Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 150 of 313
Found at i:47670478 original size:18 final size:18
Alignment explanation
Indices: 47670415--47670491 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 18
47670405 CTTTCCCTTA
*
47670415 TAATTTATGTAAGTTATG
1 TAATTAATGTAAGTTATG
* * *
47670433 TAA-GATATTTAATTTACT-
1 TAATTA-ATGTAAGTTA-TG
*
47670451 TAATTTATGTAAGTTATG
1 TAATTAATGTAAGTTATG
* *
47670469 TAATTAATGTAACTTATT
1 TAATTAATGTAAGTTATG
47670487 TAATT
1 TAATT
47670492 TGTGATATGT
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
17 1 0.02
18 42 0.95
19 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (18 bp):
TAATTAATGTAAGTTATG
Found at i:47670490 original size:36 final size:36
Alignment explanation
Indices: 47670415--47670492 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
47670405 CTTTCCCTTA
* *
47670415 TAATTTATGTAAGTTATGTAAGATATTTAATTTACT
1 TAATTTATGTAAGTTATGTAAGATATGTAACTTACT
* *
47670451 TAATTTATGTAAGTTATGTAA-TTAATGTAACTTATT
1 TAATTTATGTAAGTTATGTAAGAT-ATGTAACTTACT
47670487 TAATTT
1 TAATTT
47670493 GTGATATGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 1 0.03
36 36 0.97
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (36 bp):
TAATTTATGTAAGTTATGTAAGATATGTAACTTACT
Found at i:47674396 original size:21 final size:20
Alignment explanation
Indices: 47674368--47674406 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47674358 CTTAACATAT
*
47674368 AACCTTAAACCTTAAACCCC
1 AACCTTAAACCATAAACCCC
47674388 AACCTTTAAACCATAAACC
1 AACC-TTAAACCATAAACC
47674407 ATAGACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCTTAAACCATAAACCCC
Found at i:47676681 original size:30 final size:30
Alignment explanation
Indices: 47676646--47676703 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
47676636 TTTAGCTTTT
* *
47676646 CCACACGGGCTGGGCACACGCCCGTGTGAA
1 CCACACGGGCTGGCCACACGCCCATGTGAA
47676676 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGGGCTGGCCACACGCCCATGTG
47676704 CTGGCCTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.40, G:0.31, T:0.10
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTGAA
Found at i:47678662 original size:27 final size:28
Alignment explanation
Indices: 47678630--47678684 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
47678620 TAATTACTAA
*
47678630 ATATTTGTAATTAGT-ATTTTAAAAAAT
1 ATATTTGTAATTAATAATTTTAAAAAAT
* *
47678657 ATATTTTTAATTAATAATTTTAACAAAT
1 ATATTTGTAATTAATAATTTTAAAAAAT
47678685 TTGTAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (28 bp):
ATATTTGTAATTAATAATTTTAAAAAAT
Found at i:47684533 original size:10 final size:10
Alignment explanation
Indices: 47684518--47684548 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
47684508 CTTAATCATC
47684518 TCATTTTAGT
1 TCATTTTAGT
47684528 TCATTTTAGT
1 TCATTTTAGT
47684538 TCATTTTAGT
1 TCATTTTAGT
47684548 T
1 T
47684549 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.61
Consensus pattern (10 bp):
TCATTTTAGT
Found at i:47691496 original size:22 final size:21
Alignment explanation
Indices: 47691460--47691518 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
47691450 AGCCCGACCC
*
47691460 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA-AAAAA
47691482 ATTTATTTTAAAAATAAAAAA
1 ATTTATTTTAAAAATAAAAAA
**
47691503 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
47691519 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.55
22 9 0.27
23 6 0.18
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTTATTTTAAAAATAAAAAA
Found at i:47691532 original size:17 final size:17
Alignment explanation
Indices: 47691510--47691555 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
47691500 AAAAAGTATT
47691510 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
47691527 TTAAAAAAATTTTAAAA
1 TTAAAAATATTTTAAAA
* *
47691544 ATAAATATATTT
1 TTAAAAATATTT
47691556 ATATATCGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:47695581 original size:41 final size:42
Alignment explanation
Indices: 47695536--47695621 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
47695526 TTTACACACC
*
47695536 ATATTTGAAAAAC-TTT-TTCCAACTGGTTGGTTTACCATTGG
1 ATATTT-AAAAACATTTGTTCCAACAGGTTGGTTTACCATTGG
* * *
47695577 ATATTTTACAACATTTGTTCCAAGAGGTTGGTTTACCATTGG
1 ATATTTAAAAACATTTGTTCCAACAGGTTGGTTTACCATTGG
47695619 ATA
1 ATA
47695622 AGACACATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
40 4 0.10
41 9 0.23
42 26 0.67
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (42 bp):
ATATTTAAAAACATTTGTTCCAACAGGTTGGTTTACCATTGG
Found at i:47698145 original size:27 final size:27
Alignment explanation
Indices: 47698064--47698149 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
47698054 AAATCAAACT
*
47698064 GATGAAGAAAAAACTTCAGCAGATCAG
1 GATGAAGAAAAAACTTCAACAGATCAG
* *
47698091 GAT--A-AAAAAA-TTAGTAATCA-ATC-T
1 GATGAAGAAAAAACTT--CAA-CAGATCAG
47698115 GATGAAGAAAAAACTTCAACAGATCAG
1 GATGAAGAAAAAACTTCAACAGATCAG
47698142 GATGAAGA
1 GATGAAGA
47698150 CATAAAAGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 18
0.66 0.07 0.26
Matches are distributed among these distances:
23 2 0.04
24 9 0.20
25 7 0.16
26 8 0.18
27 17 0.38
28 2 0.04
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.19
Consensus pattern (27 bp):
GATGAAGAAAAAACTTCAACAGATCAG
Found at i:47699463 original size:48 final size:48
Alignment explanation
Indices: 47699411--47699502 Score: 109
Period size: 49 Copynumber: 1.9 Consensus size: 48
47699401 AATAAATCCT
47699411 GAAGAA-ATAT-TATATGAGTTAATATCA-GAAACAGATTCTAATAACAAC
1 GAAGAATATATATATATG-GTTAATAT-AGGAAACAG-TTCTAATAACAAC
* * *
47699459 GAAGAATATATATTTATGTTTAATATAGGAAATAGTTCTAATAA
1 GAAGAATATATATATATGGTTAATATAGGAAACAGTTCTAATAA
47699503 TCAATTAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
48 16 0.42
49 17 0.45
50 5 0.13
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.33
Consensus pattern (48 bp):
GAAGAATATATATATATGGTTAATATAGGAAACAGTTCTAATAACAAC
Found at i:47702290 original size:10 final size:10
Alignment explanation
Indices: 47702275--47702305 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
47702265 CTTAATCATC
47702275 TCATTTTAGT
1 TCATTTTAGT
47702285 TCATTTTAGT
1 TCATTTTAGT
47702295 TCATTTTAGT
1 TCATTTTAGT
47702305 T
1 T
47702306 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.61
Consensus pattern (10 bp):
TCATTTTAGT
Found at i:47702417 original size:3 final size:3
Alignment explanation
Indices: 47702374--47702401 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
47702364 AGTTAATATC
47702374 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
47702402 CATACTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:47704562 original size:6 final size:6
Alignment explanation
Indices: 47704545--47704584 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
47704535 TGACGATTTC
* *
47704545 CCCCTT -CCCTT CCCCTT CCCCTT CCCCCT CCCCCT CCCCT
1 CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT CCCCT
47704585 ATCCTTGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.00, C:0.72, G:0.00, T:0.28
Consensus pattern (6 bp):
CCCCTT
Found at i:47712315 original size:13 final size:14
Alignment explanation
Indices: 47712297--47712330 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
47712287 AAATTCGATC
47712297 TCATTTTAA-AAAT
1 TCATTTTAACAAAT
47712310 TCATTTTAAGCAAAT
1 TCATTTTAA-CAAAT
47712325 TCATTT
1 TCATTT
47712331 CAGGTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
15 10 0.53
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (14 bp):
TCATTTTAACAAAT
Found at i:47716086 original size:72 final size:71
Alignment explanation
Indices: 47715964--47716099 Score: 227
Period size: 72 Copynumber: 1.9 Consensus size: 71
47715954 AAACTTAAAA
* *
47715964 TTTTAAACGATCTCGATAATCAAGAAGAGATCGTGTCCTAACTTATTGGGCATGATCCCTTTTTT
1 TTTTAAACGATCTCGAGAATCAAGAAGAGATCGTGTCCTAACTTAATGGGCATGAT-CCTTTTTT
47716029 TCTCAAG
65 TCTCAAG
* *
47716036 TTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTAATGGGCATGATCCTTTTTT
1 TTTTAAACGATCTCGAGAATCAAGAAGAGATCGTGTCCTAACTTAATGGGCATGATCCTTTTTT
47716100 AAAAATCCGA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
71 8 0.13
72 52 0.87
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (71 bp):
TTTTAAACGATCTCGAGAATCAAGAAGAGATCGTGTCCTAACTTAATGGGCATGATCCTTTTTTT
CTCAAG
Found at i:47718436 original size:37 final size:37
Alignment explanation
Indices: 47718391--47718492 Score: 100
Period size: 37 Copynumber: 2.8 Consensus size: 37
47718381 TTTCGGTTAA
* *
47718391 ACTAGCTCTTCGGAGCCAT-TAGTGTGTTATCGGGTGG
1 ACTAGCTCTTAGAAG-CATCTAGTGTGTTATCGGGTGG
* * *
47718428 ACTGGCTCTTATAAGCATCTGGTGTGTTATCGGGTGG
1 ACTAGCTCTTAGAAGCATCTAGTGTGTTATCGGGTGG
* * *
47718465 ATTAGCTCTTATG-AGCATTTGGTGTGTT
1 ACTAGCTCTTA-GAAGCATCTAGTGTGTT
47718493 TCAGTTGGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 3 0.06
37 51 0.94
ACGTcount: A:0.17, C:0.16, G:0.30, T:0.37
Consensus pattern (37 bp):
ACTAGCTCTTAGAAGCATCTAGTGTGTTATCGGGTGG
Found at i:47720832 original size:25 final size:25
Alignment explanation
Indices: 47720801--47720897 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 25
47720791 GCGATAAATG
*
47720801 GTAAGCTCCTTCGAGCTAAATAACA
1 GTAAGCTCCTACGAGCTAAATAACA
* * *
47720826 GTAAGCTCCTCCAAGCTGAATAACA
1 GTAAGCTCCTACGAGCTAAATAACA
* * * *
47720851 GTAAACTCATACGAGCTAAGTAACG
1 GTAAGCTCCTACGAGCTAAATAACA
* *
47720876 GTAAGCTCATAAGAGCTGAAAT
1 GTAAGCTCCTACGAGCT-AAAT
47720898 CGATGACCTT
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
25 55 0.95
26 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (25 bp):
GTAAGCTCCTACGAGCTAAATAACA
Found at i:47734926 original size:44 final size:44
Alignment explanation
Indices: 47734877--47734962 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
47734867 TGGCTTTGGT
**
47734877 CTACGAGTTTTAGAAAAATGGATCCGGGAGTCGATTACGTACGA
1 CTACGAGTTTTAGAAAAACAGATCCGGGAGTCGATTACGTACGA
*
47734921 CTACGAGTTTTAGAAAAACAGATCCGGGAGTCGGTTACGTAC
1 CTACGAGTTTTAGAAAAACAGATCCGGGAGTCGATTACGTAC
47734963 CATGGAAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.24
Consensus pattern (44 bp):
CTACGAGTTTTAGAAAAACAGATCCGGGAGTCGATTACGTACGA
Found at i:47737348 original size:45 final size:45
Alignment explanation
Indices: 47737220--47737732 Score: 275
Period size: 45 Copynumber: 11.7 Consensus size: 45
47737210 TCTCAATCTA
* ** * * *
47737220 CTCCACTGCAACTTTAGGGAGATAAGA-TTTATTTATTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTCCTTTCTTGAGTCTG
* * * * * *
47737264 CCCCATTGTAATTTCAAGGG-GATAAGACTTGCTTTCTTGAGTGTG
1 CTCCACTGCAACTTC-AGGGAGATAAGACTTCCTTTCTTGAGTCTG
47737309 CTCCACTGCAACTTCAGGGAGATAAGACTTCCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTCCTTTCTTGAGTCTG
* * *
47737354 CTCCACTGCAACTTCAGGGATATAAGA-TT--TGAT-ATGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTCCT-TTCTTGAGTCTG
* ** * **
47737395 CTCTACTGCAACTTCATAGAGATAAGA--TCCATCATT-TT-AATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTCC-T--TTCTTGAGTCTG
** * * * ** * * *
47737439 CTCCACAACAACTTTAGGGAGATAGGATTTTTTTTTATTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTTCCTTTCTTGAGTCTG
* * * *
47737485 C-CCTACTGCAATTTCAGGGGGATAAAACTTGCTTTCTTGAGTCTG
1 CTCC-ACTGCAACTTCAGGGAGATAAGACTTCCTTTCTTGAGTCTG
* * * * *
47737530 CTCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTCCTTTCTTGAGTCTG
* *** *
47737574 CTCCACTGTAACTTCAGGGAGATAAGAC-TAGATGC--GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTCCTTTCTTGAGTCTG
* * * *
47737615 CT-CTCTGCAACTTCAGAGAGATAAGATCTATCAC--T-TT-AATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TC-CTTTCTTGAGTCTG
* *
47737658 CTCCACTGCAACTTCAGGGAGATAAGA-TTCGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTCCTT-TCTTGAGTCTG
47737703 -TCCCACTGCAACTTCA-GGAGGATAAGACTT
1 CT-CCACTGCAACTTCAGGGA-GATAAGACTT
47737733 ACTTACTCTA
Statistics
Matches: 360, Mismatches: 77, Indels: 62
0.72 0.15 0.12
Matches are distributed among these distances:
40 22 0.06
41 36 0.10
42 7 0.02
43 13 0.04
44 110 0.31
45 145 0.40
46 26 0.07
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTCCTTTCTTGAGTCTG
Found at i:47737640 original size:84 final size:85
Alignment explanation
Indices: 47737526--47737684 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 85
47737516 CTTTCTTGAG
* * * * * * *
47737526 TCTGCTCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCTGCTCCACTGTAACTTCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACCT-ATCACTTCAATCCGCTCCACTGCAACTTCA
47737590 GGGAGATAAGACTAGATGCGA
65 GGGAGATAAGACTAGATGCGA
* * *
47737611 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACCTATCACTTCAATCCGCTCCACTGCAACTTCAG
47737675 GGAGATAAGA
66 GGAGATAAGA
47737685 TTCGTTATCT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
83 3 0.05
84 54 0.86
85 6 0.10
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (85 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACCTATCACTTCAATCCGCTCCACTGCAACTTCAG
GGAGATAAGACTAGATGCGA
Found at i:47738652 original size:25 final size:26
Alignment explanation
Indices: 47738624--47738672 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
47738614 AGTGTCTTGA
47738624 AAAGAAAAAAGTATT-CAAGAACAGC
1 AAAGAAAAAAGTATTGCAAGAACAGC
*
47738649 AAAGAATAAAGTATTGCAAGAACA
1 AAAGAAAAAAGTATTGCAAGAACA
47738673 AACAAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.59, C:0.10, G:0.16, T:0.14
Consensus pattern (26 bp):
AAAGAAAAAAGTATTGCAAGAACAGC
Found at i:47743181 original size:37 final size:36
Alignment explanation
Indices: 47743125--47743200 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 36
47743115 GTAAAGCTCC
* *
47743125 TTTTCCTACCAACAATTGCAAACCCATCTTTGTAGT
1 TTTTCCTACCAACAATTGCAAACCCATCTCTATAGT
* *
47743161 TTTTCCCTACCAATAGTTGCAAACCCATCTCTATAGT
1 TTTT-CCTACCAACAATTGCAAACCCATCTCTATAGT
47743198 TTT
1 TTT
47743201 GGATATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
36 4 0.11
37 31 0.89
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.38
Consensus pattern (36 bp):
TTTTCCTACCAACAATTGCAAACCCATCTCTATAGT
Found at i:47750163 original size:8 final size:8
Alignment explanation
Indices: 47750152--47750211 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
47750142 AAATAAAGAA
47750152 AAATATAT
1 AAATATAT
*
47750160 AAATATTT
1 AAATATAT
*
47750168 ATATATAT
1 AAATATAT
47750176 AAAT-TAT
1 AAATATAT
47750183 AAAATATGTATT
1 -AAATA--TA-T
*
47750195 AAAAATAT
1 AAATATAT
47750203 AAATATAT
1 AAATATAT
47750211 A
1 A
47750212 TATGTACATA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
7 3 0.07
8 29 0.71
9 2 0.05
11 6 0.15
12 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
AAATATAT
Found at i:47751620 original size:19 final size:20
Alignment explanation
Indices: 47751584--47751621 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47751574 ATATTACCAA
*
47751584 TTCAGTTAATTTTGGTTAAT
1 TTCAATTAATTTTGGTTAAT
47751604 TTCAATTAATTTT-GTTAA
1 TTCAATTAATTTTGGTTAA
47751622 ATAAACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (20 bp):
TTCAATTAATTTTGGTTAAT
Found at i:47752836 original size:22 final size:22
Alignment explanation
Indices: 47752811--47752852 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47752801 GCATGTACTT
47752811 TATAAAATA-TAAATAAAATAAG
1 TATAAAATATTAAA-AAAATAAG
*
47752833 TATAATATATTAAAAAAATA
1 TATAAAATATTAAAAAAATA
47752853 TGAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
TATAAAATATTAAAAAAATAAG
Found at i:47753445 original size:8 final size:8
Alignment explanation
Indices: 47753432--47753461 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
47753422 ACCGAATGAG
47753432 AAAAAAAT
1 AAAAAAAT
47753440 -AAAAAAT
1 AAAAAAAT
47753447 AAAAAAAT
1 AAAAAAAT
47753455 AAAAAAA
1 AAAAAAA
47753462 CTCAACAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:47753452 original size:15 final size:15
Alignment explanation
Indices: 47753432--47753460 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47753422 ACCGAATGAG
47753432 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
47753447 AAAAAAATAAAAAA
1 AAAAAAATAAAAAA
47753461 ACTCAACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:47754998 original size:45 final size:45
Alignment explanation
Indices: 47754932--47755140 Score: 181
Period size: 45 Copynumber: 4.7 Consensus size: 45
47754922 GTACATGAAA
*
47754932 ACAAGATCTGCTTTCTTTGATCTGCTTCACCACCAGTATGGGAAG
1 ACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATGGGAAG
* * * * * * ***
47754977 GCAAGATCTGGTATCTCTGATCTACTTCA-CGCCAATACATGAAG
1 ACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATGGGAAG
* *
47755021 AC-AGAATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAG
1 ACAAG-ATCTGCTTTCTTTGATCTACTTCACCACCAGTATGGGAAG
* ** * * * *
47755066 GCAAGATCTATTTTCTTCGATCTACTCCACCACCTGTA-CGGAGAG
1 ACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATGGGA-AG
* * *
47755111 ACAAGATCTGGTATCTATGATCTACTTCAC
1 ACAAGATCTGCTTTCTTTGATCTACTTCAC
47755141 GCCAGTACAT
Statistics
Matches: 123, Mismatches: 37, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
43 2 0.02
44 33 0.27
45 86 0.70
46 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (45 bp):
ACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATGGGAAG
Found at i:47755164 original size:44 final size:43
Alignment explanation
Indices: 47754922--47755171 Score: 125
Period size: 45 Copynumber: 5.6 Consensus size: 43
47754912 TTTCACGCTG
* * * * *
47754922 GTACATGAAAACAAGATCTGCTTTCTTTGATCTGCTTCACCACCA
1 GTACATGGAGACAAGATCTGGTATC-TTGATCTACTTCA-CACCA
* *
47754967 GT--ATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCA
1 GTACAT-GG-AGACAAGATCTGGTATCT-TGATCTACTTCACACCA
* * * * * *
47755011 ATACATGAAGAC-AGAATCTGCTTTCTTTGATCTGCTTCGCCACCA
1 GTACATGGAGACAAG-ATCTGGTATC-TTGATCTACTTC-ACACCA
* ** * * *
47755056 GT--ATGGGAAGGCAAGATCTATTTTCTTCGATCTACTCCACCACCT
1 GTACAT-GG-AGACAAGATCTGGTATCTT-GATCTACTTCA-CACCA
* *
47755101 GTAC-GGAGAGACAAGATCTGGTATCTATGATCTACTTCACGCCA
1 GTACATG-GAGACAAGATCTGGTATCT-TGATCTACTTCACACCA
* *
47755145 GTACATGGAGACAGGATCTGTTATCTT
1 GTACATGGAGACAAGATCTGGTATCTT
47755172 TCAACATGCT
Statistics
Matches: 152, Mismatches: 35, Indels: 38
0.68 0.16 0.17
Matches are distributed among these distances:
43 7 0.05
44 55 0.36
45 84 0.55
46 6 0.04
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
GTACATGGAGACAAGATCTGGTATCTTGATCTACTTCACACCA
Found at i:47766448 original size:19 final size:20
Alignment explanation
Indices: 47766412--47766449 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47766402 ATATTACCAA
*
47766412 TTCAGTTAATTTTGGTTAAT
1 TTCAATTAATTTTGGTTAAT
47766432 TTCAATTAATTTT-GTTAA
1 TTCAATTAATTTTGGTTAA
47766450 ATAAACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (20 bp):
TTCAATTAATTTTGGTTAAT
Found at i:47767399 original size:8 final size:8
Alignment explanation
Indices: 47767386--47767415 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
47767376 ACCGAATGAG
47767386 AAAAAAAT
1 AAAAAAAT
47767394 -AAAAAAT
1 AAAAAAAT
47767401 AAAAAAAT
1 AAAAAAAT
47767409 AAAAAAA
1 AAAAAAA
47767416 CTCAACAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:47767406 original size:15 final size:15
Alignment explanation
Indices: 47767386--47767414 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47767376 ACCGAATGAG
47767386 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
47767401 AAAAAAATAAAAAA
1 AAAAAAATAAAAAA
47767415 ACTCAACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:47768154 original size:22 final size:24
Alignment explanation
Indices: 47768114--47768160 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
47768104 AATAAATACG
* *
47768114 TACTTCTCTTTTTATTTTTATTTC
1 TACTTCTCTTTGTATTTTTAGTTC
47768138 TACTT-TCTTTGT-TTTTTAGTTC
1 TACTTCTCTTTGTATTTTTAGTTC
47768160 T
1 T
47768161 GAATTGCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 6 0.29
24 5 0.24
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.70
Consensus pattern (24 bp):
TACTTCTCTTTGTATTTTTAGTTC
Found at i:47770629 original size:45 final size:46
Alignment explanation
Indices: 47770550--47770636 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 46
47770540 TAGGGACTGA
47770550 AATTAAAATTTGACCATTTTTATAGAACCTAAAAA-TAGAGGAATG
1 AATTAAAATTTGACCATTTTTATAGAACCTAAAAACTAGAGGAATG
* *
47770595 AATTGAAATTTGA-CATTTTTAT-GTAGCCTAAAAAACTAGAGG
1 AATTAAAATTTGACCATTTTTATAG-AACCT-AAAAACTAGAGG
47770637 GTCAAAGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
43 1 0.03
44 13 0.35
45 17 0.46
46 6 0.16
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (46 bp):
AATTAAAATTTGACCATTTTTATAGAACCTAAAAACTAGAGGAATG
Found at i:47773957 original size:4 final size:4
Alignment explanation
Indices: 47773948--47773974 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47773938 AATTGTTTAT
47773948 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
47773975 GGGTTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:47774775 original size:18 final size:21
Alignment explanation
Indices: 47774738--47774780 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 21
47774728 TGTTTAATCT
47774738 AAATTATAATATATATAATAA
1 AAATTATAATATATATAATAA
47774759 AAATT-TAATAT-TA-AATAA
1 AAATTATAATATATATAATAA
47774777 AAAT
1 AAAT
47774781 GAATAACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 6 0.27
21 5 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTATAATATATATAATAA
Found at i:47776092 original size:10 final size:9
Alignment explanation
Indices: 47776064--47776089 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47776054 ATTGTTTAAA
47776064 TTTTAAAAT
1 TTTTAAAAT
47776073 TTTTAAAAT
1 TTTTAAAAT
47776082 TTTTAAAA
1 TTTTAAAA
47776090 ATTATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:47785639 original size:13 final size:13
Alignment explanation
Indices: 47785621--47785645 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47785611 CCACTTGATG
47785621 AAAATATCTCTTC
1 AAAATATCTCTTC
47785634 AAAATATCTCTT
1 AAAATATCTCTT
47785646 TGCTACCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATATCTCTTC
Found at i:47786100 original size:29 final size:29
Alignment explanation
Indices: 47786067--47786125 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
47786057 CTCAATGGCC
47786067 TACCAAGCTTTAAATCTAAATCCTCTCAT
1 TACCAAGCTTTAAATCTAAATCCTCTCAT
47786096 TACCAAGCTTTAAATCTAAATCCTCTCAT
1 TACCAAGCTTTAAATCTAAATCCTCTCAT
47786125 T
1 T
47786126 CTTCTATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (29 bp):
TACCAAGCTTTAAATCTAAATCCTCTCAT
Found at i:47804837 original size:20 final size:20
Alignment explanation
Indices: 47804812--47804869 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
47804802 TTGCGCTCTA
*
47804812 GTGCCCCTGATTGTACTTTC
1 GTGCCCCTGATTGCACTTTC
* *
47804832 GTGCCCCTGGTTGCACTTTG
1 GTGCCCCTGATTGCACTTTC
* *
47804852 GTGTCCCTGGTTGCACTT
1 GTGCCCCTGATTGCACTT
47804870 CGATGCCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.07, C:0.29, G:0.26, T:0.38
Consensus pattern (20 bp):
GTGCCCCTGATTGCACTTTC
Found at i:47805566 original size:24 final size:24
Alignment explanation
Indices: 47805539--47805665 Score: 93
Period size: 24 Copynumber: 5.4 Consensus size: 24
47805529 GATTAAATAT
47805539 ATGTGCGAGTTGTCTTTGAAATGC
1 ATGTGCGAGTTGTCTTTGAAATGC
* * *
47805563 ATGTGC-AATATGT-TTT-ACCACGC
1 ATGTGCGAGT-TGTCTTTGA-AATGC
* *
47805586 ATGTGCTAGTTGTCTTTGAAATGT
1 ATGTGCGAGTTGTCTTTGAAATGC
* ** *
47805610 ATGTGCAAGCAGT-TTT-ACCATGC
1 ATGTGCGAGTTGTCTTTGA-AATGC
* *
47805633 ATGTGCGAGCTGTCTTTGAAATGT
1 ATGTGCGAGTTGTCTTTGAAATGC
47805657 ATGTGCGAG
1 ATGTGCGAG
47805666 CTATTTTATC
Statistics
Matches: 79, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
22 2 0.03
23 34 0.43
24 41 0.52
25 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (24 bp):
ATGTGCGAGTTGTCTTTGAAATGC
Found at i:47805608 original size:47 final size:47
Alignment explanation
Indices: 47805539--47805756 Score: 271
Period size: 47 Copynumber: 4.6 Consensus size: 47
47805529 GATTAAATAT
* * * *
47805539 ATGTGCGAGTTGTCTTTGAAATGCATGTGCAA-TATGTTTTACCACGC
1 ATGTGCTAGCTGTCTTTGAAATGTATGTGCAAGCA-GTTTTACCACGC
* *
47805586 ATGTGCTAGTTGTCTTTGAAATGTATGTGCAAGCAGTTTTACCATGC
1 ATGTGCTAGCTGTCTTTGAAATGTATGTGCAAGCAGTTTTACCACGC
* * *
47805633 ATGTGCGAGCTGTCTTTGAAATGTATGTGCGAGCTA-TTTTATCACGC
1 ATGTGCTAGCTGTCTTTGAAATGTATGTGCAAGC-AGTTTTACCACGC
* * *
47805680 ATGTGCTAGCTATATTTGAAATGTATGTGCAAGCAGTTTTACCATGC
1 ATGTGCTAGCTGTCTTTGAAATGTATGTGCAAGCAGTTTTACCACGC
*
47805727 ATGTG-TGAGCTGTCTTTGGAATGTATGTGC
1 ATGTGCT-AGCTGTCTTTGAAATGTATGTGC
47805757 GAGCTGTCAT
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
46 2 0.01
47 145 0.97
48 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (47 bp):
ATGTGCTAGCTGTCTTTGAAATGTATGTGCAAGCAGTTTTACCACGC
Found at i:47805638 original size:23 final size:22
Alignment explanation
Indices: 47805610--47805731 Score: 68
Period size: 23 Copynumber: 5.2 Consensus size: 22
47805600 TTTGAAATGT
47805610 ATGTGCAAGCAGTTTTACCATGC
1 ATGTGCAAGCAGTTTTA-CATGC
* * * *
47805633 ATGTGCGAGCTGTCTTTGAAATGT
1 ATGTGCAAGCAGT-TTT-ACATGC
* *
47805657 ATGTGCGAGCTA-TTTTATCACGC
1 ATGTGCAAGC-AGTTTTA-CATGC
* * *
47805680 ATGTGCTAGCTA-TATTTGAAATGT
1 ATGTGCAAGC-AGT-TTT-ACATGC
47805704 ATGTGCAAGCAGTTTTACCATGC
1 ATGTGCAAGCAGTTTTA-CATGC
47805727 ATGTG
1 ATGTG
47805732 TGAGCTGTCT
Statistics
Matches: 76, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
22 2 0.03
23 40 0.53
24 32 0.42
25 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (22 bp):
ATGTGCAAGCAGTTTTACATGC
Found at i:47805700 original size:94 final size:94
Alignment explanation
Indices: 47805539--47805761 Score: 338
Period size: 94 Copynumber: 2.4 Consensus size: 94
47805529 GATTAAATAT
* * * ** * * * *
47805539 ATGTGCGAGTTGTCTTTGAAATGCATGTGCAATATGTTTTACCACGCATGTGCTAGTTGTCTTTG
1 ATGTGCGAGCTGTCTTTGAAATGTATGTGCGAGCTATTTTACCACGCATGTGCTAGCTATATTTG
47805604 AAATGTATGTGCAAGCAGTTTTACCATGC
66 AAATGTATGTGCAAGCAGTTTTACCATGC
*
47805633 ATGTGCGAGCTGTCTTTGAAATGTATGTGCGAGCTATTTTATCACGCATGTGCTAGCTATATTTG
1 ATGTGCGAGCTGTCTTTGAAATGTATGTGCGAGCTATTTTACCACGCATGTGCTAGCTATATTTG
47805698 AAATGTATGTGCAAGCAGTTTTACCATGC
66 AAATGTATGTGCAAGCAGTTTTACCATGC
* *
47805727 ATGTGTGAGCTGTCTTTGGAATGTATGTGCGAGCT
1 ATGTGCGAGCTGTCTTTGAAATGTATGTGCGAGCT
47805762 GTCATTGTCA
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 117 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (94 bp):
ATGTGCGAGCTGTCTTTGAAATGTATGTGCGAGCTATTTTACCACGCATGTGCTAGCTATATTTG
AAATGTATGTGCAAGCAGTTTTACCATGC
Found at i:47805940 original size:21 final size:20
Alignment explanation
Indices: 47805900--47805942 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
47805890 TTAGAATTCA
*
47805900 AAAATTTAGGTTAAGAAATT
1 AAAATTAAGGTTAAGAAATT
47805920 AAAATTAAGTGTTCAAG-AATT
1 AAAATTAAG-GTT-AAGAAATT
47805941 AA
1 AA
47805943 TTTGGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 9 0.45
22 3 0.15
ACGTcount: A:0.51, C:0.02, G:0.14, T:0.33
Consensus pattern (20 bp):
AAAATTAAGGTTAAGAAATT
Found at i:47811910 original size:42 final size:43
Alignment explanation
Indices: 47811819--47811977 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
47811809 CAATGTCATA
* **
47811819 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCTACTG
1 TCCCAGATATGGTCTTACACGAAATCACATATCGATGCTACTG
* *
47811862 TCCCAGATAGGGTCTTACACGAAATCATATA-CGATGCTGA-TG
1 TCCCAGATATGGTCTTACACGAAATCACATATCGATGCT-ACTG
* * * * *
47811904 TCCCAGACATTGTCTTACACGTAAATCAAAAATCGATGCCAAC-G
1 TCCCAGATATGGTCTTACACG-AAATCACATATCGATG-CTACTG
* **
47811948 TTCCAGACGTGGTCTTACACGATAA-CACAT
1 TCCCAGATATGGTCTTACACGA-AATCACAT
47811978 CTCGGAATCC
Statistics
Matches: 94, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 27 0.29
43 39 0.41
44 27 0.29
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TCCCAGATATGGTCTTACACGAAATCACATATCGATGCTACTG
Found at i:47820429 original size:21 final size:21
Alignment explanation
Indices: 47820384--47820459 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
47820374 ATCTTCAAGG
47820384 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
47820403 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
47820424 ATATGCAATATTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
47820445 ATAAGCAATCTTAGA
1 ATATGCAATCTTAGA
47820460 AGATATGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 19 0.37
21 33 0.63
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:47820732 original size:23 final size:23
Alignment explanation
Indices: 47820684--47820732 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
47820674 TTGTTCTTAT
* *
47820684 TTTATTGATTTGTGTATAATTTA
1 TTTATTGATTTGTATATAATTGA
**
47820707 TTTATTGATTTGTATATTGTTGA
1 TTTATTGATTTGTATATAATTGA
47820730 TTT
1 TTT
47820733 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.63
Consensus pattern (23 bp):
TTTATTGATTTGTATATAATTGA
Found at i:47821236 original size:23 final size:22
Alignment explanation
Indices: 47821206--47821249 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
47821196 ATAATTCACA
47821206 TACATATATATATTTCTTATATG
1 TACATATATATATTT-TTATATG
47821229 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
47821250 TTTATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:47837693 original size:30 final size:30
Alignment explanation
Indices: 47837635--47837759 Score: 128
Period size: 30 Copynumber: 4.1 Consensus size: 30
47837625 CTCCCTAAGA
* * *
47837635 GAACCCCCTGTACATGCGAATA-CCTATAGGT
1 GAACCCCCT-TGCATGTGAA-ACCCTATAGGC
* * *
47837666 GAATCCTCTTGCATATGAAACCCTATAGGC
1 GAACCCCCTTGCATGTGAAACCCTATAGGC
*
47837696 GAACCCCCTTGCATGTGAAACCCTATAGAC
1 GAACCCCCTTGCATGTGAAACCCTATAGGC
* *
47837726 GAACCCCCTTGTATGTG-AACCCTTATAGGT
1 GAACCCCCTTGCATGTGAAACCC-TATAGGC
47837756 GAAC
1 GAAC
47837760 TCATATGTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
29 6 0.08
30 66 0.84
31 7 0.09
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (30 bp):
GAACCCCCTTGCATGTGAAACCCTATAGGC
Found at i:47837907 original size:30 final size:29
Alignment explanation
Indices: 47837844--47837900 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
47837834 TGAACCATGT
*
47837844 TATGTGTGAACCCTAATGCATGCAAACCCA
1 TATGTGTGAACCC-AATGCAAGCAAACCCA
*
47837874 TATGTGTGAACCC-CTGCAAGCAAACCC
1 TATGTGTGAACCCAATGCAAGCAAACCC
47837901 CTATATGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.48
30 13 0.52
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (29 bp):
TATGTGTGAACCCAATGCAAGCAAACCCA
Found at i:47838067 original size:23 final size:23
Alignment explanation
Indices: 47838037--47838113 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
47838027 TTATATTGCT
47838037 TGTGAACCCTAAATGTTGTTACA
1 TGTGAACCCTAAATGTTGTTACA
* **
47838060 TGTGAACCCTAAATATTACTACA
1 TGTGAACCCTAAATGTTGTTACA
* * *
47838083 TGCGAACGCTACATGTTGTTACA
1 TGTGAACCCTAAATGTTGTTACA
47838106 TGTGAACC
1 TGTGAACC
47838114 TATGTGTTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (23 bp):
TGTGAACCCTAAATGTTGTTACA
Found at i:47849532 original size:90 final size:91
Alignment explanation
Indices: 47849344--47849559 Score: 283
Period size: 90 Copynumber: 2.4 Consensus size: 91
47849334 TATCTATAAA
* * * * *
47849344 ATTCACAACTATCTGGCAGCGCATTAACCTGCAACACTTGTGGTACACCTACCCATTTTTTTGGC
1 ATTCACAACTATCTGGCAACGTATTAACCTGCAACACTGGTGGTACACCTACACATTATTTTGGC
*
47849409 AGCTCTTATATGCAAATATGTTGTGC
66 AGCTCTTATATACAAATATGTTGTGC
* *
47849435 ATTCACAACTATCTGACAACGTATTAACCTGCAACACTGGTGGTTCATCC-ACACA-TATTTTGG
1 ATTCACAACTATCTGGCAACGTATTAACCTGCAACACTGGTGGTACA-CCTACACATTATTTTGG
* * *
47849498 TAGCTCTTATCTACAAATGTGTTGTGC
65 CAGCTCTTATATACAAATATGTTGTGC
* * *
47849525 ATTCACAACCATCTGGCAACATATTAACCTACAAC
1 ATTCACAACTATCTGGCAACGTATTAACCTGCAAC
47849560 TTTGTGATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
90 61 0.56
91 46 0.42
92 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (91 bp):
ATTCACAACTATCTGGCAACGTATTAACCTGCAACACTGGTGGTACACCTACACATTATTTTGGC
AGCTCTTATATACAAATATGTTGTGC
Found at i:47850632 original size:280 final size:281
Alignment explanation
Indices: 47850116--47850675 Score: 899
Period size: 280 Copynumber: 2.0 Consensus size: 281
47850106 AATTATGCAT
*
47850116 AAAATCTTACTTTTATTAAATTAAAACCAAGTTGAATGTCACTTTTCTGCTACTAGTTTTTAGTT
1 AAAATCTTACTTTTATTAAATTAAAACCAAGTTGAATGTCACTTTTCCGCTACTAGTTTTTAGTT
*
47850181 AAAATTAAGGGTAATAAATAAATGGAAAGTTAACTAAGTTTTTCTTAAAAACGATCACCGTTACA
66 AAAATTAAGGGTAATAAATAAATAGAAAGTTAACTAAGTTTTTCTTAAAAACGATCACCGTTACA
* * * *
47850246 TATGAAGGTTAATTTAAAACGGTTTTTGATAACTTGTTGTCTTTTCTGAAAATTGACTAAGTTTT
131 TATGAAGGTTAATCTAAAACGATTTTTGATAACTTGTTATCTTTTCTAAAAATTGACTAAGTTTT
* * ** *
47850311 CTACTATAATAAACAAATATTTAATATGACTGTTTCGAAAACTCAGATAATTTTGGTAGGCCATT
196 CTACTATAATAAACAAATATTTAATATGACTATTTCGAAAACTCAGATAATTCTAATAGACCATT
*
47850376 TCGAAAACCTCCCTATTTTCG
261 TCGAAAACCTCCCCATTTTCG
* * * * *
47850397 AAAATTTTA-TTTTTTTAAATTAAAACTAAGTTTAATGTCACTTTTCCGCTGCTAGTTTTTAGTT
1 AAAATCTTACTTTTATTAAATTAAAACCAAGTTGAATGTCACTTTTCCGCTACTAGTTTTTAGTT
* *
47850461 AAAATTGAGGGTAATAAATAAATAGAAAGTTAACTAAGTTTTTCTTAAAAATGGA-CACCGTTAC
66 AAAATTAAGGGTAATAAATAAATAGAAAGTTAACTAAGTTTTTCTTAAAAA-CGATCACCGTTAC
*
47850525 ATATGAAGGTTAATCTAAAACGATTTTTTATAACTTGTTATCTTTTCTAAAAATTGACTAAGTTT
130 ATATGAAGGTTAATCTAAAACGATTTTTGATAACTTGTTATCTTTTCTAAAAATTGACTAAGTTT
* *
47850590 TCTACTATAATAAACAAATATTTAATATGACTATTTCGAAAACTCCGATAATTCTAATAGACTAT
195 TCTACTATAATAAACAAATATTTAATATGACTATTTCGAAAACTCAGATAATTCTAATAGACCAT
47850655 TTCGAAAACCTCCCCATTTTC
260 TTCGAAAACCTCCCCATTTTC
47850676 TATTTTTTTA
Statistics
Matches: 256, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
280 246 0.96
281 10 0.04
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (281 bp):
AAAATCTTACTTTTATTAAATTAAAACCAAGTTGAATGTCACTTTTCCGCTACTAGTTTTTAGTT
AAAATTAAGGGTAATAAATAAATAGAAAGTTAACTAAGTTTTTCTTAAAAACGATCACCGTTACA
TATGAAGGTTAATCTAAAACGATTTTTGATAACTTGTTATCTTTTCTAAAAATTGACTAAGTTTT
CTACTATAATAAACAAATATTTAATATGACTATTTCGAAAACTCAGATAATTCTAATAGACCATT
TCGAAAACCTCCCCATTTTCG
Found at i:47852141 original size:45 final size:43
Alignment explanation
Indices: 47852050--47852141 Score: 103
Period size: 45 Copynumber: 2.1 Consensus size: 43
47852040 ATTTTATATT
* * * *
47852050 ATTTTATAATTTTTTATTAATATCTTAATAACCTAACAGTTGA
1 ATTTCATAATTTTTTATCAATATCTTAACAACCTAACAGTTAA
** *
47852093 ATTTCATAATTTTTTCTATCAATATCTTAACAATTTAACCGTTAA
1 ATTTCATAA-TTTTT-TATCAATATCTTAACAACCTAACAGTTAA
47852138 ATTT
1 ATTT
47852142 ATCAATATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 8 0.20
44 5 0.12
45 27 0.68
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.49
Consensus pattern (43 bp):
ATTTCATAATTTTTTATCAATATCTTAACAACCTAACAGTTAA
Found at i:47867380 original size:37 final size:37
Alignment explanation
Indices: 47867273--47867380 Score: 112
Period size: 38 Copynumber: 2.9 Consensus size: 37
47867263 TTATTTAATG
** *
47867273 TATCATTATATTAAATTATTTAAATATTATTTATTAT
1 TATCATTATATTAAATTATTTAAATATTATTTACAAA
* * * *
47867310 TAT-ATT-TTTCCTAAAAATGTTTAAATATCATTTACAAA
1 TATCATTATAT--T-AAATTATTTAAATATTATTTACAAA
47867348 TATCATTATATTAAATTATTTAAATATTATTTA
1 TATCATTATATTAAATTATTTAAATATTATTTA
47867381 TCATTATATT
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
35 2 0.04
36 3 0.05
37 22 0.40
38 23 0.42
39 3 0.05
40 2 0.04
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.52
Consensus pattern (37 bp):
TATCATTATATTAAATTATTTAAATATTATTTACAAA
Found at i:47873802 original size:45 final size:45
Alignment explanation
Indices: 47873747--47873837 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
47873737 TGACCTCTTC
*
47873747 CGGTTCCTCCTTCATCCAGGTAAGGCTCTTTCTCCTTCTTCCGTT
1 CGGTTCCTCCTTCATCCAGGTAACGCTCTTTCTCCTTCTTCCGTT
47873792 CGGTTCCTCCTTCATCCAGGTAACGCTCTTTCTCCTTCTTCCGTT
1 CGGTTCCTCCTTCATCCAGGTAACGCTCTTTCTCCTTCTTCCGTT
47873837 C
1 C
47873838 TTCATTCCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.09, C:0.37, G:0.14, T:0.40
Consensus pattern (45 bp):
CGGTTCCTCCTTCATCCAGGTAACGCTCTTTCTCCTTCTTCCGTT
Found at i:47877600 original size:59 final size:58
Alignment explanation
Indices: 47877534--47877711 Score: 134
Period size: 60 Copynumber: 3.0 Consensus size: 58
47877524 ATTTAATCAT
*
47877534 AATTATTTTAAATTATATTTTATAGTATAATATATTAGGATTTTAGTAAATTCATATAAG
1 AATTATTTTAAATTATATTTTATA-TATAATATATTA-AATTTTAGTAAATTCATATAAG
* * * * *
47877594 AA-TA-TTTAATACTAAGAATTTTAT-TA-AAT-TA-TATATTTTTGTTAAATTATATTTAATAA
1 AATTATTTTAA-A-TTA-TATTTTATATATAATATATTAAATTTTAG-TAAATT-CA--T-ATAA
*
47877653 T
58 G
*
47877654 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
1 AATTATTTTAAATTATATTTTAT-ATATAATATATTA-AATTTTAGTAAATTCATATA
47877712 TTCTATTAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 32
0.67 0.09 0.24
Matches are distributed among these distances:
55 6 0.07
56 8 0.09
57 3 0.03
58 8 0.09
59 13 0.14
60 15 0.17
61 13 0.14
62 7 0.08
63 3 0.03
64 8 0.09
65 6 0.07
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (58 bp):
AATTATTTTAAATTATATTTTATATATAATATATTAAATTTTAGTAAATTCATATAAG
Found at i:47877641 original size:120 final size:120
Alignment explanation
Indices: 47877472--47877711 Score: 435
Period size: 120 Copynumber: 2.0 Consensus size: 120
47877462 TACAATCATT
*
47877472 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATCATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
* *
47877537 TATTTTAAATTATATTTTATAGTATAATATATTAGGATTTTAGTAAATTCATATA
66 TATTTTAAATTATATTTTATAATATAATATATTAGAATTTTAGTAAATTCATATA
47877592 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
* *
47877657 TATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
66 TATTTTAAATTATATTTTATAATATAATATATTAGAATTTTAGTAAATTCATATA
47877712 TTCTATTAAA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
TATTTTAAATTATATTTTATAATATAATATATTAGAATTTTAGTAAATTCATATA
Found at i:47877664 original size:26 final size:25
Alignment explanation
Indices: 47877626--47877684 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
47877616 ATTAAATTAT
*
47877626 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
47877652 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
47877678 ATATTAT
1 ATATTAT
47877685 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:47877683 original size:15 final size:15
Alignment explanation
Indices: 47877639--47877694 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
47877629 TTTTTGTTAA
*
47877639 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
47877654 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
47877665 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
47877680 ATTATATATTATAAT
1 ATTATATTTTATAAT
47877695 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:47883610 original size:33 final size:33
Alignment explanation
Indices: 47883573--47883689 Score: 117
Period size: 33 Copynumber: 3.5 Consensus size: 33
47883563 AATCCAGACT
* *
47883573 AGTAGCAGGGATGATGCCCCTATATGCAGCCCA
1 AGTAGCAGGGATGATGCCCCTATAAGCAGGCCA
* * ** **
47883606 AGTAGTAGGAATGATGTTCAAATAAGCAGGCCA
1 AGTAGCAGGGATGATGCCCCTATAAGCAGGCCA
* * **
47883639 AGTAGCAGTGATGGTGCCCCTATAAGCAGGTTA
1 AGTAGCAGGGATGATGCCCCTATAAGCAGGCCA
*
47883672 AGTAGCAGCGATGATGCC
1 AGTAGCAGGGATGATGCC
47883690 TCAATAATCA
Statistics
Matches: 64, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.21
Consensus pattern (33 bp):
AGTAGCAGGGATGATGCCCCTATAAGCAGGCCA
Found at i:47883696 original size:66 final size:66
Alignment explanation
Indices: 47883573--47883701 Score: 145
Period size: 66 Copynumber: 2.0 Consensus size: 66
47883563 AATCCAGACT
* * *
47883573 AGTAGCAGGGATGATGCCCCTATATGCAGCCCAAGTAGTAGGAATGATGTTCAAATAAGCAGGCC
1 AGTAGCAGGGATGATGCCCCTATAAGCAGCCCAAGTAGCAGGAATGATGCTCAAATAAGCAGGCC
47883638 A
66 A
* * *** *
47883639 AGTAGCAGTGATGGTGCCCCTATAAGCAGGTTAAGTAGCAGCG-ATGATGCCTC-AATAATCAGG
1 AGTAGCAGGGATGATGCCCCTATAAGCAGCCCAAGTAGCAG-GAATGATG-CTCAAATAAGCAGG
47883702 TTAAGTATTG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
66 49 0.94
67 3 0.06
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (66 bp):
AGTAGCAGGGATGATGCCCCTATAAGCAGCCCAAGTAGCAGGAATGATGCTCAAATAAGCAGGCC
A
Found at i:47883702 original size:33 final size:33
Alignment explanation
Indices: 47883573--47883708 Score: 103
Period size: 33 Copynumber: 4.1 Consensus size: 33
47883563 AATCCAGACT
* * * ***
47883573 AGTAGCAGGGATGATGCCCCTATATGCAGCCCA
1 AGTAGCAGCGATGATGCCCCAATAAGCAGGTTA
* ** * **
47883606 AGTAGTAG-GAATGATGTTCAAATAAGCAGGCCA
1 AGTAGCAGCG-ATGATGCCCCAATAAGCAGGTTA
* * *
47883639 AGTAGCAGTGATGGTGCCCCTATAAGCAGGTTA
1 AGTAGCAGCGATGATGCCCCAATAAGCAGGTTA
* *
47883672 AGTAGCAGCGATGATGCCTCAATAATCAGGTTA
1 AGTAGCAGCGATGATGCCCCAATAAGCAGGTTA
47883705 AGTA
1 AGTA
47883709 TTGGGGGAAA
Statistics
Matches: 81, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.22
Consensus pattern (33 bp):
AGTAGCAGCGATGATGCCCCAATAAGCAGGTTA
Found at i:47888905 original size:14 final size:13
Alignment explanation
Indices: 47888876--47888913 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
47888866 TATTCTTAAC
47888876 AAATATTTGAATT
1 AAATATTTGAATT
47888889 AAATATTTGATATT
1 AAATATTTGA-ATT
47888903 AAA-ATTT-AATT
1 AAATATTTGAATT
47888914 GATAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 1 0.04
13 14 0.58
14 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (13 bp):
AAATATTTGAATT
Found at i:47894043 original size:3 final size:3
Alignment explanation
Indices: 47894035--47894073 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
47894025 AAGGCAATAA
47894035 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
47894074 AATGTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:47896756 original size:13 final size:13
Alignment explanation
Indices: 47896721--47896758 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
47896711 GAGATATTTG
*
47896721 TAATTTGAAAAGT
1 TAATTTGAAAACT
47896734 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
47896748 TAATTTGAAAA
1 TAATTTGAAAA
47896759 TTTGGAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:47897092 original size:34 final size:34
Alignment explanation
Indices: 47896996--47897194 Score: 220
Period size: 34 Copynumber: 5.8 Consensus size: 34
47896986 TCTCTTGTCT
* *
47896996 TTTCTTGCAGGGAA-CATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATC-TTTCATGTTCACGCATCA
* ** * * *
47897030 TTTTGTTATAGAGAATCTCTCATGTTCACACATCA
1 -TTTCTTGCAGGGAATCTTTCATGTTCACGCATCA
* *
47897065 TTTCTTGCAGGGAATCTTTCCTCTTCACGCATCA
1 TTTCTTGCAGGGAATCTTTCATGTTCACGCATCA
* *
47897099 TTTCTTGCAGGGAATATTTCATGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCATGTTCACGCATCA
* * *
47897133 TTTTGTTGCAGGGAATCTCTCATGTTCACACATCA
1 -TTTCTTGCAGGGAATCTTTCATGTTCACGCATCA
*
47897168 TTTCTTGCAGGGAATCTCTCATGTTCA
1 TTTCTTGCAGGGAATCTTTCATGTTCA
47897195 TACATCAATT
Statistics
Matches: 136, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
34 82 0.60
35 53 0.39
36 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCATGTTCACGCATCA
Found at i:47897128 original size:103 final size:103
Alignment explanation
Indices: 47896996--47897184 Score: 333
Period size: 103 Copynumber: 1.8 Consensus size: 103
47896986 TCTCTTGTCT
* *
47896996 TTTCTTGCAGGGAACATTTCCTGTTCACGCATTATTTTGTTATAGAGAATCTCTCATGTTCACAC
1 TTTCTTGCAGGGAACATTTCATGTTCACGCATTATTTTGTTACAGAGAATCTCTCATGTTCACAC
47897061 ATCATTTCTTGCAGGGAATCTTTCCTCTTCACGCATCA
66 ATCATTTCTTGCAGGGAATCTTTCCTCTTCACGCATCA
* * *
47897099 TTTCTTGCAGGGAATATTTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACAC
1 TTTCTTGCAGGGAACATTTCATGTTCACGCATTATTTTGTTACAGAGAATCTCTCATGTTCACAC
47897164 ATCATTTCTTGCAGGGAATCT
66 ATCATTTCTTGCAGGGAATCT
47897185 CTCATGTTCA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (103 bp):
TTTCTTGCAGGGAACATTTCATGTTCACGCATTATTTTGTTACAGAGAATCTCTCATGTTCACAC
ATCATTTCTTGCAGGGAATCTTTCCTCTTCACGCATCA
Found at i:47897142 original size:69 final size:69
Alignment explanation
Indices: 47896995--47897201 Score: 247
Period size: 69 Copynumber: 3.0 Consensus size: 69
47896985 TTCTCTTGTC
* * ** *
47896995 TTTTCTTGCAGGGAA-CATTTCCTGTTCACGCATTATTTTGTTATAGAGAATCTCTCATGTTCAC
1 TTTTCTTGCAGGGAATC-TTTCCTGTTCACGCATCA-TTTCTTGCAGGGAATCTCTCATGTTCAC
47897059 ACATCA
64 ACATCA
* * * *
47897065 -TTTCTTGCAGGGAATCTTTCCTCTTCACGCATCATTTCTTGCAGGGAATATTTCATGTTCACGC
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTCTCATGTTCACAC
*
47897129 ATTA
66 ATCA
* * * * *
47897133 TTTTGTTGCAGGGAATCTCTCATGTTCACACATCATTTCTTGCAGGGAATCTCTCATGTTCATAC
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTCTCATGTTCACAC
47897198 ATCA
66 ATCA
47897202 ATTCTGGTAT
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
68 26 0.23
69 88 0.77
70 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (69 bp):
TTTTCTTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTCTCATGTTCACAC
ATCA
Found at i:47897200 original size:34 final size:34
Alignment explanation
Indices: 47897042--47897206 Score: 222
Period size: 34 Copynumber: 4.8 Consensus size: 34
47897032 TTGTTATAGA
47897042 GAATCTCTCATGTTCACACATCATTTCTTGCAGG
1 GAATCTCTCATGTTCACACATCATTTCTTGCAGG
* * * *
47897076 GAATCTTTCCTCTTCACGCATCATTTCTTGCAGG
1 GAATCTCTCATGTTCACACATCATTTCTTGCAGG
* * * * *
47897110 GAATATTTCATGTTCACGCATTATTTTGTTGCAGG
1 GAATCTCTCATGTTCACACATCA-TTTCTTGCAGG
47897145 GAATCTCTCATGTTCACACATCATTTCTTGCAGG
1 GAATCTCTCATGTTCACACATCATTTCTTGCAGG
* *
47897179 GAATCTCTCATGTTCATACATCAATTCT
1 GAATCTCTCATGTTCACACATCATTTCT
47897207 GGTATTATTC
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
34 85 0.75
35 29 0.25
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (34 bp):
GAATCTCTCATGTTCACACATCATTTCTTGCAGG
Found at i:47897201 original size:103 final size:103
Alignment explanation
Indices: 47896996--47897206 Score: 323
Period size: 103 Copynumber: 2.0 Consensus size: 103
47896986 TCTCTTGTCT
* *
47896996 TTTCTTGCAGGGAACATTTCCTGTTCACGCATTATTTTGTTATAGAGAATCTCTCATGTTCACAC
1 TTTCTTGCAGGGAACATTTCATGTTCACGCATTATTTTGTTACAGAGAATCTCTCATGTTCACAC
* * *
47897061 ATCATTTCTTGCAGGGAATCTTTCCTCTTCACGCATCA
66 ATCATTTCTTGCAGGGAATCTCTCATCTTCACACATCA
* * *
47897099 TTTCTTGCAGGGAATATTTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACAC
1 TTTCTTGCAGGGAACATTTCATGTTCACGCATTATTTTGTTACAGAGAATCTCTCATGTTCACAC
* *
47897164 ATCATTTCTTGCAGGGAATCTCTCATGTTCATACATCA
66 ATCATTTCTTGCAGGGAATCTCTCATCTTCACACATCA
*
47897202 ATTCT
1 TTTCT
47897207 GGTATTATTC
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (103 bp):
TTTCTTGCAGGGAACATTTCATGTTCACGCATTATTTTGTTACAGAGAATCTCTCATGTTCACAC
ATCATTTCTTGCAGGGAATCTCTCATCTTCACACATCA
Found at i:47900273 original size:41 final size:38
Alignment explanation
Indices: 47900228--47900314 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 38
47900218 TTTTTAGATT
* *
47900228 TTTTTTGAAATTTTTATAAATTTTTAAATATATATTTTGGA
1 TTTTTTGAAATATTT-TAAA-TTTTAAA-ATATATTTTGAA
* * *
47900269 TTTTTTATAAATATTTTGAATTTTAAAATTTATTTTGAA
1 TTTTTT-GAAATATTTTAAATTTTAAAATATATTTTGAA
47900308 TTTTTTG
1 TTTTTTG
47900315 TAATCTTTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
39 16 0.41
40 7 0.18
41 9 0.23
42 7 0.18
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (38 bp):
TTTTTTGAAATATTTTAAATTTTAAAATATATTTTGAA
Found at i:47901010 original size:21 final size:21
Alignment explanation
Indices: 47900981--47901023 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
47900971 ATAAACAACA
**
47900981 TAATAGTTTTGCCTTTTAACT
1 TAATAGTTTTAACTTTTAACT
*
47901002 TAATGGTTTTAACTTTTAACT
1 TAATAGTTTTAACTTTTAACT
47901023 T
1 T
47901024 TAGAAAAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (21 bp):
TAATAGTTTTAACTTTTAACT
Found at i:47902808 original size:22 final size:21
Alignment explanation
Indices: 47902757--47902810 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
47902747 CCCATTTTTA
47902757 ATTAAAATTAAAAAAAAATTT
1 ATTAAAATTAAAAAAAAATTT
* ** *
47902778 AATAAAATTAAAACTAATTGTT
1 ATTAAAATTAAAAAAAAAT-TT
47902800 ATTAAAATTAA
1 ATTAAAATTAA
47902811 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTAAAATTAAAAAAAAATTT
Found at i:47902823 original size:16 final size:16
Alignment explanation
Indices: 47902786--47902825 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
47902776 TTAATAAAAT
* *
47902786 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
47902802 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
47902818 TAAAATTA
1 TAAAATTA
47902826 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:47902855 original size:59 final size:65
Alignment explanation
Indices: 47902792--47902956 Score: 207
Period size: 68 Copynumber: 2.6 Consensus size: 65
47902782 AAATTAAAAC
*
47902792 TAATTGTTATTAAAAT-T-A-A-TTG-TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTAT
1 TAATTGTTAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTGTAT
*
47902851 TAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAATTG
1 TAATTG-T-TAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTG-ATTAATTG
47902916 TAT
63 TAT
* *
47902919 TAATTGTTGTAACAAAATCTAACATTTGACTAGTAAAA
1 TAATTG-T-TAATAAAATCTAACATTTGATTAGTAAAA
47902957 CAAACTTGAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
59 6 0.07
60 1 0.01
61 8 0.09
62 1 0.01
63 1 0.01
64 1 0.01
65 3 0.03
66 26 0.28
68 45 0.49
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (65 bp):
TAATTGTTAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTGTAT
Found at i:47902895 original size:66 final size:67
Alignment explanation
Indices: 47902814--47902956 Score: 243
Period size: 68 Copynumber: 2.1 Consensus size: 67
47902804 AAATTAATTG
*
47902814 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
47902878 GA
66 GA
*
47902880 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
47902945 TGA
65 TGA
*
47902948 CTAGTAAAA
1 TTAGTAAAA
47902957 CAAACTTGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 26 0.37
68 45 0.63
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
GA
Found at i:47902910 original size:9 final size:9
Alignment explanation
Indices: 47902898--47902925 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
47902888 TTTATCAAAT
47902898 TATTAATTG
1 TATTAATTG
47902907 TATTAATTG
1 TATTAATTG
47902916 TATTAATTG
1 TATTAATTG
47902925 T
1 T
47902926 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:47903062 original size:22 final size:24
Alignment explanation
Indices: 47903022--47903065 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
47903012 AAATAAACTT
47903022 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
47903046 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
47903066 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:47913483 original size:30 final size:30
Alignment explanation
Indices: 47913447--47913514 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
47913437 AAAGATTGTA
*
47913447 AATAATTTTAAGTATTCAATCAAAAATTAT
1 AATAATTTTAAGTATGCAATCAAAAATTAT
**
47913477 AATAATTTTAAGTATGGTATCAAAAATTAT
1 AATAATTTTAAGTATGCAATCAAAAATTAT
47913507 AATAATTT
1 AATAATTT
47913515 CATCAATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (30 bp):
AATAATTTTAAGTATGCAATCAAAAATTAT
Found at i:47915394 original size:30 final size:30
Alignment explanation
Indices: 47915330--47915394 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
47915320 CATTGTCATT
* *
47915330 TTCATCTTCATCTCCATCTCCACATCAATT
1 TTCATCTTCATCTCCATCTCAACATCAATC
* *
47915360 TTCATCTTCATCTTCATCTCTAACAT-TATC
1 TTCATCTTCATCTCCATCTC-AACATCAATC
47915390 TTCAT
1 TTCAT
47915395 ATTGTTATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (30 bp):
TTCATCTTCATCTCCATCTCAACATCAATC
Found at i:47916316 original size:20 final size:19
Alignment explanation
Indices: 47916291--47916337 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
47916281 ATTAATTATT
47916291 TATAAAATTTAATTAGAATA
1 TATAAAATTTAATTA-AATA
* * *
47916311 TATAAACTATATTTAAATA
1 TATAAAATTTAATTAAATA
47916330 TA-AAAATT
1 TATAAAATT
47916338 AAATATTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAAAATTTAATTAAATA
Found at i:47921649 original size:22 final size:21
Alignment explanation
Indices: 47921624--47921675 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 21
47921614 TTATCCATTC
47921624 AAATATTATAATAGAAA-ATTTT
1 AAATATTA-AATA-AAACATTTT
*
47921646 AAATAATAAATAAAACGATTTT
1 AAATATTAAATAAAAC-ATTTT
47921668 AACATATT
1 AA-ATATT
47921676 CAGCAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 3 0.12
21 4 0.16
22 14 0.56
23 4 0.16
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
AAATATTAAATAAAACATTTT
Found at i:47921797 original size:24 final size:23
Alignment explanation
Indices: 47921745--47921797 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
47921735 TTTTTTAAAT
47921745 TAATAATTCTAAATTAAATATTA
1 TAATAATTCTAAATTAAATATTA
* *
47921768 TAAATATTTTTAAATATAAAT-TTAA
1 T-AATAATTCTAAAT-TAAATATT-A
47921793 TAATA
1 TAATA
47921798 CAATGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.04
24 17 0.68
25 7 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAATTCTAAATTAAATATTA
Found at i:47925434 original size:17 final size:17
Alignment explanation
Indices: 47925391--47925445 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
47925381 CTAAAATTTT
*
47925391 TAATAAATAATATAA-A
1 TAATTAATAATATAATA
47925407 TCAA-TATATAATATAATA
1 T-AATTA-ATAATATAATA
47925425 TAATTAATAATTATACATA
1 TAATTAATAA-TATA-ATA
47925444 TA
1 TA
47925446 TATGTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
16 2 0.06
17 17 0.53
18 8 0.25
19 5 0.16
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATTAATAATATAATA
Found at i:47930365 original size:52 final size:52
Alignment explanation
Indices: 47930303--47930411 Score: 209
Period size: 52 Copynumber: 2.1 Consensus size: 52
47930293 ATACTTGACG
47930303 AGTTTATTCTCTAGCAATTTACGAGCCTTTTTAATACTTCTTATTGATTTTT
1 AGTTTATTCTCTAGCAATTTACGAGCCTTTTTAATACTTCTTATTGATTTTT
*
47930355 AGTTTATTCTCTAGCAATTTATGAGCCTTTTTAATACTTCTTATTGATTTTT
1 AGTTTATTCTCTAGCAATTTACGAGCCTTTTTAATACTTCTTATTGATTTTT
47930407 AGTTT
1 AGTTT
47930412 TTAAAGTTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.53
Consensus pattern (52 bp):
AGTTTATTCTCTAGCAATTTACGAGCCTTTTTAATACTTCTTATTGATTTTT
Found at i:47936245 original size:3 final size:3
Alignment explanation
Indices: 47936237--47936265 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
47936227 CTTAATAAAT
47936237 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
47936266 CTCATTCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:47936366 original size:8 final size:8
Alignment explanation
Indices: 47936355--47936383 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
47936345 TATATTTGCT
47936355 TATATATG
1 TATATATG
47936363 TATATATG
1 TATATATG
47936371 TATATATG
1 TATATATG
47936379 TATAT
1 TATAT
47936384 CTATTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (8 bp):
TATATATG
Found at i:47936450 original size:16 final size:16
Alignment explanation
Indices: 47936429--47936464 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
47936419 ATACCTTTTT
47936429 TATATATGTATATCTA
1 TATATATGTATATCTA
47936445 TATATATGTATATCTA
1 TATATATGTATATCTA
47936461 TATA
1 TATA
47936465 CTTTCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
TATATATGTATATCTA
Found at i:47940833 original size:19 final size:20
Alignment explanation
Indices: 47940809--47940871 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
47940799 ATGAATGTCC
47940809 AAAAAAAAAAGAACA-AAAA
1 AAAAAAAAAAGAACAGAAAA
47940828 AAAAAAAAAAGAACAGAAAA
1 AAAAAAAAAAGAACAGAAAA
** *
47940848 AAAAGGAAAAGAAAAGAAGAA
1 AAAAAAAAAAGAACAGAA-AA
47940869 AAA
1 AAA
47940872 GAAGAGGCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
19 15 0.38
20 19 0.49
21 5 0.13
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAGAACAGAAAA
Found at i:47940847 original size:15 final size:15
Alignment explanation
Indices: 47940824--47940862 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
47940814 AAAAAGAACA
*
47940824 AAAAAAAAAAAAAAG
1 AAAAGAAAAAAAAAG
* *
47940839 AACAGAAAAAAAAGG
1 AAAAGAAAAAAAAAG
47940854 AAAAGAAAA
1 AAAAGAAAA
47940863 GAAGAAAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:47940847 original size:16 final size:17
Alignment explanation
Indices: 47940809--47940851 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
47940799 ATGAATGTCC
47940809 AAAAAAAAAAGAACAAAAA
1 AAAAAAAAAAGAAC--AAA
47940828 AAAAAAAAAAGAACAGAA
1 AAAAAAAAAAGAACA-AA
47940846 AAAAAA
1 AAAAAA
47940852 GGAAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.04
18 8 0.35
19 14 0.61
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAACAAA
Found at i:47940871 original size:14 final size:14
Alignment explanation
Indices: 47940809--47940874 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 14
47940799 ATGAATGTCC
47940809 AAAAA-AAAAAG-A
1 AAAAAGAAAAAGAA
*
47940821 ACAAA-AAAAA-AA
1 AAAAAGAAAAAGAA
*
47940833 AAAAAG-AACAGAAA
1 AAAAAGAAAAAG-AA
*
47940847 AAAAAGGAAAAGAA
1 AAAAAGAAAAAGAA
*
47940861 AAGAAGAAAAAGAA
1 AAAAAGAAAAAGAA
47940875 GAGGCCAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
12 17 0.40
14 22 0.51
15 4 0.09
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:47940871 original size:34 final size:34
Alignment explanation
Indices: 47940810--47940874 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
47940800 TGAATGTCCA
47940810 AAAAAAAAAGAACAAAAAAAAAAAAAAAGAACAG
1 AAAAAAAAAGAACAAAAAAAAAAAAAAAGAACAG
* * *
47940844 AAAAAAAAGGAA-AAGAAAAGAAGAAAAAGAA
1 AAAAAAAAAGAACAA-AAAAAAAAAAAAAGAA
47940875 GAGGCCAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 2 0.07
34 25 0.93
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (34 bp):
AAAAAAAAAGAACAAAAAAAAAAAAAAAGAACAG
Found at i:47941308 original size:91 final size:92
Alignment explanation
Indices: 47941206--47941377 Score: 231
Period size: 93 Copynumber: 1.9 Consensus size: 92
47941196 ATATCTTAGC
* * * * *
47941206 AAATTTTCTATCTTG-TTTATTTATT-ATTTCGAGCTTTGTTTTCAATAAAATTCCATCTTATCC
1 AAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTCCATCTTATCC
47941269 ATTGTCATAATACTTTTCATCTTATTCA
66 ATTGTCATAAT-CTTTTCATCTTATTCA
* * *
47941297 AAATTTGCTATCTTGATTAATTTATTCATTTTGAGCCTTATTCTCAATAAAATTCCATTTTGTCC
1 AAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTCCATCTTATCC
* *
47941362 ATTTTGATAATCTTTT
66 ATTGTCATAATCTTTT
47941378 TCAAGCATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
91 14 0.20
92 14 0.20
93 41 0.59
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (92 bp):
AAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTCCATCTTATCC
ATTGTCATAATCTTTTCATCTTATTCA
Found at i:47943982 original size:46 final size:46
Alignment explanation
Indices: 47942274--47943960 Score: 2224
Period size: 46 Copynumber: 36.7 Consensus size: 46
47942264 GACTAGAAGC
* * * *
47942274 AGCAGATCTCGTCTTCCTGTATTTGGCAGCGAAGTAAATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* *
47942320 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGGAGATTGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
*
47942366 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
47942412 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTG-GATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
* *
47942458 AGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGTG-GATCGAACAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
* * *
47942504 AGCAGATCTTGTCTTCTTATATTTGGCAGCGGAGTG-GATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
* * * *
47942550 AGCGGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * * *
47942596 AGCGGATCTTATCTTCCTGTATTTGACAGCGGAGGAGATCGAATAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* *
47942642 AGC-GAATCTTATCTTCTTGTATTTGGCAGCGGAGGAGATCGAAGAT
1 AGCAG-ATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * * **
47942688 AGTAGATCTTATCTTCTTGTATTTGGCAGTAGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* *
47942734 AGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* *
47942780 AGCAGATCTTGTCTTCCTGTATTTAGCAACGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
47942826 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * *
47942872 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAAGAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * * *
47942918 AGCGGGTCTTCTCTTCCTGTATTTGGCAGCGAAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
*
47942964 AGC-GAATCTTGTCTTCCTGTATTTGGCAGCGGAAGAGATCGAAGAT
1 AGCAG-ATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* *
47943010 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCAAAAAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * * *
47943056 AGCGGGTCTTCTCTTCCTGTATTTGGCAGCGAAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
47943102 AGC-GAATCTTGTCTTCCTGTATTTGGCAGCGGAGTG-GATCGAAGAT
1 AGCAG-ATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
* * * *
47943148 AGCAGATATTATCTTCCTGTATTTGGCAGCGGAGTGA-ATCAAAAAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
* * * * *
47943194 AGCGGATCTTATCTTCCTATATTTGGCAGCAGAGGAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * *
47943240 AGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * * *
47943286 AGCGGATCTTATCTTCCTGTATTTGGCAGCAGAGGATATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * *
47943332 AGTAAATCTTGTCTTCCTATATTTGGCAGCGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * *
47943378 AGCAGATCTTGTCTTCCTGTATTTGGCAACGGATTG-GATCGAAAAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGAGATCGAAGAT
* * * *
47943424 AGCAGAACTTGTCTTTCTGTATTTGGCTGCGGTGTG-GATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
* ** *
47943470 AGCAGATCATGTCTTCCTGTATTTGGCAGTAGAAGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* *
47943516 AGTAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTG-GATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
* *
47943562 AGCAGATCTTGTCTTCTTGTATTTGGCAGCAGAGTG-GATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
* *
47943608 AGCAGATCTTGTCTTCTTGTATTTGGCAGCAGAGTG-GATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
*
47943654 AGCATATCTTGTCTTCCTGTATTTGGCAGCGGAGTG-GATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
* *
47943700 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTG-GATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
* * * *
47943746 AGCAGATCTTGTCTTCCTGTATTTGTCAGTGGAGTG-GGTCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
47943792 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTG-GATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
** **
47943838 AGCAGATCTTGTCTTCCTGTATTTGATAGCGGAGTG-GATTAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
*
47943884 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTG-GATCGAATAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCGAAGAT
*
47943930 AGCAGATCTTGTCTTCCTGTATTTAGCAGCG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCG
47943961 AATTAGATTG
Statistics
Matches: 1493, Mismatches: 133, Indels: 30
0.90 0.08 0.02
Matches are distributed among these distances:
45 7 0.00
46 1479 0.99
47 7 0.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
Found at i:47945514 original size:8 final size:8
Alignment explanation
Indices: 47945503--47945531 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
47945493 TATATTTGCT
47945503 TATATATG
1 TATATATG
47945511 TATATATG
1 TATATATG
47945519 TATATATG
1 TATATATG
47945527 TATAT
1 TATAT
47945532 CTATTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (8 bp):
TATATATG
Found at i:47945598 original size:16 final size:16
Alignment explanation
Indices: 47945577--47945612 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
47945567 ATACCTTTTT
47945577 TATATATGTATATCTA
1 TATATATGTATATCTA
47945593 TATATATGTATATCTA
1 TATATATGTATATCTA
47945609 TATA
1 TATA
47945613 CTTTCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
TATATATGTATATCTA
Found at i:47946327 original size:64 final size:64
Alignment explanation
Indices: 47946226--47946351 Score: 234
Period size: 64 Copynumber: 2.0 Consensus size: 64
47946216 CGCGTTTCAG
47946226 AAATTCAAGACATTGTGTCTTAACTTACTGGATATGATTCTCTTTCTCGAATAACGTGAAATGA
1 AAATTCAAGACATTGTGTCTTAACTTACTGGATATGATTCTCTTTCTCGAATAACGTGAAATGA
* *
47946290 AAATTCGAGACATTGTGTCTTAATTTACTGGATATGATTCTCTTTCTCGAATAACGTGAAAT
1 AAATTCAAGACATTGTGTCTTAACTTACTGGATATGATTCTCTTTCTCGAATAACGTGAAAT
47946352 ATGCTCATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (64 bp):
AAATTCAAGACATTGTGTCTTAACTTACTGGATATGATTCTCTTTCTCGAATAACGTGAAATGA
Found at i:47949422 original size:32 final size:29
Alignment explanation
Indices: 47949380--47949475 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 29
47949370 ATGATACATA
47949380 AAAT-ATTTTAGAATTTTAAATATAATAAT
1 AAATGATTTTAGAATTTTAAATATAAT-AT
*
47949409 AAATGATACTTTAGAATTTT-AATGATACAT-G
1 AAATGAT--TTTAGAATTTTAAAT-ATA-ATAT
47949440 AAAT-ATTTTAGAATTTTAAATATAATTAT
1 AAATGATTTTAGAATTTTAAATATAA-TAT
47949469 AAATGAT
1 AAATGAT
47949476 GTTTTTGAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 17
0.75 0.03 0.23
Matches are distributed among these distances:
27 1 0.02
28 15 0.27
29 11 0.20
30 6 0.11
31 7 0.12
32 14 0.25
33 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (29 bp):
AAATGATTTTAGAATTTTAAATATAATAT
Found at i:47949444 original size:60 final size:60
Alignment explanation
Indices: 47949368--47949497 Score: 206
Period size: 60 Copynumber: 2.2 Consensus size: 60
47949358 GCTATAAATC
47949368 TAATGATACATAAAATATTTTAGAATTTTAAATATAATAATAAATGATACTTTAGAATTT
1 TAATGATACATAAAATATTTTAGAATTTTAAATATAATAATAAATGATACTTTAGAATTT
* * ** * *
47949428 TAATGATACATGAAATATTTTAGAATTTTAAATATAATTATAAATGATGTTTTTGAGTTT
1 TAATGATACATAAAATATTTTAGAATTTTAAATATAATAATAAATGATACTTTAGAATTT
47949488 TAATGATACA
1 TAATGATACA
47949498 AAGTGTTGGC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (60 bp):
TAATGATACATAAAATATTTTAGAATTTTAAATATAATAATAAATGATACTTTAGAATTT
Found at i:47950058 original size:18 final size:18
Alignment explanation
Indices: 47950019--47950060 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
47950009 TTCAAAGTGT
*
47950019 AATTAATTTAAAATTTTC
1 AATTAATTTAAAATTTTA
*
47950037 AATTAA-TTAAATTTATTA
1 AATTAATTTAAAATT-TTA
47950055 AATTAA
1 AATTAA
47950061 AAACTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTAATTTAAAATTTTA
Found at i:47955671 original size:25 final size:25
Alignment explanation
Indices: 47955652--47955700 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
47955642 CAATAGTTAG
47955652 TAATTAAAAACATGTAAATATTAAA
1 TAATTAAAAACATGTAAATATTAAA
47955677 TAATTAAAAACATGTAAATATTAA
1 TAATTAAAAACATGTAAATATTAA
47955701 TACATCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (25 bp):
TAATTAAAAACATGTAAATATTAAA
Found at i:47957422 original size:104 final size:104
Alignment explanation
Indices: 47957242--47957465 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
47957232 TGTATATAAA
** * *
47957242 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
47957307 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
47957346 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
47957410 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
47957450 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
47957466 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:47957517 original size:71 final size:72
Alignment explanation
Indices: 47957384--47957535 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
47957374 TCATTGGTGG
* *
47957384 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47957449 GAGGGGT
66 GAGGGGT
***
47957456 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47957520 GAGGGGT
66 GAGGGGT
47957527 TGCTAAGTG
1 TGCTAAGTG
47957536 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:47959601 original size:126 final size:126
Alignment explanation
Indices: 47959376--47959625 Score: 455
Period size: 126 Copynumber: 2.0 Consensus size: 126
47959366 ATCTTTACCT
*
47959376 ACTACTAATAGTAATAATTTTTGTGTTATTACCATATCAGTTTCTAACATATCTACTATCGATTT
1 ACTACTAATAGTAATAATTTTTATGTTATTACCATATCAGTTTCTAACATATCTACTATCGATTT
47959441 ATCATTGTTCTCGACTCAGTGGGTATTGGGGATGTTACAGTTAGGACTTGAATCCAAACCC
66 ATCATTGTTCTCGACTCAGTGGGTATTGGGGATGTTACAGTTAGGACTTGAATCCAAACCC
* *
47959502 ACTACTAATAGTAATAATTTTTATGTTATTACCATCTCAGTTTCTAACATATCTACTCTCGATTT
1 ACTACTAATAGTAATAATTTTTATGTTATTACCATATCAGTTTCTAACATATCTACTATCGATTT
* *
47959567 ATCATTGTTCTTGACTCAGTGGGTATTTGGGATGTTACAGTTAGGACTTGAATCCAAAC
66 ATCATTGTTCTCGACTCAGTGGGTATTGGGGATGTTACAGTTAGGACTTGAATCCAAAC
47959626 TCGTTTGTCA
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 119 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (126 bp):
ACTACTAATAGTAATAATTTTTATGTTATTACCATATCAGTTTCTAACATATCTACTATCGATTT
ATCATTGTTCTCGACTCAGTGGGTATTGGGGATGTTACAGTTAGGACTTGAATCCAAACCC
Found at i:47968716 original size:32 final size:32
Alignment explanation
Indices: 47968675--47968740 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
47968665 AGAAAAGTAA
47968675 TGCGGGTGCATGGCTGAAATGTCGATATTGAT
1 TGCGGGTGCATGGCTGAAATGTCGATATTGAT
47968707 TGCGGGTGCATGGCTGAAATGTCGATATTGAT
1 TGCGGGTGCATGGCTGAAATGTCGATATTGAT
47968739 TG
1 TG
47968741 GAAGTATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.35, T:0.32
Consensus pattern (32 bp):
TGCGGGTGCATGGCTGAAATGTCGATATTGAT
Found at i:47993673 original size:123 final size:123
Alignment explanation
Indices: 47993454--47993698 Score: 472
Period size: 123 Copynumber: 2.0 Consensus size: 123
47993444 GGGAAGAGCT
47993454 TGATGAAAAGGCCTTGTCTGCAATCCAGTTGTGCCTCGCGAATACAGTATTGCAGGAGGTATTGA
1 TGATGAAAAGGCCTTGTCTGCAATCCAGTTGTGCCTCGCGAATACAGTATTGCAGGAGGTATTGA
47993519 TGGAGAAGACCTCATTCGCCTTGTGGAAAAGGTTAGAAACTCTTTATGCGACTAAGTA
66 TGGAGAAGACCTCATTCGCCTTGTGGAAAAGGTTAGAAACTCTTTATGCGACTAAGTA
* *
47993577 TGATGAAAAGGCCTTGTCTGTAATCCAGTTGTGCTTCGCGAATACAGTATTGCAGGAGGTATTGA
1 TGATGAAAAGGCCTTGTCTGCAATCCAGTTGTGCCTCGCGAATACAGTATTGCAGGAGGTATTGA
47993642 TGGAGAAGACCTCATTCGCCTTGTGGAAAAGGTTAGAAACTCTTTATGCGACTAAGT
66 TGGAGAAGACCTCATTCGCCTTGTGGAAAAGGTTAGAAACTCTTTATGCGACTAAGT
47993699 CTCTGGCTAA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 120 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (123 bp):
TGATGAAAAGGCCTTGTCTGCAATCCAGTTGTGCCTCGCGAATACAGTATTGCAGGAGGTATTGA
TGGAGAAGACCTCATTCGCCTTGTGGAAAAGGTTAGAAACTCTTTATGCGACTAAGTA
Found at i:47998109 original size:19 final size:19
Alignment explanation
Indices: 47998085--47998143 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
47998075 TCTAATTAAG
*
47998085 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
47998104 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
47998122 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTCATT
47998141 TAA
1 TAA
47998144 AATATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:47998391 original size:19 final size:19
Alignment explanation
Indices: 47998369--47998434 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
47998359 TTTAATTTTT
47998369 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
47998388 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
*
47998406 TTACATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
47998425 TTAAATTAAA
1 TTAAATTAAA
47998435 CTATTTTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:47998897 original size:28 final size:28
Alignment explanation
Indices: 47998857--47998922 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
47998847 TTTTTTTGAT
*
47998857 ATATTTT-AGTAAATAAAAAAAATTTATA
1 ATATTTTGA-TAAATAAAAAAAAGTTATA
47998885 ATATTTTGATAAATAAAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAAAAGTTATA
*
47998913 ATAGTTTGAT
1 ATATTTTGAT
47998923 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (28 bp):
ATATTTTGATAAATAAAAAAAAGTTATA
Found at i:48001101 original size:19 final size:18
Alignment explanation
Indices: 48001074--48001134 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
48001064 GTAAGGGTTA
* *
48001074 ATTTTATTTTTCTAATATT
1 ATTTAATTTTTATAAT-TT
48001093 ATTTAATTTTTATAATTT
1 ATTTAATTTTTATAATTT
*
48001111 AATTAATATTTTTATAATTT
1 -ATTTA-ATTTTTATAATTT
48001131 -TTTA
1 ATTTA
48001135 TAATAGCCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 5 0.14
19 18 0.50
20 13 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTAATTTTTATAATTT
Found at i:48003154 original size:59 final size:59
Alignment explanation
Indices: 48003052--48003255 Score: 327
Period size: 59 Copynumber: 3.4 Consensus size: 59
48003042 ATTGATTTAT
* * *
48003052 TTTTGAATTTTTTTATACAAATTGTTTTTATATTGTTTTATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATAGAAGTTC
* * * *
48003111 TTTTCAATATTTTTGTAAAAATTATTTTAATATTGTTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATAGAAGTTC
*
48003170 TTTTGAATAATTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATAGAAGTTC
48003229 TTTTGAATATTTTTGTACAAATATATT
1 TTTTGAATATTTTTGTACAAAT-TATT
48003256 ACTGGCTGTG
Statistics
Matches: 131, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 127 0.97
60 4 0.03
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTTATTTAATAAAATAGAAGTTC
Found at i:48003350 original size:28 final size:28
Alignment explanation
Indices: 48003307--48003378 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
48003297 ATCTATCTCA
* *
48003307 TCAAAATAATTTTTTCAAAATACATCATC
1 TCAAAATTA-TTTTTCAAAACACATCATC
* * * * *
48003336 TCAAATTTATTTTTCAGAACCCATCTTG
1 TCAAAATTATTTTTCAAAACACATCATC
48003364 TCAAAATTATTTTTC
1 TCAAAATTATTTTTC
48003379 CCAGAACAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 28 0.80
29 7 0.20
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (28 bp):
TCAAAATTATTTTTCAAAACACATCATC
Found at i:48005217 original size:22 final size:23
Alignment explanation
Indices: 48005192--48005244 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
48005182 AGTTCAGATT
48005192 CAAAACAAATT-AGTTACATATA
1 CAAAACAAATTCAGTTACATATA
* *
48005214 CAAAAGCAATTTCAGTTTCATATA
1 CAAAA-CAAATTCAGTTACATATA
*
48005238 CAGAACA
1 CAAAACA
48005245 TATATGATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 5 0.19
23 7 0.27
24 14 0.54
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.26
Consensus pattern (23 bp):
CAAAACAAATTCAGTTACATATA
Found at i:48010073 original size:15 final size:16
Alignment explanation
Indices: 48010053--48010085 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48010043 AAGTGTCTAT
48010053 AATAAA-ATATTAAAA
1 AATAAATATATTAAAA
*
48010068 AATAAATATTTTAAAA
1 AATAAATATATTAAAA
48010084 AA
1 AA
48010086 GAGACACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAATATATTAAAA
Found at i:48010369 original size:42 final size:39
Alignment explanation
Indices: 48010305--48010388 Score: 107
Period size: 42 Copynumber: 2.1 Consensus size: 39
48010295 ACCACATAGA
*
48010305 TTTTTAAATTTAATAATTTAAAAAAATTA-AAGCACATAT
1 TTTTTAAATATAATAATTTAAAAAAATTATAA-CACATAT
*
48010344 TTTTTAAAATATATATATATTTAAAAAAATTATAACATATAT
1 TTTTT-AAATATA-ATA-ATTTAAAAAAATTATAACACATAT
48010386 TTT
1 TTT
48010389 GAATTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
39 5 0.13
40 6 0.15
41 3 0.08
42 23 0.59
43 2 0.05
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (39 bp):
TTTTTAAATATAATAATTTAAAAAAATTATAACACATAT
Found at i:48010386 original size:22 final size:22
Alignment explanation
Indices: 48010320--48010387 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
48010310 AAATTTAATA
*
48010320 ATTTAAAAAAATTA-AAGCACAT
1 ATTTAAAAAAATTATAA-CATAT
*** *
48010342 ATTTTTTAAAA-TAT-ATATAT
1 ATTTAAAAAAATTATAACATAT
48010362 ATTTAAAAAAATTATAACATAT
1 ATTTAAAAAAATTATAACATAT
48010384 ATTT
1 ATTT
48010388 TGAATTTTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
20 11 0.32
21 6 0.18
22 17 0.50
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (22 bp):
ATTTAAAAAAATTATAACATAT
Done.