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 160 of 313
Found at i:50451687 original size:21 final size:21
Alignment explanation
Indices: 50451658--50451699 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
50451648 CTAGCTTCCT
*
50451658 ACTCTTACTAACAAACTAACA
1 ACTCCTACTAACAAACTAACA
*
50451679 ACTCCTACTAACAAGCTAACA
1 ACTCCTACTAACAAACTAACA
50451700 GTCTCCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.21
Consensus pattern (21 bp):
ACTCCTACTAACAAACTAACA
Found at i:50455522 original size:924 final size:924
Alignment explanation
Indices: 50453735--50455584 Score: 3700
Period size: 924 Copynumber: 2.0 Consensus size: 924
50453725 AATAATTCAA
50453735 TTCCAATAATAAAACACATATTTATATAATATTCATCACCAAATAACATTCACTTTAATTAAAAT
1 TTCCAATAATAAAACACATATTTATATAATATTCATCACCAAATAACATTCACTTTAATTAAAAT
50453800 TATACAGAATATAGTTCATACAAACTTATAAGGCTAAATTGCAGAAATACCATAATTCAGGGTCA
66 TATACAGAATATAGTTCATACAAACTTATAAGGCTAAATTGCAGAAATACCATAATTCAGGGTCA
50453865 TTTCGATAATTTTTTATTTTCCTCGAATTTCCACCCGATCTTGATCTAAATTAATACTTCATTGA
131 TTTCGATAATTTTTTATTTTCCTCGAATTTCCACCCGATCTTGATCTAAATTAATACTTCATTGA
50453930 ACTTATTAATTTAAATAATAAAAAAATTCATTTCATGCAATTTGGTCACTTTTTGACATTTTTAC
196 ACTTATTAATTTAAATAATAAAAAAATTCATTTCATGCAATTTGGTCACTTTTTGACATTTTTAC
50453995 AAAATTACCCTTAAAATTTTACTTTTATTCAATTTAGTCCATAAATCTAAAACATGCAAATTAGC
261 AAAATTACCCTTAAAATTTTACTTTTATTCAATTTAGTCCATAAATCTAAAACATGCAAATTAGC
50454060 CATTTTTAATGAAAACTCATGCTAGTTGAATAATCATATATTTTCCTCCTCCTCTCCATTCCACA
326 CATTTTTAATGAAAACTCATGCTAGTTGAATAATCATATATTTTCCTCCTCCTCTCCATTCCACA
50454125 TCCTTAATGTATATAACATGCTTATATGTAACATTATCTATAATTTCACTATTTATTTATATGTT
391 TCCTTAATGTATATAACATGCTTATATGTAACATTATCTATAATTTCACTATTTATTTATATGTT
50454190 CATTCAAAGTTGTCCACTTGAGTCACAGACACTAAATTATTAATATCTTGAGCTACGGAACTCCG
456 CATTCAAAGTTGTCCACTTGAGTCACAGACACTAAATTATTAATATCTTGAGCTACGGAACTCCG
50454255 AATTAAGATCTATTAAATTTATATGAAACTAGACTAACATATATTCTTAACATAAAATTTTCAGA
521 AATTAAGATCTATTAAATTTATATGAAACTAGACTAACATATATTCTTAACATAAAATTTTCAGA
50454320 ATTTATGGTTTAGCCAATAAATACATTTTATTCTTTAAAGTCATCCCTGTTCTGCTGTCTAACAG
586 ATTTATGGTTTAGCCAATAAATACATTTTATTCTTTAAAGTCATCCCTGTTCTGCTGTCTAACAG
50454385 TTTCGACCCTTCTTCACTAAAAATTATTTATATCCTCGTACGGGATTCGGATGATGTTCCCATTT
651 TTTCGACCCTTCTTCACTAAAAATTATTTATATCCTCGTACGGGATTCGGATGATGTTCCCATTT
50454450 GTTTATATTGAAAATATACTCATTAAAAATTTTAAACATATAAATTCTAACCCACAATTATTTTT
716 GTTTATATTGAAAATATACTCATTAAAAATTTTAAACATATAAATTCTAACCCACAATTATTTTT
50454515 ATACAATTTTTAATGATTTTCCAAATTCAGAACAGGGGAACCTGAATTCATTTTGACCTTGTATC
781 ATACAATTTTTAATGATTTTCCAAATTCAGAACAGGGGAACCTGAATTCATTTTGACCTTGTATC
50454580 ACAAAATTTATTATATATCATGATTTACAATTCCATTACTTACACCATTTATTCTTTGAGAAAAT
846 ACAAAATTTATTATATATCATGATTTACAATTCCATTACTTACACCATTTATTCTTTGAGAAAAT
50454645 AGACTCAATAATAT
911 AGACTCAATAATAT
50454659 TTCCAATAATAAAACACATATTTATATAATATTCATCACCAAATAACATTCACTTTAATTAAAAT
1 TTCCAATAATAAAACACATATTTATATAATATTCATCACCAAATAACATTCACTTTAATTAAAAT
50454724 TATACAGAATATAGTTCATACAAACTTATAAGGCTAAATTGCAGAAATACCATAATTCAGGGTCA
66 TATACAGAATATAGTTCATACAAACTTATAAGGCTAAATTGCAGAAATACCATAATTCAGGGTCA
50454789 TTTCGATAATTTTTTATTTTCCTCGAATTTCCACCCGATCTTGATCTAAATTAATACTTCATTGA
131 TTTCGATAATTTTTTATTTTCCTCGAATTTCCACCCGATCTTGATCTAAATTAATACTTCATTGA
50454854 ACTTATTAATTTAAATAATAAAAAAATTCATTTCATGCAATTTGGTCACTTTTTGACATTTTTAC
196 ACTTATTAATTTAAATAATAAAAAAATTCATTTCATGCAATTTGGTCACTTTTTGACATTTTTAC
50454919 AAAATTACCCTTAAAATTTTACTTTTATTCAATTTAGTCCATAAATCTAAAACATGCAAATTAGC
261 AAAATTACCCTTAAAATTTTACTTTTATTCAATTTAGTCCATAAATCTAAAACATGCAAATTAGC
50454984 CATTTTTAATGAAAACTCATGCTAGTTGAATAATCATATATTTTCCTCCTCCTCTCCATTCCACA
326 CATTTTTAATGAAAACTCATGCTAGTTGAATAATCATATATTTTCCTCCTCCTCTCCATTCCACA
50455049 TCCTTAATGTATATAACATGCTTATATGTAACATTATCTATAATTTCACTATTTATTTATATGTT
391 TCCTTAATGTATATAACATGCTTATATGTAACATTATCTATAATTTCACTATTTATTTATATGTT
50455114 CATTCAAAGTTGTCCACTTGAGTCACAGACACTAAATTATTAATATCTTGAGCTACGGAACTCCG
456 CATTCAAAGTTGTCCACTTGAGTCACAGACACTAAATTATTAATATCTTGAGCTACGGAACTCCG
50455179 AATTAAGATCTATTAAATTTATATGAAACTAGACTAACATATATTCTTAACATAAAATTTTCAGA
521 AATTAAGATCTATTAAATTTATATGAAACTAGACTAACATATATTCTTAACATAAAATTTTCAGA
50455244 ATTTATGGTTTAGCCAATAAATACATTTTATTCTTTAAAGTCATCCCTGTTCTGCTGTCTAACAG
586 ATTTATGGTTTAGCCAATAAATACATTTTATTCTTTAAAGTCATCCCTGTTCTGCTGTCTAACAG
50455309 TTTCGACCCTTCTTCACTAAAAATTATTTATATCCTCGTACGGGATTCGGATGATGTTCCCATTT
651 TTTCGACCCTTCTTCACTAAAAATTATTTATATCCTCGTACGGGATTCGGATGATGTTCCCATTT
50455374 GTTTATATTGAAAATATACTCATTAAAAATTTTAAACATATAAATTCTAACCCACAATTATTTTT
716 GTTTATATTGAAAATATACTCATTAAAAATTTTAAACATATAAATTCTAACCCACAATTATTTTT
50455439 ATACAATTTTTAATGATTTTCCAAATTCAGAACAGGGGAACCTGAATTCATTTTGACCTTGTATC
781 ATACAATTTTTAATGATTTTCCAAATTCAGAACAGGGGAACCTGAATTCATTTTGACCTTGTATC
50455504 ACAAAATTTATTATATATCATGATTTACAATTCCATTACTTACACCATTTATTCTTTGAGAAAAT
846 ACAAAATTTATTATATATCATGATTTACAATTCCATTACTTACACCATTTATTCTTTGAGAAAAT
50455569 AGACTCAATAATAT
911 AGACTCAATAATAT
50455583 TT
1 TT
50455585 AATTTCATAT
Statistics
Matches: 926, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
924 926 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (924 bp):
TTCCAATAATAAAACACATATTTATATAATATTCATCACCAAATAACATTCACTTTAATTAAAAT
TATACAGAATATAGTTCATACAAACTTATAAGGCTAAATTGCAGAAATACCATAATTCAGGGTCA
TTTCGATAATTTTTTATTTTCCTCGAATTTCCACCCGATCTTGATCTAAATTAATACTTCATTGA
ACTTATTAATTTAAATAATAAAAAAATTCATTTCATGCAATTTGGTCACTTTTTGACATTTTTAC
AAAATTACCCTTAAAATTTTACTTTTATTCAATTTAGTCCATAAATCTAAAACATGCAAATTAGC
CATTTTTAATGAAAACTCATGCTAGTTGAATAATCATATATTTTCCTCCTCCTCTCCATTCCACA
TCCTTAATGTATATAACATGCTTATATGTAACATTATCTATAATTTCACTATTTATTTATATGTT
CATTCAAAGTTGTCCACTTGAGTCACAGACACTAAATTATTAATATCTTGAGCTACGGAACTCCG
AATTAAGATCTATTAAATTTATATGAAACTAGACTAACATATATTCTTAACATAAAATTTTCAGA
ATTTATGGTTTAGCCAATAAATACATTTTATTCTTTAAAGTCATCCCTGTTCTGCTGTCTAACAG
TTTCGACCCTTCTTCACTAAAAATTATTTATATCCTCGTACGGGATTCGGATGATGTTCCCATTT
GTTTATATTGAAAATATACTCATTAAAAATTTTAAACATATAAATTCTAACCCACAATTATTTTT
ATACAATTTTTAATGATTTTCCAAATTCAGAACAGGGGAACCTGAATTCATTTTGACCTTGTATC
ACAAAATTTATTATATATCATGATTTACAATTCCATTACTTACACCATTTATTCTTTGAGAAAAT
AGACTCAATAATAT
Found at i:50458096 original size:4 final size:4
Alignment explanation
Indices: 50458082--50458118 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
50458072 TTTTATTATT
50458082 ATTA A-TA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
50458119 AATGTTGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:50458966 original size:24 final size:23
Alignment explanation
Indices: 50458912--50458966 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
50458902 TGAATAAATG
50458912 TAAA-ACATTAAAATAAAATGCA
1 TAAATACATTAAAATAAAATGCA
* * *
50458934 TAATTTACATTAAATATATAATGTA
1 TAA-ATACATTAAA-ATAAAATGCA
50458959 TAAATACA
1 TAAATACA
50458967 AATGAAAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.12
24 12 0.46
25 11 0.42
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
TAAATACATTAAAATAAAATGCA
Found at i:50459686 original size:148 final size:148
Alignment explanation
Indices: 50459462--50459736 Score: 412
Period size: 148 Copynumber: 1.9 Consensus size: 148
50459452 AAATCACTAC
50459462 TTTTCTTAAAAACCAAAGCTTTTATTTCGAAATAGTTAAAAAATAAAAACTTTATTTTAAAAAAT
1 TTTTCTTAAAAACCAAAGCTTTTATTTCGAAATAGTTAAAAAATAAAAACTTTATTTT-AAAAAT
* *
50459527 TTAAAATTTTCC-TTAAAAATGACTAAAAAA-TAGATTTTTATTTTAAAAATCTAAATTTTCTCC
65 TTAAAACTTTCCATT-AAAATGACTAAAAAATTAGATTTTTATTTTAAAAATCTAAACTTTCTCC
50459590 TTTTTTAAAAAAATCGTTAT
129 TTTTTTAAAAAAATCGTTAT
* * *
50459610 TTTTCTTAAAAATCAAAGTTTTTATTTCGAAATAGTTACAAAAAATAAAAATTTTATTTT-AAAA
1 TTTTCTTAAAAACCAAAGCTTTTATTTCGAAATAGTT--AAAAAATAAAAACTTTATTTTAAAAA
* * * *
50459674 TTTTAAACTTTCCATTGAAATGACTAAAAAATTATATTTTTATTTTTAAAATCTAAACTTTCT
64 TTTAAAACTTTCCATTAAAATGACTAAAAAATTAGATTTTTATTTTAAAAATCTAAACTTTCT
50459737 ATTTTTTTTT
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
148 64 0.56
149 30 0.26
150 20 0.18
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (148 bp):
TTTTCTTAAAAACCAAAGCTTTTATTTCGAAATAGTTAAAAAATAAAAACTTTATTTTAAAAATT
TAAAACTTTCCATTAAAATGACTAAAAAATTAGATTTTTATTTTAAAAATCTAAACTTTCTCCTT
TTTTAAAAAAATCGTTAT
Found at i:50459752 original size:28 final size:29
Alignment explanation
Indices: 50459708--50459763 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
50459698 TAAAAAATTA
*
50459708 TATTTTTATTTTT-AAAATCTAAACTTTC
1 TATTTTTATTTTTAAAAATCAAAACTTTC
50459736 TATTTTT-TTTTTAAAAAATCAAAACTTT
1 TATTTTTATTTTT-AAAAATCAAAACTTT
50459764 TCCTAATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 5 0.20
28 7 0.28
29 13 0.52
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (29 bp):
TATTTTTATTTTTAAAAATCAAAACTTTC
Found at i:50460767 original size:17 final size:17
Alignment explanation
Indices: 50460718--50460768 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
50460708 AAACAATTTA
50460718 AAAATA-ATTAATTACG
1 AAAATAGATTAATTACG
*
50460734 AAAA-AG-TT-A-T-GG
1 AAAATAGATTAATTACG
50460746 AAAATAGATTAATTACG
1 AAAATAGATTAATTACG
50460763 AAAATA
1 AAAATA
50460769 AGTATTTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 11
0.68 0.05 0.28
Matches are distributed among these distances:
12 5 0.19
13 3 0.11
14 3 0.11
15 4 0.15
16 5 0.19
17 7 0.26
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (17 bp):
AAAATAGATTAATTACG
Found at i:50461711 original size:9 final size:9
Alignment explanation
Indices: 50461697--50461766 Score: 113
Period size: 9 Copynumber: 7.8 Consensus size: 9
50461687 TTTGGTTAAA
50461697 AATTACCCG
1 AATTACCCG
50461706 AATTACCCG
1 AATTACCCG
50461715 AATTACCCG
1 AATTACCCG
*
50461724 AATTACCCA
1 AATTACCCG
50461733 AATTACCCG
1 AATTACCCG
*
50461742 AATTAACCG
1 AATTACCCG
*
50461751 AATTAACCG
1 AATTACCCG
50461760 AATTACC
1 AATTACC
50461767 GAAAAATACC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.39, C:0.30, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:50466413 original size:37 final size:37
Alignment explanation
Indices: 50466352--50466497 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
50466342 TACGTATGAT
* *
50466352 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
50466387 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
50466424 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
50466461 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
50466498 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:50466514 original size:46 final size:46
Alignment explanation
Indices: 50466461--50466729 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
50466451 TAAGTGTAGC
* **
50466461 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
50466507 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
50466553 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
50466605 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
50466651 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
50466703 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
50466730 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:50466580 original size:52 final size:52
Alignment explanation
Indices: 50466504--50466723 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
50466494 TAGCTAAAGC
* *
50466504 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
50466557 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
50466609 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
50466655 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
50466707 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
50466724 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:50466626 original size:98 final size:98
Alignment explanation
Indices: 50466461--50466729 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
50466451 TAAGTGTAGC
* * *
50466461 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
50466526 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
50466560 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
50466625 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
50466658 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
50466723 GATCAGA
66 GATCAGA
50466730 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:50469910 original size:49 final size:50
Alignment explanation
Indices: 50469855--50470058 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
50469845 TTCGTTTTCT
*
50469855 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
50469904 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
50469953 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
50470011 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
50470059 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:50470025 original size:58 final size:59
Alignment explanation
Indices: 50469939--50470057 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
50469929 TACACGAAAT
50469939 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
50469997 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
50470056 CA
1 CA
50470058 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:50470038 original size:28 final size:28
Alignment explanation
Indices: 50469948--50470038 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
50469938 TCACATATCA
50469948 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
50469976 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
50470006 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
50470034 CTTAC
1 CTTAC
50470039 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:50471372 original size:37 final size:37
Alignment explanation
Indices: 50471311--50471456 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
50471301 TACGTATGAT
* *
50471311 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
50471346 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
50471383 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
50471420 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
50471457 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:50471473 original size:46 final size:46
Alignment explanation
Indices: 50471420--50471688 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
50471410 TAAGTGTAGC
* **
50471420 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
50471466 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
50471512 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
50471564 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
50471610 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
50471662 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
50471689 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:50471539 original size:52 final size:52
Alignment explanation
Indices: 50471463--50471682 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
50471453 TAGCTAAAGC
* *
50471463 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
50471516 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
50471568 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
50471614 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
50471666 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
50471683 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:50471585 original size:98 final size:98
Alignment explanation
Indices: 50471420--50471688 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
50471410 TAAGTGTAGC
* * *
50471420 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
50471485 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
50471519 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
50471584 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
50471617 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
50471682 GATCAGA
66 GATCAGA
50471689 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:50474816 original size:496 final size:497
Alignment explanation
Indices: 50473882--50474938 Score: 2089
Period size: 496 Copynumber: 2.1 Consensus size: 497
50473872 TTTGGCTGTG
50473882 AACAACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAA
1 AACAACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAA
50473947 CCCCCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTA
66 CCCCCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTA
50474012 AACGTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTT
131 AACGTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTT
*
50474077 CTATAACTTTTCACAATATATTCTCAAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCG
196 CTATAACTTTTCACAATATATCCTCAAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCG
50474142 ATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAATTCGCAATTTCTCATGCTCAT
261 ATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAATTCGCAATTTCTCATGCTCAT
50474207 AATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAATTCAATGACATCAAATTCAA
326 AATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAATTCAATGACATCAAATTCAA
50474272 AACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATACCATTCAATAACACATTTATG
391 AACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATACCATTCAATAACACATTTATG
50474337 AAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAAT
456 AAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAAT
50474379 AACAACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAA
1 AACAACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAA
50474444 CCCCCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTA
66 CCCCCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTA
50474509 AACGTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTC-AAAATAATTAACATGTTT
131 AACGTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTT
50474573 CTATAACTTTTCACAATATATCCTCAAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCG
196 CTATAACTTTTCACAATATATCCTCAAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCG
*
50474638 ATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAATTCGCAATTTCTCATGTTCAT
261 ATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAATTCGCAATTTCTCATGCTCAT
50474703 AATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAATTCAATGACATCAAATTCAA
326 AATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAATTCAATGACATCAAATTCAA
50474768 AACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATACCATTCAATAACACATTTATG
391 AACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATACCATTCAATAACACATTTATG
50474833 AAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAAT
456 AAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAAT
50474875 AACAACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCA
1 AACAACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCA
50474939 TTTGTCACTT
Statistics
Matches: 558, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
496 382 0.68
497 176 0.32
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (497 bp):
AACAACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAA
CCCCCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTA
AACGTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTT
CTATAACTTTTCACAATATATCCTCAAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCG
ATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAATTCGCAATTTCTCATGCTCAT
AATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAATTCAATGACATCAAATTCAA
AACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATACCATTCAATAACACATTTATG
AAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAAT
Found at i:50475100 original size:37 final size:37
Alignment explanation
Indices: 50475039--50475304 Score: 392
Period size: 37 Copynumber: 7.0 Consensus size: 37
50475029 TACGTATGAT
* *
50475039 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
50475074 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
50475111 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
50475148 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
50475185 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
50475222 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T--AGC
*
50475265 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ---CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
50475305 TAAAGCTATC
Statistics
Matches: 215, Mismatches: 5, Indels: 17
0.91 0.02 0.07
Matches are distributed among these distances:
35 9 0.04
36 3 0.01
37 159 0.74
39 2 0.01
40 4 0.02
41 1 0.00
42 1 0.00
43 4 0.02
44 2 0.01
46 30 0.14
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:50475275 original size:46 final size:46
Alignment explanation
Indices: 50475222--50475634 Score: 520
Period size: 46 Copynumber: 8.6 Consensus size: 46
50475212 TAAGTGTAGC
* *
50475222 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
50475268 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * * *
50475314 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
50475360 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
50475412 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
50475458 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
50475510 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
50475556 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
50475608 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
50475635 AGTACTCAAA
Statistics
Matches: 327, Mismatches: 22, Indels: 36
0.85 0.06 0.09
Matches are distributed among these distances:
46 198 0.61
48 2 0.01
49 2 0.01
50 2 0.01
52 123 0.38
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:50475422 original size:98 final size:98
Alignment explanation
Indices: 50475222--50475634 Score: 667
Period size: 98 Copynumber: 4.3 Consensus size: 98
50475212 TAAGTGTAGC
* * **
50475222 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
50475281 GTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
* * *
50475314 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
50475379 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
50475412 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
50475477 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
50475510 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
50475575 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
50475608 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
50475635 AGTACTCAAA
Statistics
Matches: 303, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
92 52 0.17
94 1 0.00
98 250 0.83
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:50478955 original size:15 final size:15
Alignment explanation
Indices: 50478935--50478963 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50478925 AATCAGTATG
50478935 GCTATGGTCAAAATA
1 GCTATGGTCAAAATA
50478950 GCTATGGTCAAAAT
1 GCTATGGTCAAAAT
50478964 TGCTTTCCAT
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:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (15 bp):
GCTATGGTCAAAATA
Found at i:50480034 original size:15 final size:15
Alignment explanation
Indices: 50480014--50480044 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50480004 ATTCAAATTC
50480014 AATAAAATTGCTATG
1 AATAAAATTGCTATG
*
50480029 AATAAAGTTGCTATG
1 AATAAAATTGCTATG
50480044 A
1 A
50480045 GTGATGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (15 bp):
AATAAAATTGCTATG
Found at i:50487109 original size:21 final size:21
Alignment explanation
Indices: 50487083--50487125 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
50487073 GATCTATAGC
50487083 TTCGTATATAATCAACATCAA
1 TTCGTATATAATCAACATCAA
50487104 TTCGTATATAATCAACATCAA
1 TTCGTATATAATCAACATCAA
50487125 T
1 T
50487126 ATGATCGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.35
Consensus pattern (21 bp):
TTCGTATATAATCAACATCAA
Found at i:50488181 original size:64 final size:64
Alignment explanation
Indices: 50488080--50488207 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
50488070 TCAATTGTGG
*
50488080 CTAAAATTCTAATTCTCGTTAATATAATTTTCAACCAACCTATTTCCATAACTTCAATCCAAAT
1 CTAAAATTCTAATTCTCCTTAATATAATTTTCAACCAACCTATTTCCATAACTTCAATCCAAAT
** *
50488144 CTAAAATTCTAATTCTCCTTAATATAATTTTCAACCAATGTATTTCCATGACTTCAATCCAAAT
1 CTAAAATTCTAATTCTCCTTAATATAATTTTCAACCAACCTATTTCCATAACTTCAATCCAAAT
50488208 TGAAATTGGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (64 bp):
CTAAAATTCTAATTCTCCTTAATATAATTTTCAACCAACCTATTTCCATAACTTCAATCCAAAT
Found at i:50490256 original size:21 final size:23
Alignment explanation
Indices: 50490213--50490256 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
50490203 TACCAATAGA
50490213 TTATAAAAATATCTGATAATTTT
1 TTATAAAAATATCTGATAATTTT
50490236 TTATAAAAATATCT-A-AATTTT
1 TTATAAAAATATCTGATAATTTT
50490257 ATTAACACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 1 0.05
23 14 0.67
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (23 bp):
TTATAAAAATATCTGATAATTTT
Found at i:50494781 original size:5 final size:5
Alignment explanation
Indices: 50494771--50494841 Score: 62
Period size: 5 Copynumber: 14.6 Consensus size: 5
50494761 AAAAAAATAT
* *
50494771 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA TCATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA T-ATTA
50494817 -A-TA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
50494842 ACATAAAACA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 4 0.07
4 8 0.15
5 32 0.58
6 10 0.18
7 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:50494823 original size:19 final size:19
Alignment explanation
Indices: 50494799--50494841 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
50494789 ATTATGTTTT
50494799 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
50494818 TATATTATATTATATTATA
1 TATATTATATTATATTATA
50494837 TATAT
1 TATAT
50494842 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:50494873 original size:17 final size:17
Alignment explanation
Indices: 50494851--50494884 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50494841 TACATAAAAC
*
50494851 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
50494868 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
50494885 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:50494880 original size:9 final size:9
Alignment explanation
Indices: 50494851--50494884 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
50494841 TACATAAAAC
50494851 AAAAGAAAG
1 AAAAGAAAG
*
50494860 AATAGAAA-
1 AAAAGAAAG
50494868 AAAAGAAAG
1 AAAAGAAAG
50494877 AAAAGAAA
1 AAAAGAAA
50494885 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:50495514 original size:29 final size:30
Alignment explanation
Indices: 50495455--50495512 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
50495445 TCCGAGCCTT
*
50495455 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
50495485 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
50495513 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:50495742 original size:13 final size:13
Alignment explanation
Indices: 50495724--50495755 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
50495714 TTTCCAGCAA
50495724 TTATGAATTTATT
1 TTATGAATTTATT
50495737 TTATGAATTTATT
1 TTATGAATTTATT
*
50495750 TGATGA
1 TTATGA
50495756 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:50495963 original size:50 final size:50
Alignment explanation
Indices: 50495850--50496091 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
50495840 ATTTGGGTAA
* * *
50495850 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
50495906 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
50495956 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
50496006 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
50496056 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
50496092 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:50496039 original size:100 final size:103
Alignment explanation
Indices: 50495850--50496099 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
50495840 ATTTGGGTAA
50495850 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
50495915 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
50495956 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
50496018 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
50496056 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
50496100 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:50505725 original size:19 final size:19
Alignment explanation
Indices: 50505701--50505752 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
50505691 TAAAAATAAT
*
50505701 TTCAAAATAATTT-TTAAAA
1 TTCAAAAT-ATTTATAAAAA
50505720 TTCAAAATATTTATAAAAA
1 TTCAAAATATTTATAAAAA
*
50505739 TTCCAAA-ATTTATA
1 TTCAAAATATTTATA
50505753 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (19 bp):
TTCAAAATATTTATAAAAA
Found at i:50505767 original size:16 final size:16
Alignment explanation
Indices: 50505743--50505779 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
50505733 TAAAAATTCC
* *
50505743 AAAATTTATATTTTTT
1 AAAAATTATAATTTTT
50505759 AAAAATTATAATTTTT
1 AAAAATTATAATTTTT
50505775 AAAAA
1 AAAAA
50505780 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAAAATTATAATTTTT
Found at i:50505780 original size:17 final size:17
Alignment explanation
Indices: 50505743--50505780 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
50505733 TAAAAATTCC
*
50505743 AAAATTTATATTTTTTA
1 AAAATTTATATTTTTAA
50505760 AAAA-TTATAATTTTTAA
1 AAAATTTAT-ATTTTTAA
50505777 AAAA
1 AAAA
50505781 AATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTTATATTTTTAA
Found at i:50508457 original size:7 final size:7
Alignment explanation
Indices: 50508445--50508481 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
50508435 GATTCGTTTA
50508445 TTAATTT
1 TTAATTT
50508452 TTAATTT
1 TTAATTT
50508459 TTAATTT
1 TTAATTT
50508466 TTAATTT
1 TTAATTT
50508473 TTAATTT
1 TTAATTT
50508480 TT
1 TT
50508482 GTCGACATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTAATTT
Found at i:50512698 original size:28 final size:28
Alignment explanation
Indices: 50512660--50512715 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
50512650 TTGTATTACT
50512660 TGGTGGTTCCAATCATGGAGAGATAAGG
1 TGGTGGTTCCAATCATGGAGAGATAAGG
50512688 TGGTGGTTCCAATCATGGAGAGATAAGG
1 TGGTGGTTCCAATCATGGAGAGATAAGG
50512716 CTAAGTAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.36, T:0.25
Consensus pattern (28 bp):
TGGTGGTTCCAATCATGGAGAGATAAGG
Found at i:50519299 original size:21 final size:25
Alignment explanation
Indices: 50519273--50519328 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
50519263 TTTAAAATAC
50519273 TTTTAAAAT-AA-TTTT-T-TTTAT
1 TTTTAAAATAAATTTTTATGTTTAT
50519294 TTTTAAAATAAATTTTTAATGTTTAT
1 TTTTAAAATAAATTTTT-ATGTTTAT
50519320 TTTTAAAAT
1 TTTTAAAAT
50519329 GGGCCGGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.30
22 2 0.07
23 4 0.13
25 1 0.03
26 14 0.47
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTAAAATAAATTTTTATGTTTAT
Found at i:50519318 original size:20 final size:21
Alignment explanation
Indices: 50519274--50519318 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
50519264 TTAAAATACT
* * *
50519274 TTTAAAATAATTTTTTTTATT
1 TTTAAAATAATATTTTTAATG
50519295 TTTAAAATAA-ATTTTTAATG
1 TTTAAAATAATATTTTTAATG
50519315 TTTA
1 TTTA
50519319 TTTTTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTAAAATAATATTTTTAATG
Found at i:50520943 original size:26 final size:26
Alignment explanation
Indices: 50520913--50520965 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
50520903 TATATTTAGC
50520913 ATATCCCTGCACATTT-ATATATAGAT
1 ATATCCCTGCACATTTAAT-TATAGAT
*
50520939 ATATCCCTGCATATTTAATTATAGAT
1 ATATCCCTGCACATTTAATTATAGAT
50520965 A
1 A
50520966 GAGTTAAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (26 bp):
ATATCCCTGCACATTTAATTATAGAT
Found at i:50530415 original size:16 final size:16
Alignment explanation
Indices: 50530394--50530427 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50530384 AATAAAAACT
50530394 AAAAATTAATTATAAA
1 AAAAATTAATTATAAA
**
50530410 AAAAATTCCTTATAAA
1 AAAAATTAATTATAAA
50530426 AA
1 AA
50530428 CCGAAGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTAATTATAAA
Found at i:50534488 original size:17 final size:17
Alignment explanation
Indices: 50534446--50534488 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
50534436 TTATAATTTT
50534446 TTTTAAAAATTATTTAA
1 TTTTAAAAATTATTTAA
* *
50534463 TTTTTAAAATTTTTGTAA
1 TTTTAAAAATTATT-TAA
50534481 -TTTAAAAA
1 TTTTAAAAA
50534489 CTCATGTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTTAAAAATTATTTAA
Found at i:50534577 original size:12 final size:12
Alignment explanation
Indices: 50534555--50534588 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50534545 CTAAATAATA
50534555 TTTACTTTTTGTT
1 TTTA-TTTTTGTT
*
50534568 TTTGTTTTTGTT
1 TTTATTTTTGTT
50534580 TTTATTTTT
1 TTTATTTTT
50534589 TATTAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.06, C:0.03, G:0.09, T:0.82
Consensus pattern (12 bp):
TTTATTTTTGTT
Found at i:50535622 original size:15 final size:16
Alignment explanation
Indices: 50535599--50535632 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
50535589 ATACTTAATA
*
50535599 AAAGTATTAT-AAAAC
1 AAAGCATTATCAAAAC
50535614 AAAGCATTATCAAAAC
1 AAAGCATTATCAAAAC
50535630 AAA
1 AAA
50535633 AGTTCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAGCATTATCAAAAC
Found at i:50536840 original size:47 final size:47
Alignment explanation
Indices: 50536786--50536880 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
50536776 AAAAAAACGT
50536786 AAAGGTGTTCAGAAAGACCACCACTAGCCTTATTTACTTAAACACGG
1 AAAGGTGTTCAGAAAGACCACCACTAGCCTTATTTACTTAAACACGG
*
50536833 AAAGGTGTTCAGAAAGACCACCGCTAGCCTTATTTACTTAAACACGG
1 AAAGGTGTTCAGAAAGACCACCACTAGCCTTATTTACTTAAACACGG
50536880 A
1 A
50536881 GACAAAGATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (47 bp):
AAAGGTGTTCAGAAAGACCACCACTAGCCTTATTTACTTAAACACGG
Found at i:50547770 original size:16 final size:16
Alignment explanation
Indices: 50547749--50547785 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
50547739 TTGGTTCGTT
*
50547749 GTAATGGAATAGAGGC
1 GTAATGAAATAGAGGC
50547765 GTAATGAAATAGAGGC
1 GTAATGAAATAGAGGC
50547781 GTAAT
1 GTAAT
50547786 AAGTAATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGAAATAGAGGC
Found at i:50547854 original size:44 final size:46
Alignment explanation
Indices: 50547765--50547854 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
50547755 GAATAGAGGC
*
50547765 GTAATGAAATAGAGGCGTAATAAGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGAAATAGAGGCGTAATAAGTAATTCTTGTGTTTGGTTGAAT
* *
50547811 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGAAATAGAGGCGTAATAAGTAATTCTTGTGTTTGGTTGAAT
50547855 AGAATAGAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.46
45 2 0.05
46 20 0.49
ACGTcount: A:0.29, C:0.04, G:0.28, T:0.39
Consensus pattern (46 bp):
GTAATGAAATAGAGGCGTAATAAGTAATTCTTGTGTTTGGTTGAAT
Found at i:50548143 original size:41 final size:41
Alignment explanation
Indices: 50548098--50548177 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
50548088 AAATCATAAT
50548098 ATATAATACT-ATAAAATATAATTTAA-AATAATTATTATTAA
1 ATATAAT-CTAATAAAATATAATTTAATAA-AATTATTATTAA
* * *
50548139 ATATAATTTAATAATATATAATTTAATAAAATTCTTATT
1 ATATAATCTAATAAAATATAATTTAATAAAATTATTATT
50548178 CTTATATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 1 0.03
41 31 0.91
42 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (41 bp):
ATATAATCTAATAAAATATAATTTAATAAAATTATTATTAA
Found at i:50548157 original size:15 final size:15
Alignment explanation
Indices: 50548093--50548167 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
50548083 TAATAAAATC
*
50548093 ATAATATATAATACT-
1 ATAATATATAAT-TTA
*
50548108 ATAAAATATAATTTA
1 ATAATATATAATTTA
*
50548123 A-AATA-ATTA-TTA
1 ATAATATATAATTTA
*
50548135 TTAA-ATATAATTTA
1 ATAATATATAATTTA
50548149 ATAATATATAATTTA
1 ATAATATATAATTTA
50548164 ATAA
1 ATAA
50548168 AATTCTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
12 4 0.08
13 8 0.17
14 10 0.21
15 26 0.54
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATATATAATTTA
Found at i:50548227 original size:107 final size:111
Alignment explanation
Indices: 50547999--50548258 Score: 352
Period size: 107 Copynumber: 2.3 Consensus size: 111
50547989 TTAATCATAT
* * *
50547999 TTTAACATAATTGTTATTACATATAATTTAATAAAAATATATAATTTAATAAAATTGTTAATAAA
1 TTTAAAATAATTATTATTAAATATAATTTAAT---AATATATAATTTAATAAAA-T-TTAAT--A
50548064 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTATAAAATATAA
59 TATTCTTATATGAATTTAC--ATAAAATCATAATATATAATACTATAAAATATAA
*
50548119 TTTAAAATAATTATTATTAAATATAATTTAATAATATATAATTTAATAAAA-TT-CT-TATTCTT
1 TTTAAAATAATTATTATTAAATATAATTTAATAATATATAATTTAATAAAATTTAATATATTCTT
*
50548181 ATATGAATTTAC-TACAATCATAATATATAATACTATAAAATATAA
66 ATATGAATTTACATAAAATCATAATATATAATACTATAAAATATAA
50548226 TTT-AAATAATTATTATTAAATATAATTT-ATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAT
50548259 CTACTTTATT
Statistics
Matches: 135, Mismatches: 5, Indels: 15
0.87 0.03 0.10
Matches are distributed among these distances:
105 5 0.04
106 25 0.19
107 35 0.26
110 19 0.14
113 1 0.01
114 2 0.01
117 19 0.14
120 29 0.21
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (111 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAATATATAATTTAATAAAATTTAATATATTCTT
ATATGAATTTACATAAAATCATAATATATAATACTATAAAATATAA
Found at i:50548250 original size:32 final size:32
Alignment explanation
Indices: 50548214--50548277 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
50548204 TATATAATAC
*
50548214 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
50548246 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
50548278 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:50548910 original size:49 final size:49
Alignment explanation
Indices: 50548812--50548915 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 49
50548802 GAAAAAAAAT
* * ** * * *
50548812 AAATTAAATTTAAATTTAATATCATGAATCAAAAGGTGAACGCTTTATA
1 AAATTAAATTTAAATTCAATATCAGGAATCAAAAACTCAACACTGTATA
* *
50548861 AAATTAAATTTGAGTTCAATATCAGGAATCAAAAACTCAACACTGTATA
1 AAATTAAATTTAAATTCAATATCAGGAATCAAAAACTCAACACTGTATA
50548910 AAATTA
1 AAATTA
50548916 TAACACATGA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (49 bp):
AAATTAAATTTAAATTCAATATCAGGAATCAAAAACTCAACACTGTATA
Found at i:50550998 original size:12 final size:12
Alignment explanation
Indices: 50550981--50551006 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50550971 TGTATACAAG
50550981 GTTTATCATATT
1 GTTTATCATATT
50550993 GTTTATCATATT
1 GTTTATCATATT
50551005 GT
1 GT
50551007 ACAAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (12 bp):
GTTTATCATATT
Found at i:50551033 original size:67 final size:67
Alignment explanation
Indices: 50550955--50551100 Score: 184
Period size: 67 Copynumber: 2.2 Consensus size: 67
50550945 AACTAAATAC
* *
50550955 AATATTAATTACAGAATGTATACAAGGTTTATCATATTGTTTATCATATTGTACAAATTTTCTAT
1 AATA-TAATTACACAATATATACAAGGTTTATCATATTGTTTATCATATTGTACAAATTTTCTAT
50551020 AAT
65 AAT
* * ** * * **
50551023 ATTATAATTACCCTTTATTTAGATTGTTTATCATATTGTTTATCATATTGTACAAATTTTCTATA
1 AATATAATTACACAATATATACAAGGTTTATCATATTGTTTATCATATTGTACAAATTTTCTATA
50551088 AT
66 AT
*
50551090 AATACAATTAC
1 AATATAATTAC
50551101 CCTTTATTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
67 63 0.95
68 3 0.05
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (67 bp):
AATATAATTACACAATATATACAAGGTTTATCATATTGTTTATCATATTGTACAAATTTTCTATA
AT
Found at i:50551062 original size:12 final size:12
Alignment explanation
Indices: 50551045--50551073 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
50551035 CTTTATTTAG
50551045 ATTGTTTATCAT
1 ATTGTTTATCAT
50551057 ATTGTTTATCAT
1 ATTGTTTATCAT
50551069 ATTGT
1 ATTGT
50551074 ACAAATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (12 bp):
ATTGTTTATCAT
Found at i:50551101 original size:67 final size:67
Alignment explanation
Indices: 50550981--50551186 Score: 297
Period size: 67 Copynumber: 3.2 Consensus size: 67
50550971 TGTATACAAG
*
50550981 GTTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATATTATAATTACCCTTTATTTAGA
1 GTTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATATAATTACCCTTTATTTAGA
50551046 TT
66 TT
*
50551048 GTTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATACAATTACCCTTTATTTAGA
1 GTTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATATAATTACCCTTTATTTAGA
50551113 TT
66 TT
** *
50551115 GTTTATCATATTG-TTAAAACA-T-TAC-AA----C--TAATAATATAATTACCCTTTATTTAGA
1 GTTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATATAATTACCCTTTATTTAGA
50551170 TT
66 TT
50551172 GTTTATCATATTGTT
1 GTTTATCATATTGTT
50551187 AAAATTTTCT
Statistics
Matches: 132, Mismatches: 6, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
57 41 0.31
58 1 0.01
59 1 0.01
63 2 0.02
64 3 0.02
65 1 0.01
66 5 0.04
67 78 0.59
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (67 bp):
GTTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATATAATTACCCTTTATTTAGA
TT
Found at i:50551160 original size:57 final size:55
Alignment explanation
Indices: 50551057--50551190 Score: 198
Period size: 57 Copynumber: 2.4 Consensus size: 55
50551047 TGTTTATCAT
* * *
50551057 ATTGTTTATCATATTG-TACAAATTTTCTATAATAATACAATTACCCTTTATTTAG
1 ATTGTTTATCATATTGTTA-AAAATTACAATAATAATACAATTACCCTTTATTTAG
*
50551112 ATTGTTTATCATATTGTTAAAACATTACAACTAATAATATAATTACCCTTTATTTAG
1 ATTGTTTATCATATTGTTAAAA-ATTACAA-TAATAATACAATTACCCTTTATTTAG
50551169 ATTGTTTATCATATTGTTAAAA
1 ATTGTTTATCATATTGTTAAAA
50551191 TTTTCTCAAC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
55 19 0.26
56 6 0.08
57 47 0.65
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (55 bp):
ATTGTTTATCATATTGTTAAAAATTACAATAATAATACAATTACCCTTTATTTAG
Found at i:50552273 original size:54 final size:54
Alignment explanation
Indices: 50552208--50552315 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
50552198 TAAATCCATC
50552208 AACATTTTTGCTCAGTCAAAGTGCCTACACAGATTTATCAAACACAGTACATGT
1 AACATTTTTGCTCAGTCAAAGTGCCTACACAGATTTATCAAACACAGTACATGT
50552262 AACATTTTTGCTCAGTCAAAGTGCCTACACAGATTTATCAAACACAGTACATGT
1 AACATTTTTGCTCAGTCAAAGTGCCTACACAGATTTATCAAACACAGTACATGT
50552316 CTATGTAATC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (54 bp):
AACATTTTTGCTCAGTCAAAGTGCCTACACAGATTTATCAAACACAGTACATGT
Found at i:50553279 original size:13 final size:13
Alignment explanation
Indices: 50553261--50553286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50553251 CAACATTCGG
50553261 CCGGTGGGAATAA
1 CCGGTGGGAATAA
50553274 CCGGTGGGAATAA
1 CCGGTGGGAATAA
50553287 ACAAAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.38, T:0.15
Consensus pattern (13 bp):
CCGGTGGGAATAA
Found at i:50553309 original size:15 final size:16
Alignment explanation
Indices: 50553283--50553312 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50553273 ACCGGTGGGA
50553283 ATAAACAAAGAAAATG
1 ATAAACAAAGAAAATG
50553299 ATAAA-AAAGAAAAT
1 ATAAACAAAGAAAAT
50553313 CATGAGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (16 bp):
ATAAACAAAGAAAATG
Found at i:50555360 original size:46 final size:46
Alignment explanation
Indices: 50555284--50555466 Score: 260
Period size: 46 Copynumber: 4.0 Consensus size: 46
50555274 ATTACTATAG
* * *
50555284 CTCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCACAA
1 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
*
50555330 CTCAGTATGGTTTTCTTCACTGAAACACCATCCCTACTTTTCACAA
1 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
* *
50555376 CTCAGTATGGTTTTCTTCACTAAAACACCATACCTATTTTTCACAA
1 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
* * * *
50555422 CTCAGTATGGTTTTCTTTA-TCGAAATACCTTACCTACGTTTCACA
1 CTCAGTATGGTTTTCTTCACT-GAAACACCATACCTACTTTTCACA
50555467 CTTTGCCATG
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.37
Consensus pattern (46 bp):
CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
Found at i:50564782 original size:22 final size:23
Alignment explanation
Indices: 50564747--50564790 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
50564737 AATAAGATTT
50564747 AATATTAAATTTAATCTAATATA
1 AATATTAAATTTAATCTAATATA
* *
50564770 AATATTATA-TTAATTTAATAT
1 AATATTAAATTTAATCTAATAT
50564791 TAAAGTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATTAAATTTAATCTAATATA
Found at i:50567737 original size:33 final size:34
Alignment explanation
Indices: 50567695--50567844 Score: 111
Period size: 33 Copynumber: 4.5 Consensus size: 34
50567685 TACGGTGGGT
50567695 TCAGCACTTAGCAACCACCAATGATTC-GGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCAGGGGAA
*
50567728 TCAGCACTTAGCAACC-CC------TCGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCAGGGGAA
* * *
50567755 TCAGCACTTAGCAACCCCTTCACATTTAAGATACAGTGGAA
1 TCAGCACTTAGCAACCAC--CA-A--T--GATTCAGGGGAA
* *
50567796 TCAGCACTTAGCAACCACCAATGAAT-AAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCAGGGGAA
*
50567829 TCAACACTTAGCAACC
1 TCAGCACTTAGCAACC
50567845 CCTTTTTTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
26 2 0.02
27 22 0.24
28 1 0.01
30 1 0.01
32 2 0.02
33 36 0.39
34 2 0.02
36 1 0.01
38 1 0.01
39 2 0.02
41 23 0.25
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.19
Consensus pattern (34 bp):
TCAGCACTTAGCAACCACCAATGATTCAGGGGAA
Found at i:50567758 original size:27 final size:27
Alignment explanation
Indices: 50567722--50567773 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
50567712 CCAATGATTC
50567722 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACTTAGCAACCCCTCG
50567749 GGGGAATCAGCACTTAGCAACCCCT
1 GGGGAATCAGCACTTAGCAACCCCT
50567774 TCACATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.25, T:0.15
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTCG
Found at i:50567802 original size:101 final size:102
Alignment explanation
Indices: 50567655--50567847 Score: 316
Period size: 101 Copynumber: 1.9 Consensus size: 102
50567645 TCGGGAAATA
* ** *
50567655 AGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCACCAATGAT
1 AGCACTTAGCAACCCCTTTCACATTTAAGATACAGTGGAATCAGCACTTAGCAACCACCAATGAA
** *
50567720 TCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATC
66 TAAGGGAATCAACACTTAGCAACCCCTCGGGGGAATC
50567757 AGCACTTAGCAACCCC-TTCACATTTAAGATACAGTGGAATCAGCACTTAGCAACCACCAATGAA
1 AGCACTTAGCAACCCCTTTCACATTTAAGATACAGTGGAATCAGCACTTAGCAACCACCAATGAA
50567821 TAAGGGAATCAACACTTAGCAACCCCT
66 TAAGGGAATCAACACTTAGCAACCCCT
50567848 TTTTTATACA
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 68 0.81
102 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (102 bp):
AGCACTTAGCAACCCCTTTCACATTTAAGATACAGTGGAATCAGCACTTAGCAACCACCAATGAA
TAAGGGAATCAACACTTAGCAACCCCTCGGGGGAATC
Found at i:50568943 original size:11 final size:12
Alignment explanation
Indices: 50568915--50568948 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
50568905 GCCCAAACGT
50568915 CGAAATTTTTGAA
1 CGAAATTTTT-AA
50568928 CGAAATTTTT-A
1 CGAAATTTTTAA
50568939 CGAAATTTTT
1 CGAAATTTTT
50568949 CCGTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:50569064 original size:76 final size:76
Alignment explanation
Indices: 50568979--50569131 Score: 261
Period size: 76 Copynumber: 2.0 Consensus size: 76
50568969 AAAATATAAT
*
50568979 AATAATCATATTTTTCCTTGCCAGATTTGTGGTCCCGAAACCACTGTTCCGAGTAGACCCAGAAT
1 AATAATCATATTTTTCCTTGCCAGATTTGTGGTCCCGAAACCACTGTTCCGACTAGACCCAGAAT
50569044 TGGGCTGTTAC
66 TGGGCTGTTAC
* * * *
50569055 AATAATCATATTTTTCCTTGTCGGATTTGTGGTCCTGAAACCACTGTTCCGACTAGACTCAGAAT
1 AATAATCATATTTTTCCTTGCCAGATTTGTGGTCCCGAAACCACTGTTCCGACTAGACCCAGAAT
50569120 TGGGCTGTTAC
66 TGGGCTGTTAC
50569131 A
1 A
50569132 GCATTGATTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (76 bp):
AATAATCATATTTTTCCTTGCCAGATTTGTGGTCCCGAAACCACTGTTCCGACTAGACCCAGAAT
TGGGCTGTTAC
Found at i:50584529 original size:44 final size:44
Alignment explanation
Indices: 50584466--50584700 Score: 156
Period size: 44 Copynumber: 5.3 Consensus size: 44
50584456 TGAATATTAT
* *
50584466 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGTCTTAC
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTAC
* * * * * *
50584510 CTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATATCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACA-CTAATCTTAC
* * * * *
50584555 CTCCTTGAAGTTGCAGTGGAGTAGATTGAAGTCACTAAACATATC
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTA-C
* * * * *
50584600 C-CCCTAAAGTTGTAGTGGGGTA-AGTTGAA-AC-C-AAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGACACTAA-TCTTAC
* * * * * * *
50584641 CTCTCTAAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACA-CTAATCTTAC
*
50584686 TTCCCTGAAGTTGCA
1 CTCCCTGAAGTTGCA
50584701 ATAGAACAGA
Statistics
Matches: 143, Mismatches: 38, Indels: 19
0.71 0.19 0.09
Matches are distributed among these distances:
41 3 0.02
42 24 0.17
43 4 0.03
44 57 0.40
45 53 0.37
46 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTAC
Found at i:50584566 original size:45 final size:44
Alignment explanation
Indices: 50584462--50584882 Score: 175
Period size: 45 Copynumber: 9.5 Consensus size: 44
50584452 ATGGTGAATA
* * * * *
50584462 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACACAAATC
* * *
50584506 TTACCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATATCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACA-CAAATC
* * * * *
50584551 TTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGTCACTAAA-C
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAC-AAATC
* * * * * * * * *
50584595 ATATCCCCCTAAAGTTGTAGTGGGGTA-AGTTGAA-AC-CAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAGACACAAATC
* * * * * *
50584637 TTATCTCTCTAAAGTTACAGTGGAGCAGACTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACA-CAAATC
* * * * * *
50584682 TTATTTCCCTGAAGTTGCAATAGAACAGATTAAA-ACTATAAATTACCGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAC---ACA--A---ATC
* * * * *
50584733 TTATCTCGCTGAAGTTGCAGTAGAGCA-AATCATAG---CAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGACACAAATC
* * * *
50584774 TTATCTCTCTGAAGTTGTAGTGGAGCAG-TTTAA-AC-C-AATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACACAAATC
* * * * * *
50584814 TTCTCTCTCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACA-CAAATC
*
50584859 TTATTTCCCTGAAGTTGCAGTGGA
1 TTATCTCCCTGAAGTTGCAGTGGA
50584883 ACAATTTCAA
Statistics
Matches: 280, Mismatches: 71, Indels: 51
0.70 0.18 0.13
Matches are distributed among these distances:
40 29 0.10
41 33 0.12
42 27 0.10
43 4 0.01
44 63 0.22
45 91 0.32
46 1 0.00
47 1 0.00
48 1 0.00
50 2 0.01
51 28 0.10
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACACAAATC
Found at i:50584846 original size:177 final size:177
Alignment explanation
Indices: 50584606--50585011 Score: 616
Period size: 177 Copynumber: 2.3 Consensus size: 177
50584596 TATCCCCCTA
* * * * *
50584606 AAGTTGTAGTGGGGTAAGTTGAAACCAAGTCTTATCTCTCTAAAGTTACAGTGGAGCAGACTGAA
1 AAGTTGTAGTGGAG-CAGTTTAAACCAA-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAA
50584671 GATAGCGAATCTTATTTCCCTGAAGTTGCAATAGAACAGA-TTAAAACTATAAATTACCGATCTT
64 GATAGCGAATCTTATTTCCCTGAAGTTGCAATAGAACA-ATTTAAAACTATAAATTACCGATCTT
*
50584735 ATCTCGCTGAAGTTGCAGTAGAGCAAATCATAGCAAACCTTATCTCTCTG
128 ATCTCGCTGAAGTTACAGTAGAGCAAATCATAGCAAACCTTATCTCTCTG
* *
50584785 AAGTTGTAGTGGAGCAGTTTAAACCAATCTTCTCTCTCTGAAGTTGCAGTGGAGTAGACTGAAGA
1 AAGTTGTAGTGGAGCAGTTTAAACCAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGA
* * * *
50584850 TAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAATTTCAAGCTATAAATTACCGATCTTATC
66 TAGCGAATCTTATTTCCCTGAAGTTGCAATAGAACAATTTAAAACTATAAATTACCGATCTTATC
* * * *
50584915 TCGCTGAAGTTATAGTAGAGCATATTATAGCAAACCTTATCTCTTTG
131 TCGCTGAAGTTACAGTAGAGCAAATCATAGCAAACCTTATCTCTCTG
* *
50584962 AAGTTGCAGTGGAGCAGTTTAAACCAATCTTATCTCCCTGAAGTTGCAGT
1 AAGTTGTAGTGGAGCAGTTTAAACCAATCTTATCTCTCTGAAGTTGCAGT
50585012 AAAATAGATT
Statistics
Matches: 207, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
176 1 0.00
177 182 0.88
178 11 0.05
179 13 0.06
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (177 bp):
AAGTTGTAGTGGAGCAGTTTAAACCAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGA
TAGCGAATCTTATTTCCCTGAAGTTGCAATAGAACAATTTAAAACTATAAATTACCGATCTTATC
TCGCTGAAGTTACAGTAGAGCAAATCATAGCAAACCTTATCTCTCTG
Found at i:50584977 original size:41 final size:40
Alignment explanation
Indices: 50584909--50585012 Score: 102
Period size: 41 Copynumber: 2.6 Consensus size: 40
50584899 AATTACCGAT
* ** *
50584909 CTTATCTCGCTGAAGTTATAGTAGAGCA-TATTATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGT-TTA-AACAAAC
** * * *
50584950 CTTATCTCTTTGAAGTTGCAGTGGAGCAGTTTAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGTTTAAACAAAC
50584990 CTTATCTCCCTGAAGTTGCAGTA
1 CTTATCTCCCTGAAGTTGCAGTA
50585013 AAATAGATTG
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
40 24 0.47
41 26 0.51
42 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (40 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGTTTAAACAAAC
Found at i:50585849 original size:18 final size:18
Alignment explanation
Indices: 50585828--50585877 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
50585818 AAACCACACG
50585828 CAACAAAAAA-AACAAAAA
1 CAACAAAAAATAAC-AAAA
*
50585846 CAACAAACAAATAGCAAAA
1 CAACAAA-AAATAACAAAA
*
50585865 CGACAAAAAATAA
1 CAACAAAAAATAA
50585878 TGATTAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 12 0.44
19 13 0.48
20 2 0.07
ACGTcount: A:0.74, C:0.18, G:0.04, T:0.04
Consensus pattern (18 bp):
CAACAAAAAATAACAAAA
Found at i:50590189 original size:11 final size:11
Alignment explanation
Indices: 50590170--50590220 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
50590160 TTTTTATTTT
50590170 TAATTTTAAAA
1 TAATTTTAAAA
*
50590181 TACTTTTAAAA
1 TAATTTTAAAA
**
50590192 TAATTTT--TT
1 TAATTTTAAAA
50590201 TAATTTTAAAA
1 TAATTTTAAAA
*
50590212 TATTTTTAA
1 TAATTTTAA
50590221 TTTTTTTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
9 7 0.23
11 24 0.77
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:50590230 original size:21 final size:22
Alignment explanation
Indices: 50590204--50590252 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
50590194 ATTTTTTTAA
50590204 TTTTAAAATA-TTTTTAATTTT
1 TTTTAAAATACTTTTTAATTTT
*
50590225 TTTTAAAATACTTTTTTATTTT
1 TTTTAAAATACTTTTTAATTTT
50590247 TTTTAA
1 TTTTAA
50590253 TTTTAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTAAAATACTTTTTAATTTT
Found at i:50590267 original size:42 final size:43
Alignment explanation
Indices: 50590167--50590305 Score: 141
Period size: 39 Copynumber: 3.4 Consensus size: 43
50590157 ATTTTTTTAT
* * *
50590167 TTTTAA-TTTTAAAATACTTTTAAAATAATTTTTTTAA-TTTTA
1 TTTTAATTTTTAAAATATTTTTAAAAT-ACTTTTTTAATTTTTG
*** * *
50590209 AAAT-ATTTTT-AATTTTTTTTAAAATACTTTTTT-A-TTTT-
1 TTTTAATTTTTAAAATATTTTTAAAATACTTTTTTAATTTTTG
50590247 TTTTAA-TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTG
1 TTTTAATTTTTAAAATATTTTTAAAATACTTTTTTAATTTTTG
50590289 TTTTAATTTTTAAAATA
1 TTTTAATTTTTAAAATA
50590306 AATTTTTGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
38 5 0.06
39 27 0.35
40 8 0.10
41 17 0.22
42 11 0.14
43 10 0.13
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (43 bp):
TTTTAATTTTTAAAATATTTTTAAAATACTTTTTTAATTTTTG
Found at i:50609011 original size:6 final size:6
Alignment explanation
Indices: 50609000--50609026 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
50608990 CCTTTCCGTT
50609000 CTTTAC CTTTAC CTTTAC CTTTAC CTT
1 CTTTAC CTTTAC CTTTAC CTTTAC CTT
50609027 GTGCCCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (6 bp):
CTTTAC
Found at i:50617335 original size:20 final size:18
Alignment explanation
Indices: 50617312--50617357 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
50617302 TATTTTTGAT
*
50617312 ATCGATACTTTTTGAAAATA
1 ATCGATACCTTTT-AAAA-A
50617332 ATCGATACCTTTTAAAAA
1 ATCGATACCTTTTAAAAA
50617350 A-CGATACC
1 ATCGATACC
50617358 ACAATTGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 2 0.08
19 4 0.16
20 12 0.48
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (18 bp):
ATCGATACCTTTTAAAAA
Found at i:50617350 original size:21 final size:20
Alignment explanation
Indices: 50617312--50617350 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
50617302 TATTTTTGAT
**
50617312 ATCGATACTTTTTGAAAATA
1 ATCGATACTTTTAAAAAATA
50617332 ATCGATACCTTTTAAAAAA
1 ATCGATA-CTTTTAAAAAA
50617351 CGATACCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.36
Consensus pattern (20 bp):
ATCGATACTTTTAAAAAATA
Found at i:50618950 original size:3 final size:3
Alignment explanation
Indices: 50618942--50618973 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
50618932 AATAATTATT
50618942 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
50618974 TTATTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:50620981 original size:10 final size:10
Alignment explanation
Indices: 50620968--50621018 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
50620958 TAAATTTTAA
*
50620968 ATAATTATCT
1 ATAATTATTT
50620978 ATAATT-TTGT
1 ATAATTATT-T
50620988 ATAATT-TTT
1 ATAATTATTT
50620997 ATAATTATTT
1 ATAATTATTT
50621007 AATAATTATTT
1 -ATAATTATTT
50621018 A
1 A
50621019 AGAAACAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 8 0.22
10 19 0.51
11 10 0.27
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (10 bp):
ATAATTATTT
Found at i:50620983 original size:41 final size:40
Alignment explanation
Indices: 50620938--50621015 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
50620928 TCAATTTTAT
50620938 TAATTTCT-TATAATTCTTAATAAATT-TTAAATAATTATCTA
1 TAATTT-TGTATAATT-TTAAT-AATTATTAAATAATTATCTA
* *
50620979 TAATTTTGTATAATTTTTATAATTATTTAATAATTAT
1 TAATTTTGTATAATTTTAATAATTATTAAATAATTAT
50621016 TTAAGAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
39 4 0.12
40 16 0.48
41 13 0.39
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (40 bp):
TAATTTTGTATAATTTTAATAATTATTAAATAATTATCTA
Found at i:50621011 original size:11 final size:10
Alignment explanation
Indices: 50620932--50621019 Score: 58
Period size: 10 Copynumber: 8.6 Consensus size: 10
50620922 TTGAGCTCAA
*
50620932 TTTTATTAAT
1 TTTTAATAAT
50620942 TTCTT-ATAAT
1 TT-TTAATAAT
*
50620952 TCTTAATAAAT
1 TTTTAAT-AAT
*
50620963 TTTAAATAAT
1 TTTTAATAAT
*
50620973 TATCT-ATAAT
1 T-TTTAATAAT
50620983 TTTGT-ATAAT
1 TTT-TAATAAT
50620993 TTTT-ATAAT
1 TTTTAATAAT
50621002 TATTTAATAAT
1 T-TTTAATAAT
50621013 TATTTAA
1 T-TTTAA
50621020 GAAACAACTC
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
9 10 0.16
10 31 0.48
11 23 0.36
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:50621367 original size:16 final size:16
Alignment explanation
Indices: 50621334--50621367 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50621324 GGAGATTGTT
* *
50621334 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
50621350 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
50621366 AA
1 AA
50621368 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:50626894 original size:130 final size:130
Alignment explanation
Indices: 50626661--50626920 Score: 511
Period size: 130 Copynumber: 2.0 Consensus size: 130
50626651 AACAAGATAT
50626661 AATTTGGAATTTATGGGAAGACGCGTCCAACATCTTTCAGTTCTTAAAATTCAGTGGAAACTAAG
1 AATTTGGAATTTATGGGAAGACGCGTCCAACATCTTTCAGTTCTTAAAATTCAGTGGAAACTAAG
50626726 AAAAGTGATATAAGAGAAGGTGTTGGAAGCATACATGGAGATCGGTGTCAAAATCTAGCTCCAGC
66 AAAAGTGATATAAGAGAAGGTGTTGGAAGCATACATGGAGATCGGTGTCAAAATCTAGCTCCAGC
50626791 AATTTGGAATTTATGGGAAGACGCGTCCAACATCTTTCAGTTCTTAAAATTCAGTGGAAACTAAG
1 AATTTGGAATTTATGGGAAGACGCGTCCAACATCTTTCAGTTCTTAAAATTCAGTGGAAACTAAG
*
50626856 AAGAGTGATATAAGAGAAGGTGTTGGAAGCATACATGGAGATCGGTGTCAAAATCTAGCTCCAGC
66 AAAAGTGATATAAGAGAAGGTGTTGGAAGCATACATGGAGATCGGTGTCAAAATCTAGCTCCAGC
50626921 TTTCCTTCGT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (130 bp):
AATTTGGAATTTATGGGAAGACGCGTCCAACATCTTTCAGTTCTTAAAATTCAGTGGAAACTAAG
AAAAGTGATATAAGAGAAGGTGTTGGAAGCATACATGGAGATCGGTGTCAAAATCTAGCTCCAGC
Found at i:50631602 original size:44 final size:44
Alignment explanation
Indices: 50631539--50631627 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
50631529 TTTCCATCAC
50631539 TAGATACCCAATCTAGATCAGATACTTCTTGTACAGGCCCATTT
1 TAGATACCCAATCTAGATCAGATACTTCTTGTACAGGCCCATTT
50631583 TAGATACCCAATCTAGATCAGATACTTCTTGTACAGGCCCATTT
1 TAGATACCCAATCTAGATCAGATACTTCTTGTACAGGCCCATTT
50631627 T
1 T
50631628 GACCTAACCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (44 bp):
TAGATACCCAATCTAGATCAGATACTTCTTGTACAGGCCCATTT
Found at i:50631698 original size:9 final size:9
Alignment explanation
Indices: 50631684--50631709 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
50631674 CAAACCTAAA
50631684 ACCCAACAG
1 ACCCAACAG
50631693 ACCCAACAG
1 ACCCAACAG
50631702 ACCCAACA
1 ACCCAACA
50631710 CCCAAATAAC
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:0.46, G:0.08, T:0.00
Consensus pattern (9 bp):
ACCCAACAG
Found at i:50636749 original size:9 final size:9
Alignment explanation
Indices: 50636735--50636810 Score: 73
Period size: 9 Copynumber: 8.3 Consensus size: 9
50636725 GTTTAGACTA
50636735 AAAAAAATC
1 AAAAAAATC
50636744 AAAAAAATC
1 AAAAAAATC
50636753 AAAAAAAAATC
1 --AAAAAAATC
50636764 AAAAAAATC
1 AAAAAAATC
*
50636773 -AAAAAATA
1 AAAAAAATC
**
50636781 AAAAAAAAG
1 AAAAAAATC
* **
50636790 ACAAAAAGA
1 AAAAAAATC
50636799 AAAAAAATC
1 AAAAAAATC
50636808 AAA
1 AAA
50636811 GTAAAAAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
8 7 0.13
9 39 0.71
11 9 0.16
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (9 bp):
AAAAAAATC
Found at i:50636759 original size:20 final size:20
Alignment explanation
Indices: 50636734--50636778 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
50636724 AGTTTAGACT
50636734 AAAAAAAATCAAAAAAATCA
1 AAAAAAAATCAAAAAAATCA
50636754 AAAAAAAATCAAAAAAATCA
1 AAAAAAAATCAAAAAAATCA
50636774 AAAAA
1 AAAAA
50636779 TAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (20 bp):
AAAAAAAATCAAAAAAATCA
Found at i:50636787 original size:20 final size:19
Alignment explanation
Indices: 50636734--50636805 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
50636724 AGTTTAGACT
**
50636734 AAAAAAAATCAAAAAAATC
1 AAAAAAAAAAAAAAAAATC
*
50636753 AAAAAAAAATCAAAAAAATC
1 AAAAAAAAA-AAAAAAAATC
*
50636773 AAAAAATAAAAAAAAAGA-C
1 AAAAAA-AAAAAAAAAAATC
50636792 AAAAAGAAAAAAAA
1 AAAAA-AAAAAAAA
50636806 TCAAAGTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 21 0.45
20 23 0.49
21 3 0.06
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.07
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAATC
Found at i:50636795 original size:8 final size:7
Alignment explanation
Indices: 50636783--50636860 Score: 52
Period size: 7 Copynumber: 10.1 Consensus size: 7
50636773 AAAAAATAAA
50636783 AAAAAAG
1 AAAAAAG
50636790 ACAAAAAG
1 A-AAAAAG
50636798 AAAAAA-
1 AAAAAAG
*
50636804 AATCAAAG
1 AA-AAAAG
50636812 TAAAAAATAGG
1 --AAAAA-A-G
50636823 AGAAAAAG
1 A-AAAAAG
50636831 AAAAAA-
1 AAAAAAG
50636837 AAAAGAAG
1 AAAA-AAG
50636845 AGAAAAAG
1 A-AAAAAG
50636853 AAAAAAG
1 AAAAAAG
50636860 A
1 A
50636861 GAGGTCAAGG
Statistics
Matches: 58, Mismatches: 2, Indels: 22
0.71 0.02 0.27
Matches are distributed among these distances:
6 6 0.10
7 23 0.40
8 14 0.24
9 7 0.12
10 7 0.12
11 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:50636838 original size:22 final size:22
Alignment explanation
Indices: 50636813--50636858 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
50636803 AAATCAAAGT
* *
50636813 AAAAAATAGGAGAAAAAGAAAA
1 AAAAAAGAAGAGAAAAAGAAAA
50636835 AAAAAAGAAGAGAAAAAGAAAA
1 AAAAAAGAAGAGAAAAAGAAAA
50636857 AA
1 AA
50636859 GAGAGGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAGAGAAAAAGAAAA
Found at i:50636840 original size:35 final size:34
Alignment explanation
Indices: 50636764--50636838 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
50636754 AAAAAAAATC
50636764 AAAAAAATCAAAAAATAAAAAAAAAGACAAAAAGA
1 AAAAAAATC-AAAAATAAAAAAAAAGACAAAAAGA
* * * *
50636799 AAAAAAATC-AAAGTAAAAAATAGGAGAAAAAGA
1 AAAAAAATCAAAAATAAAAAAAAAGACAAAAAGA
50636832 AAAAAAA
1 AAAAAAA
50636839 AAGAAGAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
33 27 0.75
35 9 0.25
ACGTcount: A:0.80, C:0.04, G:0.09, T:0.07
Consensus pattern (34 bp):
AAAAAAATCAAAAATAAAAAAAAAGACAAAAAGA
Found at i:50636841 original size:11 final size:11
Alignment explanation
Indices: 50636825--50636858 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
50636815 AAAATAGGAG
50636825 AAAAAGAAAAA
1 AAAAAGAAAAA
* *
50636836 AAAAAGAAGAG
1 AAAAAGAAAAA
50636847 AAAAAGAAAAA
1 AAAAAGAAAAA
50636858 A
1 A
50636859 GAGAGGTCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:50637694 original size:7 final size:8
Alignment explanation
Indices: 50637677--50637709 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
50637667 TAAAAAAATG
50637677 AATGAAAA
1 AATGAAAA
50637685 AATG-AAA
1 AATGAAAA
50637692 AATGAAAAA
1 AATG-AAAA
50637701 AATGAAAA
1 AATGAAAA
50637709 A
1 A
50637710 GTAAAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
8 9 0.39
9 7 0.30
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AATGAAAA
Found at i:50637702 original size:16 final size:15
Alignment explanation
Indices: 50637677--50637718 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
50637667 TAAAAAAATG
50637677 AATGAAAAAATGAAA
1 AATGAAAAAATGAAA
50637692 AATGAAAAAAATGAAA
1 AATG-AAAAAATGAAA
*
50637708 AA-GTAAAAATG
1 AATGAAAAAATG
50637719 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 7 0.28
15 5 0.20
16 13 0.52
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AATGAAAAAATGAAA
Found at i:50639069 original size:88 final size:88
Alignment explanation
Indices: 50638920--50640216 Score: 2108
Period size: 88 Copynumber: 14.7 Consensus size: 88
50638910 AACAGATCAG
* * ** * *
50638920 TGAAGACAACAGATCTTGCCTTCTTACATTGACAGCGAAGCAGGTCGAAGAAAAAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50638985 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
50639008 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACATAGACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
50639073 CTCTCGGTTGTGATGAAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
50639096 TGAAGACAAAAGATCTTACCTTCCTGTATTGATAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50639161 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
50639184 TGAAGATAAAAGATCTTGCCTTCCTGTATTGATAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50639249 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
50639272 TGAAGATAAAAGATCTTGCCTTCCTGTATTGATAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50639337 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
50639360 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGTCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50639425 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
50639448 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGGAGCAGGTTGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50639513 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
50639536 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50639601 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
50639624 TGAAAACGAAAGATCTTGCCTTCCTGTATTGACAGCGAAACAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
50639689 CTCTCGGTTGTGATGAAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
50639712 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGGAGCAGGTTGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50639777 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
50639800 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
50639865 CTCTCAGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* ** ** * *
50639888 TGAAGATAAGTGATCTTGCCTTCCTACATTGTCAGCAAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50639953 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
50639976 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
50640041 CTCTCAGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* ** ** * * *
50640064 TGAAGATAAGTGATCTTGCCTTCCTACATTGTCAGCAAAGCAGGTCGAAGACACAAACCTTGCTT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50640129 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * * * *
50640152 TGAAGACAATAGATCTTGCCTTCCTGCATTGACAGTGAAGTAGGTCGAAAACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
50640217 TCTTGTACTG
Statistics
Matches: 1136, Mismatches: 73, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 1136 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:50640310 original size:46 final size:46
Alignment explanation
Indices: 50640243--50640402 Score: 230
Period size: 46 Copynumber: 3.5 Consensus size: 46
50640233 GAGCAGACTA
* * *
50640243 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGAGATCG
1 AAGATAGTAAATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
50640289 AAGATAGTAAATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATTG
1 AAGATAGTAAATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* ** *
50640335 AAGATAGTAGATCTTGTCTTTTTGTATTTGGCAGCGGAGTAGATCG
1 AAGATAGTAAATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
50640381 AAGATGGTAAATCTTATCTTCC
1 AAGATAGTAAATCTTGTCTTCC
50640403 CATTACAGTG
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 100 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (46 bp):
AAGATAGTAAATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
Found at i:50640687 original size:45 final size:45
Alignment explanation
Indices: 50640636--50640775 Score: 137
Period size: 45 Copynumber: 3.2 Consensus size: 45
50640626 GCAGTAGTGG
50640636 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGA
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGA
** * * * * * * *
50640681 AGCAGATTTAAGCCAT--T-AGTCCTATC-ACCCTAA-GCAGTAGTGG
1 AGCAGATCGAAG--ATGGTGAATCTTATCTTCCC-AATACAGTGGAGA
50640724 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGA
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGA
50640769 AGCAGAT
1 AGCAGAT
50640776 TTAAGCCATT
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
41 2 0.03
43 20 0.29
44 18 0.26
45 27 0.39
47 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (45 bp):
AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGA
Found at i:50640718 original size:88 final size:88
Alignment explanation
Indices: 50640617--50640811 Score: 390
Period size: 88 Copynumber: 2.2 Consensus size: 88
50640607 GCAGATTCTG
50640617 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
50640682 GCAGATTTAAGCCATTAGTCCTA
66 GCAGATTTAAGCCATTAGTCCTA
50640705 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
50640770 GCAGATTTAAGCCATTAGTCCTA
66 GCAGATTTAAGCCATTAGTCCTA
50640793 TCACCCTAAGCAGTAGTGG
1 TCACCCTAAGCAGTAGTGG
50640812 GGTAGGTCAA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 107 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (88 bp):
TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
GCAGATTTAAGCCATTAGTCCTA
Found at i:50640737 original size:132 final size:132
Alignment explanation
Indices: 50640370--50640725 Score: 613
Period size: 132 Copynumber: 2.7 Consensus size: 132
50640360 ATTTGGCAGC
* * * *
50640370 GGAGTAGATCGAAGATGGTAAATCTTATCTTCCCATTACAGTGGAGAAGCGGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
* * * *
50640435 GTCTTATCACCTTAAGCAGTAGTGGAGTAGGTTGAAGGTTGAATATTCTGTCACCCTAAGCAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGAAGATTCTGTCACCCTAAGCAGTA
50640500 GT
131 GT
*
50640502 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGGAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
* *
50640567 GTCCTATCACCCTAAACAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGAAGATTCTGTCACCCTAAGCAGTA
50640632 GT
131 GT
50640634 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
50640699 GTCCTATCACCCTAAGCAGTAGTGGAG
66 GTCCTATCACCCTAAGCAGTAGTGGAG
50640726 CAGATCGAAG
Statistics
Matches: 211, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 211 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGAAGATTCTGTCACCCTAAGCAGTA
GT
Found at i:50640879 original size:220 final size:220
Alignment explanation
Indices: 50640485--50640880 Score: 659
Period size: 220 Copynumber: 1.8 Consensus size: 220
50640475 GAATATTCTG
50640485 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
* ** * *
50640550 GGAGATTTAAGCCATTAGTCCTATCACCCTAAACAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCACCCTAAACAGTAGTGGAGTAGGTCAAAGACTACAGATTC
* ***
50640615 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAG
131 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAAATAACGAATCTTATCTTCCCAATACAGTGGAG
50640680 AAGCAGATTTAAGCCATTAGTCCTA
196 AAGCAGATTTAAGCCATTAGTCCTA
50640705 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
* * *
50640770 GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGGGTAGGTCAAAGACTATAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCACCCTAAACAGTAGTGGAGTAGGTCAAAGACTACAGATTC
*
50640835 TGTCCCCCTAAGCAGTAGTGGAGCAGATC-AACAATAACGAATCTTA
131 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAA-AATAACGAATCTTA
50640881 CTGCGAATCT
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
219 2 0.01
220 160 0.99
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (220 bp):
TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
GCAGATTTAAGCCATTAGTCCTATCACCCTAAACAGTAGTGGAGTAGGTCAAAGACTACAGATTC
TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAAATAACGAATCTTATCTTCCCAATACAGTGGAG
AAGCAGATTTAAGCCATTAGTCCTA
Found at i:50647473 original size:9 final size:9
Alignment explanation
Indices: 50647454--50647607 Score: 247
Period size: 9 Copynumber: 17.2 Consensus size: 9
50647444 TCGGGTATTT
50647454 TTCGG-TAA
1 TTCGGTTAA
50647462 TTCGGTTAA
1 TTCGGTTAA
50647471 TTCGGTTAA
1 TTCGGTTAA
*
50647480 TTCGGGTAA
1 TTCGGTTAA
*
50647489 TTCGGGTAA
1 TTCGGTTAA
*
50647498 TTCGGGTAA
1 TTCGGTTAA
50647507 TTCGGTTAA
1 TTCGGTTAA
50647516 TTCGGTTAA
1 TTCGGTTAA
50647525 TTCGGTTAA
1 TTCGGTTAA
50647534 TTCGGTTAA
1 TTCGGTTAA
50647543 TTCGGTTAA
1 TTCGGTTAA
50647552 TTCGGTTAA
1 TTCGGTTAA
50647561 TTCGGTTAA
1 TTCGGTTAA
50647570 TTCGGTTAA
1 TTCGGTTAA
*
50647579 TTCGGGTAA
1 TTCGGTTAA
*
50647588 TTCGGGTAA
1 TTCGGTTAA
*
50647597 TTCGGGTAA
1 TTCGGTTAA
50647606 TT
1 TT
50647608 TTTAACCAAA
Statistics
Matches: 142, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
8 5 0.04
9 137 0.96
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.41
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:50648221 original size:44 final size:46
Alignment explanation
Indices: 50648160--50648252 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 46
50648150 TACAACATCT
** * *
50648160 ATTCCATTCAATTAAACACA-AGAA-TATTG-TTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGATCTATTCC
*
50648204 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGATCTATTCC
1 ATTCCATTCAACCAAACAATAGAATTACTGATTACAGATCTATTCC
50648250 ATT
1 ATT
50648253 ACAACTCTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.02
44 19 0.46
45 4 0.10
46 17 0.41
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTGATTACAGATCTATTCC
Found at i:50648255 original size:16 final size:16
Alignment explanation
Indices: 50648242--50648300 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
50648232 TGATTACAGA
50648242 TCTATTCCATTACAAC
1 TCTATTCCATTACAAC
*
50648258 TCTATTACATTACAAC
1 TCTATTCCATTACAAC
*
50648274 TCTATTCCATTACAGC
1 TCTATTCCATTACAAC
*
50648290 CCTATTCCATT
1 TCTATTCCATT
50648301 CCCCCCAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.29, C:0.31, G:0.02, T:0.39
Consensus pattern (16 bp):
TCTATTCCATTACAAC
Found at i:50648295 original size:32 final size:32
Alignment explanation
Indices: 50648234--50648300 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
50648224 TGAATTACTG
*
50648234 ATTACAGATCTATTCCATTACAACTCTATTAC
1 ATTACAGATCTATTCCATTACAACCCTATTAC
* *
50648266 ATTACA-ACTCTATTCCATTACAGCCCTATTCC
1 ATTACAGA-TCTATTCCATTACAACCCTATTAC
50648298 ATT
1 ATT
50648301 CCCCCCAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.37
Consensus pattern (32 bp):
ATTACAGATCTATTCCATTACAACCCTATTAC
Found at i:50650843 original size:18 final size:20
Alignment explanation
Indices: 50650827--50650866 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
50650817 ATACACATAT
50650827 ACATTTGTTTGCACATATCTC
1 ACATTTGTTTGCACATA-CTC
*
50650848 AGATTTGTTTGCACATACT
1 ACATTTGTTTGCACATACT
50650867 TTTGTGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (20 bp):
ACATTTGTTTGCACATACTC
Found at i:50652172 original size:29 final size:29
Alignment explanation
Indices: 50652135--50652192 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
50652125 GAAAATATTG
* *
50652135 GAAGAAAAATTCTAGGAGAATTAGAAAAT
1 GAAGAAAAATCCTAGCAGAATTAGAAAAT
* **
50652164 GAAGTAAAATCCTAGCCTAATTAGAAAAT
1 GAAGAAAAATCCTAGCAGAATTAGAAAAT
50652193 TGGTTTAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (29 bp):
GAAGAAAAATCCTAGCAGAATTAGAAAAT
Found at i:50654707 original size:37 final size:37
Alignment explanation
Indices: 50654665--50654735 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
50654655 AGTATTACTT
50654665 AATAGTTTATTAAATTAAAATAGACTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGACTTATTAAATGAG
*
50654702 AATAGTTTATTAAATTAAAATAGATTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGACTTATTAAAT
50654736 AAAAAATGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGACTTATTAAATGAG
Found at i:50654713 original size:18 final size:19
Alignment explanation
Indices: 50654665--50654739 Score: 102
Period size: 18 Copynumber: 4.1 Consensus size: 19
50654655 AGTATTACTT
50654665 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
* * *
50654683 AATAGACTTATTAAATGAG
1 AATAGATTTATTAAATTAA
50654702 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
50654720 AATAGATTTATTAAA-TAA
1 AATAGATTTATTAAATTAA
50654738 AA
1 AA
50654740 AATGAGTTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
18 25 0.51
19 24 0.49
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (19 bp):
AATAGATTTATTAAATTAA
Found at i:50654890 original size:27 final size:26
Alignment explanation
Indices: 50654813--50654898 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
50654803 TTTTTTTTCC
*
50654813 TTTGGCACCATGGTGCCGCCAA-TGA
1 TTTGGCACCATGGTGCCGCCAATTTA
*
50654838 CTTTGGCACCAATGGTGCCACCAATTTA
1 -TTTGGCACC-ATGGTGCCGCCAATTTA
*
50654866 TTTGGCACCTTTGGTGCCGCCAATTTA
1 TTTGGCACC-ATGGTGCCGCCAATTTA
*
50654893 ATTGGC
1 TTTGGC
50654899 TGGTGTCAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.17
27 41 0.79
28 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (26 bp):
TTTGGCACCATGGTGCCGCCAATTTA
Found at i:50654969 original size:29 final size:29
Alignment explanation
Indices: 50654936--50655034 Score: 152
Period size: 28 Copynumber: 3.5 Consensus size: 29
50654926 GGTTTTTTTG
50654936 ATATATTTTGGTAAATAAAAAAAAAGTTT
1 ATATATTTTGGTAAATAAAAAAAAAGTTT
50654965 ATATATTTTGGTAAAT-AAAAAAAAG-TT
1 ATATATTTTGGTAAATAAAAAAAAAGTTT
50654992 ATAATATTTTGGTAAATAAAAAAAAA-TTGT
1 AT-ATATTTTGGTAAATAAAAAAAAAGTT-T
50655022 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
50655035 TTTTTTATTT
Statistics
Matches: 66, Mismatches: 0, Indels: 9
0.88 0.00 0.12
Matches are distributed among these distances:
27 4 0.06
28 35 0.53
29 25 0.38
30 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAAGTTT
Found at i:50656815 original size:43 final size:43
Alignment explanation
Indices: 50656767--50656867 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
50656757 TTTTTATGAC
50656767 CTTTAGTGGCGTTTTTACCAAAAACGCCGCTAAAGGTCATGTT
1 CTTTAGTGGCGTTTTTACCAAAAACGCCGCTAAAGGTCATGTT
* *** *
50656810 CTTTAGTGGCGTTTCTGGTAAAAGCGCCGCTAAAGGTCATGTT
1 CTTTAGTGGCGTTTTTACCAAAAACGCCGCTAAAGGTCATGTT
*
50656853 CTTTAGCGGCGTTTT
1 CTTTAGTGGCGTTTT
50656868 GTCTCATAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (43 bp):
CTTTAGTGGCGTTTTTACCAAAAACGCCGCTAAAGGTCATGTT
Found at i:50657001 original size:21 final size:21
Alignment explanation
Indices: 50656958--50657002 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50656948 TTTAGCGGCA
* **
50656958 CTAAAAAGCGCCGCTAATGGC
1 CTAAAAAACGCCGCTAAAAGC
*
50656979 CTAAAAAACGCTGCTAAAAGC
1 CTAAAAAACGCCGCTAAAAGC
50657000 CTA
1 CTA
50657003 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.27, G:0.18, T:0.16
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:50657285 original size:25 final size:25
Alignment explanation
Indices: 50657239--50657286 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
50657229 ATAAAGATAT
*
50657239 TAATTTTTATATAGAATTTCTAAAG
1 TAATTTTTATATAGAATATCTAAAG
50657264 TAATTTTT-TATAGAATAATCTAA
1 TAATTTTTATATAGAAT-ATCTAA
50657287 GAATATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (25 bp):
TAATTTTTATATAGAATATCTAAAG
Found at i:50663420 original size:21 final size:21
Alignment explanation
Indices: 50663394--50663433 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
50663384 AATCACTTTG
50663394 AAACACTTTTATCTTACAATT
1 AAACACTTTTATCTTACAATT
50663415 AAACACTTTTATCTTACAA
1 AAACACTTTTATCTTACAA
50663434 CATGTGGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (21 bp):
AAACACTTTTATCTTACAATT
Found at i:50664015 original size:14 final size:14
Alignment explanation
Indices: 50663996--50664023 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50663986 GAGAAAAACA
50663996 ACCTCCACGACCTC
1 ACCTCCACGACCTC
50664010 ACCTCCACGACCTC
1 ACCTCCACGACCTC
50664024 TTCCATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.57, G:0.07, T:0.14
Consensus pattern (14 bp):
ACCTCCACGACCTC
Done.