Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 149 of 185
Found at i:45133876 original size:42 final size:42
Alignment explanation
Indices: 45133781--45133912 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 42
45133771 CCAACATCCC
* * * * *
45133781 AGACATGGTATTACATGTAATCAAATAACGATGCCACTGTCCC
1 AGACATAGTCTTACACGTAATCAAAT-ACGATGCCAATGTCCT
* * *
45133824 AGGCAGAGTCTTACACGTAATCATATACGATGCCAATGTCCT
1 AGACATAGTCTTACACGTAATCAAATACGATGCCAATGTCCT
* *
45133866 AGACATAGTCTTACGCGTAAAACTCAAAT-TGATGCCAATGTCCT
1 AGACATAGTCTTACACGT--AA-TCAAATACGATGCCAATGTCCT
45133910 AGA
1 AGA
45133913 TGTGGTCTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
42 29 0.40
43 20 0.27
44 19 0.26
45 5 0.07
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
AGACATAGTCTTACACGTAATCAAATACGATGCCAATGTCCT
Found at i:45134629 original size:12 final size:12
Alignment explanation
Indices: 45134612--45134653 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
45134602 ATCCCATTAT
45134612 TCTCTCCTCAAA
1 TCTCTCCTCAAA
*
45134624 TCTCTCC-AAATA
1 TCTCTCCTCAA-A
*
45134636 TCCCTCCTCAAA
1 TCTCTCCTCAAA
45134648 TCTCTC
1 TCTCTC
45134654 TATGACCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (12 bp):
TCTCTCCTCAAA
Found at i:45136839 original size:21 final size:22
Alignment explanation
Indices: 45136802--45136842 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
45136792 TATGGTAGTT
45136802 TAAAACAAATAATGTAAATAAA
1 TAAAACAAATAATGTAAATAAA
45136824 TAAAA-AAATTAA-GTAAATA
1 TAAAACAAA-TAATGTAAATA
45136843 TTAGGTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
TAAAACAAATAATGTAAATAAA
Found at i:45139200 original size:55 final size:55
Alignment explanation
Indices: 45139117--45139295 Score: 331
Period size: 55 Copynumber: 3.3 Consensus size: 55
45139107 GGTATGTAGA
* *
45139117 TCTCCTCTCGATCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
1 TCTCTTCTCGGTCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
45139172 TCTCTTCTCGGTCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
1 TCTCTTCTCGGTCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
45139227 TCTCTTCTCGGTCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
1 TCTCTTCTCGGTCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
*
45139282 TCTCTTCTCAGTCT
1 TCTCTTCTCGGTCT
45139296 TATTTATCTA
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 121 1.00
ACGTcount: A:0.26, C:0.34, G:0.08, T:0.32
Consensus pattern (55 bp):
TCTCTTCTCGGTCTCACTACTTGGCACAATCATACCAAATTCTTACCCATGAAAC
Found at i:45141387 original size:24 final size:25
Alignment explanation
Indices: 45141332--45141416 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
45141322 AAGGCTATTT
*
45141332 CATGAGCTTCCCGATTAACGGCTCT
1 CATGAGCTTCCCGATTAACGGCTCG
**
45141357 C-TGGAGCTTCCCGA-TATTGGCTCG
1 CAT-GAGCTTCCCGATTAACGGCTCG
* * *
45141381 CATGAGCTT-CCTATTACATGGCTCA
1 CATGAGCTTCCCGATTA-ACGGCTCG
45141406 CATGAGCTTCC
1 CATGAGCTTCC
45141417 TGTGATATGG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 3 0.06
24 17 0.35
25 28 0.57
26 1 0.02
ACGTcount: A:0.19, C:0.31, G:0.21, T:0.29
Consensus pattern (25 bp):
CATGAGCTTCCCGATTAACGGCTCG
Found at i:45141426 original size:25 final size:25
Alignment explanation
Indices: 45141369--45141429 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
45141359 GGAGCTTCCC
*
45141369 GATATTGGCTCGCATGAGCTTCCTAT
1 GATA-TGGCTCACATGAGCTTCCTAT
* * *
45141395 TACATGGCTCACATGAGCTTCCTGT
1 GATATGGCTCACATGAGCTTCCTAT
45141420 GATATGGCTC
1 GATATGGCTC
45141430 GAAAGAGCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (25 bp):
GATATGGCTCACATGAGCTTCCTAT
Found at i:45141437 original size:25 final size:25
Alignment explanation
Indices: 45141369--45141438 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
45141359 GGAGCTTCCC
*
45141369 GATATTGGCTCGCATGAGCTTCCTAT
1 GATA-TGGCTCGAATGAGCTTCCTAT
* * *
45141395 TACATGGCTC-ACATGAGCTTCCTGT
1 GATATGGCTCGA-ATGAGCTTCCTAT
*
45141420 GATATGGCTCGAAAGAGCT
1 GATATGGCTCGAATGAGCT
45141439 ACCCGTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
25 32 0.91
26 3 0.09
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (25 bp):
GATATGGCTCGAATGAGCTTCCTAT
Found at i:45142908 original size:13 final size:14
Alignment explanation
Indices: 45142890--45142927 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
45142880 CTTTTAAAAT
45142890 TCTTCATAATA-TA
1 TCTTCATAATATTA
*
45142903 TCTTCAAAATATTA
1 TCTTCATAATATTA
*
45142917 TATTCATAATA
1 TCTTCATAATA
45142928 AATAGGAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (14 bp):
TCTTCATAATATTA
Found at i:45143466 original size:51 final size:51
Alignment explanation
Indices: 45143389--45143611 Score: 376
Period size: 51 Copynumber: 4.4 Consensus size: 51
45143379 CGGATCACAT
* *
45143389 TTATCACTTGTCACTTGTCACTGATCAGATAATTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
45143440 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTTGCT-AAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
45143490 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
45143541 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
45143592 TTATCACTTGTCACTTATCA
1 TTATCACTTGTCACTTATCA
45143612 GAAGTACTCA
Statistics
Matches: 161, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 45 0.28
51 116 0.72
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:45143494 original size:101 final size:102
Alignment explanation
Indices: 45143389--45143611 Score: 376
Period size: 101 Copynumber: 2.2 Consensus size: 102
45143379 CGGATCACAT
* * * *
45143389 TTATCACTTGTCACTTGTCACTGATCAGATAATTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
* *
45143454 TTGTCACCGATCAGATAAGTGTTGCT-AAGCTACCAC
66 TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
45143490 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
*
45143555 TTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
66 TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
45143592 TTATCACTTGTCACTTATCA
1 TTATCACTTGTCACTTATCA
45143612 GAAGTACTCA
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 84 0.74
102 30 0.26
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (102 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
TTATCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:45143707 original size:17 final size:17
Alignment explanation
Indices: 45143685--45143717 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45143675 TATTCTCAAT
45143685 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
45143702 TCATCATACAATATAT
1 TCATCATACAATATAT
45143718 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:45146655 original size:6 final size:7
Alignment explanation
Indices: 45146638--45146663 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45146628 ATTATCTATT
45146638 TTTTTAC
1 TTTTTAC
45146645 TTTTTAC
1 TTTTTAC
45146652 TTTTTAC
1 TTTTTAC
45146659 TTTTT
1 TTTTT
45146664 TATTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAC
Found at i:45149873 original size:11 final size:10
Alignment explanation
Indices: 45149850--45149908 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
45149840 AATGTTTAAA
45149850 TTTAATAATT
1 TTTAATAATT
45149860 TTTAATATATT
1 TTTAATA-ATT
45149871 TTT-AT-A-T
1 TTTAATAATT
45149878 TTTAA-AATT
1 TTTAATAATT
45149887 TTT-ATAATAT
1 TTTAATAAT-T
45149897 TTTAA-AATT
1 TTTAATAATT
45149906 TTT
1 TTT
45149909 TGTTTTATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
7 4 0.10
8 4 0.10
9 11 0.26
10 16 0.38
11 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTAATAATT
Found at i:45149896 original size:19 final size:19
Alignment explanation
Indices: 45149854--45149908 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
45149844 TTTAAATTTA
*
45149854 ATAAT-TTTTAATATATTTT
1 ATAATATTTTAAAAT-TTTT
45149873 -T-ATATTTTAAAATTTTT
1 ATAATATTTTAAAATTTTT
45149890 ATAATATTTTAAAATTTTT
1 ATAATATTTTAAAATTTTT
45149909 TGTTTTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.19
18 10 0.31
19 16 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAATATTTTAAAATTTTT
Found at i:45149906 original size:27 final size:28
Alignment explanation
Indices: 45149850--45149907 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
45149840 AATGTTTAAA
* *
45149850 TTTAATAATTTTTAATATATTTTTATAT
1 TTTAATAATTTTTAATATATTTTAAAAT
45149878 TTTAA-AATTTTT-ATAATATTTTAAAAT
1 TTTAATAATTTTTAAT-ATATTTTAAAAT
45149905 TTT
1 TTT
45149908 TTGTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 20 0.74
28 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTAATAATTTTTAATATATTTTAAAAT
Found at i:45151548 original size:20 final size:20
Alignment explanation
Indices: 45151523--45151560 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45151513 TCCATATTTA
*
45151523 TTAATATCATTTTCTAAATT
1 TTAATACCATTTTCTAAATT
*
45151543 TTAATACCATTTTTTAAA
1 TTAATACCATTTTCTAAA
45151561 CATTTTATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATACCATTTTCTAAATT
Found at i:45158969 original size:54 final size:53
Alignment explanation
Indices: 45158883--45159146 Score: 323
Period size: 54 Copynumber: 4.9 Consensus size: 53
45158873 TATAACAGTT
* * *
45158883 ATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCTTATGGGTGTATTTCAATC
1 ATTTTACCCTATAGGGGTATTTCGGTTATTTTACCCTATGGG-GTATTTCAATC
* *
45158937 ATTCTACCCTATAGGGGTATTTCGGTTATTTTACCCTATGGGGTATTTCGATC
1 ATTTTACCCTATAGGGGTATTTCGGTTATTTTACCCTATGGGGTATTTCAATC
* *
45158990 ATTTTACCCTAT-GAGGGTATTTCAGTTATTTTACCCTATGAGGGTATTTCAGTC
1 ATTTTACCCTATAG-GGGTATTTCGGTTATTTTACCCTATG-GGGTATTTCAATC
* * * * * *
45159044 ATTTTAACCTATGGGGGTATTTCAGTTATTTTACCCTATAAGGGTATTTCGATT
1 ATTTTACCCTATAGGGGTATTTCGGTTATTTTACCCTAT-GGGGTATTTCAATC
* * * *
45159098 ATTTAACCCTATAGGGGTATATCGATCATTTTACCCTATGAGGGTATTT
1 ATTTTACCCTATAGGGGTATTTCGGTTATTTTACCCTATG-GGGTATTT
45159147 TGGTCATTTA
Statistics
Matches: 183, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.01
53 46 0.25
54 135 0.74
55 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (53 bp):
ATTTTACCCTATAGGGGTATTTCGGTTATTTTACCCTATGGGGTATTTCAATC
Found at i:45159153 original size:27 final size:27
Alignment explanation
Indices: 45158883--45159155 Score: 286
Period size: 27 Copynumber: 10.1 Consensus size: 27
45158873 TATAACAGTT
*
45158883 ATTTTACCCT-TTAGGGGTATTTCGGTC
1 ATTTTACCCTATGA-GGGTATTTCGGTC
* **
45158910 ATTTTACCTTATG-GGTGTATTTCAATC
1 ATTTTACCCTATGAGG-GTATTTCGGTC
* *
45158937 ATTCTACCCTAT-AGGGGTATTTCGGTT
1 ATTTTACCCTATGA-GGGTATTTCGGTC
*
45158964 ATTTTACCCTATG-GGGTATTTCGATC
1 ATTTTACCCTATGAGGGTATTTCGGTC
* *
45158990 ATTTTACCCTATGAGGGTATTTCAGTT
1 ATTTTACCCTATGAGGGTATTTCGGTC
*
45159017 ATTTTACCCTATGAGGGTATTTCAGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
* * * *
45159044 ATTTTAACCTATGGGGGTATTTCAGTT
1 ATTTTACCCTATGAGGGTATTTCGGTC
* * *
45159071 ATTTTACCCTATAAGGGTATTTCGATT
1 ATTTTACCCTATGAGGGTATTTCGGTC
* * *
45159098 ATTTAACCCTAT-AGGGGTATATCGATC
1 ATTTTACCCTATGA-GGGTATTTCGGTC
*
45159125 ATTTTACCCTATGAGGGTATTTTGGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
45159152 ATTT
1 ATTT
45159156 AACCTATTTT
Statistics
Matches: 207, Mismatches: 31, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
26 27 0.13
27 176 0.85
28 4 0.02
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTATTTCGGTC
Found at i:45162452 original size:49 final size:49
Alignment explanation
Indices: 45162395--45162710 Score: 509
Period size: 49 Copynumber: 6.6 Consensus size: 49
45162385 TTAAACCCAT
45162395 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
45162444 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
45162493 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
45162542 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
45162591 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* * ** * * *
45162638 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
45162685 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
45162711 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
47 95 0.37
48 1 0.00
49 160 0.62
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
Found at i:45166628 original size:23 final size:24
Alignment explanation
Indices: 45166573--45166628 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
45166563 CAATCTTGGG
45166573 ATGA-TTTGT-AATCTTAGAAGAT
1 ATGATTTTGTAAATCTTAGAAGAT
* *
45166595 ATGGTTCTGTAAATCTTAG-AGAT
1 ATGATTTTGTAAATCTTAGAAGAT
*
45166618 TTGATTTTGTA
1 ATGATTTTGTA
45166629 GATAGTTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 3 0.11
23 16 0.59
24 8 0.30
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (24 bp):
ATGATTTTGTAAATCTTAGAAGAT
Found at i:45178432 original size:46 final size:46
Alignment explanation
Indices: 45178334--45178535 Score: 374
Period size: 46 Copynumber: 4.5 Consensus size: 46
45178324 TACGTATGAT
*
45178334 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC-AAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45178377 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45178423 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45178469 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45178515 CACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTTG
45178536 TCACTGATCA
Statistics
Matches: 155, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
43 10 0.06
44 5 0.03
45 19 0.12
46 121 0.78
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:45181874 original size:49 final size:47
Alignment explanation
Indices: 45181786--45181908 Score: 142
Period size: 49 Copynumber: 2.6 Consensus size: 47
45181776 TTCGTTTTCT
* * *
45181786 TGATGCCATAGTCCAACTATGGTCTTACACATAATCACATAATACAT-AC
1 TGATGCCATAGCCCAGCTATGGTCTTACACATAAGCACAT-AT-C-TCAC
*
45181835 TGATGCCATAGCCCAGCTATGGTCTTACAC-TGTAGCACATATCTCAC
1 TGATGCCATAGCCCAGCTATGGTCTTACACAT-AAGCACATATCTCAC
* *
45181882 TGATGCCATATCCCAGATATGGTCTTA
1 TGATGCCATAGCCCAGCTATGGTCTTA
45181909 TACGGAAATC
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
46 1 0.02
47 28 0.42
48 3 0.05
49 34 0.52
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (47 bp):
TGATGCCATAGCCCAGCTATGGTCTTACACATAAGCACATATCTCAC
Found at i:45183292 original size:46 final size:46
Alignment explanation
Indices: 45183188--45183573 Score: 688
Period size: 46 Copynumber: 8.5 Consensus size: 46
45183178 TACGTATGAT
*
45183188 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
45183231 CACTTATCACCTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45183277 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
45183323 CACTTATCACCTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45183369 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45183415 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
45183461 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
45183507 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGATAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45183553 CACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTTG
45183574 TCACTGATCA
Statistics
Matches: 332, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
43 10 0.03
44 5 0.02
45 20 0.06
46 297 0.89
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:45195392 original size:44 final size:44
Alignment explanation
Indices: 45195304--45195763 Score: 315
Period size: 44 Copynumber: 10.4 Consensus size: 44
45195294 NNNNNNNNTG
* * ** * *
45195304 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTA
1 GATCGAGGAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTA
* *
45195348 GATCGCAGGAAGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCG-AGGAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTA
* * * * *
45195392 GATCGAAGGTAGCAGATCCTATCTTTC-TATATTGGTAG-GAAGTG
1 GATCG-AGGAAGCAGATCTTGTC-TTCATATATTGGTCGTGAAGTA
* * ** * *
45195436 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTA
1 GATCGAGGAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTA
* *
45195480 GATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCG-AGGAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTA
* * * * * * * *
45195524 GATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-GAAATG
1 GATCGAGGA-AGCAGATCTTGTCTTCATATATTGGTCGTGAAGTA
* * ** * *
45195568 GATCGAAGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTA
1 GATCGAGGAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTA
* *
45195612 GATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCG-AGGAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTA
* * * * * * * *
45195656 GATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-GAAGTG
1 GATCGAGGA-AGCAGATCTTGTCTTCATATATTGGTCGTGAAGTA
* * ** * *
45195700 GATCCAAGATA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTA
1 GATCGAGGA-AGCAGATCTTGTCTTCATATATTGGTCGTGAAGTA
*
45195744 GATCGAAGAAAGCAGATCTT
1 GATCG-AGGAAGCAGATCTT
45195764 ATCCCTCTAT
Statistics
Matches: 321, Mismatches: 80, Indels: 29
0.75 0.19 0.07
Matches are distributed among these distances:
42 3 0.01
43 66 0.21
44 167 0.52
45 85 0.26
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
GATCGAGGAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTA
Found at i:45195478 original size:88 final size:89
Alignment explanation
Indices: 45195304--45195766 Score: 411
Period size: 88 Copynumber: 5.3 Consensus size: 89
45195294 NNNNNNNNTG
* * * * * * *
45195304 GATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGGAAGTAGATCTT
1 GATCGAAGAAAGCAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCG-AAGATGCAGATCTT
*** *
45195368 GTCTTCATGTATTGG-CGTGAAGTA
65 GTCTTCCCATATTGGTGGTGAAGTA
** * * *
45195392 GATCGAAGGTAGCAGATCCTATCTTTCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTG
1 GATCGAAGAAAGCAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTG
*
45195456 TCTTCCCATATTGGTGGCGAAGTA
66 TCTTCCCATATTGGTGGTGAAGTA
* * * * * * * *
45195480 GATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCTGATCCT
1 GATCGAAGAAAGCAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT-GCAGATCTT
* * * * *
45195544 ATCTTCCTATATTGGTAG-GAAATG
65 GTCTTCCCATATTGGTGGTGAAGTA
* * * * * *
45195568 GATCGAAG-ACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTT
1 GATCGAAGAAAGCAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAG-ATGCAGATCTT
*** *
45195632 GTCTTCATGTATTGG-CGTGAAGTA
65 GTCTTCCCATATTGGTGGTGAAGTA
* * * * * * *
45195656 GATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAAGATACAGATCTTG
1 GATCGAAGAAAGCAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTG
*
45195720 TCTTCCCATACTGGTGGTGAAGTA
66 TCTTCCCATATTGGTGGTGAAGTA
45195744 GATCGAAGAAAGCAGATCTTATC
1 GATCGAAGAAAGCAGATCTTATC
45195767 CCTCTATTTG
Statistics
Matches: 295, Mismatches: 71, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
87 67 0.23
88 162 0.55
89 66 0.22
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (89 bp):
GATCGAAGAAAGCAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTG
TCTTCCCATATTGGTGGTGAAGTA
Found at i:45195815 original size:132 final size:132
Alignment explanation
Indices: 45195302--45195763 Score: 798
Period size: 132 Copynumber: 3.5 Consensus size: 132
45195292 NNNNNNNNNN
* *
45195302 TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGGAAGTAGATCT
1 TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCT
* *
45195367 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTTCTATATTGGTAGGA
66 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGA
45195432 AG
131 AG
45195434 TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCT
1 TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCT
*
45195499 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGA
66 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGA
*
45195564 AA
131 AG
*
45195566 TGGATCGAAGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCT
1 TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCT
* *
45195631 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGA
66 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGA
45195696 AG
131 AG
* * * * *
45195698 TGGATCCAAGATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCT
1 TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCT
45195763 T
66 T
45195764 ATCCCTCTAT
Statistics
Matches: 313, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 313 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (132 bp):
TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCT
TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGA
AG
Found at i:45197565 original size:7 final size:7
Alignment explanation
Indices: 45197553--45197586 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
45197543 AGTGGAGTAT
45197553 TTTTTTA
1 TTTTTTA
45197560 TTTTTTA
1 TTTTTTA
45197567 TTTTTTA
1 TTTTTTA
45197574 TTTTTTA
1 TTTTTTA
45197581 TTTTTT
1 TTTTTT
45197587 CCTTTCTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:45202369 original size:20 final size:20
Alignment explanation
Indices: 45202344--45202383 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45202334 AATCAGGAAG
45202344 AAAATTTATTTTAATATTAT
1 AAAATTTATTTTAATATTAT
45202364 AAAATTTATTTTAATATTAT
1 AAAATTTATTTTAATATTAT
45202384 TGTATGGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAAATTTATTTTAATATTAT
Found at i:45203716 original size:35 final size:35
Alignment explanation
Indices: 45203675--45203745 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
45203665 GATAAGGCTC
*
45203675 GCTTGAACTTCAAGCTATCCCGATTATGGCTCTTT
1 GCTTGAACTTCAAGCTATCCCGATTATAGCTCTTT
45203710 GCTTGAACTTCAAGCTATCCCGATTATAGCTCTTT
1 GCTTGAACTTCAAGCTATCCCGATTATAGCTCTTT
45203745 G
1 G
45203746 TGAGCTTCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (35 bp):
GCTTGAACTTCAAGCTATCCCGATTATAGCTCTTT
Found at i:45208378 original size:26 final size:26
Alignment explanation
Indices: 45208339--45208404 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
45208329 GGACACACCT
* *
45208339 TAGCTC-TTATGAGCATCCCGATATA
1 TAGCTCTTTGTGAGCATCCCGATAAA
* *
45208364 T-GACTCTTTGTGAGCTTCCCGTTAAA
1 TAG-CTCTTTGTGAGCATCCCGATAAA
45208390 TAGCTCTTTGTGAGC
1 TAGCTCTTTGTGAGC
45208405 TTCCTAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.03
25 4 0.12
26 28 0.82
27 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
TAGCTCTTTGTGAGCATCCCGATAAA
Found at i:45209717 original size:114 final size:113
Alignment explanation
Indices: 45209464--45209717 Score: 271
Period size: 114 Copynumber: 2.2 Consensus size: 113
45209454 GTAGAGACAT
* * * * * *
45209464 GGGCGTGTGTCTCAGCCGTGTGTGACATACAGCCATGCGTACGAACATGTGGTTGGACGTGTGTC
1 GGGCGTGTGGCT-AGGCGCGTGTGACACACAGCCATACGGACGAACATGTGGTTGGACGTGTGTC
* * *
45209529 CCCTGCACTTAATTTTTAAAAATTTAATTGTTCACACGGCCTAGCACAC
65 CCCTGCACCTAATTTTTAAAAATTTAATTGTTCACACAGCCTAACACAC
* * * * *
45209578 GGGCGTGTGTCTCAGTCGTGTGTGACACACAGCCATACGGACGAGCGTGTGGTTTGG-CTGTGTG
1 GGGCGTGTGGCT-AGGCGCGTGTGACACACAGCCATACGGACGAACATGTGG-TTGGAC-GTGTG
* * *
45209642 TCCCCCTGCACCTAATTTTTTGAAAATTTAATTGTTTACATAGCCTAACACAC
63 T-CCCCTGCACCTAA-TTTTTAAAAATTTAATTGTTCACACAGCCTAACACAC
*
45209695 GGGCTTGTGGCT-GGC-CGTGTGAC
1 GGGCGTGTGGCTAGGCGCGTGTGAC
45209718 CCAAGTTAGA
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
114 54 0.45
115 12 0.10
116 12 0.10
117 42 0.35
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (113 bp):
GGGCGTGTGGCTAGGCGCGTGTGACACACAGCCATACGGACGAACATGTGGTTGGACGTGTGTCC
CCTGCACCTAATTTTTAAAAATTTAATTGTTCACACAGCCTAACACAC
Found at i:45211726 original size:24 final size:24
Alignment explanation
Indices: 45211669--45211727 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
45211659 AAAGAGCCTA
* *
45211669 TAACGGGTAACTCCGAAGAGCAAT
1 TAACAGGTAGCTCCGAAGAGCAAT
*
45211693 TAACAGGTAGCTCCGAAGAGTAAT
1 TAACAGGTAGCTCCGAAGAGCAAT
45211717 TAACAGGTAGC
1 TAACAGGTAGC
45211728 ACTAGATAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (24 bp):
TAACAGGTAGCTCCGAAGAGCAAT
Found at i:45211768 original size:23 final size:23
Alignment explanation
Indices: 45211742--45211797 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
45211732 GATAGCCATA
45211742 TAACGGGAAGTTCAAGCAAAAAC
1 TAACGGGAAGTTCAAGCAAAAAC
* **
45211765 TAACAGGAAGTTCAAGCAAGCAC
1 TAACGGGAAGTTCAAGCAAAAAC
*
45211788 TAAAGGGAAG
1 TAACGGGAAG
45211798 CTCTCAAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.46, C:0.16, G:0.25, T:0.12
Consensus pattern (23 bp):
TAACGGGAAGTTCAAGCAAAAAC
Found at i:45212539 original size:28 final size:28
Alignment explanation
Indices: 45212486--45212539 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
45212476 CAATAGAAGC
* *
45212486 CCATGAATTCAATGAAATTTTGATTTTT
1 CCATGAATTCAATCAAATTTTAATTTTT
*
45212514 CCATGAATTCAA-CAACTTTTCAATTT
1 CCATGAATTCAATCAAATTTT-AATTT
45212540 AATCCCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (28 bp):
CCATGAATTCAATCAAATTTTAATTTTT
Found at i:45212808 original size:15 final size:15
Alignment explanation
Indices: 45212788--45212818 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45212778 AAAAACCAGC
45212788 TTAAACCCTCTTCAA
1 TTAAACCCTCTTCAA
45212803 TTAAACCCTCTTCAA
1 TTAAACCCTCTTCAA
45212818 T
1 T
45212819 GGCTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (15 bp):
TTAAACCCTCTTCAA
Found at i:45216615 original size:28 final size:29
Alignment explanation
Indices: 45216583--45216645 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 29
45216573 CCTGAATATA
45216583 TTATATTA-TAAA-AATTAATTATAT-TAAT
1 TTATATTATTAAATAA-TAATTATATCT-AT
45216611 TTATA-TATTAAATAATAATTATATCTAT
1 TTATATTATTAAATAATAATTATATCTAT
45216639 TTATATT
1 TTATATT
45216646 GAATCACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 2 0.06
28 25 0.81
29 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TTATATTATTAAATAATAATTATATCTAT
Found at i:45219674 original size:29 final size:29
Alignment explanation
Indices: 45219628--45219685 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
45219618 GAAATGGGTC
*
45219628 GATCAGATCCCCGTAAGGTGATTTTTGCT
1 GATCAGATCCCCGCAAGGTGATTTTTGCT
45219657 GATCAGATCCCCGCAAGGTGATTTTTGCT
1 GATCAGATCCCCGCAAGGTGATTTTTGCT
45219686 ACGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (29 bp):
GATCAGATCCCCGCAAGGTGATTTTTGCT
Found at i:45231770 original size:7 final size:7
Alignment explanation
Indices: 45231760--45231784 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45231750 ATTTTTATTT
45231760 TTTTGAA
1 TTTTGAA
45231767 TTTTGAA
1 TTTTGAA
45231774 TTTTGAA
1 TTTTGAA
45231781 TTTT
1 TTTT
45231785 TAAGAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (7 bp):
TTTTGAA
Found at i:45232052 original size:20 final size:18
Alignment explanation
Indices: 45232005--45232096 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 18
45231995 CAAGATAAAC
45232005 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
45232022 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
*
45232042 ATTAAATTAATA--AAAT
1 ATTAAATTAATATTTAAT
*
45232058 ACT--ATTAATA--TAAGT
1 ATTAAATTAATATTTAA-T
*
45232073 ATTAAACTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
45232090 ATTAAAT
1 ATTAAAT
45232097 CTATTAAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 9 0.15
15 3 0.05
16 6 0.10
17 19 0.32
18 4 0.07
19 3 0.05
20 15 0.25
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:45233938 original size:25 final size:25
Alignment explanation
Indices: 45233904--45233954 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
45233894 ACTAACACCG
45233904 TTAGTTTTTGTTGATGTGCCATTAC
1 TTAGTTTTTGTTGATGTGCCATTAC
45233929 TTAGTTTTTGTTGATGTGCCATTAC
1 TTAGTTTTTGTTGATGTGCCATTAC
45233954 T
1 T
45233955 GGCCAATCCT
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:0.16, C:0.12, G:0.20, T:0.53
Consensus pattern (25 bp):
TTAGTTTTTGTTGATGTGCCATTAC
Found at i:45234007 original size:18 final size:18
Alignment explanation
Indices: 45233979--45234028 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
45233969 CACATTGTAG
*
45233979 AAATAAATTAAAAATAAA
1 AAATAATTTAAAAATAAA
* *
45233997 AAATATTTTAAAAATATA
1 AAATAATTTAAAAATAAA
*
45234015 AATTAATTTAAAAA
1 AAATAATTTAAAAA
45234029 GTATAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAATTTAAAAATAAA
Found at i:45234023 original size:19 final size:17
Alignment explanation
Indices: 45233986--45234034 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
45233976 TAGAAATAAA
*
45233986 TTAAAAATAAAAAATATT
1 TTAAAAATATAAAATA-T
*
45234004 TTAAAAATATAAATTAAT
1 TTAAAAATATAAAAT-AT
45234022 TTAAAAAGTATAA
1 TTAAAAA-TATAA
45234035 TTTTTTTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 21 0.78
19 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TTAAAAATATAAAATAT
Found at i:45236868 original size:3 final size:3
Alignment explanation
Indices: 45236860--45236893 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
45236850 ATTTTATTGT
45236860 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
45236894 TTGATTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:45238483 original size:21 final size:20
Alignment explanation
Indices: 45238445--45238511 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
45238435 ACATAAGTGC
* *
45238445 TAAACGGAAACCCGTAAGGGT
1 TAAAC-GAAAACCATAAGGGT
* * *
45238466 TAAACGAAAGCTCATAAGAGC
1 TAAACGAAAAC-CATAAGGGT
* *
45238487 TGAACGAAAACCATAAAGGT
1 TAAACGAAAACCATAAGGGT
45238507 TAAAC
1 TAAAC
45238512 TGAAGATCAA
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (20 bp):
TAAACGAAAACCATAAGGGT
Found at i:45238498 original size:42 final size:41
Alignment explanation
Indices: 45238431--45238511 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
45238421 GGCTGCACAG
* * * *
45238431 AAGCACATAAGTGCTAAACGGAAACCCGTAAGGGTTAAACGA
1 AAGCACATAAGAGCTAAAC-GAAAACCATAAAGGTTAAACGA
* *
45238473 AAGCTCATAAGAGCTGAACGAAAACCATAAAGGTTAAAC
1 AAGCACATAAGAGCTAAACGAAAACCATAAAGGTTAAAC
45238512 TGAAGATCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 17 0.52
42 16 0.48
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.15
Consensus pattern (41 bp):
AAGCACATAAGAGCTAAACGAAAACCATAAAGGTTAAACGA
Found at i:45245529 original size:46 final size:46
Alignment explanation
Indices: 45245462--45245692 Score: 399
Period size: 46 Copynumber: 5.0 Consensus size: 46
45245452 ACATTGCTAT
* *
45245462 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
45245508 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
**
45245554 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
*
45245600 AACTCAGTATGATTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
45245646 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
45245692 A
1 A
45245693 CTTTGCCATG
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 178 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:45246184 original size:22 final size:22
Alignment explanation
Indices: 45246156--45246201 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
45246146 TTCTAAATTA
45246156 ACGTCTTATCCAACCATTTTAG
1 ACGTCTTATCCAACCATTTTAG
45246178 ACGTCTTATCCAACCATTTTAG
1 ACGTCTTATCCAACCATTTTAG
45246200 AC
1 AC
45246202 TACTGAACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (22 bp):
ACGTCTTATCCAACCATTTTAG
Found at i:45246986 original size:16 final size:16
Alignment explanation
Indices: 45246946--45246987 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
45246936 TTTTAAATCG
*
45246946 CAAAAATTTACTAAAT
1 CAAAAATTCACTAAAT
*
45246962 CACAAAATTCACTAATT
1 CA-AAAATTCACTAAAT
45246979 CAAAAATTC
1 CAAAAATTC
45246988 TTATAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (16 bp):
CAAAAATTCACTAAAT
Found at i:45247929 original size:21 final size:20
Alignment explanation
Indices: 45247903--45248005 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 20
45247893 TACAGAATCA
*
45247903 CATAAGTGCTAAACAGAAACT
1 CATAAGAGCTAAAC-GAAACT
* * * *
45247924 CGTAAGGGTTAAACGGAAGCT
1 CATAAGAGCTAAAC-GAAACT
*
45247945 CATAAGAGCTAAACGAAACC
1 CATAAGAGCTAAACGAAACT
* *
45247965 CATAA-AGGTTAAACTGAAGCT
1 CATAAGA-GCTAAAC-GAAACT
*
45247986 CAAAAGAGCTAAACTGAAAC
1 CATAAGAGCTAAAC-GAAAC
45248006 CCAAAAGGGT
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.02
20 15 0.24
21 46 0.73
22 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.17
Consensus pattern (20 bp):
CATAAGAGCTAAACGAAACT
Found at i:45248010 original size:21 final size:21
Alignment explanation
Indices: 45247948--45248022 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
45247938 GGAAGCTCAT
45247948 AAGAGCTAAAC-GAAACCCATA
1 AAGAGCTAAACTGAAACCCA-A
* * *
45247969 AAG-GTTAAACTGAAGCTCAA
1 AAGAGCTAAACTGAAACCCAA
45247989 AAGAGCTAAACTGAAACCCAA
1 AAGAGCTAAACTGAAACCCAA
* *
45248010 AAGGGTTAAACTG
1 AAGAGCTAAACTG
45248023 GAACTCATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 10 0.23
21 34 0.77
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.15
Consensus pattern (21 bp):
AAGAGCTAAACTGAAACCCAA
Found at i:45248043 original size:41 final size:44
Alignment explanation
Indices: 45247903--45248031 Score: 164
Period size: 41 Copynumber: 3.1 Consensus size: 44
45247893 TACAGAATCA
* * * *
45247903 CATAAGTGCTAAACAGAAACTCGT-AAGGGTTAAAC-GGAAGCT
1 CATAAGAGCTAAACTGAAACCCATAAAGGGTTAAACTGGAAGCT
45247945 CATAAGAGCTAAAC-GAAACCCATAAA-GGTTAAACT-GAAGCT
1 CATAAGAGCTAAACTGAAACCCATAAAGGGTTAAACTGGAAGCT
*
45247986 CAAAAGAGCTAAACTGAAACCCA-AAAGGGTTAAACTGGAA-CT
1 CATAAGAGCTAAACTGAAACCCATAAAGGGTTAAACTGGAAGCT
45248028 CATA
1 CATA
45248032 TGAGTTAACT
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
41 37 0.48
42 37 0.48
43 3 0.04
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (44 bp):
CATAAGAGCTAAACTGAAACCCATAAAGGGTTAAACTGGAAGCT
Found at i:45258526 original size:27 final size:27
Alignment explanation
Indices: 45258491--45258542 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
45258481 ATAGAATATT
* *
45258491 TATTCATTTATCGATAAATTAATAAAA
1 TATTAATTTATCGATAAACTAATAAAA
45258518 TATTAATTTATCGATAAACTAATAA
1 TATTAATTTATCGATAAACTAATAA
45258543 CCTCGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (27 bp):
TATTAATTTATCGATAAACTAATAAAA
Found at i:45261350 original size:26 final size:26
Alignment explanation
Indices: 45261281--45261361 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
45261271 TGAAGGAAGT
* * *
45261281 ATACTGTTATTGGCAGCGTTGCTACG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
45261307 ATACTGTTACTGGCAGCTTTGATGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
45261333 ATACTATTACTGGCAGCTTTCCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
45261359 ATA
1 ATA
45261362 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:45267001 original size:21 final size:20
Alignment explanation
Indices: 45266971--45267010 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
45266961 GATTCATAAT
45266971 AAAAAAACAGA-AAAGAAAGG
1 AAAAAAACAGAGAAA-AAAGG
45266991 AAAAAATACAGAGAAAAAAG
1 AAAAAA-ACAGAGAAAAAAG
45267011 ATGAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 9 0.50
22 3 0.17
ACGTcount: A:0.75, C:0.05, G:0.17, T:0.03
Consensus pattern (20 bp):
AAAAAAACAGAGAAAAAAGG
Found at i:45267110 original size:12 final size:12
Alignment explanation
Indices: 45267076--45267110 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
45267066 CAATATATGC
*
45267076 GTGTGTGTTTGT
1 GTGTGTGTTTTT
45267088 GTGTGTGTTTTT
1 GTGTGTGTTTTT
45267100 -TGTGTGTTTTT
1 GTGTGTGTTTTT
45267111 CCCCCAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (12 bp):
GTGTGTGTTTTT
Found at i:45269915 original size:469 final size:469
Alignment explanation
Indices: 45269037--45269980 Score: 1798
Period size: 469 Copynumber: 2.0 Consensus size: 469
45269027 ACACGAGGCT
*
45269037 TTGGGTACAAGACTGGACTTTAGTACTGCGTTTCATCCCCGGATAGATGGTCAATCAGAAAGGGT
1 TTGGGTACAAAACTGGACTTTAGTACTGCGTTTCATCCCCGGATAGATGGTCAATCAGAAAGGGT
*
45269102 GATTCAAATATTGGATGATATGTTAAGAAGTTGTGTAATGAATTTTCGAGGCAGCTGGGAAGACT
66 GATTCAAATATTGGATGATATGTTAAGAAGTTGTGTAATGAATTTTCGAGGAAGCTGGGAAGACT
* *
45269167 ATTTGCTGCTAACAGAGTTCGCATATAATAATAGCTACCAGTCCAATATTCAAATGGCATCGTAC
131 ATTTGCCGCTAACAGAGTTCGCATATAATAATAGCTACCAGTCCAATATTCAAATGGCACCGTAC
45269232 AAGGCATTATATAGTCGTAGGTGTCGTACTCCTACCTGTTGGACTAAGTTGGGCGAGTGGCGAGT
196 AAGGCATTATATAGTCGTAGGTGTCGTACTCCTACCTGTTGGACTAAGTTGGGCGAGTGGCGAGT
45269297 TCTGGGACCAGAGTTAGTTTTTGATACCGAAGAGAAGGTAAAACTGATCCGAGACCGATTGAAGG
261 TCTGGGACCAGAGTTAGTTTTTGATACCGAAGAGAAGGTAAAACTGATCCGAGACCGATTGAAGG
*
45269362 AGGCATCTGATAGGCAGAAGTCTTACGCGGACCTTAAACACTGAGAGATTGAGTATTCTATGGTG
326 AGGCATCTGATAGGCAGAAGTCTTACGCAGACCTTAAACACTGAGAGATTGAGTATTCTATGGTG
45269427 GACTATGTATTTCTCAAGGTCTCCCCTTGGAAAAAGTTACTGAGGTTTGGGCGGAAGGGTAAGCT
391 GACTATGTATTTCTCAAGGTCTCCCCTTGGAAAAAGTTACTGAGGTTTGGGCGGAAGGGTAAGCT
45269492 TAGCCCTAAGCTCA
456 TAGCCCTAAGCTCA
*
45269506 TTGGGTACAAAACTGGACTTTAGTACTGCGTTTTATCCCCGGATAGATGGTCAATCAGAAAGGGT
1 TTGGGTACAAAACTGGACTTTAGTACTGCGTTTCATCCCCGGATAGATGGTCAATCAGAAAGGGT
*
45269571 GATTCAAATATTGGATGATATGTTAAGAAGTTGTGTAATGGATTTTCGAGGAAGCTGGGAAGACT
66 GATTCAAATATTGGATGATATGTTAAGAAGTTGTGTAATGAATTTTCGAGGAAGCTGGGAAGACT
*
45269636 ATTTGCCGCTAACAGAGTTCGCATATAATAATAGCTACCAGTCCAGTATTCAAATGGCACCGTAC
131 ATTTGCCGCTAACAGAGTTCGCATATAATAATAGCTACCAGTCCAATATTCAAATGGCACCGTAC
*
45269701 AAGGCGTTATATAGTCGTAGGTGTCGTACTCCTACCTGTTGGACTAAGTTGGGCGAGTGGCGAGT
196 AAGGCATTATATAGTCGTAGGTGTCGTACTCCTACCTGTTGGACTAAGTTGGGCGAGTGGCGAGT
45269766 TCTGGGACCAGAGTTAGTTTTTGATACCGAAGAGAAGGTAAAACTGATCCGAGACCGATTGAAGG
261 TCTGGGACCAGAGTTAGTTTTTGATACCGAAGAGAAGGTAAAACTGATCCGAGACCGATTGAAGG
45269831 AGGCATCTGATAGGCAGAAGTCTTACGCAGACCTTAAACACTGAGAGATTGAGTATTCTATGGTG
326 AGGCATCTGATAGGCAGAAGTCTTACGCAGACCTTAAACACTGAGAGATTGAGTATTCTATGGTG
*
45269896 GACTATGTATTTCTCAAGGTCTCCCCTTGGAAAAAGTTATTGAGGTTTGGGCGGAAGGGTAAGCT
391 GACTATGTATTTCTCAAGGTCTCCCCTTGGAAAAAGTTACTGAGGTTTGGGCGGAAGGGTAAGCT
45269961 TAGCCCTAAGCTCA
456 TAGCCCTAAGCTCA
45269975 TTGGGT
1 TTGGGT
45269981 CTTTCCGTAT
Statistics
Matches: 465, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
469 465 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (469 bp):
TTGGGTACAAAACTGGACTTTAGTACTGCGTTTCATCCCCGGATAGATGGTCAATCAGAAAGGGT
GATTCAAATATTGGATGATATGTTAAGAAGTTGTGTAATGAATTTTCGAGGAAGCTGGGAAGACT
ATTTGCCGCTAACAGAGTTCGCATATAATAATAGCTACCAGTCCAATATTCAAATGGCACCGTAC
AAGGCATTATATAGTCGTAGGTGTCGTACTCCTACCTGTTGGACTAAGTTGGGCGAGTGGCGAGT
TCTGGGACCAGAGTTAGTTTTTGATACCGAAGAGAAGGTAAAACTGATCCGAGACCGATTGAAGG
AGGCATCTGATAGGCAGAAGTCTTACGCAGACCTTAAACACTGAGAGATTGAGTATTCTATGGTG
GACTATGTATTTCTCAAGGTCTCCCCTTGGAAAAAGTTACTGAGGTTTGGGCGGAAGGGTAAGCT
TAGCCCTAAGCTCA
Found at i:45272278 original size:26 final size:26
Alignment explanation
Indices: 45272244--45272324 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
45272234 TGGAGGAAGT
*
45272244 ATACTGTTACTGGCAGCGTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
45272270 ATACCGTTACTGGCAACTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
45272296 ATACTATTATTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
45272322 ATA
1 ATA
45272325 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:45274538 original size:24 final size:23
Alignment explanation
Indices: 45274485--45274540 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 23
45274475 ATTTTTTTTC
45274485 AAATTATTTACATAATGAAAAAT
1 AAATTATTTACATAATGAAAAAT
45274508 AAGATTATTT-CAATTAAT-AAATAAT
1 AA-ATTATTTAC-A-TAATGAAA-AAT
45274533 AAATTATT
1 AAATTATT
45274541 AATTTTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 3 0.10
24 17 0.59
25 9 0.31
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
AAATTATTTACATAATGAAAAAT
Found at i:45276388 original size:22 final size:21
Alignment explanation
Indices: 45276363--45276426 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 21
45276353 ATAATACATT
45276363 TTTTAAAATTATTATCAATATG
1 TTTTAAAA-TATTATCAATATG
*
45276385 TTTT-AAAT-TTATCAATATTA
1 TTTTAAAATATTATCAATA-TG
45276405 TTTTAAAAATATATAT-AATATG
1 TTTT-AAAATAT-TATCAATATG
45276427 AAGTTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
19 9 0.26
20 6 0.17
21 3 0.09
22 9 0.26
23 5 0.14
24 3 0.09
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTTAAAATATTATCAATATG
Found at i:45278219 original size:54 final size:54
Alignment explanation
Indices: 45278159--45278264 Score: 126
Period size: 55 Copynumber: 1.9 Consensus size: 54
45278149 ACCCTTCTAC
45278159 TTCCCCCTCAAAAAATTTACTT-ATCCTAAA-CCCCCAAATTTTTTTTCTTTTACT
1 TTCCCCC-CAAAAAATTTACTTCATCC-AAACCCCCCAAATTTTTTTTCTTTTACT
**** *
45278213 TTCCCCCCAATTCTTTTACTTCCTCCAAATCCCCCCAAATTTTTTTTCTTTT
1 TTCCCCCCAAAAAATTTACTTCATCCAAA-CCCCCCAAATTTTTTTTCTTTT
45278265 CCTTAAAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 13 0.30
54 10 0.23
55 21 0.48
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (54 bp):
TTCCCCCCAAAAAATTTACTTCATCCAAACCCCCCAAATTTTTTTTCTTTTACT
Found at i:45278375 original size:17 final size:17
Alignment explanation
Indices: 45278321--45278379 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
45278311 TTATGTCTAC
45278321 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
* *
45278338 TAAATTTCACATT-TTGTAT
1 T--ATTT-ATATTATTGAAT
45278357 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
45278374 TATTTA
1 TATTTA
45278380 ATCATGCTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.12
17 16 0.47
19 10 0.29
20 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:45278676 original size:19 final size:19
Alignment explanation
Indices: 45278652--45278689 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
45278642 AAAGTTAATA
45278652 ACAAATTTAATTACGGTGG
1 ACAAATTTAATTACGGTGG
*
45278671 ACAAATTTTATTACGGTGG
1 ACAAATTTAATTACGGTGG
45278690 GTGGTAGTAG
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:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (19 bp):
ACAAATTTAATTACGGTGG
Found at i:45279108 original size:41 final size:40
Alignment explanation
Indices: 45279063--45279261 Score: 148
Period size: 41 Copynumber: 4.8 Consensus size: 40
45279053 TATTTTTGGG
** *
45279063 CCTTTAGCGGCGTTTTTGACAAATTGCCGCTAATTCTCCGA
1 CCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGCTCCGA
* * * *
45279104 CCTTTTAACGGCGATTTTGGTAAAGCGCCGCTAATGCT-CTA
1 CC-TTTAGCGGCG-TTTTTGAAAAGCGCCGCTAATGCTCCGA
* * * * *
45279145 GCCTTTAGCGGTGTTTTCTTATAAGCGCCGCTAATGCTCTGG
1 -CCTTTAGCGGCGTTTT-TGAAAAGCGCCGCTAATGCTCCGA
* * * * *
45279187 CCTTTAGCGGCGTTTTTTAATAAGCGCCACTAATGATCTGG
1 CCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCCGA
* * *
45279228 TCATTAGCGGCGTTTTTGGAAAAGCGCCGGTAAT
1 CCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAAT
45279262 ACTGTGTCAT
Statistics
Matches: 126, Mismatches: 25, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
40 7 0.06
41 87 0.69
42 27 0.21
43 5 0.04
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (40 bp):
CCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCCGA
Found at i:45279276 original size:41 final size:42
Alignment explanation
Indices: 45279126--45279280 Score: 126
Period size: 41 Copynumber: 3.8 Consensus size: 42
45279116 GATTTTGGTA
* * * * * *
45279126 AAGCGCCGCTAATGCTCTAG-CCTTTAGCGGTGTTTTCT-TAT
1 AAGCGCCACTAATGATCTGGTCATTTAGCGGCGTTTT-TGAAT
* * * *
45279167 AAGCGCCGCTAATGCTCTGG-CCTTTAGCGGCGTTTTTTAAT
1 AAGCGCCACTAATGATCTGGTCATTTAGCGGCGTTTTTGAAT
45279208 AAGCGCCACTAATGATCTGGTCA-TTAGCGGCGTTTTTGGAA-
1 AAGCGCCACTAATGATCTGGTCATTTAGCGGCGTTTTT-GAAT
**
45279249 AAGCGCCGGTAAT-A-CTGTGTCATTTAGCGGCG
1 AAGCGCCACTAATGATCTG-GTCATTTAGCGGCG
45279281 CTCGTTTAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.03
40 6 0.06
41 88 0.88
42 3 0.03
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.32
Consensus pattern (42 bp):
AAGCGCCACTAATGATCTGGTCATTTAGCGGCGTTTTTGAAT
Found at i:45280317 original size:27 final size:28
Alignment explanation
Indices: 45280273--45280332 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
45280263 ATAGAAAAAG
* * *
45280273 ATATA-TATGCAACGATATATATATGTT
1 ATATATTATGAAACGATATAAATATATT
45280300 ATATATTATGAAAC-ATATAAATATATT
1 ATATATTATGAAACGATATAAATATATT
45280327 A-ATATT
1 ATATATT
45280333 GTGTTAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 17 0.59
28 7 0.24
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (28 bp):
ATATATTATGAAACGATATAAATATATT
Found at i:45281009 original size:115 final size:116
Alignment explanation
Indices: 45280769--45281031 Score: 278
Period size: 116 Copynumber: 2.3 Consensus size: 116
45280759 GCTCGGGGCT
* * * * * * *
45280769 TTAGCGGCGATTTTTCCTAAAACGCCGCAAATATTTCTTTAATACGACATCGTTTAGTGTTCTGC
1 TTAGCGGCGATTTTACAT-AAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATGA
* * *
45280834 TCTGGTCAAAAAGTTCGACAAAACGACGTCGCTTTGATGATGTTTACCGGTA
65 TCTGGTCAAAAAGTTAGACAAAACGACATCGCTTTGATGATGTTTACCGATA
* * *
45280886 TTAGCGGCGATTTTACATAAACGCCGCAAAAATTTCTGTAATACGACGTCGTTTACTTTTATTAT
1 TTAGCGGCGATTTTACATAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATGAT
* ** * * **
45280951 TTGGT-TGAAAGTTAGACAAAACGACATCGTTTTTAT-ACTGTTTATTGATA
66 CTGGTCAAAAAGTTAGACAAAACGACATCGCTTTGATGA-TGTTTACCGATA
* * *
45281001 TTAGCGGCGTTTTTTATAAAAACGCCGCAAA
1 TTAGCGGCG-ATTTTACATAAACGCCGCAAA
45281032 GGAAATAAAT
Statistics
Matches: 121, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
114 1 0.01
115 43 0.36
116 61 0.50
117 16 0.13
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (116 bp):
TTAGCGGCGATTTTACATAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATGAT
CTGGTCAAAAAGTTAGACAAAACGACATCGCTTTGATGATGTTTACCGATA
Found at i:45283870 original size:43 final size:43
Alignment explanation
Indices: 45283744--45283870 Score: 98
Period size: 42 Copynumber: 2.8 Consensus size: 43
45283734 AAAGATTGCT
45283744 TATGTAAGCTATATTTAAATTTTATTAATAATAAATTGATAACTTAAA
1 TATGTAAGCTATATTTAAATTTTATTAATAAT--A-T--TAACTTAAA
* * * * **
45283792 TAAGTATTA-CTATATTTTTAATATTA-TACAT-ATATTAATTTACG
1 TATGTA--AGCTATA-TTTAAATTTTATTA-ATAATATTAACTTAAA
45283836 TATGTAAGCTATATTTAAATTTTATTAATAATATT
1 TATGTAAGCTATATTTAAATTTTATTAATAATATT
45283871 TAAACATATT
Statistics
Matches: 63, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
42 12 0.19
43 12 0.19
44 11 0.17
46 1 0.02
47 1 0.02
48 5 0.08
49 9 0.14
50 12 0.19
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (43 bp):
TATGTAAGCTATATTTAAATTTTATTAATAATATTAACTTAAA
Found at i:45284052 original size:9 final size:9
Alignment explanation
Indices: 45284044--45284436 Score: 240
Period size: 9 Copynumber: 45.9 Consensus size: 9
45284034 ATATATTAAT
45284044 TTACATAA-
1 TTACATAAC
45284052 -TACATAAC
1 TTACATAAC
45284060 TTACATAAC
1 TTACATAAC
* *
45284069 CTACTTAA-
1 TTACATAAC
45284077 -TACATAAC
1 TTACATAAC
*
45284085 TTGCATAAC
1 TTACATAAC
45284094 TTACATAA-
1 TTACATAAC
*
45284102 -TACACAAC
1 TTACATAAC
*
45284110 TTACAT--G
1 TTACATAAC
*
45284117 TGTAAATAA-
1 T-TACATAAC
*
45284126 -TACACAAC
1 TTACATAAC
45284134 TTACATAAC
1 TTACATAAC
*
45284143 TTACATACC
1 TTACATAAC
* *
45284152 CTACATAAA
1 TTACATAAC
* *
45284161 TTAAATAAG
1 TTACATAAC
45284170 TTACATAA-
1 TTACATAAC
*
45284178 TAATACATACC
1 T--TACATAAC
* *
45284189 CTACATAAA
1 TTACATAAC
* *
45284198 TTAAATAAG
1 TTACATAAC
45284207 TTACATAA-
1 TTACATAAC
*
45284215 -TACACAA-
1 TTACATAAC
** *
45284222 AAACAAAAAC
1 TTAC-ATAAC
45284232 TTACATAAC
1 TTACATAAC
45284241 TTACATAA-
1 TTACATAAC
*
45284249 -TACACAAC
1 TTACATAAC
45284257 TTACATAAC
1 TTACATAAC
*
45284266 TTATATAA-
1 TTACATAAC
*
45284274 -TACACAAC
1 TTACATAAC
45284282 TTACATAAC
1 TTACATAAC
45284291 TTACATAA-
1 TTACATAAC
*
45284299 -TACATAAT
1 TTACATAAC
*
45284307 TTGCATAAC
1 TTACATAAC
45284316 TTACATAA-
1 TTACATAAC
*
45284324 -GACATAAC
1 TTACATAAC
*
45284332 TTACATAAG
1 TTACATAAC
*
45284341 TTTCATAA-
1 TTACATAAC
*
45284349 -TACACAAC
1 TTACATAAC
**
45284357 TTACGCAAC
1 TTACATAAC
*
45284366 TTACACAAC
1 TTACATAAC
45284375 TTACATAAC
1 TTACATAAC
*
45284384 TTACACAAC
1 TTACATAAC
* *
45284393 TTACACAGC
1 TTACATAAC
*
45284402 TTACACAAC
1 TTACATAAC
45284411 TTACATAAC
1 TTACATAAC
*
45284420 TTACACAAC
1 TTACATAAC
45284429 TTACATAA
1 TTACATAA
45284437 TGTATAACTT
Statistics
Matches: 300, Mismatches: 58, Indels: 53
0.73 0.14 0.13
Matches are distributed among these distances:
7 60 0.20
8 7 0.02
9 225 0.75
10 8 0.03
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.29
Consensus pattern (9 bp):
TTACATAAC
Found at i:45284078 original size:25 final size:25
Alignment explanation
Indices: 45284044--45284447 Score: 145
Period size: 25 Copynumber: 15.8 Consensus size: 25
45284034 ATATATTAAT
45284044 TTACATAATACATAACTTACATAAC
1 TTACATAATACATAACTTACATAAC
* * *
45284069 CTACTTAATACATAACTTGCATAAC
1 TTACATAATACATAACTTACATAAC
* *
45284094 TTACATAATACACAACTTACAT--G
1 TTACATAATACATAACTTACATAAC
* *
45284117 TGTAAATAATACACAACTTACATAAC
1 T-TACATAATACATAACTTACATAAC
* * * *
45284143 TTACATACCCTACATAAATTAAATAAG
1 TTACATA--ATACATAACTTACATAAC
* * *
45284170 TTACATAATAATACATACCCTACATAAA
1 TTAC---ATAATACATAACTTACATAAC
* *
45284198 TTAAATAAGTTACATAA--TACACAA-
1 TTACATAA--TACATAACTTACATAAC
** *
45284222 AAACAAAAACTTACATAACTTACATAA-
1 TTAC-ATAA--TACATAACTTACATAAC
* *
45284249 -TACACAACTTACATAACTTATATAA-
1 TTACATAA--TACATAACTTACATAAC
*
45284274 -TACACAACTTACATAACTTACATAA-
1 TTACATAA--TACATAACTTACATAAC
*
45284299 -TACATAATTTGCATAACTTACATAA-
1 TTACATAA--TACATAACTTACATAAC
* * *
45284324 -GACATAACTTACATAAGTTTCATAA-
1 TTACATAA--TACATAACTTACATAAC
* ** *
45284349 -TACACAACTTACGCAACTTACACAAC
1 TTACATAA--TACATAACTTACATAAC
* * *
45284375 TTACATAACTTACACAACTTACACAGC
1 TTACATAA--TACATAACTTACATAAC
* *
45284402 TTACACAACTTACATAACTTACACAAC
1 TTACATAA--TACATAACTTACATAAC
**
45284429 TTACATAATGTATAACTTA
1 TTACATAATACATAACTTA
45284448 TTCCTAAATC
Statistics
Matches: 305, Mismatches: 59, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.00
24 21 0.07
25 179 0.59
26 3 0.01
27 83 0.27
28 15 0.05
30 3 0.01
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (25 bp):
TTACATAATACATAACTTACATAAC
Found at i:45284100 original size:50 final size:50
Alignment explanation
Indices: 45284044--45284424 Score: 287
Period size: 50 Copynumber: 7.6 Consensus size: 50
45284034 ATATATTAAT
* * *
45284044 TTACATAATACATAACTTACATAACCTACTTAATACATAACTTGCATAAC
1 TTACATAATACATAACTTACATAACTTACATAATACATAACTTACATAAC
* * * *
45284094 TTACATAATACACAACTTACAT--GTGTAAATAATACACAACTTACATAAC
1 TTACATAATACATAACTTACATAACT-TACATAATACATAACTTACATAAC
* * * * *
45284143 TTACATACCCTACATAAATTAAATAAGTTAC---ATA-ATAA--TACATACC
1 TTACATA--ATACATAACTTACATAACTTACATAATACATAACTTACATAAC
* * * * * *
45284189 CTACATAAATTAAATAAGTTACATAA--TACACAAAAACAAAAACTTACATAAC
1 TTACAT-AA-TACATAACTTACATAACTTACA-TAATAC-ATAACTTACATAAC
* * *
45284241 TTACATAATACACAACTTACATAACTTATATAATACACAACTTACATAAC
1 TTACATAATACATAACTTACATAACTTACATAATACATAACTTACATAAC
* * * *
45284291 TTACATAATACATAATTTGCATAACTTACATAAGACATAACTTACATAAG
1 TTACATAATACATAACTTACATAACTTACATAATACATAACTTACATAAC
* * ** * *
45284341 TTTCATAATACACAACTTACGCAACTTACACAACTTACATAACTTACACAAC
1 TTACATAATACATAACTTACATAACTTACATAA--TACATAACTTACATAAC
* * *
45284393 TTACACAGCTTACACAACTTACATAACTTACA
1 TTACATA--ATACATAACTTACATAACTTACA
45284425 CAACTTACAT
Statistics
Matches: 258, Mismatches: 52, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
44 3 0.01
46 25 0.10
47 1 0.00
48 5 0.02
49 30 0.12
50 119 0.46
51 17 0.07
52 36 0.14
53 2 0.01
54 20 0.08
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.29
Consensus pattern (50 bp):
TTACATAATACATAACTTACATAACTTACATAATACATAACTTACATAAC
Found at i:45284188 original size:37 final size:37
Alignment explanation
Indices: 45284144--45284216 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
45284134 TTACATAACT
45284144 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
45284181 TACATACCCTACATAAATTAAATAAGTTACATAATA
1 TACATACCCTACATAAATTAAATAAGTTACATAATA
45284217 CACAAAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:45284396 original size:36 final size:36
Alignment explanation
Indices: 45284229--45284433 Score: 178
Period size: 34 Copynumber: 6.0 Consensus size: 36
45284219 CAAAAACAAA
* *
45284229 AACTTACATAACTTACATAA--TACACAACTTACAT
1 AACTTACACAACTTACATAACTTACACAACTTACAC
* * * * *
45284263 AACTTATATAA--TACACAACTTACATAACTTACAT
1 AACTTACACAACTTACATAACTTACACAACTTACAC
* * * * * *
45284297 AA--TACATAATTTGCATAACTTACATAA--GACAT
1 AACTTACACAACTTACATAACTTACACAACTTACAC
* * * *
45284329 AACTTACATAAGTTTCATAA--TACACAACTTACGC
1 AACTTACACAACTTACATAACTTACACAACTTACAC
45284363 AACTTACACAACTTACATAACTTACACAACTTACAC
1 AACTTACACAACTTACATAACTTACACAACTTACAC
*
45284399 AGCTTACACAACTTACATAACTTACACAACTTACA
1 AACTTACACAACTTACATAACTTACACAACTTACA
45284434 TAATGTATAA
Statistics
Matches: 143, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
32 24 0.17
34 72 0.50
36 47 0.33
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (36 bp):
AACTTACACAACTTACATAACTTACACAACTTACAC
Found at i:45289932 original size:21 final size:20
Alignment explanation
Indices: 45289906--45289974 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
45289896 CAACAACTTA
*
45289906 AAGCAGAGGTGGCAGCGAGGG
1 AAGCAGAGGT-GCAGCGAGAG
*
45289927 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
* *
45289948 AAGTAGAGGCCGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
45289969 AAGCAG
1 AAGCAG
45289975 CGATAGAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.43, T:0.04
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:45290559 original size:43 final size:42
Alignment explanation
Indices: 45290423--45290631 Score: 253
Period size: 42 Copynumber: 5.0 Consensus size: 42
45290413 TTTGTGAAAT
* * **
45290423 AAGCGTCGCTAAAGAACACT-A-CTGTTAGCAGCGTTTTTGACC
1 AAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTCCC
* * * *
45290465 AAGCGCTGCTATAGAACATTA-CTTTTAGCAGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTCCC
*
45290507 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTCCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-CCC
* * *
45290550 AAGCGCCGCTAGAGAACATGATCTTTAGCGGCATTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
45290592 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
45290632 TGTAAGCGCC
Statistics
Matches: 147, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 105 0.71
43 41 0.28
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
Found at i:45290643 original size:85 final size:85
Alignment explanation
Indices: 45290423--45290631 Score: 264
Period size: 85 Copynumber: 2.5 Consensus size: 85
45290413 TTTGTGAAAT
* * ** * * *
45290423 AAGCGTCGCTAAAGAACACT-A-CTGTTAGCAGCG-TTTTTGACCAAGCGCTGCTATAGAACATT
1 AAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTCCCCAAGCGCCGCTAGAGAACATG
*
45290485 ACTTTTAGCAGCGTTTTTTCCC
64 ACTTTTAGCAGCATTTTTTCCC
*
45290507 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTCCCCAAGCGCCGCTAGAGAACATGA-
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCCAAGCGCCGCTAGAGAACATGAC
* *
45290571 TCTTTAGCGGCATTTTTTCCT
66 T-TTTAGCAGCATTTTTTCCC
45290592 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
45290632 TGTAAGCGCC
Statistics
Matches: 109, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
83 1 0.01
84 26 0.24
85 82 0.75
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCCAAGCGCCGCTAGAGAACATGAC
TTTTAGCAGCATTTTTTCCC
Found at i:45295257 original size:23 final size:23
Alignment explanation
Indices: 45295227--45295278 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
45295217 TGGGGGGGTT
45295227 GAAGCACTATCGATGGTATCATA
1 GAAGCACTATCGATGGTATCATA
45295250 GAAGCACTATCGATGGTATCATA
1 GAAGCACTATCGATGGTATCATA
45295273 GAAGCA
1 GAAGCA
45295279 TATGTATAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (23 bp):
GAAGCACTATCGATGGTATCATA
Found at i:45302193 original size:24 final size:24
Alignment explanation
Indices: 45302147--45302232 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 24
45302137 TCCGAGCTGT
* *
45302147 ATAACGGGAAGCTCATAATAGCC-
1 ATAATGGGAAGCTCATAAGAGCCA
**
45302170 ATAATTGGGAAGCTCATGCGAGCCA
1 ATAA-TGGGAAGCTCATAAGAGCCA
* ** *
45302195 ATAATGGGTAGCTCCGAAGAGCTA
1 ATAATGGGAAGCTCATAAGAGCCA
* *
45302219 TTAACGGGAAGCTC
1 ATAATGGGAAGCTC
45302233 TGTATAGCCA
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
23 4 0.08
24 40 0.83
25 4 0.08
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.20
Consensus pattern (24 bp):
ATAATGGGAAGCTCATAAGAGCCA
Found at i:45302294 original size:72 final size:72
Alignment explanation
Indices: 45302148--45302332 Score: 162
Period size: 72 Copynumber: 2.5 Consensus size: 72
45302138 CCGAGCTGTA
* * * *
45302148 TAACGGGAAGCTCATAATAGCCATAATTGGGAAGCTCATGCGAGCCAATAATGGGTAGCTCCGAA
1 TAACGGGAAGCTCATAATAGCCATAATCGGGAAGCTCAAGCGAGCCAATAATAGGAAGCTCCGAA
45302213 GAGCTAT
66 GAGCTAT
* * *
45302220 TAACGGGAAGCTC-TGTATAGCCATATATCGGGAAGTTCAAGCGAGCC-AT-ATCAGGAAGCTTC
1 TAACGGGAAGCTCAT-AATAGCCATA-ATCGGGAAGCTCAAGCGAGCCAATAAT-AGGAAGCTCC
*
45302282 GTAGAG-TCAT
63 GAAGAGCT-AT
** * * *
45302292 TAATCAAGAAGCTCACAAAGAGCCTTTAATCGGGAAGCTCA
1 TAA-CGGGAAGCTCA-TAATAGCC-ATAATCGGGAAGCTCA
45302333 CGAAGAGCCA
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
71 4 0.04
72 41 0.46
73 26 0.29
74 17 0.19
75 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (72 bp):
TAACGGGAAGCTCATAATAGCCATAATCGGGAAGCTCAAGCGAGCCAATAATAGGAAGCTCCGAA
GAGCTAT
Found at i:45302320 original size:26 final size:26
Alignment explanation
Indices: 45302291--45302341 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
45302281 CGTAGAGTCA
45302291 TTAATCAAGAAGCTCACAAAGAGCCT
1 TTAATCAAGAAGCTCACAAAGAGCCT
** *
45302317 TTAATCGGGAAGCTCACGAAGAGCC
1 TTAATCAAGAAGCTCACAAAGAGCC
45302342 ATATAATGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
TTAATCAAGAAGCTCACAAAGAGCCT
Found at i:45304506 original size:16 final size:16
Alignment explanation
Indices: 45304482--45304513 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45304472 AAAAATTATT
*
45304482 ATTTGTCCTACAAATA
1 ATTTCTCCTACAAATA
45304498 ATTTCTCCTACAAATA
1 ATTTCTCCTACAAATA
45304514 TATTACTTGT
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:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTTCTCCTACAAATA
Found at i:45311074 original size:23 final size:22
Alignment explanation
Indices: 45311024--45311075 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
45311014 ATTATCATGG
* *
45311024 TAATATTTATATTTTTTTAATT
1 TAATTTTTATATTTTTTGAATT
* *
45311046 TGATTTTTATTATTTTTTGAGTT
1 TAATTTTTA-TATTTTTTGAATT
45311069 TAATTTT
1 TAATTTT
45311076 GCCTTCAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (22 bp):
TAATTTTTATATTTTTTGAATT
Found at i:45336209 original size:15 final size:15
Alignment explanation
Indices: 45336164--45336271 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
45336154 CCAATATCTC
45336164 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
45336179 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
45336194 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
45336209 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
45336224 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
45336239 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
45336254 GATACCCATATCTTT
1 GATACCCATATCTTT
45336269 GAT
1 GAT
45336272 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:45336278 original size:30 final size:30
Alignment explanation
Indices: 45336154--45336277 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
45336144 TTTTATTATG
*
45336154 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
45336185 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
45336215 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
45336245 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
45336275 CCA
1 CCA
45336278 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:45340357 original size:18 final size:18
Alignment explanation
Indices: 45340334--45340426 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
45340324 CCCAACTACT
*
45340334 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
45340352 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
45340370 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
45340388 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
45340406 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
45340424 GTA
1 GTA
45340427 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:45340386 original size:36 final size:36
Alignment explanation
Indices: 45340334--45340426 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
45340324 CCCAACTACT
*
45340334 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
45340370 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
45340406 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
45340427 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:45340961 original size:31 final size:30
Alignment explanation
Indices: 45340926--45341011 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
45340916 TTTATTATGT
*
45340926 CAATATCTCGGTACCCATATATTTGACTTTC
1 CAATAT-TCGATACCCATATATTTGACTTTC
* * *
45340957 CAATATTTGATACTCATATCTTTGACTTTC
1 CAATATTCGATACCCATATATTTGACTTTC
* * * *
45340987 TATTATTTGATACCCATATCTTTGA
1 CAATATTCGATACCCATATATTTGA
45341012 TTTTTCATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 42 0.88
31 6 0.12
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (30 bp):
CAATATTCGATACCCATATATTTGACTTTC
Found at i:45340981 original size:30 final size:30
Alignment explanation
Indices: 45340937--45341011 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
45340927 AATATCTCGG
*
45340937 TACCCATATATTTGACTTTCCAATATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
* * *
45340967 TACTCATATCTTTGACTTTCTATTATTTGA
1 TACCCATATCTTTGACTTTCCAATATTTGA
45340997 TACCCATATCTTTGA
1 TACCCATATCTTTGA
45341012 TTTTTCATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (30 bp):
TACCCATATCTTTGACTTTCCAATATTTGA
Found at i:45343339 original size:6 final size:6
Alignment explanation
Indices: 45343330--45343362 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
45343320 TAATTCATGA
45343330 GGGCTG GGGCTG GGGCTG GGGCTG GGGCTG GGG
1 GGGCTG GGGCTG GGGCTG GGGCTG GGGCTG GGG
45343363 GCTCATTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.70, T:0.15
Consensus pattern (6 bp):
GGGCTG
Found at i:45350712 original size:30 final size:29
Alignment explanation
Indices: 45350656--45350712 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
45350646 TATTTTCATT
*
45350656 CACACGGTCAGAGACACGGGCGTGTGTGA
1 CACACGGTCAGAGACACGGCCGTGTGTGA
* *
45350685 CACACGGTCAAGTGAGACGGCCGTGTGT
1 CACACGGTC-AGAGACACGGCCGTGTGT
45350713 CCCTTATGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.23, C:0.25, G:0.37, T:0.16
Consensus pattern (29 bp):
CACACGGTCAGAGACACGGCCGTGTGTGA
Found at i:45353414 original size:21 final size:21
Alignment explanation
Indices: 45353385--45353513 Score: 66
Period size: 21 Copynumber: 6.2 Consensus size: 21
45353375 AGTTAACTCA
*
45353385 TATGAGTTTCAGTTTAACCCT
1 TATGGGTTTCAGTTTAACCCT
* * * * *
45353406 TCTGGGTTTTAGTTCAGCTCT
1 TATGGGTTTCAGTTTAACCCT
* *
45353427 TTTGAGCTTT-AGTTTAACCCT
1 TATG-GGTTTCAGTTTAACCCT
* * * *
45353448 TATGGGTTTCCGTTCAGCTCT
1 TATGGGTTTCAGTTTAACCCT
* *
45353469 TATAAGCTTTC-GTTTAACCCT
1 TAT-GGGTTTCAGTTTAACCCT
* * *
45353490 TA-GGGTTTCCGTTTAGCACT
1 TATGGGTTTCAGTTTAACCCT
45353510 TATG
1 TATG
45353514 TGCTTCTGTG
Statistics
Matches: 77, Mismatches: 26, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
19 5 0.06
20 14 0.18
21 49 0.64
22 9 0.12
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (21 bp):
TATGGGTTTCAGTTTAACCCT
Found at i:45353454 original size:42 final size:42
Alignment explanation
Indices: 45353385--45353518 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 42
45353375 AGTTAACTCA
* *
45353385 TATGAG-TTTCAGTTTAACCCTTCTGGGTTTTAGTTCAGCTCT
1 TATGAGCTTT-AGTTTAACCCTTATGGGTTTCAGTTCAGCTCT
* *
45353427 TTTGAGCTTTAGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTTAGTTTAACCCTTATGGGTTTCAGTTCAGCTCT
* * * * *
45353469 TATAAGCTTTCGTTTAACCCTTA-GGGTTTCCGTTTAGCACT
1 TATGAGCTTTAGTTTAACCCTTATGGGTTTCAGTTCAGCTCT
*
45353510 TATGTGCTT
1 TATGAGCTT
45353519 CTGTGCAGCC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
41 23 0.29
42 54 0.68
43 3 0.04
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (42 bp):
TATGAGCTTTAGTTTAACCCTTATGGGTTTCAGTTCAGCTCT
Found at i:45358318 original size:16 final size:16
Alignment explanation
Indices: 45358297--45358328 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45358287 CGAAATTCAC
45358297 TTAACAAAATAGTCCT
1 TTAACAAAATAGTCCT
45358313 TTAACAAAATAGTCCT
1 TTAACAAAATAGTCCT
45358329 AAAATATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (16 bp):
TTAACAAAATAGTCCT
Found at i:45360987 original size:18 final size:17
Alignment explanation
Indices: 45360964--45361000 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
45360954 AATTATTATT
45360964 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
45360980 AAATATATGATTTAATA
1 AAATATATGATTTAATA
45360997 AAAT
1 AAAT
45361001 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:45361118 original size:59 final size:54
Alignment explanation
Indices: 45360952--45361121 Score: 153
Period size: 66 Copynumber: 2.9 Consensus size: 54
45360942 ATATTTAAAC
*
45360952 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
1 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
* ** * *
45361006 ATAATCAATATTCTTATATGAATTTACTAATATCATAATATATGATACTATAAAATATAATT-TG
1 ATAATTAATATT-AAATAT--ATTT--TAAT-T-AAAATATATGAT--T-T--AATAAAATTCT-
*
45361070 AA
53 TA
45361072 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
45361122 TAAAATAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
54 18 0.20
55 4 0.04
56 1 0.01
57 5 0.05
59 15 0.16
60 2 0.02
61 15 0.16
63 5 0.05
64 1 0.01
65 5 0.05
66 20 0.22
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (54 bp):
ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTA
Found at i:45361191 original size:26 final size:28
Alignment explanation
Indices: 45361162--45361222 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
45361152 TATGAATTTG
*
45361162 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
45361188 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
45361216 TAAAATT
1 TATAATT
45361223 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:45361220 original size:47 final size:46
Alignment explanation
Indices: 45361169--45361312 Score: 104
Period size: 45 Copynumber: 3.1 Consensus size: 46
45361159 TTGTATAATT
45361169 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
45361216 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* * *
45361260 TAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
45361307 TAAAAT
1 TAAAAT
45361313 TCTTAATAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 26
0.65 0.12 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.20
46 12 0.17
47 14 0.20
48 9 0.13
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:45361232 original size:91 final size:90
Alignment explanation
Indices: 45361137--45361344 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 90
45361127 TAATTATAAC
* * * *
45361137 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
45361202 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
*
45361228 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
45361293 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
45361319 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
45361345 CTAAAATCAA
Statistics
Matches: 107, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
91 86 0.80
92 21 0.20
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:45361304 original size:44 final size:43
Alignment explanation
Indices: 45361162--45361304 Score: 103
Period size: 44 Copynumber: 3.2 Consensus size: 43
45361152 TATGAATTTG
* * *
45361162 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAAT-ATGATA
** * * *
45361206 TATAATTTCATAAAATTCTTGATAATAAAT-T--TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAATT-TAATATG-A--TA
*
45361253 TACAATTTAAAATAATTAATATTAAATATAATTTAATAGTGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATA-TGATA
45361297 TATAATTT
1 TATAATTT
45361305 CATAAAATTC
Statistics
Matches: 73, Mismatches: 15, Indels: 22
0.66 0.14 0.20
Matches are distributed among these distances:
44 34 0.47
45 7 0.10
46 8 0.11
47 24 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATATGATA
Found at i:45361319 original size:47 final size:46
Alignment explanation
Indices: 45361187--45361325 Score: 126
Period size: 47 Copynumber: 3.0 Consensus size: 46
45361177 TTATTATTAC
* *
45361187 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAAT-ATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
45361234 AT-T--TTCTTATATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
45361278 ATATAATTTAATAGTGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATA-TGATATATAATTTCATAAAATTCTTAATAATAA
45361325 A
1 A
45361326 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 14 0.20
47 22 0.32
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (46 bp):
ATATAATTTAATATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:45364118 original size:33 final size:33
Alignment explanation
Indices: 45364076--45364141 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
45364066 ATTATAAAGC
45364076 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
45364109 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
45364142 TTGTTAGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:45364944 original size:23 final size:23
Alignment explanation
Indices: 45364884--45364958 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
45364874 TCTACTCACT
45364884 AACAAATCAAGAACAATTTCCAG
1 AACAAATCAAGAACAATTTCCAG
*
45364907 CAGAC-TATCAA-AACAATTTCCAG
1 -A-ACAAATCAAGAACAATTTCCAG
*
45364930 AACAAATCAAGAACAATAT-CAG
1 AACAAATCAAGAACAATTTCCAG
45364952 AACAAAT
1 AACAAAT
45364959 ACAACAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
21 2 0.04
22 16 0.36
23 19 0.42
24 6 0.13
25 2 0.04
ACGTcount: A:0.53, C:0.21, G:0.08, T:0.17
Consensus pattern (23 bp):
AACAAATCAAGAACAATTTCCAG
Found at i:45365099 original size:19 final size:18
Alignment explanation
Indices: 45365057--45365101 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
45365047 GTAAACTCTT
45365057 TCAAAAAACAGCAGACTA
1 TCAAAAAACAGCAGACTA
*
45365075 TCAAAAAATAGCAGACTA
1 TCAAAAAACAGCAGACTA
45365093 TCAAAAAAC
1 TCAAAAAAC
45365102 TGTCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.58, C:0.20, G:0.09, T:0.13
Consensus pattern (18 bp):
TCAAAAAACAGCAGACTA
Found at i:45367623 original size:13 final size:15
Alignment explanation
Indices: 45367598--45367636 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
45367588 TTGTTTCACT
45367598 AAAAATGACTTTC-A
1 AAAAATGACTTTCTA
*
45367612 AAAAATGA-TTTCTG
1 AAAAATGACTTTCTA
45367626 AAAAATGACTT
1 AAAAATGACTT
45367637 ACTTTTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 16 0.73
15 2 0.09
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (15 bp):
AAAAATGACTTTCTA
Found at i:45369491 original size:18 final size:19
Alignment explanation
Indices: 45369452--45369494 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
45369442 AAAATTACAA
*
45369452 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTAT
*
45369471 AAAATTCATAAT-ATTTAT
1 AAAATTCAAAATAATTTAT
45369489 AAAATT
1 AAAATT
45369495 TTCAAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:45369528 original size:26 final size:27
Alignment explanation
Indices: 45369471--45369528 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
45369461 AATAATTTTT
* *
45369471 AAAATTCATAATATTTATAAAATTTTC
1 AAAATTCATAATATTTAAAAAATTATC
45369498 AAAATTCAT-AT-TTTAAAAAAATTATC
1 AAAATTCATAATATTT-AAAAAATTATC
*
45369524 TAAAT
1 AAAAT
45369529 GATATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.11
26 15 0.56
27 9 0.33
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAATTCATAATATTTAAAAAATTATC
Found at i:45373832 original size:3 final size:3
Alignment explanation
Indices: 45373824--45373866 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
45373814 GAGGTGGGTT
45373824 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
45373867 AAATTCAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45381944 original size:2 final size:2
Alignment explanation
Indices: 45381937--45381965 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45381927 TTTGATGTTT
45381937 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
45381966 TTTTAAGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:45401248 original size:5 final size:5
Alignment explanation
Indices: 45401234--45401264 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
45401224 ATTTTTTGAT
*
45401234 GATGG AATGG GATGG GATGG GATGG GATGG G
1 GATGG GATGG GATGG GATGG GATGG GATGG G
45401265 CTGTGGGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.58, T:0.19
Consensus pattern (5 bp):
GATGG
Found at i:45401654 original size:30 final size:30
Alignment explanation
Indices: 45401620--45401682 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
45401610 ACTTAACAAG
*
45401620 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
45401650 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
45401680 CAA
1 CAA
45401683 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:45408459 original size:17 final size:17
Alignment explanation
Indices: 45408437--45408470 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45408427 AGGCCGTGCA
45408437 TTGTAATTGGGCTCGGG
1 TTGTAATTGGGCTCGGG
*
45408454 TTGTAATTGGGTTCGGG
1 TTGTAATTGGGCTCGGG
45408471 GTATTGGGTT
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:0.12, C:0.09, G:0.41, T:0.38
Consensus pattern (17 bp):
TTGTAATTGGGCTCGGG
Found at i:45411362 original size:19 final size:19
Alignment explanation
Indices: 45411319--45411362 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
45411309 GGGACTAAAT
*
45411319 TGAAAAGTTGTAAAATTTA
1 TGAAAAATTGTAAAATTTA
* *
45411338 TGGAAAAATTTTAAATTTTA
1 T-GAAAAATTGTAAAATTTA
45411358 TGAAA
1 TGAAA
45411363 TACATGGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.39
Consensus pattern (19 bp):
TGAAAAATTGTAAAATTTA
Found at i:45412053 original size:25 final size:26
Alignment explanation
Indices: 45411999--45412054 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
45411989 CCGATATATG
*
45411999 GCTCTTCGTGAGCTTCCCGATTAAAA
1 GCTCTTCGTGACCTTCCCGATTAAAA
* * *
45412025 GCTCTTTGTGACCTTCTCG-TTAATA
1 GCTCTTCGTGACCTTCCCGATTAAAA
45412050 GCTCT
1 GCTCT
45412055 CCGGAGCTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (26 bp):
GCTCTTCGTGACCTTCCCGATTAAAA
Found at i:45413343 original size:18 final size:16
Alignment explanation
Indices: 45413317--45413358 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
45413307 AAATTTTATT
*
45413317 ATATTATTTTTAATATAA
1 ATATAATTTTTAA-AT-A
45413335 ATATAA-TTTTAAATA
1 ATATAATTTTTAAATA
45413350 ATATAATTT
1 ATATAATTT
45413359 GTGTAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 4 0.18
17 6 0.27
18 5 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATTTTTAAATA
Found at i:45413354 original size:15 final size:17
Alignment explanation
Indices: 45413324--45413358 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
45413314 ATTATATTAT
45413324 TTTTAATATAAATATAA
1 TTTTAATATAAATATAA
45413341 TTTTAA-AT-AATATAA
1 TTTTAATATAAATATAA
45413356 TTT
1 TTT
45413359 GTGTAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 2 0.11
17 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTAATATAAATATAA
Found at i:45421822 original size:29 final size:30
Alignment explanation
Indices: 45421777--45421841 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
45421767 ATCGATTGAG
* **
45421777 TTATTTTTGTATATAATTTTTA-TTTTAAA
1 TTATTTTCGTATATAATTAATATTTTTAAA
*
45421806 TTATTTTCGTA-ATTAATTAATATTTTTAAG
1 TTATTTTCGTATA-TAATTAATATTTTTAAA
45421836 TTATTT
1 TTATTT
45421842 ATAAGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 17 0.57
30 12 0.40
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (30 bp):
TTATTTTCGTATATAATTAATATTTTTAAA
Found at i:45424620 original size:23 final size:22
Alignment explanation
Indices: 45424587--45424640 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
45424577 TTAATCGGGA
45424587 AATTG-AT-TAAGTGT-AATTG
1 AATTGAATATAAGTGTGAATTG
45424606 AATAATGAATATAAGTGTGGAATTG
1 AAT--TGAATATAAGTGT-GAATTG
45424631 AATTGAATAT
1 AATTGAATAT
45424641 CGACTTAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.10
21 2 0.07
22 2 0.07
23 14 0.48
25 8 0.28
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (22 bp):
AATTGAATATAAGTGTGAATTG
Found at i:45425115 original size:16 final size:16
Alignment explanation
Indices: 45425072--45425107 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45425062 TAATTAAGAA
*
45425072 ATTATTATTATATTAC
1 ATTATTATAATATTAC
*
45425088 ATTATTATAATATTAT
1 ATTATTATAATATTAC
45425104 ATTA
1 ATTA
45425108 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATTATAATATTAC
Found at i:45425147 original size:16 final size:18
Alignment explanation
Indices: 45425111--45425147 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
45425101 TATATTAATT
45425111 AAATAATAAACAAACGTA
1 AAATAATAAACAAACGTA
*
45425129 AAATAA-AAATAAA-GTA
1 AAATAATAAACAAACGTA
45425145 AAA
1 AAA
45425148 GAAAGAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AAATAATAAACAAACGTA
Found at i:45425214 original size:15 final size:17
Alignment explanation
Indices: 45425186--45425222 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
45425176 ATAGCATTCG
*
45425186 AAAACAAAACAGAGA-A
1 AAAAGAAAACAGAGAGA
45425202 AAAAGAAAA-AGAGAGA
1 AAAAGAAAACAGAGAGA
45425218 AAAAG
1 AAAAG
45425223 GGAAAATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAGAAAACAGAGAGA
Found at i:45433857 original size:35 final size:33
Alignment explanation
Indices: 45433798--45433891 Score: 84
Period size: 33 Copynumber: 2.8 Consensus size: 33
45433788 TGAATTGACG
* *
45433798 GATAAGACCATGGTTGGACCATGGCAATGTTTAAAT
1 GATAAGACCATAGTTGG-CTATGGCAAT-TTT-AAT
45433834 G-TAAGACCATAGTTAGGCTATGGC-ATTTTAAT
1 GATAAGACCATAGTT-GGCTATGGCAATTTTAAT
* * *
45433866 GAAAAGACCATAATTGGGTTATGGCA
1 GATAAGACCATAGTT-GGCTATGGCA
45433892 CCTTGAACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
32 4 0.08
33 22 0.45
34 2 0.04
35 18 0.37
36 3 0.06
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (33 bp):
GATAAGACCATAGTTGGCTATGGCAATTTTAAT
Done.