Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 165 of 213
Found at i:49508130 original size:38 final size:41
Alignment explanation
Indices: 49508040--49508122 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 41
49508030 TATTAAGATA
* *
49508040 ATTACTTTAATATTAAATTAATTAAATACTATTAAGATAAAT
1 ATTAATTTAA-ATTAAATTAATTAAATACTATTAAAATAAAT
*
49508082 ATTAAATTAAATTAAA-T-ATTAAAT-CTATTAAAAT-AAT
1 ATTAATTTAAATTAAATTAATTAAATACTATTAAAATAAAT
49508119 ATTA
1 ATTA
49508123 TTTTTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
37 7 0.18
38 9 0.24
39 7 0.18
40 1 0.03
41 6 0.16
42 8 0.21
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (41 bp):
ATTAATTTAAATTAAATTAATTAAATACTATTAAAATAAAT
Found at i:49510011 original size:25 final size:25
Alignment explanation
Indices: 49509977--49510026 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
49509967 TTTCTCATTC
* *
49509977 CAATTTTACCCTGGTAAAATTTTGA
1 CAATTTTACCCCGATAAAATTTTGA
49510002 CAATTTTACCCCGATAAAATTTTGA
1 CAATTTTACCCCGATAAAATTTTGA
49510027 GAAAATTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (25 bp):
CAATTTTACCCCGATAAAATTTTGA
Found at i:49512476 original size:49 final size:47
Alignment explanation
Indices: 49512416--49513062 Score: 988
Period size: 47 Copynumber: 13.6 Consensus size: 47
49512406 GATAATTGTG
* * * *
49512416 ATGTGAATGTATATATATGTGATAAGGTCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49512463 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49512510 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49512559 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49512608 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49512655 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49512704 ATGTGAAAGTCTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49512753 ATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49512800 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49512847 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGAAGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
49512896 ATGTGAAAGTGTATATATGTGATGAGGCCTAATAGCCGAAGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49512943 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
49512990 ATGTGAAAATGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49513037 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49513063 TCCCGAAGGG
Statistics
Matches: 558, Mismatches: 34, Indels: 16
0.92 0.06 0.03
Matches are distributed among these distances:
47 329 0.59
49 228 0.41
51 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49512523 original size:96 final size:94
Alignment explanation
Indices: 49512416--49513062 Score: 988
Period size: 96 Copynumber: 6.8 Consensus size: 94
49512406 GATAATTGTG
* * * *
49512416 ATGTGAATGTATATATATGTGATAAGGTCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
49512481 GTGATAAGGCCGAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
49512510 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
49512575 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49512608 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
49512673 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49512704 ATGTGAAAGTCTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
49512769 ATGTGATAAGACCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49512800 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
* *
49512865 ATGTGATAAGGCCTAATGACCGAAGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
49512896 ATGTGAAAGTGTATATATGTGATGAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
49512961 GTGATGAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * * *
49512990 ATGTGAAAATGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
49513055 GTGATAAG
66 GTGATAAG
49513063 TCCCGAAGGG
Statistics
Matches: 512, Mismatches: 33, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
94 150 0.29
96 269 0.53
98 93 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49518506 original size:22 final size:22
Alignment explanation
Indices: 49518481--49518524 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
49518471 TAATTGAAGG
49518481 ACCAATTATGAATTTAAACCTT
1 ACCAATTATGAATTTAAACCTT
49518503 ACCAATTATGAATTTAAACCTT
1 ACCAATTATGAATTTAAACCTT
49518525 CCTTTGACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (22 bp):
ACCAATTATGAATTTAAACCTT
Found at i:49523555 original size:36 final size:36
Alignment explanation
Indices: 49523508--49523581 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
49523498 TCTGAACCTA
49523508 CCTTAACCTAGGAAAGTGACTTTGATAGGCCTCCTT
1 CCTTAACCTAGGAAAGTGACTTTGATAGGCCTCCTT
49523544 CCTTAACCTAGGAAAGTGACTTTGATAGGCCTCCTT
1 CCTTAACCTAGGAAAGTGACTTTGATAGGCCTCCTT
49523580 CC
1 CC
49523582 CCCTTTGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (36 bp):
CCTTAACCTAGGAAAGTGACTTTGATAGGCCTCCTT
Found at i:49529947 original size:23 final size:23
Alignment explanation
Indices: 49529917--49529965 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
49529907 TTTGGCTATA
*
49529917 TTTTGAACATGTCTATCTGACGC
1 TTTTGAACACGTCTATCTGACGC
*
49529940 TTTTGAACACGTTTATCTGACGC
1 TTTTGAACACGTCTATCTGACGC
49529963 TTT
1 TTT
49529966 GTCCTTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (23 bp):
TTTTGAACACGTCTATCTGACGC
Found at i:49532392 original size:13 final size:13
Alignment explanation
Indices: 49532374--49532427 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
49532364 AGATTAGCTA
49532374 TTCAATATGGATC
1 TTCAATATGGATC
*
49532387 TTCAATATGGATT
1 TTCAATATGGATC
49532400 TTGCAAGTA---ATC
1 TT-CAA-TATGGATC
*
49532412 ATCAATATGGATC
1 TTCAATATGGATC
49532425 TTC
1 TTC
49532428 CATTAGCATC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 3 0.09
13 19 0.59
14 3 0.09
15 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (13 bp):
TTCAATATGGATC
Found at i:49534219 original size:6 final size:6
Alignment explanation
Indices: 49534208--49534237 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
49534198 TTCTACCCCA
*
49534208 AAACAT AAACAT AAAAAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT
49534238 GGTTATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (6 bp):
AAACAT
Found at i:49541646 original size:14 final size:14
Alignment explanation
Indices: 49541610--49541646 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
49541600 TTAATCGATT
49541610 TGCCACAATTGACC
1 TGCCACAATTGACC
*
49541624 TG-GACAATTGACC
1 TGCCACAATTGACC
49541637 TGCCACAATT
1 TGCCACAATT
49541647 CGTTGTGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (14 bp):
TGCCACAATTGACC
Found at i:49544603 original size:6 final size:6
Alignment explanation
Indices: 49544594--49544624 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
49544584 CATTTTCAAG
*
49544594 TCATTT TCATTT TTATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT T
49544625 TAGTTTCAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (6 bp):
TCATTT
Found at i:49544615 original size:18 final size:18
Alignment explanation
Indices: 49544594--49544642 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
49544584 CATTTTCAAG
*
49544594 TCATTTTCATTTTTATTT
1 TCATTTTCATTTTTAGTT
49544612 TCATTTTCATTTTTAGTT
1 TCATTTTCATTTTTAGTT
* *
49544630 TCAGTTTCCTTTT
1 TCATTTTCATTTT
49544643 AGAGAAAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.14, G:0.04, T:0.67
Consensus pattern (18 bp):
TCATTTTCATTTTTAGTT
Found at i:49554406 original size:50 final size:49
Alignment explanation
Indices: 49554352--49554471 Score: 143
Period size: 49 Copynumber: 2.4 Consensus size: 49
49554342 AGGTCCCCCA
* * *
49554352 TAAGACCATGTCTGGGACATGACATGGGCATTGATATGAGAAC-TCCCATG
1 TAAGACCATGTCTGGGACATGACATGGGCAGT-ACACGA-AACATCCCATG
* * * *
49554402 TAAGACCATATCTGGGATATGGCATTGGCAGTACACGAAACATCCCATG
1 TAAGACCATGTCTGGGACATGACATGGGCAGTACACGAAACATCCCATG
*
49554451 TAAGACCATGTCTAGGACATG
1 TAAGACCATGTCTGGGACATG
49554472 GCTTTGGCAT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.05
49 29 0.49
50 27 0.46
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGACATGGGCAGTACACGAAACATCCCATG
Found at i:49556656 original size:6 final size:6
Alignment explanation
Indices: 49556645--49556669 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
49556635 AGGCAACCCA
49556645 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
49556670 CTTTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:49556682 original size:12 final size:11
Alignment explanation
Indices: 49556648--49556708 Score: 56
Period size: 12 Copynumber: 5.6 Consensus size: 11
49556638 CAACCCAATT
*
49556648 TTTATTTTTATT
1 TTTATTTTTA-C
49556660 TTTATTTTTAC
1 TTTATTTTTAC
49556671 TTTATTTATTAC
1 TTTATTT-TTAC
* *
49556683 ATTA-TTTTAT
1 TTTATTTTTAC
49556693 TTTA-TTTTAC
1 TTTATTTTTAC
49556703 -TTATTT
1 TTTATTT
49556709 GGATATTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
9 3 0.07
10 13 0.31
11 9 0.21
12 17 0.40
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTTTAC
Found at i:49563393 original size:54 final size:53
Alignment explanation
Indices: 49563263--49563398 Score: 139
Period size: 54 Copynumber: 2.6 Consensus size: 53
49563253 AGAGTGCCAG
* *
49563263 CCATCAGTGTCCCAGTACCCAAA-TTTTTTTCTATCAAATAAAGGGGTACCGA
1 CCATCAGTGTCCCAGTACCCAAATTTTTTTTCTATCAAACAAAGAGGTACCGA
* * * * * * * **
49563315 CCATCAATGTTCTAGTACCTAAATTTTTTTTTTAATCAGACAAATAGGTGTCGA
1 CCATCAGTGTCCCAGTACCCAAATTTTTTTTCT-ATCAAACAAAGAGGTACCGA
* *
49563369 TCATCAGTGTCCCAGCACCCAAATTTTTTT
1 CCATCAGTGTCCCAGTACCCAAATTTTTTT
49563399 AGATATTGTT
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
52 19 0.29
53 8 0.12
54 38 0.58
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (53 bp):
CCATCAGTGTCCCAGTACCCAAATTTTTTTTCTATCAAACAAAGAGGTACCGA
Found at i:49571108 original size:44 final size:45
Alignment explanation
Indices: 49571006--49571110 Score: 110
Period size: 46 Copynumber: 2.3 Consensus size: 45
49570996 ACACTTCGGA
* *
49571006 ATAA-TAATAGATATACGGTGGATTCAGCACACAGCAACCACCCTT
1 ATAATTAAT-GATATCCGGTGGATTCAACACACAGCAACCACCCTT
* *
49571051 -TGAAATCAATGATATCCGGTGGGA-TCAACACATAGCAACCA-CCTT
1 AT--AATTAATGATATCCGGT-GGATTCAACACACAGCAACCACCCTT
49571096 ATAATTAATGATATC
1 ATAATTAATGATATC
49571111 GGTTCACATA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
44 13 0.26
45 4 0.08
46 27 0.54
47 6 0.12
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (45 bp):
ATAATTAATGATATCCGGTGGATTCAACACACAGCAACCACCCTT
Found at i:49571184 original size:51 final size:51
Alignment explanation
Indices: 49571119--49571305 Score: 227
Period size: 51 Copynumber: 3.7 Consensus size: 51
49571109 TCGGTTCACA
* *
49571119 TAGTAGCCTACACATAGTACTACACATGTGACCATCA-CTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT-AGCTATCTGGTACACG
* * * *
49571170 TAGTAGTCTGCACATAGTACTACACATGTGATCGA-AGCTATCCGGTACACA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATAGCTATCTGGTACACG
** * *
49571221 TAGTAGCCTGCACATAGTACTACACATGCAACC-TATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATAGCTATCTGGTACACG
* *
49571271 TAGTAGCTTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
49571306 CACTTTCACT
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
50 43 0.38
51 69 0.61
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATAGCTATCTGGTACACG
Found at i:49571240 original size:102 final size:101
Alignment explanation
Indices: 49571110--49571301 Score: 280
Period size: 101 Copynumber: 1.9 Consensus size: 101
49571100 TTAATGATAT
* **
49571110 CGGTTCACATAGTAGCCTACACATAGTACTACACATGTGACC-ATCACTATCTGATACACGTAGT
1 CGGTACACATAGTAGCCTACACATAGTACTACACATGCAACCTAT--CTATCTGATACACGTAGT
*
49571174 AG-TCTGCACATAGTACTACACATGTGATCGAAGCTATC
64 AGCT-TGCACATAGTACTACACACGTGATCGAAGCTATC
* * *
49571212 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCAACCTATCTTTCTGGTACACGTAGTAG
1 CGGTACACATAGTAGCCTACACATAGTACTACACATGCAACCTATCTATCTGATACACGTAGTAG
49571277 CTTGCACATAGTACTACACACGTGA
66 CTTGCACATAGTACTACACACGTGA
49571302 CCATCACTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
101 40 0.49
102 39 0.48
103 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CGGTACACATAGTAGCCTACACATAGTACTACACATGCAACCTATCTATCTGATACACGTAGTAG
CTTGCACATAGTACTACACACGTGATCGAAGCTATC
Found at i:49576800 original size:19 final size:19
Alignment explanation
Indices: 49576776--49576815 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
49576766 TACCCCTTTG
49576776 CCGCCTTTCTCAAGGCTGC
1 CCGCCTTTCTCAAGGCTGC
*
49576795 CCGCCTTTCTCAGGGCTGC
1 CCGCCTTTCTCAAGGCTGC
49576814 CC
1 CC
49576816 TCCAGTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.07, C:0.45, G:0.23, T:0.25
Consensus pattern (19 bp):
CCGCCTTTCTCAAGGCTGC
Found at i:49585606 original size:29 final size:29
Alignment explanation
Indices: 49585564--49585622 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
49585554 TCATGGAAGA
* * * *
49585564 GATGGAGAACTTGTTCGTTGAGATTTCGT
1 GATGAAGAACTTGTTCATTAAGAATTCGT
49585593 GATGAAGAACTTGTTCATTAAGAATTCGT
1 GATGAAGAACTTGTTCATTAAGAATTCGT
49585622 G
1 G
49585623 TCAAGGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (29 bp):
GATGAAGAACTTGTTCATTAAGAATTCGT
Found at i:49588056 original size:20 final size:20
Alignment explanation
Indices: 49588022--49588063 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
49588012 AACTATTTAA
** *
49588022 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
49588042 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
49588062 AT
1 AT
49588064 GTATTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:49589528 original size:41 final size:41
Alignment explanation
Indices: 49589471--49589554 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
49589461 AAAATTGCTT
49589471 TATTTGATACATAGTGATTTATGTAACATGCATAATACTCC
1 TATTTGATACATAGTGATTTATGTAACATGCATAATACTCC
*
49589512 TATTTGATACATAGTGATTTATGTGACATGCATAATACTCC
1 TATTTGATACATAGTGATTTATGTAACATGCATAATACTCC
49589553 TA
1 TA
49589555 CATTAGGTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (41 bp):
TATTTGATACATAGTGATTTATGTAACATGCATAATACTCC
Found at i:49590355 original size:12 final size:12
Alignment explanation
Indices: 49590338--49590367 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49590328 AAAATGTCAA
49590338 AGATTTTAGACC
1 AGATTTTAGACC
*
49590350 AGATTTTGGACC
1 AGATTTTAGACC
49590362 AGATTT
1 AGATTT
49590368 CATTATGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (12 bp):
AGATTTTAGACC
Found at i:49592679 original size:20 final size:20
Alignment explanation
Indices: 49592645--49592686 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
49592635 AACTATTTAA
** *
49592645 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
49592665 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
49592685 AT
1 AT
49592687 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:49596592 original size:3 final size:3
Alignment explanation
Indices: 49596584--49596616 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49596574 ATCATTCAAG
49596584 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49596617 AAAAGAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:49597092 original size:33 final size:33
Alignment explanation
Indices: 49597050--49597121 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
49597040 AGTAATTATA
** *
49597050 AAAAATTGAAAAAA-AGGATAAATATAATAAAT
1 AAAAATTGAAAAAATAACATAAATATAAAAAAT
49597082 AATAAATTGAAAAAATAACATAAATATAAAAAAT
1 AA-AAATTGAAAAAATAACATAAATATAAAAAAT
49597116 AAAAAT
1 AAAAAT
49597122 CAATACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 2 0.06
33 16 0.46
34 17 0.49
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (33 bp):
AAAAATTGAAAAAATAACATAAATATAAAAAAT
Found at i:49597106 original size:18 final size:18
Alignment explanation
Indices: 49597067--49597117 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
49597057 GAAAAAAAGG
*
49597067 ATAAATATAATAAAT-A-
1 ATAAATATAAAAAATAAC
49597083 ATAAAT-TGAAAAAATAAC
1 ATAAATAT-AAAAAATAAC
49597101 ATAAATATAAAAAATAA
1 ATAAATATAAAAAATAA
49597118 AAATCAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.03
16 12 0.40
17 1 0.03
18 15 0.50
19 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
ATAAATATAAAAAATAAC
Found at i:49605471 original size:30 final size:31
Alignment explanation
Indices: 49605406--49605471 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
49605396 TTAGACTCTT
*
49605406 AACTTGGCAATTGTTCCCACATTGGGACCTA
1 AACTTGGCAATTGTTCCCACATTGGGACATA
* * *
49605437 AACTT-GCAATTGTTCCCTCATTGGGGCATG
1 AACTTGGCAATTGTTCCCACATTGGGACATA
49605467 AACTT
1 AACTT
49605472 TAGGATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (31 bp):
AACTTGGCAATTGTTCCCACATTGGGACATA
Found at i:49605576 original size:60 final size:60
Alignment explanation
Indices: 49605482--49605641 Score: 203
Period size: 60 Copynumber: 2.6 Consensus size: 60
49605472 TAGGATTTTA
* * * *
49605482 CTAACTTGGACAAAAAAAAAAGTTCAAGCCCCAATGTGGGAATAATTGCCAAGTTCAGGGC
1 CTAACTTGG-CCAAAAAAAAAGTTCAAACCCCAATGTGGGAACAATTGCCAAGTTCAAGGC
* *
49605543 CTAACTTGGCCAAAAAAGAAGTTTAAACCCCAATGTGGGAACAATTGCCAAGTTCAAGGC
1 CTAACTTGGCCAAAAAAAAAGTTCAAACCCCAATGTGGGAACAATTGCCAAGTTCAAGGC
* * * **
49605603 ATAACTTGAACAAAAAAAAAAGTTCAGGCCCCAATGTGG
1 CTAACTTG-GCCAAAAAAAAAGTTCAAACCCCAATGTGG
49605642 AAAAAGTTGC
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 52 0.61
61 33 0.39
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (60 bp):
CTAACTTGGCCAAAAAAAAAGTTCAAACCCCAATGTGGGAACAATTGCCAAGTTCAAGGC
Found at i:49606747 original size:30 final size:29
Alignment explanation
Indices: 49606691--49606763 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 29
49606681 AACCTGGAAG
*
49606691 TTTTGGGGTTTAATTAAACCTTTCAAAAT
1 TTTTGGGGTTTAATTAAACCTTTCAAAAA
**
49606720 TTTTGGGGTTTAATTAAAAGTTTTCAAAAA
1 TTTTGGGGTTTAATT-AAACCTTTCAAAAA
**
49606750 TTTTAAGGTTTAAT
1 TTTTGGGGTTTAAT
49606764 GATTTTTTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 15 0.39
30 23 0.61
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (29 bp):
TTTTGGGGTTTAATTAAACCTTTCAAAAA
Found at i:49607031 original size:6 final size:6
Alignment explanation
Indices: 49607022--49607066 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
49607012 GAAAAAGAAA
* *
49607022 GTGATT GTGATT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTG
1 GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTG
49607067 GGAATTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.38
Consensus pattern (6 bp):
GTGAAT
Found at i:49611040 original size:30 final size:31
Alignment explanation
Indices: 49611006--49611064 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
49610996 TAAAGCTAAA
*
49611006 AATTTGAAAAGTA-AAGGACTAAAATTGACC
1 AATTTGAAAAATATAAGGACTAAAATTGACC
*
49611036 AATTTGAAAAATATAAGGACTGAAATTGA
1 AATTTGAAAAATATAAGGACTAAAATTGA
49611065 ACAAATAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.25
Consensus pattern (31 bp):
AATTTGAAAAATATAAGGACTAAAATTGACC
Found at i:49614593 original size:46 final size:46
Alignment explanation
Indices: 49614519--49614608 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
49614509 TATCTATTAG
* * *
49614519 GATATTATTATGGGATATTTTATTTTAGCAATTTGATTCTTAATAA
1 GATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAATAA
*
49614565 GATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAAT
1 GATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAAT
49614609 GGGACATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (46 bp):
GATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAATAA
Found at i:49614618 original size:46 final size:46
Alignment explanation
Indices: 49614522--49614618 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
49614512 CTATTAGGAT
* * * *
49614522 ATTATTATGGGATATTTTATTTTAGCAATTTGATTCTTAATAAGAT
1 ATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAATAAGAC
* **
49614568 ATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGAC
1 ATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAATAAGAC
49614614 ATTAT
1 ATTAT
49614619 AGGATATTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.46
Consensus pattern (46 bp):
ATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAATAAGAC
Found at i:49614630 original size:46 final size:44
Alignment explanation
Indices: 49614525--49614631 Score: 110
Period size: 46 Copynumber: 2.4 Consensus size: 44
49614515 TTAGGATATT
* * *
49614525 ATTATGGGATATT-TTATTTTAGCAATTTGATTCTTAATAAGAT
1 ATTATAGGATATTATTATTTTAGCAATTTGATTCCTAATAAGAC
* * **
49614568 ATTATTATGGGATATTA-TCTCTTAGCAATTTGATTCCTAATGGGAC
1 ATTA-TA--GGATATTATTATTTTAGCAATTTGATTCCTAATAAGAC
49614614 ATTATAGGATATTATTAT
1 ATTATAGGATATTATTAT
49614632 GAGATATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
43 12 0.24
44 3 0.06
45 2 0.04
46 34 0.67
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (44 bp):
ATTATAGGATATTATTATTTTAGCAATTTGATTCCTAATAAGAC
Found at i:49616755 original size:21 final size:22
Alignment explanation
Indices: 49616731--49616792 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
49616721 CTTATGTTCT
*
49616731 GCTCTTATGAACTTCTGTT-AA
1 GCTCTTATGAGCTTCTGTTAAA
* * *
49616752 GCTCTTTTTAGCTTCCGTTAAA
1 GCTCTTATGAGCTTCTGTTAAA
*
49616774 GCTCTTATGAGCTTATGTT
1 GCTCTTATGAGCTTCTGTT
49616793 GTCGTGTTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (22 bp):
GCTCTTATGAGCTTCTGTTAAA
Found at i:49619969 original size:21 final size:21
Alignment explanation
Indices: 49619940--49620046 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 21
49619930 AAAGCTCAAA
* *
49619940 AGCTGAACAGAAGCTAATGAG
1 AGCTAAACAGAAGCTAATAAG
*
49619961 AGCTAAACAGAAGCTCATAAG
1 AGCTAAACAGAAGCTAATAAG
* **
49619982 AGCTAAACAGAAACCCATAAG
1 AGCTAAACAGAAGCTAATAAG
* * * *
49620003 GGTTGAACAGAAGCTCGA-AAG
1 AGCTAAACAGAAGCT-AATAAG
* * *
49620024 AGCTAAATAGAAACTCATAAG
1 AGCTAAACAGAAGCTAATAAG
49620045 AG
1 AG
49620047 TTGAACAAAA
Statistics
Matches: 67, Mismatches: 17, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
20 1 0.01
21 65 0.97
22 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (21 bp):
AGCTAAACAGAAGCTAATAAG
Found at i:49620012 original size:42 final size:42
Alignment explanation
Indices: 49619937--49620120 Score: 163
Period size: 42 Copynumber: 4.4 Consensus size: 42
49619927 TCAAAAGCTC
* * * * * *
49619937 AAAAGCTGAACAGAAGCTAATGAGAGCTAAACAGAAGCTCAT
1 AAAAGCTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCAT
* * *
49619979 AAGAGCTAAACAGAAACCCATAAGGGTTGAACAGAAGCTCGA-
1 AAAAGCTAAACAGAAACTCATAAGAGTTGAACAGAAGCTC-AT
* * * * *
49620021 AAGAGCTAAATAGAAACTCATAAGAGTTGAACAAAAGTTCAA
1 AAAAGCTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCAT
* * ** * * *
49620063 AAAAGTTGAATGGAAACTCATATGAGTTAAACAGAAGCTCGT
1 AAAAGCTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCAT
49620105 AAAAGCTAAACAGAAA
1 AAAAGCTAAACAGAAA
49620121 GTAAAACACG
Statistics
Matches: 112, Mismatches: 28, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 1 0.01
42 110 0.98
43 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.20, T:0.16
Consensus pattern (42 bp):
AAAAGCTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCAT
Found at i:49626880 original size:21 final size:21
Alignment explanation
Indices: 49626855--49627026 Score: 112
Period size: 21 Copynumber: 8.2 Consensus size: 21
49626845 CCGAAAGTTG
* *
49626855 AACAGAAGCTCATGAGAGCTA
1 AACAGAAACTCATAAGAGCTA
*
49626876 AACAGAAACCCATAAGAGCTA
1 AACAGAAACTCATAAGAGCTA
* * * * *
49626897 AATAGAAACCCATAAGGGTTG
1 AACAGAAACTCATAAGAGCTA
*
49626918 AACAGAAGCTCATAAGAGCTA
1 AACAGAAACTCATAAGAGCTA
* * * *
49626939 AATAGAAACTCATAATAGTTT
1 AACAGAAACTCATAAGAGCTA
* * *
49626960 AATAGAAGCTCGA-AAGAGCTG
1 AACAGAAACTC-ATAAGAGCTA
** ** *
49626981 AATGGAAACTCATATTAGTTA
1 AACAGAAACTCATAAGAGCTA
* * *
49627002 AGCAGAAGCTCCTAAGAGCTA
1 AACAGAAACTCATAAGAGCTA
49627023 AACA
1 AACA
49627027 AAAAGTAAAA
Statistics
Matches: 112, Mismatches: 37, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
20 1 0.01
21 110 0.98
22 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (21 bp):
AACAGAAACTCATAAGAGCTA
Found at i:49626935 original size:42 final size:41
Alignment explanation
Indices: 49626876--49627024 Score: 165
Period size: 42 Copynumber: 3.6 Consensus size: 41
49626866 ATGAGAGCTA
* * * **
49626876 AACAGAAACCCATAAGAGCTAAATAGAAACCCATAAGGGTT
1 AACAGAAGCTCATAAGAGCTAAATAGAAACTCATAATAGTT
49626917 GAACAGAAGCTCATAAGAGCTAAATAGAAACTCATAATAGTTT
1 -AACAGAAGCTCATAAGAGCTAAATAGAAACTCATAATAG-TT
* * * *
49626960 AATAGAAGCTCGA-AAGAGCTGAATGGAAACTCATATTAGTT
1 AACAGAAGCTC-ATAAGAGCTAAATAGAAACTCATAATAGTT
*
49627001 AAGCAGAAGCTCCTAAGAGCTAAA
1 AA-CAGAAGCTCATAAGAGCTAAA
49627025 CAAAAAGTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 4 0.04
42 84 0.92
43 3 0.03
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (41 bp):
AACAGAAGCTCATAAGAGCTAAATAGAAACTCATAATAGTT
Found at i:49633976 original size:21 final size:21
Alignment explanation
Indices: 49633952--49634148 Score: 112
Period size: 21 Copynumber: 9.4 Consensus size: 21
49633942 CAGCTTTTTT
*
49633952 GAGCTTCTGTTCAGGTCTTAC
1 GAGCTTCTGTTCAGCTCTTAC
* * **
49633973 GAGCTTCTGTTCAGATATTTT
1 GAGCTTCTGTTCAGCTCTTAC
* * **
49633994 GAGCTTATGTTTAGCTCTTTT
1 GAGCTTCTGTTCAGCTCTTAC
* *
49634015 GAGCTTTTGCTCAGCTCTTAC
1 GAGCTTCTGTTCAGCTCTTAC
* * **
49634036 GAGCTTTTGTTCAACTCTTTT
1 GAGCTTCTGTTCAGCTCTTAC
**
49634057 GAGCTTTCAT-TT-AGCTCTTTT
1 GAGC-TTC-TGTTCAGCTCTTAC
* * *
49634078 GAGTTTCTGTTTAGCTCTTAT
1 GAGCTTCTGTTCAGCTCTTAC
* **
49634099 GAGCTTCCGTTCAGCTCTTTT
1 GAGCTTCTGTTCAGCTCTTAC
* * *
49634120 GAGCTT-TCGTTTAGCTTTTAT
1 GAGCTTCT-GTTCAGCTCTTAC
49634141 GAGCTTCT
1 GAGCTTCT
49634149 ATTGACGATG
Statistics
Matches: 141, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
19 1 0.01
20 5 0.04
21 129 0.91
22 5 0.04
23 1 0.01
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (21 bp):
GAGCTTCTGTTCAGCTCTTAC
Found at i:49634019 original size:42 final size:42
Alignment explanation
Indices: 49633941--49634148 Score: 190
Period size: 42 Copynumber: 5.0 Consensus size: 42
49633931 TTCGGGTGGA
* * * **
49633941 TCAGCTTTTTTGAGCTTCTGTTCAGGTCTTACGAGCTTCTGT
1 TCAGCTCTTTTGAGCTTCTGTTTAGCTCTTTTGAGCTTCTGT
* * * * *
49633983 TCAGATATTTTGAGCTTATGTTTAGCTCTTTTGAGCTTTTGC
1 TCAGCTCTTTTGAGCTTCTGTTTAGCTCTTTTGAGCTTCTGT
** * * *
49634025 TCAGCTCTTACGAGCTTTTGTTCAACTCTTTTGAGCTTTCAT-T
1 TCAGCTCTTTTGAGCTTCTGTTTAGCTCTTTTGAGC-TTC-TGT
* * *
49634068 T-AGCTCTTTTGAGTTTCTGTTTAGCTCTTATGAGCTTCCGT
1 TCAGCTCTTTTGAGCTTCTGTTTAGCTCTTTTGAGCTTCTGT
49634109 TCAGCTCTTTTGAGCTT-TCGTTTAGCT-TTTATGAGCTTCT
1 TCAGCTCTTTTGAGCTTCT-GTTTAGCTCTTT-TGAGCTTCT
49634149 ATTGACGATG
Statistics
Matches: 131, Mismatches: 29, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
41 8 0.06
42 119 0.91
43 3 0.02
44 1 0.01
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (42 bp):
TCAGCTCTTTTGAGCTTCTGTTTAGCTCTTTTGAGCTTCTGT
Found at i:49634047 original size:63 final size:63
Alignment explanation
Indices: 49633943--49634146 Score: 245
Period size: 63 Copynumber: 3.2 Consensus size: 63
49633933 CGGGTGGATC
* * * *
49633943 AGCTTTTTTGAGCTTCTGTTCAGGTCTTACGAGCTTCTGTTCAGATATTTTGAGCTTAT-GTTT
1 AGCTCTTTTGAGCTTTTGTTCAGCTCTTACGAGCTTCTGTTCAGATCTTTTGAGCTT-TCGTTT
* * *
49634006 AGCTCTTTTGAGCTTTTGCTCAGCTCTTACGAGCTTTTGTTCA-ACTCTTTTGAGCTTTCATTT
1 AGCTCTTTTGAGCTTTTGTTCAGCTCTTACGAGCTTCTGTTCAGA-TCTTTTGAGCTTTCGTTT
* * * *
49634069 AGCTCTTTTGAG-TTTCTGTTTAGCTCTTATGAGCTTCCGTTCAGCTCTTTTGAGCTTTCGTTT
1 AGCTCTTTTGAGCTTT-TGTTCAGCTCTTACGAGCTTCTGTTCAGATCTTTTGAGCTTTCGTTT
49634132 AGCT-TTTATGAGCTT
1 AGCTCTTT-TGAGCTT
49634147 CTATTGACGA
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
62 8 0.07
63 111 0.92
64 2 0.02
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.48
Consensus pattern (63 bp):
AGCTCTTTTGAGCTTTTGTTCAGCTCTTACGAGCTTCTGTTCAGATCTTTTGAGCTTTCGTTT
Found at i:49638279 original size:46 final size:46
Alignment explanation
Indices: 49638212--49638314 Score: 152
Period size: 46 Copynumber: 2.2 Consensus size: 46
49638202 AGGGGGGTGT
* *
49638212 TAGGATATTATTATAGGATATTATCTTTTAACAATTTGATTCCTAA
1 TAGGATATTATTATAGAATATTATCTCTTAACAATTTGATTCCTAA
* *
49638258 TAGGATGTTATTATAGAATATTATCTCTTATCAATTTGATTCCTAA
1 TAGGATATTATTATAGAATATTATCTCTTAACAATTTGATTCCTAA
* *
49638304 TGGGACATTAT
1 TAGGATATTAT
49638315 ACTATATTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.45
Consensus pattern (46 bp):
TAGGATATTATTATAGAATATTATCTCTTAACAATTTGATTCCTAA
Found at i:49638946 original size:7 final size:7
Alignment explanation
Indices: 49638936--49638964 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
49638926 TAATTTCTTT
49638936 TTTCAAA
1 TTTCAAA
49638943 TTTCAAA
1 TTTCAAA
49638950 TTTCAAA
1 TTTCAAA
49638957 TTTCAAA
1 TTTCAAA
49638964 T
1 T
49638965 CCATATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTCAAA
Found at i:49639318 original size:3 final size:3
Alignment explanation
Indices: 49639298--49639370 Score: 110
Period size: 3 Copynumber: 24.3 Consensus size: 3
49639288 TTAATGTTAG
* * *
49639298 AGA AAA AGA AGG AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
49639346 AGA AAA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
49639371 TAAAGATGTC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:49639768 original size:36 final size:36
Alignment explanation
Indices: 49639728--49639797 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
49639718 ATATTGTTGC
49639728 TGGTATATTGTTACGTATGTTGTTATACATGGCTGT
1 TGGTATATTGTTACGTATGTTGTTATACATGGCTGT
* *
49639764 TGGTATATTGTTGCTTATGTTGTTATACATGGCT
1 TGGTATATTGTTACGTATGTTGTTATACATGGCT
49639798 AACCAGCTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.19, C:0.09, G:0.24, T:0.49
Consensus pattern (36 bp):
TGGTATATTGTTACGTATGTTGTTATACATGGCTGT
Found at i:49641367 original size:24 final size:24
Alignment explanation
Indices: 49641336--49641395 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
49641326 ATATTATTTC
49641336 AATTTATCATATA-TCCTAATTTAA
1 AATTTATCATATACT-CTAATTTAA
* * *
49641360 AATTTATCATGTACTGTAATTTTA
1 AATTTATCATATACTCTAATTTAA
*
49641384 AACTTATCATAT
1 AATTTATCATAT
49641396 TATTATTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (24 bp):
AATTTATCATATACTCTAATTTAA
Found at i:49647048 original size:26 final size:27
Alignment explanation
Indices: 49647003--49647055 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
49646993 GAGTTCAGAT
*
49647003 TCAATAAGAAAAATAAAAAAATCAAAA
1 TCAAAAAGAAAAATAAAAAAATCAAAA
49647030 TCAAAAAGAAAAAT-AAAAAATCAAAA
1 TCAAAAAGAAAAATAAAAAAATCAAAA
49647056 GAGAAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.13
Consensus pattern (27 bp):
TCAAAAAGAAAAATAAAAAAATCAAAA
Found at i:49647115 original size:43 final size:42
Alignment explanation
Indices: 49647011--49647115 Score: 97
Period size: 43 Copynumber: 2.5 Consensus size: 42
49647001 ATTCAATAAG
49647011 AAAAAT-AAAAAAATCAAAATCAAAAAGAAAAATAAAAAATCA
1 AAAAATAAAAAAAAT-AAAATCAAAAAGAAAAATAAAAAATCA
* * * * * * *
49647053 AAAGAGAAAATCAATTAAAATC-AAAATAAAAATATGAAAATGA
1 AAAAATAAAA-AAAATAAAATCAAAAAGAAAAATA-AAAAATCA
49647096 TAAAAATAAAAAAAATAAAA
1 -AAAAATAAAAAAAATAAAA
49647116 GAAAAAAGGC
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
42 15 0.31
43 22 0.46
44 11 0.23
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (42 bp):
AAAAATAAAAAAAATAAAATCAAAAAGAAAAATAAAAAATCA
Found at i:49649399 original size:44 final size:44
Alignment explanation
Indices: 49649328--49649857 Score: 694
Period size: 44 Copynumber: 12.0 Consensus size: 44
49649318 AGTGACGTTA
* *
49649328 TAAATCCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
49649372 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
** * *
49649416 TAAGCCCTATCTCCTTGG-TCAGTAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTG
* * * * *
49649460 TGAATCCTATCTTCCGGGACAGCAATGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
* *
49649504 TAAATCCTATCTCCTTGGACAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
*
49649548 TAAGTCCTATCTCCCTGG-TCAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTG
* * *
49649592 TAAGTTCTATCTCCCTGG-TCAGCAATGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTG
*
49649636 TAAGTCCTATCTCCCTGG-TCAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTG
* * **
49649680 TGAATCCTATCTCCCTGGACATTAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
* *
49649724 TAAATCCTATCTCCCTAGATGGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
* ** *
49649768 TAAGTCCTATCTCCCTGG-TCAATAATGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTG
* *
49649812 T-AACCCTTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCC-TATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
49649856 TA
1 TA
49649858 GGCATTATCT
Statistics
Matches: 428, Mismatches: 50, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
43 5 0.01
44 423 0.99
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
Found at i:49649909 original size:88 final size:87
Alignment explanation
Indices: 49649379--49650817 Score: 638
Period size: 88 Copynumber: 16.4 Consensus size: 87
49649369 TTGTAAATCC
* * * * * *
49649379 TATCTCCCTG-GATAGCAGTGGAATAGGTTGAAGATTGTAAGCCCTATCTCCTTG-GTCAGTAGT
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAAG-CTTATCTCCCTGAGT-AGCAAT
* * ** *
49649442 GGAATAGGTTGAAGATT-GTGAATCC
63 GGAGTAGGTTGAAAATTACAG-ATCT
* * * * * * * * *
49649467 TATCTTCC-GGGACAGCAATGGAATAGGTTGAAGATTGTAAATCCTATCTCCTTG-GACAGCAGT
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATCTCCCTGAG-TAGCAAT
* * *
49649530 GGAATAGGTTGAAGATTGTA-AG-TCC
63 GGAGTAGGTTGAA-AAT-TACAGATCT
* *
49649555 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTAAGTTCTATCTCCCTG-GTCAGCAAT
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAAGCT-TATCTCCCTGAGT-AGCAAT
* * *
49649618 GGAATAGGTTGAAGATTGTA-AG-TCC
63 GGAGTAGGTTGAA-AAT-TACAGATCT
* * *
49649643 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTG-G-A-CATTA
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATCTCCCTGAGTAGCA--A
* * ** * *
49649704 GTGGAATAGGTTGAAGATTGTAAATCC
62 -TGGAGTAGGTTGAAAATTACAGATCT
* * **
49649731 TATCTCCCT-AG-ATGGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTG-GTCAATAA
1 TATCTCCCTGAGCA--GCAGTGGAGTAGGTTGAAGATTGTAAG-CTTATCTCCCTGAGT-AGCAA
* * ** *
49649793 TGGAATAGGTTGAAGATTGTA-ACCCT
62 TGGAGTAGGTTGAAAATTACAGA-TCT
* *
49649819 TATCTCCCTG-GACAGCAGTGGAATAGGTTGAAGATTGTAGGCATTATCTCCCTGAGTAGCAATG
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAAGC-TTATCTCCCTGAGTAGCAATG
49649883 GAGTAGGTTGAAAATTACAGATCT
64 GAGTAGGTTGAAAATTACAGATCT
* * * * * * * * * * * *
49649907 TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGCGAATCTTATCTTCCTAATGTAG-TAGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTG-TAAGCTTATCTCCCTGA-GTAGCAATG
* * * *** *
49649971 GAAGCAGATT-TAAGCCACTA-ACCT
64 G-AGTAGGTTGAAAATTAC-AGATCT
* * * *
49649995 TATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCTTGAGCAGCAATGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTA-AGCTTATCTCCCTGAGTAGCAATGG
*
49650060 GGTAGGTTGAAAATTACAGATCT
65 AGTAGGTTGAAAATTACAGATCT
* * * * * * * * *
49650083 TATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCC-AAGGTAG-TAG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATC-TCCCTGA-GTAGCAAT
* * *** *
49650146 GGAAGTAGATT-TAAGCCACTAG-CCT
63 GG-AGTAGGTTGAAAATTAC-AGATCT
* * * *
49650171 TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAAG-CTTATCTCCCTGAGTAGCAATGG
49650236 AGTAGGTTGAAAATTACAGATCT
65 AGTAGGTTGAAAATTACAGATCT
* * * * * * * * * *
49650259 TATCGT-CCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCTAAATAG----G
1 TATC-TCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATCTCCCTGAGTAGCAATG
* * * *** *
49650319 GAAGCAGATT-TAAGCCACTAG-CCT
64 G-AGTAGGTTGAAAATTAC-AGATCT
* * * * * *
49650343 TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGGCCTTATCTCTCTGAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAAG-CTTATCTCCCTGAGTAGCAATGG
*
49650408 AGTAAGTTGAAAATTACAGATCT
65 AGTAGGTTGAAAATTACAGATCT
* * * * ** * * * *
49650431 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCC-AAGGTAG-TAG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATC-TCCCTGA-GTAGCAAT
* * * ***
49650494 GGAAGCAGATT-TAAGCCACTAG-TCT
63 GG-AGTAGGTTGAAAATTAC-AGATCT
* * * * *
49650519 TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAAG-CTTATCTCCCTGAGTAGCAATGG
* *
49650584 AGTAGGTTGAAAATTATATATCT
65 AGTAGGTTGAAAATTACAGATCT
* * * * ** * * * * *
49650607 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCTAATGTAG-TAGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATCTCCCTGA-GTAGCAATG
* * * *** *
49650671 GAAGCAGATT-TAAGCCACTAG-CCT
64 G-AGTAGGTTGAAAATTAC-AGATCT
* * * *
49650695 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTAAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTA-AGCTTATCTCCCTGAGTAGCAATGG
49650760 AGTAGGTTGAAAATTACAGATCT
65 AGTAGGTTGAAAATTACAGATCT
* * * *
49650783 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAT
49650818 GGCGAATCTT
Statistics
Matches: 1018, Mismatches: 255, Indels: 156
0.71 0.18 0.11
Matches are distributed among these distances:
83 2 0.00
84 48 0.05
85 10 0.01
86 3 0.00
87 71 0.07
88 813 0.80
89 66 0.06
90 4 0.00
91 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (87 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAAGCTTATCTCCCTGAGTAGCAATGGA
GTAGGTTGAAAATTACAGATCT
Found at i:49650441 original size:128 final size:127
Alignment explanation
Indices: 49650211--49650441 Score: 288
Period size: 128 Copynumber: 1.8 Consensus size: 127
49650201 AAGATTGTAG
* * *
49650211 GCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCGTCCTAAGCAGTA
1 GCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTACAGACCTTATCGTCCTAAGCAGCA
* * * *
49650276 GTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCTAAATAGGGAAGCAGATTTAAGCCACTA
66 GTGGAGAAGATCGAAAAT-GTCAATCTTATCTCCCTAAATAGGGAAGCAGATTTAAGCCACTA
** * *
49650339 GCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGGCCTTATC-TCTCTGAGCAGC
1 GCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTACAGACCTTATCGTC-CTAAGCAGC
*
49650403 AGTGGAGTAAG-TTGAAAAT-TACAGATCTTATCTCCCTAA
65 AGTGGAG-AAGATCGAAAATGT-CA-ATCTTATCTCCCTAA
49650442 GCAGTAGTGG
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
126 1 0.01
127 3 0.03
128 81 0.93
129 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (127 bp):
GCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTACAGACCTTATCGTCCTAAGCAGCA
GTGGAGAAGATCGAAAATGTCAATCTTATCTCCCTAAATAGGGAAGCAGATTTAAGCCACTA
Found at i:49650804 original size:524 final size:526
Alignment explanation
Indices: 49649816--49650910 Score: 1775
Period size: 524 Copynumber: 2.1 Consensus size: 526
49649806 AGATTGTAAC
* *
49649816 CCTTATCTCCCTG-GACAGCAGTGGAATAGGTTGAAGATTGTAGGCATTATCTCCCTGAGTAGCA
1 CCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAGGCATTATCTCCCTGAGCAGCA
* *
49649880 ATGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGC
65 ATGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGACGGC
* *
49649945 GAATCTTATCTTCCTAATGTAGTAGGGAAGCAGATTTAAGCCACTAACCTTATCTCCCTGAGCAA
130 GAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAACCTTATCTCCCTGAGCAA
* * *
49650010 CAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCTTGAGCAGCAATGGGGTAGGTTGAAAATT
195 CAGCGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATT
* *
49650075 ACAGATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGG
260 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGG
*
49650140 TAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGA
325 TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGA
* *
49650205 TTGTAGGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCGTCCTAA
390 TTGTAGACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCGTCCTAA
* *
49650270 GCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCTAA-A-TAGGGAAGCAGATTTAAG
455 GCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAATAGTAGGGAAGCAGATTTAAG
49650333 CCACTAG
520 CCACTAG
* * * * *
49650340 CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGGCCTTATCTCTCTGAGCAGCAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCATTATCTCCCTGAGCAGCAA
* *
49650405 TGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTG
66 TGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGACGGCG
** *
49650470 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTCTTATCTCCCTGAGCAGC
131 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAACCTTATCTCCCTGAGCAAC
* * *
49650535 AGCGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTA
196 AGCGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTA
* * * * *
49650600 TATATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCTAATGT
261 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGT
*
49650665 AGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAT
326 AGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGAT
49650730 TGTAGACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATC-TCCCTAA
391 TGTAGACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCGT-CCTAA
* *
49650794 GCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTCCCAATGTAGTAGGGAAGTAGATTTA
455 GCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAA--TAGTAGGGAAGCAGATTTA
49650859 AGCCACTAG
518 AGCCACTAG
* *
49650868 CCTTATCTCCCTGAGCAACAGTGGAGTAGGTCGAAGATTGTAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG
49650911 ATCTTCTCTT
Statistics
Matches: 524, Mismatches: 41, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
523 1 0.00
524 458 0.87
525 1 0.00
527 1 0.00
528 63 0.12
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (526 bp):
CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCATTATCTCCCTGAGCAGCAA
TGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGACGGCG
AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAACCTTATCTCCCTGAGCAAC
AGCGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTA
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGT
AGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGAT
TGTAGACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCGTCCTAAG
CAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAATAGTAGGGAAGCAGATTTAAGC
CACTAG
Found at i:49650827 original size:44 final size:44
Alignment explanation
Indices: 49649527--49650856 Score: 431
Period size: 44 Copynumber: 30.3 Consensus size: 44
49649517 CTTGGACAGC
* * * * *
49649527 AGTGGAATAGGTTGAAGATTG-TAAGTCCTATCTCCCT-GGTCAGC
1 AGTGGAGTAGATTGAAGATTGCTAA-TCTTATCTCCCTAAG-CAGT
* * * *
49649571 AGTGGAATAGGTTGAAGATTG-TAAGT-TCTATCTCCCT-GGTCAGC
1 AGTGGAGTAGATTGAAGATTGCTAA-TCT-TATCTCCCTAAG-CAGT
* * * * * *
49649615 AATGGAATAGGTTGAAGATTG-TAAGTCCTATCTCCCT-GGTCAGC
1 AGTGGAGTAGATTGAAGATTGCTAA-TCTTATCTCCCTAAG-CAGT
* * * * *
49649659 AGTGGAATAGGTTGAAGATTG-TGAATCCTATCTCCCT-GGACATT
1 AGTGGAGTAGATTGAAGATTGCT-AATCTTATCTCCCTAAG-CAGT
* * * *
49649703 AGTGGAATAGGTTGAAGATTG-TAAATCCTATCTCCCT-AG-ATGGC
1 AGTGGAGTAGATTGAAGATTGCT-AATCTTATCTCCCTAAGCA--GT
* * * * *
49649747 AGTGGAATAGGTTGAAGATTG-TAAGTCCTATCTCCCT-GGTCAAT
1 AGTGGAGTAGATTGAAGATTGCTAA-TCTTATCTCCCTAAG-CAGT
* * * * * *
49649791 AATGGAATAGGTTGAAGATTG-TAACCCTTATCTCCCT-GGACAGC
1 AGTGGAGTAGATTGAAGATTGCTAA-TCTTATCTCCCTAAG-CAGT
* * ** * * *
49649835 AGTGGAATAGGTTGAAGATTG-TAGGCATTATCTCCCTGAGTAGC
1 AGTGGAGTAGATTGAAGATTGCTAATC-TTATCTCCCTAAGCAGT
* * * *
49649879 AATGGAGTAGGTTGAAAATTAC-AGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTGCTA-ATCTTATCTCCCTAAGCAGT
* * * * * *
49649923 AGTAGAGTAGATCGAAGATGGCGAATCTTATCTTCCTAATGTAGT
1 AGTGGAGTAGATTGAAGATTGCTAATCTTATCTCCCTAA-GCAGT
* * *** * * **
49649968 AG-GGAAGCAGATTTAAG-CCACTAACCTTATCTCCCTGAGCAAC
1 AGTGG-AGTAGATTGAAGATTGCTAATCTTATCTCCCTAAGCAGT
* * * * *
49650011 AGTGGAGTAGGTTGAAGATTG-TAGACCTTATCTCCTTGAGCAGC
1 AGTGGAGTAGATTGAAGATTGCTA-ATCTTATCTCCCTAAGCAGT
* * * * * *
49650055 AATGGGGTAGGTTGAAAATTAC-AGATCTTATCTCCCTGAGCAGT
1 AGTGGAGTAGATTGAAGATTGCTA-ATCTTATCTCCCTAAGCAGT
* * * *
49650099 AGTGGAGCAGATCGAAGA-TGGTGAATCTTATCTTCCC-AAGGTAGT
1 AGTGGAGTAGATTGAAGATTGCT-AATCTTATC-TCCCTAA-GCAGT
* *** ** * *
49650144 AG-GGAAGTAGATTTAAG-CCACTAGCCTTATCTCCCTGAGCAGC
1 AGTGG-AGTAGATTGAAGATTGCTAATCTTATCTCCCTAAGCAGT
* * ** * *
49650187 AGCGGAGTAGGTTGAAGATTG-TAGGCCTTATCTCCCTGAGCAGC
1 AGTGGAGTAGATTGAAGATTGCTA-ATCTTATCTCCCTAAGCAGT
* * *
49650231 AGTGGAGTAGGTTGAAAATTAC-AGATCTTATCGT-CCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTGCTA-ATCTTATC-TCCCTAAGCAGT
* * * *
49650275 AGTGGAGCAGATCGAAGA-TGGTGAATCTTATCTTCCTAA--A-T
1 AGTGGAGTAGATTGAAGATTGCT-AATCTTATCTCCCTAAGCAGT
* * *** ** * *
49650316 AG-GGAAGCAGATTTAAG-CCACTAGCCTTATCTCCCTGAGCAGC
1 AGTGG-AGTAGATTGAAGATTGCTAATCTTATCTCCCTAAGCAGT
* * * ** * * *
49650359 AGCGGAGTAGGTTGAAAATTG-TAGGCCTTATCTCTCTGAGCAGC
1 AGTGGAGTAGATTGAAGATTGCTA-ATCTTATCTCCCTAAGCAGT
* *
49650403 AGTGGAGTA-AGTTGAAAATTAC-AGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGA-TTGAAGATTGCTA-ATCTTATCTCCCTAAGCAGT
* * * *
49650447 AGTGGAGTAGATCGAAGA-CGGTGAATCTTATCTTCCC-AAGGTAGT
1 AGTGGAGTAGATTGAAGATTGCT-AATCTTATC-TCCCTAA-GCAGT
* * *** * * *
49650492 AG-GGAAGCAGATTTAAG-CCACTAGTCTTATCTCCCTGAGCAGC
1 AGTGG-AGTAGATTGAAGATTGCTAATCTTATCTCCCTAAGCAGT
* * ** *
49650535 AGCGGAGTAGGTTGAAGATTG-TAGGCCTTATCTCCCTGAGCAGT
1 AGTGGAGTAGATTGAAGATTGCTA-ATCTTATCTCCCTAAGCAGT
* * *
49650579 AGTGGAGTAGGTTGAAAATT-ATATATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTGCTA-ATCTTATCTCCCTAAGCAGT
* * * * *
49650623 AGTGGAGTAGATCGAAGA-CGGTGAATCTTATCTTCCTAATGTAGT
1 AGTGGAGTAGATTGAAGATTGCT-AATCTTATCTCCCTAA-GCAGT
* * *** ** * *
49650668 AG-GGAAGCAGATTTAAG-CCACTAGCCTTATCTCCCTGAGCAGC
1 AGTGG-AGTAGATTGAAGATTGCTAATCTTATCTCCCTAAGCAGT
* * *
49650711 AGTGGAGTAGGTTGAAGATTG-TAGACCTTATCTCCCTAAGCAGC
1 AGTGGAGTAGATTGAAGATTGCTA-ATCTTATCTCCCTAAGCAGT
* * *
49650755 AGTGGAGTAGGTTGAAAATTAC-AGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTGCTA-ATCTTATCTCCCTAAGCAGT
* * * *
49650799 AGTGGAGTAGATCGAAGATGGCGAATCTTATCTTCCC-AATGTAGT
1 AGTGGAGTAGATTGAAGATTGCTAATCTTATC-TCCCTAA-GCAGT
49650844 AG-GGAAGTAGATT
1 AGTGG-AGTAGATT
49650857 TAAGCCACTA
Statistics
Matches: 1013, Mismatches: 204, Indels: 137
0.75 0.15 0.10
Matches are distributed among these distances:
40 14 0.01
41 14 0.01
42 3 0.00
43 90 0.09
44 789 0.78
45 102 0.10
46 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATTGCTAATCTTATCTCCCTAAGCAGT
Found at i:49650911 original size:176 final size:176
Alignment explanation
Indices: 49649816--49650910 Score: 1779
Period size: 176 Copynumber: 6.2 Consensus size: 176
49649806 AGATTGTAAC
* * *
49649816 CCTTATCTCCCTG-GACAGCAGTGGAATAGGTTGAAGATTGTAGGCATTATCTCCCTGAGTAGCA
1 CCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCA
* * *
49649880 ATGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGC
65 GTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGT
* *
49649945 GAATCTTATCTTCCTAATGTAGTAGGGAAGCAGATTTAAGCCACTAA
130 GAATCTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCACTAG
* * * *
49649992 CCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCTTGAGCAGCAA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
* * *
49650057 TGGGGTAGGTTGAAAATTACAGATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGATGGTG
66 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTG
* *
49650122 AATCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACTAG
131 AATCTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCACTAG
*
49650168 CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
*
49650233 TGGAGTAGGTTGAAAATTACAGATCTTATCGT-CCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
66 TGGAGTAGGTTGAAAATTACAGATCTTATC-TCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGT
*
49650297 GAATCTTATCTTCCTAA---A-TAGGGAAGCAGATTTAAGCCACTAG
130 GAATCTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCACTAG
* * *
49650340 CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGGCCTTATCTCTCTGAGCAGCAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
* *
49650405 TGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTG
66 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTG
*
49650470 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
131 AATCTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCACTAG
* * *
49650516 TCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGTAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
* * *
49650581 TGGAGTAGGTTGAAAATTATATATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTG
66 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTG
*
49650646 AATCTTATCTTCCTAATGTAGTAGGGAAGCAGATTTAAGCCACTAG
131 AATCTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCACTAG
* *
49650692 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTAAGCAGCAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
*
49650757 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCG
66 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTG
*
49650822 AATCTTATCTTCCCAATGTAGTAGGGAAGTAGATTTAAGCCACTAG
131 AATCTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCACTAG
* *
49650868 CCTTATCTCCCTGAGCAACAGTGGAGTAGGTCGAAGATTGTAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG
49650911 ATCTTCTCTT
Statistics
Matches: 860, Mismatches: 52, Indels: 14
0.93 0.06 0.02
Matches are distributed among these distances:
171 1 0.00
172 162 0.19
173 1 0.00
175 1 0.00
176 693 0.81
177 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (176 bp):
CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTG
AATCTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCACTAG
Found at i:49652701 original size:24 final size:24
Alignment explanation
Indices: 49652670--49652729 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
49652660 ATATTATTTC
*
49652670 AATTTATCATATA-TCCTAATTTAA
1 AATTTATCATATACT-ATAATTTAA
* *
49652694 AATTTATCATGTACTATAATTTTA
1 AATTTATCATATACTATAATTTAA
*
49652718 AACTTATCATAT
1 AATTTATCATAT
49652730 TATTATTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (24 bp):
AATTTATCATATACTATAATTTAA
Found at i:49654388 original size:22 final size:24
Alignment explanation
Indices: 49654352--49654396 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
49654342 TGAAAAAAAA
*
49654352 ACATTTGTATTTCTCAATTCTCAC
1 ACATTTGTATTTCTCAATACTCAC
49654376 ACATTT-T-TTTCTCAATACTCA
1 ACATTTGTATTTCTCAATACTCA
49654397 TATGTTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (24 bp):
ACATTTGTATTTCTCAATACTCAC
Found at i:49655608 original size:25 final size:26
Alignment explanation
Indices: 49655574--49655634 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
49655564 ACATGCATAT
*
49655574 TATTAAAAAATACTC-ACCGCATGCA
1 TATTAAAAAATACTCAACAGCATGCA
* *
49655599 TATTAAAAAATAGTCAACAGCATGTA
1 TATTAAAAAATACTCAACAGCATGCA
49655625 TATTAAAAAA
1 TATTAAAAAA
49655635 ATAGTCATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 14 0.44
26 18 0.56
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.26
Consensus pattern (26 bp):
TATTAAAAAATACTCAACAGCATGCA
Found at i:49655621 original size:26 final size:25
Alignment explanation
Indices: 49655549--49655641 Score: 98
Period size: 28 Copynumber: 3.5 Consensus size: 25
49655539 CACACACACC
49655549 TAAAAAATAGTCACTA-CATGCATATTAT
1 TAAAAAATAGTCAC-AGCATGC--A-TAT
* *
49655577 TAAAAAATACTCACCGCATGCATAT
1 TAAAAAATAGTCACAGCATGCATAT
*
49655602 TAAAAAATAGTCAACAGCATGTATAT
1 TAAAAAATAGTC-ACAGCATGCATAT
49655628 TAAAAAAATAGTCA
1 T-AAAAAATAGTCA
49655642 TACACACCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
25 14 0.25
26 14 0.25
27 11 0.19
28 18 0.32
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (25 bp):
TAAAAAATAGTCACAGCATGCATAT
Found at i:49657416 original size:15 final size:15
Alignment explanation
Indices: 49657397--49657441 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
49657387 CTTTCAACTG
*
49657397 CATCACTACCAGATA
1 CATCACTACCAGACA
*
49657412 TATCACTACCAGACA
1 CATCACTACCAGACA
*
49657427 CGTCACTACCAGACA
1 CATCACTACCAGACA
49657442 TTTCTTCTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.38, C:0.36, G:0.09, T:0.18
Consensus pattern (15 bp):
CATCACTACCAGACA
Found at i:49657905 original size:6 final size:6
Alignment explanation
Indices: 49657888--49657947 Score: 93
Period size: 6 Copynumber: 10.0 Consensus size: 6
49657878 AACCCTAAAC
* * *
49657888 CAAAAT TAAAAT CGAAAT CGAAAT CAAAAT CAAAAT CAAAAT CAAAAT
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT
49657936 CAAAAT CAAAAT
1 CAAAAT CAAAAT
49657948 TGAAATCGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.63, C:0.15, G:0.03, T:0.18
Consensus pattern (6 bp):
CAAAAT
Found at i:49657953 original size:6 final size:6
Alignment explanation
Indices: 49657896--49657959 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
49657886 ACCAAAATTA
* * * * * *
49657896 AAATCG AAATCG AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
*
49657944 AAATTG AAATCG AAAT
1 AAATCG AAATCG AAAT
49657960 AACCCTAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.19
Consensus pattern (6 bp):
AAATCG
Found at i:49669592 original size:11 final size:11
Alignment explanation
Indices: 49669576--49669607 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
49669566 TCAAACTCTT
49669576 AATCAACAGCA
1 AATCAACAGCA
*
49669587 AATCAACAACA
1 AATCAACAGCA
49669598 AATCAACAGC
1 AATCAACAGC
49669608 TTCAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.56, C:0.28, G:0.06, T:0.09
Consensus pattern (11 bp):
AATCAACAGCA
Found at i:49676780 original size:50 final size:50
Alignment explanation
Indices: 49676670--49677192 Score: 600
Period size: 50 Copynumber: 10.6 Consensus size: 50
49676660 ATATCGGTGT
* ** * *
49676670 CGATGCCATGTCCCAGACATGGTCTTACATTGGTACTCATC--TC-GAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGGTCTGTGC
* * * *
49676717 TGATGCCATGTCCCATACATGGTCTTACACTGACTCTCCTCTGTCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGGTCTGTGC
* * *
49676767 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC--TC-GAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGGTCTGTGC
* * * *
49676814 TGATGCCATGTCCTAGACATGGTCTTACACTAACTCTCCTCGGTCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGGTCTGTGC
* * * *
49676864 CGATGCCATGTTCCAGACATGGTCTTACACTGGCACTCATC--TC-GAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGGTCTGTGC
* * * ** * *
49676911 CGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCCTCTATCCGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGGTCTGTGC
* *
49676961 CGATGTCATGTTCCAGACATGGTCTTACACT-AGCACTCCTCGGTCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCGGTCTGTGC
* * *
49677011 CGATGCCATATCCCAGACATGGTCTTACACTGGCACTCATCGGTCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGGTCTGTGC
* * *
49677061 CAATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGGTCTGTGC
* * *
49677111 CGATGCCATGTTCCAGACATGGTCTTACACT-AGCACTACTCGGTCTATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCGGTCTGTGC
*
49677161 CGATGCCATGTCCCTGACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
49677193 GAACATTCAC
Statistics
Matches: 399, Mismatches: 64, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
47 110 0.28
48 4 0.01
49 8 0.02
50 277 0.69
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.29
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGGTCTGTGC
Found at i:49676789 original size:97 final size:97
Alignment explanation
Indices: 49676670--49677193 Score: 679
Period size: 97 Copynumber: 5.3 Consensus size: 97
49676660 ATATCGGTGT
* * * *
49676670 CGATGCCATGTCCCAGACATGGTCTTACATTGGTACTCATCTCGAGCTGATGCCATGTCCCATAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCCAGAC
* *
49676735 ATGGTCTTACACTGACTCTCCTCTGTCTGTGC
66 ATGGTCTTACACTAACTCTCCTCGGTCTGTGC
* *
49676767 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCTGATGCCATGTCCTAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCCAGAC
49676832 ATGGTCTTACACTAACTCTCCTCGGTCTGTGC
66 ATGGTCTTACACTAACTCTCCTCGGTCTGTGC
* *
49676864 CGATGCCATGTTCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCCAAAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCCAGAC
** * *
49676929 ATGGTCTTACACTAACTCTCCTCTATCCGTGT
66 ATGGTCTTACACTAACTCTCCTCGGTCTGTGC
* * * * * *
49676961 CGATGTCATGTTCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATATCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC--TC-GAGCCGATGCCATGTCCCA
** * *
49677026 GACATGGTCTTACACTGGCACTCATCGGTCTGTGC
63 GACATGGTCTTACACTAACTCTCCTCGGTCTGTGC
* * * * * *
49677061 CAATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCTGTGCCGATGCCATGTTCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC--TC-GAGCCGATGCCATGTCCCA
* * * *
49677126 GACATGGTCTTACACTAGCACTACTCGGTCTATGC
63 GACATGGTCTTACACTAACTCTCCTCGGTCTGTGC
*
49677161 CGATGCCATGTCCCTGACATGGTCTTACACTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG
49677194 AACATTCACT
Statistics
Matches: 380, Mismatches: 44, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
97 218 0.57
99 2 0.01
100 160 0.42
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.29
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAACTCTCCTCGGTCTGTGC
Found at i:49680685 original size:41 final size:41
Alignment explanation
Indices: 49680640--49680720 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
49680630 AATCTAGATA
* * *
49680640 TGATACACCGGCACGAAGCCTGCTAGACATAAAGCCTGATC
1 TGATAAACCAGCACAAAGCCTGCTAGACATAAAGCCTGATC
* * *
49680681 TGATAAACCAGCATAAAGTCTGCTAGGCATAAAGCCTGAT
1 TGATAAACCAGCACAAAGCCTGCTAGACATAAAGCCTGAT
49680721 AAAACTCACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (41 bp):
TGATAAACCAGCACAAAGCCTGCTAGACATAAAGCCTGATC
Found at i:49680939 original size:14 final size:15
Alignment explanation
Indices: 49680919--49680956 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
49680909 ATCAGTAGGA
49680919 AAAATTCATACA-AT
1 AAAATTCATACATAT
*
49680933 TAAATTCA-ACATAT
1 AAAATTCATACATAT
49680947 AAAATTCATA
1 AAAATTCATA
49680957 TACATTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATTCATACATAT
Found at i:49684146 original size:30 final size:30
Alignment explanation
Indices: 49684091--49684147 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
49684081 CTGAACTTTG
*
49684091 GGGCAAAAGCGTAATTATGTAAAAGTTTAA
1 GGGCAAAAGCGTAATTATGCAAAAGTTTAA
* * *
49684121 GGGCAAAATCGTAATTTTGCCAAAGTT
1 GGGCAAAAGCGTAATTATGCAAAAGTT
49684148 AGAGTCAAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.28
Consensus pattern (30 bp):
GGGCAAAAGCGTAATTATGCAAAAGTTTAA
Found at i:49684565 original size:50 final size:50
Alignment explanation
Indices: 49684485--49684677 Score: 224
Period size: 50 Copynumber: 3.8 Consensus size: 50
49684475 ATTTGGGTAA
* *
49684485 AGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
* * *
49684535 AGAGGTCACATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
* * * * * *
49684585 AGAAGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
** * ** *
49684635 AGAATATCCCATGTAAGACTGTGTCTGGGACATGACTTTGGCA
1 AG-AGGTCCCACGTAAGACCATGTCTGGGACATGACATTGGCA
49684678 TGTTATTATC
Statistics
Matches: 118, Mismatches: 24, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
50 88 0.75
51 30 0.25
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
Found at i:49684620 original size:100 final size:101
Alignment explanation
Indices: 49684497--49684677 Score: 274
Period size: 100 Copynumber: 1.8 Consensus size: 101
49684487 AGGTCCCACG
* *
49684497 TAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAG-AGGTCACATGTAAGACCATGTCTG
1 TAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAAGATCACATGTAAGACCATGTCTG
49684561 GGACATGACGTTGGCACCGAGATGAGAAGTCCCCCA
66 GGACATGACGTTGGCACCGAGATGAGAAGTCCCCCA
* * * * **
49684597 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAATATCCCATGTAAGACTGTGTCTG
1 TAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAAGATCACATGTAAGACCATGTCTG
*
49684662 GGACATGACTTTGGCA
66 GGACATGACGTTGGCA
49684678 TGTTATTATC
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 37 0.52
101 34 0.48
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (101 bp):
TAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAAGATCACATGTAAGACCATGTCTG
GGACATGACGTTGGCACCGAGATGAGAAGTCCCCCA
Found at i:49685233 original size:31 final size:31
Alignment explanation
Indices: 49685198--49685259 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
49685188 TGATATGTAA
49685198 GTATCTGATGATGAATGGTTGTTAAAATGGC
1 GTATCTGATGATGAATGGTTGTTAAAATGGC
*
49685229 GTATCTGATGATGAATGGTTTTTAAAATGGC
1 GTATCTGATGATGAATGGTTGTTAAAATGGC
49685260 TAAGTATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.37
Consensus pattern (31 bp):
GTATCTGATGATGAATGGTTGTTAAAATGGC
Found at i:49686375 original size:40 final size:38
Alignment explanation
Indices: 49686307--49686443 Score: 125
Period size: 40 Copynumber: 3.5 Consensus size: 38
49686297 CCAGTTTGGT
**
49686307 ACCCAGTGTCTCATCGGA-TAATTTGAAGTAATAGTTTGAC
1 ACCCAGTGTCTCATC-GACTAATCCGAAGTAATA--TTGAC
* *
49686347 ACCCAGTGTCTCATCGACTAAACCGAAGTAA-ATTGGC
1 ACCCAGTGTCTCATCGACTAATCCGAAGTAATATTGAC
* * * * *
49686384 ACCCAATGCCTCATCGAATTAATCCAAAGTAGTAAATTGAC
1 ACCCAGTGTCTCATCG-ACTAATCCGAAGTA--ATATTGAC
49686425 ACCCAGTGTCTCATCGACT
1 ACCCAGTGTCTCATCGACT
49686444 CGAAGTCAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
37 18 0.23
38 11 0.14
39 3 0.04
40 28 0.35
41 19 0.24
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (38 bp):
ACCCAGTGTCTCATCGACTAATCCGAAGTAATATTGAC
Found at i:49687390 original size:5 final size:5
Alignment explanation
Indices: 49687382--49687455 Score: 148
Period size: 5 Copynumber: 14.8 Consensus size: 5
49687372 ATTTTATTAT
49687382 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
49687432 TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATA
49687456 TACTTAAGTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 69 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:49687479 original size:24 final size:24
Alignment explanation
Indices: 49687447--49687505 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
49687437 TATAATATAA
49687447 TATAATATATACTTAAGTAAATAT
1 TATAATATATACTTAAGTAAATAT
49687471 TATAATATATACTTAAGTAAATAT
1 TATAATATATACTTAAGTAAATAT
49687495 TATAATATATA
1 TATAATATATA
49687506 TTTTTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (24 bp):
TATAATATATACTTAAGTAAATAT
Found at i:49691181 original size:22 final size:22
Alignment explanation
Indices: 49691125--49691183 Score: 100
Period size: 22 Copynumber: 2.6 Consensus size: 22
49691115 TTTTCACAAA
*
49691125 CAAATATTCTCTCAATTTCCTTC
1 CAAA-ATTCTCTTAATTTCCTTC
49691148 CAAAATTCTCTTAATTTCCTTC
1 CAAAATTCTCTTAATTTCCTTC
49691170 CAAAATTCTCTTAA
1 CAAAATTCTCTTAA
49691184 ACTCTCAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
CAAAATTCTCTTAATTTCCTTC
Found at i:49691197 original size:52 final size:52
Alignment explanation
Indices: 49691133--49691232 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
49691123 AACAAATATT
* * * * *
49691133 CTCTCAATTTCCTTCCAAAATTCTCTTAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
49691185 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
49691233 CAAATCCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.30, C:0.31, G:0.00, T:0.39
Consensus pattern (52 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
Found at i:49691224 original size:21 final size:22
Alignment explanation
Indices: 49691185--49691237 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
49691175 TTCTCTTAAA
49691185 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
49691207 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
49691229 CTCTCAAAT
1 CTCTCAAAT
49691238 CCATATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:49691307 original size:29 final size:28
Alignment explanation
Indices: 49691263--49691326 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
49691253 TTTTCCATTC
*
49691263 AATTTCATTTTTTTAAGAA-AATTTTAAAT
1 AATTTTATTTTTTTAA-AATAATTTT-AAT
*
49691292 ATTTTTATTTTTTTAAAATAATTTTAAT
1 AATTTTATTTTTTTAAAATAATTTTAAT
49691320 AATTTTA
1 AATTTTA
49691327 ATATTTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
AATTTTATTTTTTTAAAATAATTTTAAT
Found at i:49691333 original size:29 final size:29
Alignment explanation
Indices: 49691272--49691333 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
49691262 CAATTTCATT
* *
49691272 TTTTTAAGAAAATTTTAAATATTTTTATT
1 TTTTTAAGAAAATTTTAAATATTTTAATA
49691301 TTTTTAA-AATAATTTT-AATAATTTTAATA
1 TTTTTAAGAA-AATTTTAAAT-ATTTTAATA
49691330 TTTT
1 TTTT
49691334 CAACAGTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAATATTTTAATA
Found at i:49691453 original size:14 final size:15
Alignment explanation
Indices: 49691424--49691457 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
49691414 AAATTTTAAA
49691424 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
49691439 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
49691453 TTTTA
1 TTTTA
49691458 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:49692428 original size:7 final size:7
Alignment explanation
Indices: 49692416--49692440 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49692406 AGTGGATTGA
49692416 TATTTAG
1 TATTTAG
49692423 TATTTAG
1 TATTTAG
49692430 TATTTAG
1 TATTTAG
49692437 TATT
1 TATT
49692441 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:49693319 original size:24 final size:24
Alignment explanation
Indices: 49693292--49693347 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
49693282 GCATGGCTTT
49693292 CAAACACCGTCGCCGTTCATGATG
1 CAAACACCGTCGCCGTTCATGATG
49693316 CAAACACCGTCGCCGTTCATGATG
1 CAAACACCGTCGCCGTTCATGATG
49693340 CAAACACC
1 CAAACACC
49693348 TCCACATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.18
Consensus pattern (24 bp):
CAAACACCGTCGCCGTTCATGATG
Found at i:49693680 original size:29 final size:29
Alignment explanation
Indices: 49693626--49695953 Score: 2622
Period size: 29 Copynumber: 79.6 Consensus size: 29
49693616 TTTTGATATT
* *
49693626 ATTTGATTAAAAACCCTAA-CTTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49693654 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
49693683 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
49693712 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49693741 ATTTAATTAAAAACCCTAACCTTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49693770 ATTTAATTAAAAACTCTAACCCTAATTTAATTTA
1 ATTTAATTAAAAACCCTAACCC-----TAATTTA
49693804 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49693833 ATTAAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49693862 ATTTAATTAAAAACCCTAACCC-ATTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* * *
49693890 A-TT-A--AAAAACTCAAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49693915 ATTTAATGAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
49693944 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
49693973 TTTTAATTAAAAACCCTAA-CCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49694001 ATTTAATT-AAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49694029 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
49694058 ATTTAATTAAATTAAAAACTCTAAACCCTAACCTA
1 A--T--TT-AATTAAAAACCCT-AACCCTAATTTA
* *
49694093 ATTTAAATAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49694122 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
49694151 ATTTAATT-AAAACCCTAAACTCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
49694180 ATTTAATTAAAAACCCTAAGCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49694209 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49694238 ATTTAATT-AAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* ***
49694266 ATTTAATTTAGTTAAAAACCCTAACCCTGACCCA
1 ATTT-A---A-TTAAAAACCCTAACCCTAATTTA
* *
49694300 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49694329 ATTTAATTAAAAACCCTAACCCTAAATTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
49694358 ATTTAATT-AAAATCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
49694387 ATTTAATTAAAAACCTTAACCCTACTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
49694416 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
*
49694445 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49694474 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49694503 ATTTAATTAAAAACCCTAACCCTAATTTAATATA
1 ATTTAATTAAAAACCCTAACCCTAA--T--T-TA
***
49694537 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
49694566 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
49694595 ATTTAATTAAAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* * *
49694625 ATTTAAATAAAACCCCTAACCCTAGTTT-
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
49694653 ATTTAATT-AAAACCCTAAACTCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
49694682 ATTTAAATAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49694711 ATTTAATT-AAAACCCTAA--C----TTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49694733 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49694762 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49694791 ATTTAATTAAAAA-CCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
49694819 ATTTAATTTAACTAAAAACCCTAACCCTAACCCA
1 ATTTAA--T---TAAAAACCCTAACCCTAATTTA
* *
49694853 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49694882 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49694911 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49694940 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
49694969 ATTTAATTAAAAACCCTAACCATAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
49694998 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
*
49695027 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49695056 ATTTAATTAAAAACCCTAACCCTAATTTAATTTA
1 ATTTAATTAAAAACCCTAACCC-----TAATTTA
***
49695090 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* * *
49695119 TTTTAATTAAAAATCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49695148 ATTTAATTAAAAACCCTAACCCTAATTTAATTTA
1 ATTTAATTAAAAACCCTAACCC-----TAATTTA
***
49695182 ATTTAATTAAAAACCCTAACCCTAAACCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* * * *
49695211 TTTTAATAAAAAATCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49695240 ATTTAATTAAAAACCCTAACCCTAATTTC
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
49695269 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* * *
49695298 ATTTAAAT-AAAACCCTAACTCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49695326 ATTTAATTAAAAACCTTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49695355 ATTTAATTAAAAATCCTAACCCTAATTTAATTTA
1 ATTTAATTAAAAACCCTAACCC-----TAATTTA
***
49695389 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
49695418 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49695447 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
49695476 ATTTAATT-AAAACCTTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
49695505 ATTTAAATAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
49695534 ATTTAATTAAAAACCTTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
49695563 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
*
49695592 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
49695621 ATTTAATTAAAAACCCTAACCTTCATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
49695650 ATTTAATTAAAAATCTTAACCCTAATTTAATTTA
1 ATTTAATTAAAAACCCTAACCC-----TAATTTA
***
49695684 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* * * *
49695713 TTTTAATTAAAAATCCTAACTCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
49695742 ATTTAATTAAAAACCCTAACCCTAATATA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
49695771 ATTTAATT-AAAACCTTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
*
49695800 A--T--TT---AACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**** *
49695822 ATTTAACCCTAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
49695851 ATTTAATT-AAAACCCTAAACTCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
***
49695880 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
49695909 TTTTAATTAAAAACCCTAACCCTAAACTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
49695938 ATTTAATTAAAAACCC
1 ATTTAATTAAAAACCC
49695954 ATTTTAATTA
Statistics
Matches: 1959, Mismatches: 250, Indels: 181
0.82 0.10 0.08
Matches are distributed among these distances:
22 21 0.01
23 15 0.01
24 13 0.01
25 9 0.00
26 4 0.00
27 21 0.01
28 201 0.10
29 1334 0.68
30 98 0.05
31 4 0.00
32 2 0.00
33 13 0.01
34 213 0.11
35 11 0.01
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.33
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAATTTA
Found at i:49699377 original size:125 final size:126
Alignment explanation
Indices: 49699155--49699430 Score: 400
Period size: 125 Copynumber: 2.2 Consensus size: 126
49699145 CCACGAGGGC
* *
49699155 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAG
** * **
49699219 CGAAATCGCATCCACGAGGGTGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCA
66 CGAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTC-TGATAGCATCCTAGTAGAA
* *
49699280 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAA-AATTATTTCTTACATGACCAACTTTA-
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAG
49699343 CTGAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTAGTAGAA
66 C-GAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTAGTAGAA
*
49699405 ACGATTTTATACTATTTGAC-CAGAAA
1 GCGATTTTATACTATTTG-CTCAGAAA
49699431 TGTCAACTCC
Statistics
Matches: 137, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
124 2 0.01
125 121 0.88
126 14 0.10
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (126 bp):
GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAG
CGAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTAGTAGAA
Found at i:49699717 original size:30 final size:29
Alignment explanation
Indices: 49699655--49699715 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
49699645 GATTTCGCGG
49699655 AAAA-TGGCCCATTCCGGTAAATAATTAA
1 AAAAGTGGCCCATTCCGGTAAATAATTAA
* * **
49699683 AAAAGTGGTCCATTTCGGTAAATTTTTAA
1 AAAAGTGGCCCATTCCGGTAAATAATTAA
49699712 AAAA
1 AAAA
49699716 AGGGCTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (29 bp):
AAAAGTGGCCCATTCCGGTAAATAATTAA
Found at i:49706955 original size:124 final size:118
Alignment explanation
Indices: 49706753--49707000 Score: 322
Period size: 124 Copynumber: 2.1 Consensus size: 118
49706743 TGCAATAGCA
* * * *
49706753 AATTAAATAATAAATTTAATGTATTTACTTAGCATTTCACAAAGAGGTTCATTTGAATAATATTG
1 AATTAAATAATAAATTTAATGTATTTACTTAGCATTTCACAAACAGGTTCATCTGAAGAACATTG
* * *
49706818 TGATGCCATCCAATTAAAATAAGA-TGGATTACCATATTATATT-TCAACCGTTT
66 TGATACCATCCAATTAAAATAA-ATTGAATTACCATATTAT-TTGTCAACAGTTT
*
49706871 AATTAAATAATCAAA-TTAATGTATTTAGCTCCTATTGACATTTCACCAACAGGTTCATCTGAAG
1 AATTAAATAAT-AAATTTAATGTATTTA-CT--TA--G-CATTTCACAAACAGGTTCATCTGAAG
49706935 AACATTGTGATACCATCCAATTAAAATAAATTGAATTACCATATTATTTGTCAACAGTTT
59 AACATTGTGATACCATCCAATTAAAATAAATTGAATTACCATATTATTTGTCAACAGTTT
49706995 AATTAA
1 AATTAA
49707001 TTTCAAATTA
Statistics
Matches: 113, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
118 23 0.20
119 5 0.04
121 2 0.02
123 4 0.04
124 79 0.70
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (118 bp):
AATTAAATAATAAATTTAATGTATTTACTTAGCATTTCACAAACAGGTTCATCTGAAGAACATTG
TGATACCATCCAATTAAAATAAATTGAATTACCATATTATTTGTCAACAGTTT
Found at i:49713261 original size:52 final size:52
Alignment explanation
Indices: 49713190--49713541 Score: 458
Period size: 52 Copynumber: 7.0 Consensus size: 52
49713180 ATCAAGTGAC
* **
49713190 AAAGTGATAAGTGGTAGCTTTAGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
*
49713242 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
* *
49713294 AAAGCGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
* ** *
49713340 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
*
49713392 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
* *
49713438 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
** * *
49713490 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA-AGTG
49713542 ATAAGTGGCT
Statistics
Matches: 266, Mismatches: 21, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
46 84 0.32
52 178 0.67
53 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
Found at i:49713358 original size:98 final size:98
Alignment explanation
Indices: 49713190--49713548 Score: 511
Period size: 98 Copynumber: 3.6 Consensus size: 98
49713180 ATCAAGTGAC
** ** *
49713190 AAAGTGATAAGTGGTAGCTTTAGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGTG
*
49713255 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
60 ATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
49713294 AAAGCGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCT
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
**
49713359 TTAGCTACACTTATCTGATCAAGTGACAAGTGG
66 TCGGCTACACTTATCTGATCAAGTGACAAGTGG
49713392 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
*
49713457 TCGGCTACACTTATCTGATCAAGTGACAAGTGA
66 TCGGCTACACTTATCTGATCAAGTGACAAGTGG
* ** * * *
49713490 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTG
49713549 GCTACACTTA
Statistics
Matches: 234, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
98 193 0.82
104 41 0.18
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
TCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:49713494 original size:150 final size:151
Alignment explanation
Indices: 49713182--49713541 Score: 554
Period size: 150 Copynumber: 2.4 Consensus size: 151
49713172 TACTTCTGAT
*
49713182 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTATACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
49713247 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGCGATAAGTAATAGC
65 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----GAAAGCGATAAGTAATAGC
*
49713312 TTCGGCTATACTTATCTGATCAAGTGA
125 TTCGGCTACACTTATCTGATCAAGTGA
49713339 C------AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTG
1 CAAGTGAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTG
* *
49713398 ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-AAAGTGATAAGTGATAGCTTCGGC
66 ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACGAAAGCGATAAGTAATAGCTTCGGC
49713462 TACACTTATCTGATCAAGTGA
131 TACACTTATCTGATCAAGTGA
* *
49713483 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 CAAGTGAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACA-AGTG
49713542 ATAAGTGGCT
Statistics
Matches: 190, Mismatches: 6, Indels: 20
0.88 0.03 0.09
Matches are distributed among these distances:
144 43 0.23
150 142 0.75
151 4 0.02
157 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (151 bp):
CAAGTGAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTG
ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACGAAAGCGATAAGTAATAGCTTCGGC
TACACTTATCTGATCAAGTGA
Found at i:49713555 original size:37 final size:37
Alignment explanation
Indices: 49713512--49713731 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
49713502 GATAGCTTTA
* *
49713512 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
49713549 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
49713586 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
49713623 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
49713660 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
49713697 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
49713732 ATCATACGTA
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 160 0.91
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:49715062 original size:58 final size:58
Alignment explanation
Indices: 49714985--49715152 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
49714975 CATGTGAACA
49714985 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
49715044 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
49715100 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
49715151 TG
1 TG
49715153 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:49715094 original size:28 final size:28
Alignment explanation
Indices: 49715004--49715094 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
49714994 GTGATTCCGT
49715004 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
49715032 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
49715061 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
49715090 GTAAG
1 GTAAG
49715095 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:49715117 original size:49 final size:49
Alignment explanation
Indices: 49715045--49715187 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
49715035 AGTGATATGT
* *
49715045 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
49715094 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
49715143 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
49715188 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:49718395 original size:52 final size:51
Alignment explanation
Indices: 49718324--49718780 Score: 557
Period size: 52 Copynumber: 9.1 Consensus size: 51
49718314 ATCAAGTGAC
* **
49718324 AAAGTGATAAGTGGTAGCTTTAGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGT-G
*
49718376 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGT-G
* *
49718428 AAAGCGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
* ** *
49718474 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
*
49718525 AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 -AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
* ** *
49718572 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGT-G
*
49718624 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
*
49718670 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
** * *
49718721 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA-AGTG
49718774 ATAAGTG
1 A-AAGTG
49718781 GCTACACTTA
Statistics
Matches: 354, Mismatches: 31, Indels: 39
0.83 0.07 0.09
Matches are distributed among these distances:
46 125 0.35
52 220 0.62
53 9 0.03
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
Found at i:49718492 original size:98 final size:98
Alignment explanation
Indices: 49718316--49718781 Score: 680
Period size: 98 Copynumber: 4.7 Consensus size: 98
49718306 TACTTCTGAT
** **
49718316 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTATACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGT
** * *
49718381 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
59 GATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGA
* *
49718421 CAAGTGGAAAGCGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
*
49718486 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
66 GGTAGCTTCAGCTACACTTATCTGATCAAGTGA
49718519 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
*
49718584 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
66 GGTAGCTTCAGCTACACTTATCTGATCAAGTGA
*
49718617 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
49718682 GATAGCTTCGGCTACACTTATCTGATCAAGTGA
66 GGTAGCTTCAGCTACACTTATCTGATCAAGTGA
* ** * * *
49718715 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
49718780 GG
66 GG
49718782 CTACACTTAT
Statistics
Matches: 336, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
98 289 0.86
104 41 0.12
105 6 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
CAAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
GGTAGCTTCAGCTACACTTATCTGATCAAGTGA
Found at i:49718787 original size:37 final size:37
Alignment explanation
Indices: 49718744--49718963 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
49718734 GATAGCTTTA
* *
49718744 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
49718781 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
49718818 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
49718855 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
49718892 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
49718929 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
49718964 ATCATACGTA
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 160 0.91
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:49722195 original size:34 final size:34
Alignment explanation
Indices: 49722152--49722220 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
49722142 AATGAGATTC
49722152 TATTAGAACAAGTTGATAATAATGATGAATTTTA
1 TATTAGAACAAGTTGATAATAATGATGAATTTTA
* *
49722186 TATTGGAACAAGTTGGTAATAATGATGAATTTTA
1 TATTAGAACAAGTTGATAATAATGATGAATTTTA
49722220 T
1 T
49722221 CAAGAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (34 bp):
TATTAGAACAAGTTGATAATAATGATGAATTTTA
Found at i:49726212 original size:17 final size:17
Alignment explanation
Indices: 49726191--49726237 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
49726181 AAACAAAAAC
49726191 AAAAATCATAATAATTAT
1 AAAAATCATAA-AATTAT
*
49726209 AAAAATTATAAAATTAT
1 AAAAATCATAAAATTAT
49726226 AAAAAT-ATAAAA
1 AAAAATCATAAAA
49726238 ATGAAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 6 0.21
17 12 0.43
18 10 0.36
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATCATAAAATTAT
Found at i:49726215 original size:9 final size:9
Alignment explanation
Indices: 49726191--49726239 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
49726181 AAACAAAAAC
*
49726191 AAAAATCAT
1 AAAAATTAT
*
49726200 AATAATTAT
1 AAAAATTAT
49726209 AAAAATTAT
1 AAAAATTAT
49726218 -AAAATTAT
1 AAAAATTAT
49726226 AAAAA-TAT
1 AAAAATTAT
49726234 AAAAAT
1 AAAAAT
49726240 GAAAATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 16 0.46
9 19 0.54
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:49726223 original size:8 final size:8
Alignment explanation
Indices: 49726192--49726237 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
49726182 AACAAAAACA
*
49726192 AAAATCAT
1 AAAATTAT
49726200 AATAATTAT
1 AA-AATTAT
49726209 AAAAATTAT
1 -AAAATTAT
49726218 AAAATTAT
1 AAAATTAT
*
49726226 AAAAATAT
1 AAAATTAT
49726234 AAAA
1 AAAA
49726238 ATGAAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 21 0.62
9 11 0.32
10 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATTAT
Found at i:49726312 original size:18 final size:18
Alignment explanation
Indices: 49726267--49726317 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
49726257 CAAAAAGTTG
*
49726267 AAAAAATAATAGAAAATTT
1 AAAAAAT-ATATAAAATTT
* * *
49726286 TAAATATATATAATATTT
1 AAAAAATATATAAAATTT
49726304 AAAAAATATATAAA
1 AAAAAATATATAAA
49726318 TATCTACAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAAAATATATAAAATTT
Found at i:49726692 original size:16 final size:16
Alignment explanation
Indices: 49726675--49726707 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
49726665 CTTTTTGCAA
49726675 TTTATATAATTTTTAAT
1 TTTA-ATAATTTTTAAT
49726692 TTTAATAATTTTTAAT
1 TTTAATAATTTTTAAT
49726708 ATTTTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAATAATTTTTAAT
Found at i:49726810 original size:20 final size:21
Alignment explanation
Indices: 49726782--49726830 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
49726772 TATTTTCAAT
49726782 AAATATTTTTT-TA-ATTTTTA
1 AAAT-TTTTTTGTATATTTTTA
49726802 AAA-TTTTTTGTATATTTTTA
1 AAATTTTTTTGTATATTTTTA
*
49726822 TAATTTTTT
1 AAATTTTTT
49726831 ATAATAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.24
19 2 0.08
20 12 0.48
21 5 0.20
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
AAATTTTTTTGTATATTTTTA
Found at i:49726834 original size:10 final size:10
Alignment explanation
Indices: 49726786--49726835 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
49726776 TTCAATAAAT
49726786 ATTTTTT-TA
1 ATTTTTTATA
*
49726795 A-TTTTTAAA
1 ATTTTTTATA
*
49726804 ATTTTTTGT-
1 ATTTTTTATA
49726813 ATATTTTTATA
1 AT-TTTTTATA
49726824 ATTTTTTATA
1 ATTTTTTATA
49726834 AT
1 AT
49726836 AATTATAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.15
9 5 0.15
10 21 0.64
11 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:49732431 original size:3 final size:3
Alignment explanation
Indices: 49732423--49732453 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
49732413 TTATGATAGT
49732423 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
49732454 CAAAAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:49732982 original size:18 final size:19
Alignment explanation
Indices: 49732945--49732987 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
49732935 GAAGAATAAG
*
49732945 TAAAATATAGTGTGAAAAT
1 TAAAATATAATGTGAAAAT
*
49732964 TAAAATTTAATGT-AAAAT
1 TAAAATATAATGTGAAAAT
49732982 TAAAAT
1 TAAAAT
49732988 GCAAAATATT
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:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (19 bp):
TAAAATATAATGTGAAAAT
Found at i:49735344 original size:29 final size:26
Alignment explanation
Indices: 49735301--49735354 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
49735291 TATTGAATCA
*
49735301 ATTTTTTTATTTTTAATATATATTTTTT
1 ATTTTTTGATTTTTAATA-AT-TTTTTT
49735329 ATTTTTATGATTTTTAATAATTTTTT
1 ATTTTT-TGATTTTTAATAATTTTTT
49735355 CAATTGAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 8 0.33
29 11 0.46
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (26 bp):
ATTTTTTGATTTTTAATAATTTTTTT
Found at i:49743255 original size:43 final size:43
Alignment explanation
Indices: 49743195--49743305 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
49743185 TGTCCCAGAC
* ** *
49743195 ATGGTCTTACATGGAAATATCGTATCGATGTCAATAGCCCAGCT
1 ATGGTCTTACA-CGAAATATCAAATCGATGCCAATAGCCCAGCT
* *
49743239 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCTAGCT
1 ATGGTCTTACACGAAATATCAAATCGATGCCAATAGCCCAGCT
*
49743282 ATGGTCTTACACGAAATCTCAAAT
1 ATGGTCTTACACGAAATATCAAAT
49743306 TGATACACGA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 50 0.82
44 11 0.18
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGAAATATCAAATCGATGCCAATAGCCCAGCT
Found at i:49743521 original size:31 final size:31
Alignment explanation
Indices: 49743480--49743594 Score: 169
Period size: 31 Copynumber: 3.7 Consensus size: 31
49743470 ATCCAATGCT
* *
49743480 CAAATC-AATTCGGCAATATATATCCATATA
1 CAAATCAAATTCGACAATGTATATCCATATA
* *
49743510 CGAATCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGACAATGTATATCCATATA
*
49743541 CAAATCAAATTCGACAATGTATATCTATATA
1 CAAATCAAATTCGACAATGTATATCCATATA
*
49743572 CAAATCAAATTCAACAATGTATA
1 CAAATCAAATTCGACAATGTATA
49743595 AAACATATAC
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
30 5 0.07
31 71 0.93
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (31 bp):
CAAATCAAATTCGACAATGTATATCCATATA
Found at i:49746242 original size:31 final size:33
Alignment explanation
Indices: 49746207--49746276 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
49746197 TCCTTGGAAC
49746207 TCCAA-AAAGT-TAATTCTTTATGTAACACTCT
1 TCCAAGAAAGTCTAATTCTTTATGTAACACTCT
* **
49746238 TCCAAGTACTTCTAATTCTTTATGTAACACTCT
1 TCCAAGAAAGTCTAATTCTTTATGTAACACTCT
49746271 TCCAAG
1 TCCAAG
49746277 TACTTCTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 5 0.15
32 2 0.06
33 27 0.79
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (33 bp):
TCCAAGAAAGTCTAATTCTTTATGTAACACTCT
Found at i:49746254 original size:33 final size:33
Alignment explanation
Indices: 49746217--49746284 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
49746207 TCCAAAAAGT
49746217 TAATTCTTTATGTAACACTCTTCCAAGTACTTC
1 TAATTCTTTATGTAACACTCTTCCAAGTACTTC
49746250 TAATTCTTTATGTAACACTCTTCCAAGTACTTC
1 TAATTCTTTATGTAACACTCTTCCAAGTACTTC
49746283 TA
1 TA
49746285 CTTGTCTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.43
Consensus pattern (33 bp):
TAATTCTTTATGTAACACTCTTCCAAGTACTTC
Found at i:49753698 original size:52 final size:52
Alignment explanation
Indices: 49753641--49753839 Score: 236
Period size: 52 Copynumber: 3.8 Consensus size: 52
49753631 TTTTATGAAC
* * *
49753641 TTTGAATCTATTGTTTATATGTTCAAATCGATTGTCATGTTGGAATACTACT
1 TTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGTTGGAATACTTCT
** * * *
49753693 TTTGAATTGATTGTTTATATGTTTAAATCGACTGTTATGTTAGAATATTGCTTCT
1 TTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGTTGGAATA---CTTCT
* * * ** *
49753748 TTTAAATAAACTGTTTATATGTTTAAATAAATTGTTATGTTGGAATACTTCT
1 TTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGTTGGAATACTTCT
*
49753800 TTTGAATCAATTGTTTATATGTTTAAATCGATTATCATGT
1 TTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGT
49753840 AGCACATCTA
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
52 79 0.65
55 43 0.35
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (52 bp):
TTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGTTGGAATACTTCT
Found at i:49755726 original size:43 final size:43
Alignment explanation
Indices: 49755653--49755801 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
49755643 ATATCCCAGA
* * * *
49755653 TATGGTCTTACATGTAATCTCGTATTGATGCCAATAGCCCAAC
1 TATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCCAAC
*
49755696 TATGGTCTTACACGAAATCACATATCGATGCCAAT-GTCCCAGAC
1 TATGGTCTTACACGAAATCTCATATCGATGCCAATAG-CCCA-AC
* * * **
49755740 -ATGGTCTTACATGAATTCTCATATCGATGCC-ATATCCCAGG
1 TATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCCAAC
*
49755781 TATGGTCTTACACGTAATCTC
1 TATGGTCTTACACGAAATCTC
49755802 GGTAACCCTA
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 24 0.27
43 62 0.70
44 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (43 bp):
TATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCCAAC
Found at i:49756386 original size:21 final size:21
Alignment explanation
Indices: 49756360--49756404 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
49756350 TTTCTTAAAC
49756360 ATCACTTTATAAAAGATGAAA
1 ATCACTTTATAAAAGATGAAA
49756381 ATCACTTTATAAAAGATGAAA
1 ATCACTTTATAAAAGATGAAA
49756402 ATC
1 ATC
49756405 TAACATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (21 bp):
ATCACTTTATAAAAGATGAAA
Found at i:49759160 original size:46 final size:46
Alignment explanation
Indices: 49759014--49759275 Score: 352
Period size: 46 Copynumber: 5.6 Consensus size: 46
49759004 CTTACGTATG
* * * *
49759014 ATCACTAATCAC-TTGTC-CCTGATTAGATAAGTGTAGCT-AGGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
* *
49759057 ACCACTTATCAGTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG------C-T
49759110 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
*
49759156 ATCACTTATCACTTTGTAACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
*
49759202 ATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
*
49759248 ACCACTTATCACTTTGTCAC-TGATCAGA
1 ATCACTTATCACTTTGTCACTTGATCAGA
49759276 AGTACTCAAA
Statistics
Matches: 196, Mismatches: 13, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
43 9 0.05
44 5 0.03
45 27 0.14
46 110 0.56
47 1 0.01
52 1 0.01
53 43 0.22
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (46 bp):
ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
Found at i:49764145 original size:23 final size:22
Alignment explanation
Indices: 49764119--49764306 Score: 92
Period size: 23 Copynumber: 8.2 Consensus size: 22
49764109 AGTGTTGCAT
*
49764119 ATTGAAGTATTTAAATGCTGTGA
1 ATTGAAGT-TTTAAATGCTGTAA
* *
49764142 ATTGAAGTGTTAAAGTGCTGCAA
1 ATTGAAGTTTTAAA-TGCTGTAA
* * *
49764165 ATTGAAGTGTTTGAATGTTTTAA
1 ATTGAAGT-TTTAAATGCTGTAA
* * *
49764188 ATTGAAGTGTTTTAAGTACTGCAA
1 ATTGAA--GTTTTAAATGCTGTAA
* ** *
49764212 ATTGAATTGTTTAGTTGCTGAAA
1 ATTGAAGT-TTTAAATGCTGTAA
*
49764235 ATTGAGATGTTTT-ATTGCTGT-A
1 ATTGA-A-GTTTTAAATGCTGTAA
* * *
49764257 ATTGAGGTGTATAAATGTTGTAA
1 ATTGAAGT-TTTAAATGCTGTAA
* * *
49764280 ATTGAAGTGTTTTATTGCTGAAA
1 ATTGAAGT-TTTAAATGCTGTAA
49764303 ATTG
1 ATTG
49764307 GATGGTAAAT
Statistics
Matches: 123, Mismatches: 32, Indels: 20
0.70 0.18 0.11
Matches are distributed among these distances:
20 2 0.02
21 2 0.02
22 18 0.15
23 76 0.62
24 22 0.18
25 3 0.02
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.41
Consensus pattern (22 bp):
ATTGAAGTTTTAAATGCTGTAA
Found at i:49764169 original size:46 final size:46
Alignment explanation
Indices: 49764097--49764290 Score: 158
Period size: 46 Copynumber: 4.2 Consensus size: 46
49764087 TTTATCATGT
* * *
49764097 TTGAAGTGTTAAAGTGTTGCATATTGAAGTATTTAAATGCTGTGAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
* * * *
49764143 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGTTTTAAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
* * * * ** *
49764189 TTGAAGTGTTTTAAGTACTGCAAATTGAATTGTTTAGTTGCTGAAAA
1 TTGAAGTG-TTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
** * * * * * *
49764236 TTG-AGATGTTTTATTGCTG-TAATTGAGGTGTATAAATGTTGTAAA
1 TTGAAG-TGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
49764281 TTGAAGTGTT
1 TTGAAGTGTT
49764291 TTATTGCTGA
Statistics
Matches: 118, Mismatches: 27, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
45 25 0.21
46 59 0.50
47 34 0.29
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.41
Consensus pattern (46 bp):
TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
Found at i:49764907 original size:45 final size:44
Alignment explanation
Indices: 49764825--49764920 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
49764815 ATTAGAACAT
* *
49764825 CATTCCATTCGACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
49764869 CATTACATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
49764914 CATTACA
1 CATTACA
49764921 GCTCTATTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.43
45 26 0.55
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Done.