AATTTTTTGAAAAAATAT-AA
1 AATTTTTTGAAAAAA-ATCAA
34658156 AATTT
1 AATTT
34658161 GGAATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AATTTTTTGAAAAAAATCAA
Found at i:34658171 original size:17 final size:17
Alignment explanation
Indices: 34658151--34658193 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
34658141 TTTGAAAAAA
*
34658151 TATAAAATTTGGAATTT
1 TATAAAATTTGAAATTT
*
34658168 TATAAATATTTTAAATTT
1 TATAAA-ATTTGAAATTT
34658186 T-TAAAATT
1 TATAAAATT
34658194 ATTTTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 10 0.43
18 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TATAAAATTTGAAATTT
Found at i:34658225 original size:19 final size:18
Alignment explanation
Indices: 34658165--34658224 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 18
34658155 AAATTTGGAA
34658165 TTTTATAAA-TATTTTAAAT
1 TTTTA-AAATTATTTT-AAT
34658184 TTTTAAAATTATTTTGAAT
1 TTTTAAAATTATTTT-AAT
34658203 TTTTAAAATTATTTTAAT
1 TTTTAAAATTATTTTAAT
34658221 TTTT
1 TTTT
34658225 TTGTAATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
18 10 0.26
19 29 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTAAAATTATTTTAAT
Found at i:34658226 original size:9 final size:9
Alignment explanation
Indices: 34658163--34658225 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
34658153 TAAAATTTGG
*
34658163 AATTTTATA
1 AATTTTTTA
*
34658172 AATATTTTA
1 AATTTTTTA
*
34658181 AATTTTTAA
1 AATTTTTTA
*
34658190 AATTATTTTG
1 AATT-TTTTA
*
34658200 AATTTTTAA
1 AATTTTTTA
34658209 AATTATTTT-
1 AATT-TTTTA
34658218 AATTTTTT
1 AATTTTTT
34658226 TGTAATTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
8 4 0.09
9 29 0.67
10 10 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
AATTTTTTA
Found at i:34667113 original size:20 final size:20
Alignment explanation
Indices: 34667088--34667132 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34667078 CAGAGAGTAT
*
34667088 CGAAGTGAAAATAGAGCCAC
1 CGAAGTGAAAACAGAGCCAC
* *
34667108 CGAAGTGCAAACAGAGGCAC
1 CGAAGTGAAAACAGAGCCAC
34667128 CGAAG
1 CGAAG
34667133 CATAATTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.22, G:0.29, T:0.07
Consensus pattern (20 bp):
CGAAGTGAAAACAGAGCCAC
Found at i:34667222 original size:20 final size:20
Alignment explanation
Indices: 34667096--34667279 Score: 96
Period size: 20 Copynumber: 9.2 Consensus size: 20
34667086 ATCGAAGTGA
* *
34667096 AAAT-AGAGCCACCGAAGTG
1 AAATCAGAGGCACCGAAATG
34667115 CAAA-CAGAGGCACCG-AA-G
1 -AAATCAGAGGCACCGAAATG
* * **
34667133 CATAATTAGAGGCACTGAACCG
1 -A-AATCAGAGGCACCGAAATG
*
34667155 TAATCAGAGGCACCG-AA-G
1 AAATCAGAGGCACCGAAATG
*
34667173 CACAATTAGAGGCACC-AAAGTG
1 -A-AATCAGAGGCACCGAAA-TG
34667195 TAAA-CAGAGGCACCGAAATG
1 -AAATCAGAGGCACCGAAATG
**
34667215 AAATCAGAGGCATTGAAATG
1 AAATCAGAGGCACCGAAATG
* ** *
34667235 CAATCAGAGGCGTCGAAGTG
1 AAATCAGAGGCACCGAAATG
* *
34667255 AAAACAGAGGCATCGAAATG
1 AAATCAGAGGCACCGAAATG
*
34667275 CAATC
1 AAATC
34667280 CTATACAAGC
Statistics
Matches: 127, Mismatches: 25, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
18 4 0.03
19 7 0.06
20 107 0.84
21 6 0.05
22 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.12
Consensus pattern (20 bp):
AAATCAGAGGCACCGAAATG
Found at i:34667226 original size:40 final size:40
Alignment explanation
Indices: 34667099--34667211 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
34667089 GAAGTGAAAA
* * *
34667099 TAGAGCCACCGAAGTGCAAACAGAGGCACCGAAGCATAAT
1 TAGAGGCACCGAAGTGTAAACAGAGGCACCGAAGCACAAT
* ** *
34667139 TAGAGGCACTGAACCGTAATCAGAGGCACCGAAGCACAAT
1 TAGAGGCACCGAAGTGTAAACAGAGGCACCGAAGCACAAT
*
34667179 TAGAGGCACCAAAGTGTAAACAGAGGCACCGAA
1 TAGAGGCACCGAAGTGTAAACAGAGGCACCGAA
34667212 ATGAAATCAG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.40, C:0.24, G:0.26, T:0.11
Consensus pattern (40 bp):
TAGAGGCACCGAAGTGTAAACAGAGGCACCGAAGCACAAT
Found at i:34667243 original size:40 final size:40
Alignment explanation
Indices: 34667199--34667279 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
34667189 AAAGTGTAAA
* *
34667199 CAGAGGCACCGAAATGAAATCAGAGGCATTGAAATGCAAT
1 CAGAGGCACCGAAATGAAAACAGAGGCATCGAAATGCAAT
** *
34667239 CAGAGGCGTCGAAGTGAAAACAGAGGCATCGAAATGCAAT
1 CAGAGGCACCGAAATGAAAACAGAGGCATCGAAATGCAAT
34667279 C
1 C
34667280 CTATACAAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (40 bp):
CAGAGGCACCGAAATGAAAACAGAGGCATCGAAATGCAAT
Found at i:34670090 original size:23 final size:23
Alignment explanation
Indices: 34670064--34670110 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34670054 ATCTGAATTC
34670064 CAATAAAGTCAGATGCATCTACA
1 CAATAAAGTCAGATGCATCTACA
34670087 CAATAAAGTCAGATGCATCTACA
1 CAATAAAGTCAGATGCATCTACA
34670110 C
1 C
34670111 CAAAATTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.21
Consensus pattern (23 bp):
CAATAAAGTCAGATGCATCTACA
Found at i:34678132 original size:42 final size:42
Alignment explanation
Indices: 34678084--34678186 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
34678074 TGAGTTTTCG
* *
34678084 TTTAACCCTAATGGG-TTTCAGTTTAGCTCTTTTGAGCTTTAC
1 TTTAACCCTAATGGGTTTTC-GTTCAGCTCTTATGAGCTTTAC
* *
34678126 TTTAACCCTTATGGGTTTTCGTTCAGCTCTTATGAGC-TTCC
1 TTTAACCCTAATGGGTTTTCGTTCAGCTCTTATGAGCTTTAC
* *
34678167 GTTCAACCCTTATGGGTTTT
1 -TTTAACCCTAATGGGTTTT
34678187 TGTTTAGAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 3 0.06
42 47 0.87
43 4 0.07
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTAACCCTAATGGGTTTTCGTTCAGCTCTTATGAGCTTTAC
Found at i:34678159 original size:21 final size:21
Alignment explanation
Indices: 34678129--34678186 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
34678119 GCTTTACTTT
34678129 AACCCTTATGGGTTTTCGTTC
1 AACCCTTATGGGTTTTCGTTC
* * * * *
34678150 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTTCGTTC
34678171 AACCCTTATGGGTTTT
1 AACCCTTATGGGTTTT
34678187 TGTTTAGAAC
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (21 bp):
AACCCTTATGGGTTTTCGTTC
Found at i:34679984 original size:17 final size:17
Alignment explanation
Indices: 34679958--34679990 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34679948 GTTAGTGCAC
*
34679958 ATTGTTATTGCATTTTT
1 ATTGTCATTGCATTTTT
34679975 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
34679991 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:34680002 original size:16 final size:16
Alignment explanation
Indices: 34679960--34680004 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
34679950 TAGTGCACAT
*
34679960 TGTTATTGCATTTTTAT
1 TGTTATTGCA-TTTTAA
*
34679977 TGTCATTGCATTTTAA
1 TGTTATTGCATTTTAA
*
34679993 TGTTAGTGCATT
1 TGTTATTGCATT
34680005 GGGGACAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.56
Consensus pattern (16 bp):
TGTTATTGCATTTTAA
Found at i:34681605 original size:16 final size:16
Alignment explanation
Indices: 34681584--34681616 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34681574 TGATAATAAT
*
34681584 TAATATATATTATTTA
1 TAATATATATTAATTA
34681600 TAATATATATTAATTA
1 TAATATATATTAATTA
34681616 T
1 T
34681617 TATCAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATATATTAATTA
Found at i:34685741 original size:43 final size:42
Alignment explanation
Indices: 34685629--34685742 Score: 99
Period size: 43 Copynumber: 2.6 Consensus size: 42
34685619 TGTGTTATCG
* * *
34685629 TGTATGACCACGTCTGGGACG-GAGACATCGACTGGTGTTTACG
1 TGTAAGACCACGTCTGGGACGTG-G-CATCGACTGGTGATTACA
* * *
34685672 TGTAAGACC-CTGTCTGAGATAGTGGCATCGA-TATGTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTGGCATCGACT-GGTGATTACA
34685715 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACG-TGGCAT
34685743 TGTACGAGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
42 3 0.05
43 50 0.88
44 3 0.05
45 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTGGCATCGACTGGTGATTACA
Found at i:34692667 original size:14 final size:15
Alignment explanation
Indices: 34692645--34692673 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34692635 TTTTTCTATG
34692645 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
34692660 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
34692674 AGTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:34693881 original size:43 final size:43
Alignment explanation
Indices: 34693807--34693936 Score: 142
Period size: 43 Copynumber: 3.0 Consensus size: 43
34693797 CATAGAATTT
* *
34693807 TCGAGATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTTGCA
1 TCGATATGTGTTTA-CGTGTAAGACCACGTCTGGGACGTTGGCA
* *
34693850 TCGACT-TGTGTTTACGTGTAAAACC-CTGTCTGGGATAG-TGGCA
1 TCGA-TATGTGTTTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCA
* *
34693893 TCGATATGTGTTTACATGTAAGACCACGTCAGGGACGTTGGCA
1 TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
34693936 T
1 T
34693937 TGTACGAGTT
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
42 3 0.04
43 64 0.89
44 5 0.07
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:34698979 original size:12 final size:11
Alignment explanation
Indices: 34698954--34698994 Score: 57
Period size: 12 Copynumber: 3.7 Consensus size: 11
34698944 TATTAACATG
*
34698954 TTAAATTTTAA
1 TTAATTTTTAA
34698965 TTAATTTTATAA
1 TTAATTTT-TAA
34698977 TTAATTTTT-A
1 TTAATTTTTAA
34698987 TTAATTTT
1 TTAATTTT
34698995 GAGTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 9 0.32
11 8 0.29
12 11 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTAATTTTTAA
Found at i:34710872 original size:25 final size:25
Alignment explanation
Indices: 34710831--34710925 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
34710821 ATGCTCATAT
* *
34710831 GAGCTTAA-AATGGTAAGCTCTTCC
1 GAGCTGAATAATGGTAAGCTCCTCC
* *
34710855 GAGCTGAACAATGGTAAGCTCCTCT
1 GAGCTGAATAATGGTAAGCTCCTCC
34710880 GAGCTGAATAATGGTAAGCTCCTCC
1 GAGCTGAATAATGGTAAGCTCCTCC
* *
34710905 AAGCTGAATAATAGTAAGCTC
1 GAGCTGAATAATGGTAAGCTC
34710926 ATACGATCTA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 7 0.11
25 56 0.89
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (25 bp):
GAGCTGAATAATGGTAAGCTCCTCC
Found at i:34729943 original size:16 final size:16
Alignment explanation
Indices: 34729922--34729952 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34729912 CTATGCATAC
*
34729922 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
34729938 AAAATACAAAAGACA
1 AAAATACAAAAGACA
34729953 TGATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:34737144 original size:40 final size:40
Alignment explanation
Indices: 34737100--34737211 Score: 174
Period size: 40 Copynumber: 2.8 Consensus size: 40
34737090 GCTACTCATT
*
34737100 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
34737140 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
34737180 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
34737212 TCTCTGTGAC
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 16 0.24
40 49 0.73
41 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34738117 original size:27 final size:26
Alignment explanation
Indices: 34738087--34738290 Score: 192
Period size: 27 Copynumber: 7.5 Consensus size: 26
34738077 AAATTGTACA
34738087 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* *
34738114 GCACTAAGTGTGCGAAATGAATATGTT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* * *
34738141 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
34738168 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
*
34738195 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
* * *
34738223 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTT
* * *
34738250 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTT
*
34738277 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
34738291 GGCTCAATAT
Statistics
Matches: 154, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 128 0.83
28 25 0.16
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:34738150 original size:54 final size:53
Alignment explanation
Indices: 34738087--34738290 Score: 221
Period size: 54 Copynumber: 3.8 Consensus size: 53
34738077 AAATTGTACA
* * *
34738087 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTT
1 GCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
* * ** *
34738141 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTA-GCACTAAGTGTGCGAATTGAATATGTG
* * *
34738195 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-T-TGACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
* * *
34738250 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
34738291 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 77 0.61
55 48 0.38
56 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (53 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
Found at i:34738254 original size:109 final size:108
Alignment explanation
Indices: 34738087--34738290 Score: 284
Period size: 109 Copynumber: 1.9 Consensus size: 108
34738077 AAATTGTACA
* * * *
34738087 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
34738152 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
** *
34738195 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
** * *
34738260 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
34738291 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 19 0.23
109 64 0.77
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (108 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:34741488 original size:19 final size:19
Alignment explanation
Indices: 34741464--34741556 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
34741454 AATAAATTAC
*
34741464 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
*
34741483 TCATCTTATTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * * *
34741502 TGC-T-GGAATAAATT-A-C
1 T-CATCTTAGTTAATTAAGT
*
34741518 TCACCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
34741537 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
34741556 T
1 T
34741557 GCTGGAATAT
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
15 1 0.02
16 1 0.02
17 7 0.13
18 7 0.13
19 37 0.69
20 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:34741504 original size:54 final size:54
Alignment explanation
Indices: 34741445--34741565 Score: 206
Period size: 54 Copynumber: 2.2 Consensus size: 54
34741435 ATAAGTATTT
* * *
34741445 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTATTTAATTA
1 AGTTGCTGGAATAAATTACTCACCTTAGTTAATTAAGTTCATCTTAGTTAATTA
*
34741499 AGTTGCTGGAATAAATTACTCACCTTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCACCTTAGTTAATTAAGTTCATCTTAGTTAATTA
34741553 AGTTGCTGGAATA
1 AGTTGCTGGAATA
34741566 TTTATTGTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCACCTTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:34744189 original size:860 final size:857
Alignment explanation
Indices: 34742200--34744237 Score: 3207
Period size: 862 Copynumber: 2.4 Consensus size: 857
34742190 TGTTTAAACT
* * * *
34742200 AAACTTATCACCCTTTGGTGTGACGTTCATATACCTTTGGTTCCTATCTCTTTTGATAGTGGGTC
1 AAACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
*
34742265 AAGGTCCTTGCTGTTTTCTTTAAACT-GTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAAC
66 AAGGTCCTTGTTGTTTTCTTTAAA-TAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAAC
* * *
34742329 AATCCAATATTGTTGGTTCATTCTCGATCTTAGCTAAATTATCCATTATTTACTTAACCATTTTA
130 AATCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATCCATTATTTACTTAACCATTTTA
*
34742394 CCTACTACCATTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACTGAAACAAACTTATCCT
195 CCTACTACCATTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACTGAAACGAACTTATCCT
*** * *
34742459 TACTCAATTCACGATTGGGCAATCTAAACGAAC-CAAATTATATTGAAAGGATTTCGTATCATTT
260 TACTCAATTCACGATT-GGCAATCTAAACG-ACTCAAATTATGCCG-AATGAGTTCGTATCATTT
34742523 GGTATCAAAGCTAGTGAAATTGAAGTGAGTATTGACGTTCGTAGCATTACGAGATTGTAAGAGAT
322 GGTATCAAAGCTAGTGAAATTGAAGTGAGTATTGACGTTCGTAGCATTACGAGATTGTAAGAGAT
* * * *
34742588 AAGAAAAATTTAGTTTCTATTGAGTTCAAAAAGTGCGAAAATCAGCATTCGGGGTACTAATTCAT
387 AAAAAAAATTCAGTTTCTATTGAGCTCAAAAAGTGCGAAAATCAGCATTCGGGGTACAAATTCAT
*
34742653 GGATTAAAAAAACTAGTTTGGAAATTTCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCGACC
452 GGATTAAAAAAACTAGTTTGGAAATTGCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCGACC
* *
34742718 TTTCGGCCACACTTACATCTTTTTTCCTTTTTTTGTTTTCTAGCCTACCCTTCGTCCTAATAATA
517 TTTCGGCCACACTTACATCTTTTTTCCTTTGTTTGTTTTCTAGCCTACCCTTCGTCCTAACAATA
* * * * *
34742783 TTACCTACCCATAATTGAACATCATTTTTGCAAGCTAACCCACATCACCTTCTGCTAAGTTAAAA
582 TTACATACCCATAACTGAACATCATTTTTGCAAGCCAACCCACATCACCTTCCGCTAAGGTAAAA
*
34742848 TAGTTCATTGCGAACATAGAGAGGCAGATTGAGCAAAAAAGGACAAGAGAGTGGTAAGTCCATTC
647 TAGTTCATTGCGAACACAGAGAGGCAGATTGAGCAAAAAAGGACAAGAGAGTGGTAAGTCCATTC
* * *
34742913 GAGTGAACAAAAGCCAAGTGAGTGAATTTTCTTTGGAGAGAAATAGTGAGGTTTTTGTTTGTGTG
712 GAGTGAAAAAAAGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGTGAGCTTTTTGTTTGTGTG
* *
34742978 AACTTAAGATGTTAAGAAGTACGAAAAGAAACCCAAACGAGGGAAGTAGTTTTCAACATATAAGA
777 AACTTAAGATGTCAAGAAGTACGAAAAGAAACCCAAACGAAGGAAGTAGTTTTCAACATATAAGA
34743043 AATGTTGGTAGAGACG
842 AATGTTGGTAGAGACG
*
34743059 AAACTTATCACCTTTTGCTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
1 AAACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
* * *
34743124 AAGGTCCATGTTGTTTTCTTTAAACAGTAAATCACCTAAGAGCCATTTTTAGACTCGGGTCAACA
66 AAGGTCCTTGTTGTTTTCTTTAAATAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACA
* * * *
34743189 ATCCAATATTTTT-CTTCAGTCTCGGTCTTAGCCAAATTATCCATTGTTTACTTAACCATTTTTC
131 ATCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATCCATTATTTACTTAACCATTTTAC
*
34743253 CTACTACCATTTTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACTGAAACGAACTTATCCTT
196 CTACTACCATTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACTGAAACGAACTTATCCTT
*
34743318 ACTCAATTCACGATTGGCAATCTAAATGACTCAAATTATGCCGAATCGAGTTCGTATCATTTGGT
261 ACTCAATTCACGATTGGCAATCTAAACGACTCAAATTATGCCGAAT-GAGTTCGTATCATTTGGT
* * *
34743383 GTCAGAGCTAGTGAAATTGAAGTGAGTTTTGACGTTCGTAGCATTACGAGATTGTAAGAGATAAA
325 ATCAAAGCTAGTGAAATTGAAGTGAGTATTGACGTTCGTAGCATTACGAGATTGTAAGAGAT-AA
* *
34743448 AAAAAATTCAGTTTCTATTGAGCTCAAAAAGTGTGAAAATCAGCATTTGGGGTACAAAATTCATG
389 AAAAAATTCAGTTTCTATTGAGCTCAAAAAGTGCGAAAATCAGCATTCGGGGTAC-AAATTCATG
* *
34743513 GATTAAACAAAAAGCTAGTTTGGAAATTGCTTTTTGCTGCCCGAAGTCACTTATCCACCCTCCTA
453 GATT-AA-AAAAA-CTAGTTTGGAAATTGCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCGA
34743578 CCATTT-GGCCACACTTACATCTTTTTTCCTTTGTTTGTTTTCTAGCCTACCCTTCGTCCTAACA
515 CC-TTTCGGCCACACTTACATCTTTTTTCCTTTGTTTGTTTTCTAGCCTACCCTTCGTCCTAACA
* * * *
34743642 ATATTACATACCCATAACTGAACATCATTTTTGCAAGCCGACCCATATCGCCTTCCGTTAAGGTA
579 ATATTACATACCCATAACTGAACATCATTTTTGCAAGCCAACCCACATCACCTTCCGCTAAGGTA
* *
34743707 AAATAG-TCTATTGCGAACACAGAGAGG-AGGATTGAGCGGAAAAAGG-CAAGAGAGTGGTGAGT
644 AAATAGTTC-ATTGCGAACACAGAGAGGCA-GATTGAGC-AAAAAAGGACAAGAGAGTGGTAAGT
*
34743769 CTATTCGAGTGAAAAAAAGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGTG-GCTTTTT-TT
706 CCATTCGAGTGAAAAAAAGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGTGAGCTTTTTGTT
* * *
34743832 TGTGTGAACTTAAGATGTCAAGAAGTCCGAAAAGAAACCCAAACGAAGGAAGTGGTTTTCAACCT
771 TGTGTGAACTTAAGATGTCAAGAAGTACGAAAAGAAACCCAAACGAAGGAAGTAGTTTTCAACAT
* * *
34743897 ATAAGGAATGTTGGTGGAGGCG
836 ATAAGAAATGTTGGTAGAGACG
*
34743919 AAACTTATCACCTTTTGGTGTGGCATTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
1 AAACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
*
34743984 AAGGTCCTTGTTGTTTTCTTTAAATAGTAAATCACCTAAGAGCCATTTTGAGACCCGGGTCAACA
66 AAGGTCCTTGTTGTTTTCTTTAAATAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACA
* * * *
34744049 ATCCAATATTTTTGGTTCATTCTCGGTCTTAACCAAATCATCTATTATTTACTTAATCATTTTAC
131 ATCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATCCATTATTTACTTAACCATTTTAC
34744114 CTACTACCATTGTTTGAAGCCATTTATCCTATTTT-TTTCATTTAA-TCGAAACGAACTTATCCT
196 CTACTACCATTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACT-GAAACGAACTTATCCT
* * *
34744177 TACTCAATTCACGATCGGGCAATCTAAACAACTCAAACTATGCCGAAATGAGTTCGTATCA
260 TACTCAATTCACGAT-TGGCAATCTAAACGACTCAAATTATGCCG-AATGAGTTCGTATCA
34744238 AATGTATTTC
Statistics
Matches: 1082, Mismatches: 81, Indels: 30
0.91 0.07 0.03
Matches are distributed among these distances:
856 4 0.00
857 97 0.09
858 175 0.16
859 145 0.13
860 261 0.24
861 128 0.12
862 262 0.24
863 10 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (857 bp):
AAACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
AAGGTCCTTGTTGTTTTCTTTAAATAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACA
ATCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATCCATTATTTACTTAACCATTTTAC
CTACTACCATTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACTGAAACGAACTTATCCTT
ACTCAATTCACGATTGGCAATCTAAACGACTCAAATTATGCCGAATGAGTTCGTATCATTTGGTA
TCAAAGCTAGTGAAATTGAAGTGAGTATTGACGTTCGTAGCATTACGAGATTGTAAGAGATAAAA
AAAATTCAGTTTCTATTGAGCTCAAAAAGTGCGAAAATCAGCATTCGGGGTACAAATTCATGGAT
TAAAAAAACTAGTTTGGAAATTGCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCGACCTTTC
GGCCACACTTACATCTTTTTTCCTTTGTTTGTTTTCTAGCCTACCCTTCGTCCTAACAATATTAC
ATACCCATAACTGAACATCATTTTTGCAAGCCAACCCACATCACCTTCCGCTAAGGTAAAATAGT
TCATTGCGAACACAGAGAGGCAGATTGAGCAAAAAAGGACAAGAGAGTGGTAAGTCCATTCGAGT
GAAAAAAAGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGTGAGCTTTTTGTTTGTGTGAACT
TAAGATGTCAAGAAGTACGAAAAGAAACCCAAACGAAGGAAGTAGTTTTCAACATATAAGAAATG
TTGGTAGAGACG
Found at i:34746955 original size:30 final size:28
Alignment explanation
Indices: 34746921--34746986 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 28
34746911 TGGAGATTTT
34746921 AAATTTAGGGACTAAAT-TGTAAAAAATGTA
1 AAATTTAGGGA--AAATATGTAAAAAATG-A
**
34746951 AAATTTTAGGGAAAATATGTAATTAATGA
1 AAA-TTTAGGGAAAATATGTAAAAAATGA
34746980 AAATTTA
1 AAATTTA
34746987 AGGGCCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 4 0.12
29 8 0.25
30 12 0.38
31 8 0.25
ACGTcount: A:0.50, C:0.02, G:0.15, T:0.33
Consensus pattern (28 bp):
AAATTTAGGGAAAATATGTAAAAAATGA
Found at i:34746966 original size:29 final size:30
Alignment explanation
Indices: 34746924--34746990 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
34746914 AGATTTTAAA
34746924 TTTAGGGACTAAAT-TGTAAAAAATGTAAAAT
1 TTTAGGGAC-AAATATGTAAAAAATG-AAAAT
**
34746955 TTTAGGGA-AAATATGTAATTAATGAAAAT
1 TTTAGGGACAAATATGTAAAAAATGAAAAT
*
34746984 TTAAGGG
1 TTTAGGG
34746991 CCATATACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 15 0.47
30 9 0.28
31 8 0.25
ACGTcount: A:0.46, C:0.01, G:0.19, T:0.33
Consensus pattern (30 bp):
TTTAGGGACAAATATGTAAAAAATGAAAAT
Found at i:34747542 original size:20 final size:20
Alignment explanation
Indices: 34747491--34747590 Score: 114
Period size: 20 Copynumber: 5.0 Consensus size: 20
34747481 TTGTACAGGA
*
34747491 TTGCACTTCAGTGCCTCTG-
1 TTGCACTTCGGTGCCTCTGT
** *
34747510 TCACACTTCGGTGTCTCTGT
1 TTGCACTTCGGTGCCTCTGT
* *
34747530 TTGCACTTTGGTGCCTCTGA
1 TTGCACTTCGGTGCCTCTGT
*
34747550 TTGCACAATC-GTGCCTCTGT
1 TTGCAC-TTCGGTGCCTCTGT
34747570 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
34747590 T
1 T
34747591 ACACATCTAT
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
19 17 0.26
20 47 0.72
21 1 0.02
ACGTcount: A:0.10, C:0.29, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:34751011 original size:20 final size:21
Alignment explanation
Indices: 34750973--34751014 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
34750963 AAAAGAAGAA
34750973 ATTTAAGAACTAAAAATAAAT
1 ATTTAAGAACTAAAAATAAAT
34750994 ATTTAA-AA-TAATAAATAAAT
1 ATTTAAGAACTAA-AAATAAAT
34751014 A
1 A
34751015 AATAGACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
ATTTAAGAACTAAAAATAAAT
Found at i:34753144 original size:28 final size:27
Alignment explanation
Indices: 34753113--34753170 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
34753103 ACTATTATTA
34753113 ATTTATTA-TTATTATTGGTACTGTTTTT
1 ATTT-TTACTTATTATT-GTACTGTTTTT
* *
34753141 ATTTTTACTTTATTATTTTATTGTTTTT
1 ATTTTTAC-TTATTATTGTACTGTTTTT
34753169 AT
1 AT
34753171 CAATTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 3 0.12
28 15 0.58
29 8 0.31
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69
Consensus pattern (27 bp):
ATTTTTACTTATTATTGTACTGTTTTT
Found at i:34753285 original size:6 final size:6
Alignment explanation
Indices: 34753274--34753301 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34753264 TTTTATAATA
34753274 TATTTT TATTTT TATTTT TATTTT TATT
1 TATTTT TATTTT TATTTT TATTTT TATT
34753302 AACCCCGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:34753560 original size:19 final size:19
Alignment explanation
Indices: 34753536--34753573 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34753526 AAGGGGAAAA
*
34753536 ACCTATTTTATTATATTTT
1 ACCTATTTTAATATATTTT
34753555 ACCTATTTTAATATATTTT
1 ACCTATTTTAATATATTTT
34753574 GCTTATATCA
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:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (19 bp):
ACCTATTTTAATATATTTT
Found at i:34758686 original size:18 final size:18
Alignment explanation
Indices: 34758663--34758719 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
34758653 AGAACCCCAT
*
34758663 CTGGAGTAATCACTTGGC
1 CTGGAGTAATCACTAGGC
34758681 CTGGAGTAATCACTAGGC
1 CTGGAGTAATCACTAGGC
*
34758699 CGGGAGTAATCACTAGGC
1 CTGGAGTAATCACTAGGC
34758717 CTG
1 CTG
34758720 TTACCCCATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (18 bp):
CTGGAGTAATCACTAGGC
Found at i:34772974 original size:43 final size:43
Alignment explanation
Indices: 34772927--34773083 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
34772917 CAATGTCATA
* * *
34772927 TCCCAGATATGGTCTTACACGTTATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
* * * * * * *
34772970 TCCCAGATAGGGTTTTATATGAAATCATATA-CGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
* * *
34773012 TCCCAAACATGGTCTTACACGTAATCTCATATAGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
*
34773055 TCCCAGACATGGTCTTACACGAAATCACA
1 TCCCAGACATGGTCTTACACGTAATCACA
34773084 CCTCGGGAGT
Statistics
Matches: 92, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 32 0.35
43 60 0.65
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
Found at i:34777297 original size:20 final size:21
Alignment explanation
Indices: 34777261--34777302 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
34777251 TATATTGTTG
*
34777261 TGTGAACTCATGCGTTGTATGT
1 TGTGAACTCAT-CGTTGAATGT
34777283 TGTGAACTCAT-GTTGAATGT
1 TGTGAACTCATCGTTGAATGT
34777303 CACTAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.40
Consensus pattern (21 bp):
TGTGAACTCATCGTTGAATGT
Found at i:34780916 original size:40 final size:40
Alignment explanation
Indices: 34780833--34781018 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
34780823 TTGAATGATG
* * * *
34780833 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
34780873 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34780913 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34780953 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34780994 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34781019 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34781036 original size:80 final size:79
Alignment explanation
Indices: 34780833--34781051 Score: 212
Period size: 80 Copynumber: 2.7 Consensus size: 79
34780823 TTGAATGATG
** * * * * *
34780833 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTTACTAAATCCGG-TTAA-ATCCCGAAGGCAT
34780896 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* *** *
34780913 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCC-GGTTAAATCCCGAAGGCATTT
*
34780978 GTGCGAGTTATTATAA
65 GTGCGAGTTACTA-AA
* * *
34780994 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTA-CTAAATCCGGTTAAATCCCGAAGG
34781052 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
79 17 0.15
80 90 0.77
81 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:34782998 original size:27 final size:26
Alignment explanation
Indices: 34782947--34783010 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
34782937 ACATGTTTTC
*
34782947 TCAAAATTTTACCAGGGGCAAAATCG
1 TCAAAATTTTACAAGGGGCAAAATCG
* **
34782973 TTAAAATTTTACTAAGGGGTGAAATCG
1 TCAAAATTTTAC-AAGGGGCAAAATCG
34783000 TCAAAATTTTA
1 TCAAAATTTTA
34783011 TTGAGAGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACAAGGGGCAAAATCG
Found at i:34809449 original size:18 final size:18
Alignment explanation
Indices: 34809426--34809463 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
34809416 GATAAGTGAG
34809426 TTAGTATTTTAATATTTA
1 TTAGTATTTTAATATTTA
34809444 TTAGTATTTTAATATTTA
1 TTAGTATTTTAATATTTA
34809462 TT
1 TT
34809464 TAACGTCTAT
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:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TTAGTATTTTAATATTTA
Found at i:34811511 original size:17 final size:18
Alignment explanation
Indices: 34811473--34811513 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
34811463 TTGAATGTAA
*
34811473 AAATGAAGTGAAATATGT
1 AAATGAAGTGAAATATGG
*
34811491 AAATGAA-TGATATATGG
1 AAATGAAGTGAAATATGG
34811508 AAATGA
1 AAATGA
34811514 TAAGGAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (18 bp):
AAATGAAGTGAAATATGG
Found at i:34813283 original size:15 final size:15
Alignment explanation
Indices: 34813263--34813298 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
34813253 GAATTAGGGT
34813263 TACAAAGCATTACTG
1 TACAAAGCATTACTG
34813278 TACAAAGCATTACTG
1 TACAAAGCATTACTG
34813293 TACAAA
1 TACAAA
34813299 CCAAAATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (15 bp):
TACAAAGCATTACTG
Found at i:34816883 original size:43 final size:42
Alignment explanation
Indices: 34816847--34816927 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
34816837 AGCTTATAAT
34816847 AACTGAACGAAAACCCAATAAGAGTTAAACTGAAGCTCAAAAG
1 AACTGAACGAAAACCCAAT-AGAGTTAAACTGAAGCTCAAAAG
** * * * *
34816890 AGTTGAACGGAAACCCAATAGGGTTAAACCGAAACTCA
1 AACTGAACGAAAACCCAATAGAGTTAAACTGAAGCTCA
34816928 TATGAGTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 16 0.50
43 16 0.50
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.15
Consensus pattern (42 bp):
AACTGAACGAAAACCCAATAGAGTTAAACTGAAGCTCAAAAG
Found at i:34816892 original size:21 final size:21
Alignment explanation
Indices: 34816857--34816942 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 21
34816847 AACTGAACGA
*
34816857 AAACCCAATAAGAGTTAAACTG
1 AAACTCAA-AAGAGTTAAACTG
* * *
34816879 AAGCTCAAAAGAGTTGAACGG
1 AAACTCAAAAGAGTTAAACTG
* * * *
34816900 AAACCCAATAGGGTTAAACCG
1 AAACTCAAAAGAGTTAAACTG
* *
34816921 AAACTCATATGAGTTAAA-TG
1 AAACTCAAAAGAGTTAAACTG
34816941 AA
1 AA
34816943 GCCCATGAGA
Statistics
Matches: 48, Mismatches: 16, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
20 3 0.06
21 39 0.81
22 6 0.12
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (21 bp):
AAACTCAAAAGAGTTAAACTG
Found at i:34821415 original size:28 final size:28
Alignment explanation
Indices: 34821350--34821500 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
34821340 GAGATTGGCG
* * * *
34821350 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
34821379 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
34821407 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34821435 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34821463 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
34821490 CTGAGTGTGCG
1 CTAAGTGTGCG
34821501 GACTTAATAT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 76 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:34828245 original size:21 final size:21
Alignment explanation
Indices: 34828204--34828245 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34828194 AAGAAAGGAA
* **
34828204 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
34828225 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
34828246 GGTTATTACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:34829775 original size:56 final size:56
Alignment explanation
Indices: 34829684--34829806 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
34829674 GAGATTGGCG
* * *
34829684 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
34829741 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
34829796 CTGAGTGTGCG
1 CTAAGTGTGCG
34829807 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:34829793 original size:27 final size:28
Alignment explanation
Indices: 34829684--34829806 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
34829674 GAGATTGGCG
* * * *
34829684 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
34829713 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34829741 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34829769 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
34829796 CTGAGTGTGCG
1 CTAAGTGTGCG
34829807 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:34829817 original size:27 final size:27
Alignment explanation
Indices: 34829709--34829819 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
34829699 TAAATTGTAC
* * *
34829709 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
34829737 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
34829765 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
34829792 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
34829819 A
1 A
34829820 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:34836536 original size:21 final size:21
Alignment explanation
Indices: 34836495--34836536 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34836485 AAGAAAGGAA
* **
34836495 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
34836516 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
34836537 GGTCATTACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:34838066 original size:56 final size:56
Alignment explanation
Indices: 34837975--34838097 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
34837965 GAGATTGGCG
* * *
34837975 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
34838032 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
34838087 CTGAGTGTGCG
1 CTAAGTGTGCG
34838098 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:34838084 original size:27 final size:28
Alignment explanation
Indices: 34837975--34838097 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
34837965 GAGATTGGCG
* * * *
34837975 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
34838004 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34838032 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34838060 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
34838087 CTGAGTGTGCG
1 CTAAGTGTGCG
34838098 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:34838108 original size:27 final size:27
Alignment explanation
Indices: 34838000--34838110 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
34837990 TAAATTGTAC
* * *
34838000 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
34838028 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
34838056 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
34838083 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
34838110 A
1 A
34838111 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:34842281 original size:15 final size:16
Alignment explanation
Indices: 34842261--34842290 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34842251 TCTATCCCGT
34842261 TGCATTT-TTCTATTA
1 TGCATTTCTTCTATTA
34842276 TGCATTTCTTCTATT
1 TGCATTTCTTCTATT
34842291 TTTTGAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.60
Consensus pattern (16 bp):
TGCATTTCTTCTATTA
Found at i:34850592 original size:49 final size:48
Alignment explanation
Indices: 34850520--34850616 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 48
34850510 GAAGAAGGAG
* * *
34850520 AAGGGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGATTCCTAAAAAAA
1 AAGGGACCAAAGTAAAAACCCGCAAAGGGCGCCTTGAGTCC-AAAAAAA
* *
34850569 AAGGGACCAAAGTAAAAACCCGCAAAGGGTGCTTTGAGTCCAAAAAAA
1 AAGGGACCAAAGTAAAAACCCGCAAAGGGCGCCTTGAGTCCAAAAAAA
34850617 TAAACCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 7 0.16
49 36 0.84
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (48 bp):
AAGGGACCAAAGTAAAAACCCGCAAAGGGCGCCTTGAGTCCAAAAAAA
Found at i:34852057 original size:88 final size:88
Alignment explanation
Indices: 34851904--34852231 Score: 539
Period size: 88 Copynumber: 3.7 Consensus size: 88
34851894 CCGGTGAAAC
* *
34851904 TATAAATCCTAGCTCTCTGAACAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAA
1 TATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAA
34851969 CAGCAGTGGAATAGGCGGAAGAT
66 CAGCAGTGGAATAGGCGGAAGAT
* *
34851992 TATAAATCCTAGCTCCCTGACCATCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCTTGAA
1 TATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAA
34852057 CAGCAGTGGAATAGGCGGAAGAT
66 CAGCAGTGGAATAGGCGGAAGAT
* * *
34852080 TGTAAATCCTAGCTCCTTGACCCGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAA
1 TATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAA
*
34852145 CAGCAGTGGAATAGGCAGAAGAT
66 CAGCAGTGGAATAGGCGGAAGAT
* * * * *
34852168 TTTAAATCCTAGCTCCCTGACCAGCAGTAGAATAGGTAGAAGATTGTAAGTCCTAGCTCCCTGA
1 TATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGA
34852232 GCAGTTATGG
Statistics
Matches: 223, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 223 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (88 bp):
TATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAA
CAGCAGTGGAATAGGCGGAAGAT
Found at i:34852248 original size:44 final size:44
Alignment explanation
Indices: 34851910--34852231 Score: 419
Period size: 44 Copynumber: 7.3 Consensus size: 44
34851900 AAACTATAAA
* * *
34851910 TCCTAGCTCTCTGAACAGCAGTGGAATAGGTGGAAGACTGAAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* * *
34851954 TCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTATAAA
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* * * *
34851998 TCCTAGCTCCCTGACCATCAGTGGAATAGGTGGAAGACTGAAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* * *
34852042 TCCTAGCTCCTTGAACAGCAGTGGAATAGGCGGAAGATTGTAAA
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* * * * *
34852086 TCCTAGCTCCTTGACCCGCAGTGGAATAGGTGGAAGACTGAAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
** * *
34852130 TCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTTTAAA
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
* * *
34852174 TCCTAGCTCCCTGACCAGCAGTAGAATAGGTAGAAGATTGTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
34852218 TCCTAGCTCCCTGA
1 TCCTAGCTCCCTGA
34852232 GCAGTTATGG
Statistics
Matches: 238, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 238 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (44 bp):
TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAG
Found at i:34852458 original size:88 final size:88
Alignment explanation
Indices: 34852263--34852517 Score: 377
Period size: 88 Copynumber: 2.9 Consensus size: 88
34852253 AATTACAGAT
* *
34852263 CTTATCTCCCTCGGTTGTAGTGAAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTACATCAAC-G
1 CTTATCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCAACAG
*
34852327 CGAAGCAGATCGAAGACACAAGC
66 TGAAGCAGATCGAAGACACAAGC
** * *
34852350 CTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCAACAG
1 CTTATCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCAACAG
34852415 TGAAGCAGATCGAAGACACAAGC
66 TGAAGCAGATCGAAGACACAAGC
* ** * * *
34852438 CTTATCACCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGTAGGCCTTGCCTTTCTGCATCGATAG
1 CTTATCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCAACAG
*
34852503 TGAAGCAAATCGAAG
66 TGAAGCAGATCGAAG
34852518 CAAAATTCCT
Statistics
Matches: 149, Mismatches: 18, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
87 57 0.38
88 92 0.62
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (88 bp):
CTTATCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCAACAG
TGAAGCAGATCGAAGACACAAGC
Found at i:34855528 original size:43 final size:42
Alignment explanation
Indices: 34855455--34855562 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 42
34855445 ATAAGTGCTA
* *
34855455 AACAAAAACCC-ATAAGGGTTGAATGAAAGCTAATAAAAG-CTG
1 AACAGAAACCCAATAAGGGTTAAATGAAAGCT--TAAAAGACTG
34855497 AACAGAAACCCAATAAGGGTTAAACTG-AAGCTTAAAAGATCTG
1 AACAGAAACCCAATAAGGGTTAAA-TGAAAGCTTAAAAGA-CTG
*
34855540 AACGGAAACCCAAT-AGGGTTAAA
1 AACAGAAACCCAATAAGGGTTAAA
34855563 ATATGAGTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
41 6 0.10
42 19 0.32
43 32 0.54
44 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (42 bp):
AACAGAAACCCAATAAGGGTTAAATGAAAGCTTAAAAGACTG
Found at i:34867143 original size:28 final size:28
Alignment explanation
Indices: 34867103--34867167 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
34867093 TTACATGGCT
34867103 TGAGACACAGGCGTGTGTCTCAACCGTG
1 TGAGACACAGGCGTGTGTCTCAACCGTG
34867131 TGAGACACAGGCGTGTGTCTCAACCGTG
1 TGAGACACAGGCGTGTGTCTCAACCGTG
34867159 TGAGACACA
1 TGAGACACA
34867168 CGGCCTTGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.20
Consensus pattern (28 bp):
TGAGACACAGGCGTGTGTCTCAACCGTG
Found at i:34870041 original size:24 final size:24
Alignment explanation
Indices: 34870009--34870088 Score: 115
Period size: 24 Copynumber: 3.3 Consensus size: 24
34869999 CCATGCTTAG
34870009 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* * *
34870033 AATCAGTCATACCAATCACAAAGA
1 AATCAGTCATACAAATCACAGACA
**
34870057 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
34870081 AATCAGTC
1 AATCAGTC
34870089 GTTTACAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:34870093 original size:24 final size:24
Alignment explanation
Indices: 34870009--34870117 Score: 103
Period size: 24 Copynumber: 4.5 Consensus size: 24
34869999 CCATGCTTAG
**
34870009 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
*** * *
34870033 AATCAGTCATACCAATCACAAAGA
1 AATCAGTCATTTAAATCACAGACA
34870057 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* *
34870081 AATCAGTCGTTTACAAT-ACGGACA
1 AATCAGTCATTTA-AATCACAGACA
* *
34870105 AATTAATCATTTA
1 AATCAGTCATTTA
34870118 CACTCGAGGG
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
24 68 0.96
25 3 0.04
ACGTcount: A:0.46, C:0.21, G:0.09, T:0.24
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:34870234 original size:27 final size:27
Alignment explanation
Indices: 34870156--34870255 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
34870146 CTCTAAAGGC
* * *
34870156 ATTACGGTCATTTTAACTTATAGGAGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
34870183 ATTTCAGTCATTTAACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
*
34870210 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* *
34870237 ATTATGGTCATTTCACCCT
1 ATTACGGTCATTTTACCCT
34870256 CTGAGGTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGT
Found at i:34877303 original size:46 final size:44
Alignment explanation
Indices: 34877222--34877385 Score: 150
Period size: 45 Copynumber: 3.6 Consensus size: 44
34877212 GCTATACGCC
* * * * *
34877222 TAAAATGAGTAAGACCATAACTAAAAGATGCTATGACATCATGA
1 TAAAGTGACTAAGACCATAGCTGAAAGATGTTATGACATCATGA
*
34877266 TAAAGGTGATTTAAGACCATAGCTGAAAGATGTTATGACATCATGA
1 TAAA-GTGA-CTAAGACCATAGCTGAAAGATGTTATGACATCATGA
* * * * ** * *
34877312 TATAAATGAGTAAAACCATAGTTGAAAGACATTATGGCATCATGG
1 TA-AAGTGACTAAGACCATAGCTGAAAGATGTTATGACATCATGA
34877357 TAAA-TAGGACTAAGACCATAGCTGAAAGA
1 TAAAGT--GACTAAGACCATAGCTGAAAGA
34877386 CACTATGGCA
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
43 1 0.01
44 6 0.06
45 53 0.54
46 37 0.37
47 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (44 bp):
TAAAGTGACTAAGACCATAGCTGAAAGATGTTATGACATCATGA
Found at i:34882010 original size:32 final size:32
Alignment explanation
Indices: 34881947--34882174 Score: 221
Period size: 32 Copynumber: 7.2 Consensus size: 32
34881937 TGACTACAAC
* * *
34881947 CCATAAGT-ACAGTAATGTGATTGGCACAAAG
1 CCATCAGTAACAGTAATATGATCGGCACAAAG
* *
34881978 CCATCAGTAGCAGTGATATGATCGGCACAAAG
1 CCATCAGTAACAGTAATATGATCGGCACAAAG
* * ** *
34882010 CCGTCAGTAACGGTAACGTGATCGGTACAAAG
1 CCATCAGTAACAGTAATATGATCGGCACAAAG
* * *
34882042 CCATCAGTAGCAGTGATATGATCGGCACACAG
1 CCATCAGTAACAGTAATATGATCGGCACAAAG
* * *
34882074 CCATTAGTAACAGTGAA-ATGATCGGCTCACAG
1 CCATCAGTAACAGT-AATATGATCGGCACAAAG
*
34882106 CCATC-GATAACGGTAATATGATCGGCACAAAG
1 CCATCAG-TAACAGTAATATGATCGGCACAAAG
* * *
34882138 CCATCAGTAA-TGATACTATGATCAGCACAAAG
1 CCATCAGTAACAG-TAATATGATCGGCACAAAG
34882170 CCATC
1 CCATC
34882175 GATAGCATCG
Statistics
Matches: 160, Mismatches: 31, Indels: 11
0.79 0.15 0.05
Matches are distributed among these distances:
31 11 0.07
32 147 0.92
33 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (32 bp):
CCATCAGTAACAGTAATATGATCGGCACAAAG
Found at i:34882136 original size:96 final size:95
Alignment explanation
Indices: 34881947--34882174 Score: 262
Period size: 96 Copynumber: 2.4 Consensus size: 95
34881937 TGACTACAAC
* * * * *
34881947 CCATAAGTACAGTAATGTGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGCC
1 CCATCAGTACAGTAATATGATCGGCACAAAGCCATCAGTAACAGTGAAATGATCGGCACAAAGCC
* * *
34882012 GTCAGTAACGGTAACGTGATCGGTACAAAG
66 ATCAGTAACGGTAACATGATCGGCACAAAG
* * * * *
34882042 CCATCAGTAGCAGTGATATGATCGGCACACAGCCATTAGTAACAGTGAAATGATCGGCTCACAGC
1 CCATCAGTA-CAGTAATATGATCGGCACAAAGCCATCAGTAACAGTGAAATGATCGGCACAAAGC
*
34882107 CATC-GATAACGGTAATATGATCGGCACAAAG
65 CATCAG-TAACGGTAACATGATCGGCACAAAG
* *
34882138 CCATCAGTA-ATGATACTATGATCAGCACAAAGCCATC
1 CCATCAGTACA-G-TAATATGATCGGCACAAAGCCATC
34882175 GATAGCATCG
Statistics
Matches: 110, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
94 1 0.01
95 10 0.09
96 99 0.90
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (95 bp):
CCATCAGTACAGTAATATGATCGGCACAAAGCCATCAGTAACAGTGAAATGATCGGCACAAAGCC
ATCAGTAACGGTAACATGATCGGCACAAAG
Found at i:34882210 original size:26 final size:26
Alignment explanation
Indices: 34882181--34882234 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
34882171 CATCGATAGC
* *
34882181 ATCGCAGGAAAGCTGCCAGCAACAGT
1 ATCGCAGCAAAGCTACCAGCAACAGT
* *
34882207 ATCGCAGCAAAGCTACCAGTAATAGT
1 ATCGCAGCAAAGCTACCAGCAACAGT
34882233 AT
1 AT
34882235 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAAGCTACCAGCAACAGT
Found at i:34882252 original size:27 final size:27
Alignment explanation
Indices: 34882221--34882285 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
34882211 CAGCAAAGCT
*
34882221 ACCAGTAATAGT-ATATGTGGCCA-AACC
1 ACCAGTAACAGTGAT-TGTGG-CAGAACC
*
34882248 ACCAGTAACAGTGATTGTGGCAGAGCC
1 ACCAGTAACAGTGATTGTGGCAGAACC
34882275 ACCAGT-ACAGT
1 ACCAGTAACAGT
34882286 ACTTCCTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 7 0.21
27 25 0.74
28 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
ACCAGTAACAGTGATTGTGGCAGAACC
Found at i:34882434 original size:24 final size:24
Alignment explanation
Indices: 34882350--34882432 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
34882340 TCATGCTCAG
34882350 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAATCACAGACA
* *
34882374 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATTCAAATCACAGACA
* ** *
34882398 AATTAAACATTTAAATCACAGACA
1 AATCAGTCATTCAAATCACAGACA
34882422 AATCAGTCATT
1 AATCAGTCATT
34882433 TACACTCGAG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (24 bp):
AATCAGTCATTCAAATCACAGACA
Found at i:34882481 original size:26 final size:27
Alignment explanation
Indices: 34882452--34882539 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
34882442 GGGGCAAAAT
34882452 AATCATTTAACCTCA-AGGGGCATTAC
1 AATCATTTAACCTCACAGGGGCATTAC
* * * * *
34882478 AATCATTTTACCTTATAGGGGTATTTC
1 AATCATTTAACCTCACAGGGGCATTAC
*
34882505 AGTCATTTAACC-CTACAGGGGCATTAC
1 AATCATTTAACCTC-ACAGGGGCATTAC
*
34882532 GATCATTT
1 AATCATTT
34882540 TACCCTATAG
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
26 13 0.27
27 35 0.73
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (27 bp):
AATCATTTAACCTCACAGGGGCATTAC
Found at i:34882541 original size:54 final size:54
Alignment explanation
Indices: 34882454--34882673 Score: 241
Period size: 54 Copynumber: 4.1 Consensus size: 54
34882444 GGCAAAATAA
* *
34882454 TCATTTAA-CCT-CAAGGGGCATTACAATCATTTTACCTTATAGGGGTATTTCAG
1 TCATTTAACCCTAC-AGGGGCATTACGATCATTTTACCCTATAGGGGTATTTCAG
* * *
34882507 TCATTTAACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTGTTACGG
1 TCATTTAACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTATTTCAG
* * * * * * *
34882561 TCATTTTACCCTACAAGAGCATTACGGTTATTTTACCCTATGGGGGTATTTCGG
1 TCATTTAACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTATTTCAG
* * * * *
34882615 T-ATTCT-ACCCTACGGGGGTATTTCGATCATTTTACCCTATAGGGGCATTTTAG
1 TCATT-TAACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTATTTCAG
34882668 TCATTT
1 TCATTT
34882674 TATATCAGTT
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 49 0.35
54 89 0.64
55 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
TCATTTAACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTATTTCAG
Found at i:34882664 original size:27 final size:27
Alignment explanation
Indices: 34882467--34882663 Score: 164
Period size: 27 Copynumber: 7.3 Consensus size: 27
34882457 TTTAACCTCA
* *
34882467 AGGGGCATTACAATCATTTTACCTTAT
1 AGGGGCATTACGATCATTTTACCCTAT
* * * *
34882494 AGGGGTATTTC-AGTCATTTAACCCTAC
1 AGGGGCATTACGA-TCATTTTACCCTAT
34882521 AGGGGCATTACGATCATTTTACCCTAT
1 AGGGGCATTACGATCATTTTACCCTAT
** * *
34882548 AGGGGTGTTACGGTCATTTTACCCTAC
1 AGGGGCATTACGATCATTTTACCCTAT
* * * *
34882575 AAGAGCATTACGGTTATTTTACCCTAT
1 AGGGGCATTACGATCATTTTACCCTAT
* * * * * *
34882602 GGGGGTATTTCGGT-ATTCTACCCTAC
1 AGGGGCATTACGATCATTTTACCCTAT
* * *
34882628 GGGGGTATTTCGATCATTTTACCCTAT
1 AGGGGCATTACGATCATTTTACCCTAT
34882655 AGGGGCATT
1 AGGGGCATT
34882664 TTAGTCATTT
Statistics
Matches: 136, Mismatches: 31, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
26 24 0.18
27 111 0.82
28 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
AGGGGCATTACGATCATTTTACCCTAT
Found at i:34893381 original size:22 final size:22
Alignment explanation
Indices: 34893348--34893392 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
34893338 GAACATTAAG
34893348 TTTAACACATTAC-ATACCAAC
1 TTTAACACATTACAATACCAAC
* *
34893369 TTTAGACAGATTACAATTCCAAC
1 TTTA-ACACATTACAATACCAAC
34893392 T
1 T
34893393 AGAACATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 8 0.40
23 8 0.40
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (22 bp):
TTTAACACATTACAATACCAAC
Found at i:34894920 original size:45 final size:44
Alignment explanation
Indices: 34894848--34895017 Score: 171
Period size: 45 Copynumber: 3.8 Consensus size: 44
34894838 GTTATACACC
*
34894848 TAAAATGAGTAAGACCATAACTGAAAGATGCTATGAAATCATGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
* * * **
34894892 TAAAGATGAGTAAGACCACAGCTTAAAGATGTTATGGCATCATGA
1 TAAA-ATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
* * **
34894937 TATAAATGAGTAAGACCATGGCTGAAAGACGCTATGGCATCAT-A
1 TA-AAATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
* * * *
34894981 GTGAACAGGACTAAGACCATAGCTGAAAGAGGCTATG
1 -T-AAAATGAGTAAGACCATAGCTGAAAGATGCTATG
34895018 GTATACTTTT
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
44 5 0.05
45 98 0.92
46 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
Found at i:34895018 original size:90 final size:90
Alignment explanation
Indices: 34894850--34895018 Score: 205
Period size: 90 Copynumber: 1.9 Consensus size: 90
34894840 TATACACCTA
* * * *
34894850 AAATGAGTAAGACCATAACTGAAAGATGCTATGAAATCATGATAAAGATGAGTAAGACCACAGCT
1 AAATGAGTAAGACCATAACTGAAAGACGCTATGAAATCATGATAAACAGGACTAAGACCACAGCT
* * *
34894915 TAAAGATGTTATGGCATCATGATAT
66 GAAAGAGGCTATGGCATCATGATAT
** ** * *
34894940 AAATGAGTAAGACCATGGCTGAAAGACGCTATGGCATCAT-AGTGAACAGGACTAAGACCATAGC
1 AAATGAGTAAGACCATAACTGAAAGACGCTATGAAATCATGA-TAAACAGGACTAAGACCACAGC
34895004 TGAAAGAGGCTATGG
65 TGAAAGAGGCTATGG
34895019 TATACTTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
89 1 0.02
90 64 0.98
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (90 bp):
AAATGAGTAAGACCATAACTGAAAGACGCTATGAAATCATGATAAACAGGACTAAGACCACAGCT
GAAAGAGGCTATGGCATCATGATAT
Found at i:34895126 original size:27 final size:27
Alignment explanation
Indices: 34895094--34895194 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
34895084 TAGAAAGTTC
*
34895094 AACGAGACATTAAATACGGGATAGTCT
1 AACGAGACATTAAACACGGGATAGTCT
* * **
34895121 GACGAGACGTTAAATGCGGGATAGTCT
1 AACGAGACATTAAACACGGGATAGTCT
* * *
34895148 AATGGGACATTAAACACGAGATAGT-T
1 AACGAGACATTAAACACGGGATAGTCT
* *
34895174 CACCGAGACAATAAACACGGG
1 -AACGAGACATTAAACACGGG
34895195 GAATTTAGGG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
26 1 0.02
27 57 0.98
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.19
Consensus pattern (27 bp):
AACGAGACATTAAACACGGGATAGTCT
Found at i:34901739 original size:40 final size:40
Alignment explanation
Indices: 34901556--34901725 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
34901546 TCCTCGTTCA
* * * * *
34901556 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
34901595 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
34901635 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
34901675 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
34901715 AAGGCCTTCGG
1 AATGCCTTCGG
34901726 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Done.