Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 164 of 228
Found at i:49174403 original size:19 final size:19
Alignment explanation
Indices: 49174379--49174415 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49174369 ATAATAATAC
49174379 AAATAATAATATAATTAAT
1 AAATAATAATATAATTAAT
*
49174398 AAATAATAATATTATTAA
1 AAATAATAATATAATTAA
49174416 ATTAATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAATAATATAATTAAT
Found at i:49176928 original size:26 final size:24
Alignment explanation
Indices: 49176895--49176955 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
49176885 AGCCATGATC
49176895 GGTAAGCTCAT-TTCGAGCTGAAGAAA
1 GGTAAGCTCATATT-GAGCTG-A-AAA
*
49176921 GGTAAGCTC-TATTGAGCTGAAAT
1 GGTAAGCTCATATTGAGCTGAAAA
49176944 GGTAAGCTCATA
1 GGTAAGCTCATA
49176956 AGAGTTGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.34
24 3 0.09
25 7 0.22
26 11 0.34
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (24 bp):
GGTAAGCTCATATTGAGCTGAAAA
Found at i:49180611 original size:34 final size:34
Alignment explanation
Indices: 49180555--49180646 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
49180545 TGGTCTGATT
* * * *
49180555 TAATATGACATTTTGATCTGATATATGTTTTTGG
1 TAATATGAAATTCTAATCTGATATATGATTTTGG
* *
49180589 -AATTATGATATTCTAATGTGATATATGATTTTGG
1 TAA-TATGAAATTCTAATCTGATATATGATTTTGG
*
49180623 TAATATGAAATTCTGATCTGATAT
1 TAATATGAAATTCTAATCTGATAT
49180647 TTGTATAAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
33 2 0.04
34 44 0.92
35 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (34 bp):
TAATATGAAATTCTAATCTGATATATGATTTTGG
Found at i:49181592 original size:18 final size:17
Alignment explanation
Indices: 49181569--49181602 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
49181559 ATGTTTCTAG
*
49181569 AATAAATATTATTTATTT
1 AATAAAT-TTAATTATTT
49181587 AATAAATTTAATTATT
1 AATAAATTTAATTATT
49181603 ACAATTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAAATTTAATTATTT
Found at i:49186104 original size:39 final size:39
Alignment explanation
Indices: 49186042--49186172 Score: 190
Period size: 39 Copynumber: 3.4 Consensus size: 39
49186032 GACAAAAAAT
* *
49186042 TGCGATCAGGGGTACTGAAGTACAACAGGGGCATGTAAG
1 TGCGATCAGGGGTACCGAAGTACAATAGGGGCATGTAAG
* *
49186081 TGCGATCAGTGGTACCGACGTACAATAGGGGCATGTAAG
1 TGCGATCAGGGGTACCGAAGTACAATAGGGGCATGTAAG
* * * *
49186120 TGCAATCTGGGGTACCGAAGTACAATAGGAGCACGTAAG
1 TGCGATCAGGGGTACCGAAGTACAATAGGGGCATGTAAG
49186159 TGCGATCAGGGGTA
1 TGCGATCAGGGGTA
49186173 TGATTATATA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.30, C:0.17, G:0.34, T:0.19
Consensus pattern (39 bp):
TGCGATCAGGGGTACCGAAGTACAATAGGGGCATGTAAG
Found at i:49189617 original size:4 final size:4
Alignment explanation
Indices: 49189603--49189649 Score: 53
Period size: 4 Copynumber: 12.0 Consensus size: 4
49189593 TATAGGTATC
* *
49189603 TAAA AAAA TAAA T-AA -AAA TAAA TAAA TAAA TAAA TAATA TAAG TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA-A TAAA TAAA
49189650 ATATATTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 4 0.11
4 28 0.78
5 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:49189651 original size:22 final size:19
Alignment explanation
Indices: 49189603--49189652 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
49189593 TATAGGTATC
49189603 TAAA-AAAATAAATAAAAA
1 TAAATAAAATAAATAAAAA
49189621 TAAAT-AAATAAATAAATAA
1 TAAATAAAATAAATAAA-AA
49189640 TATAAGTAAAATA
1 TA-AA-TAAAATA
49189653 TATTAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 15 0.56
19 4 0.15
20 2 0.07
21 1 0.04
22 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
TAAATAAAATAAATAAAAA
Found at i:49189822 original size:18 final size:17
Alignment explanation
Indices: 49189784--49189830 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
49189774 ATATTTGGAT
49189784 TATAAAATATGAAAAAC
1 TATAAAATATGAAAAAC
*
49189801 TATATAAATATTATAAAA-
1 TATA-AAATATGA-AAAAC
49189819 TATAAATATATG
1 TATAAA-ATATG
49189831 TACGTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 15 0.60
19 4 0.16
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (17 bp):
TATAAAATATGAAAAAC
Found at i:49189976 original size:3 final size:3
Alignment explanation
Indices: 49189968--49190013 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
49189958 TATGTATTGA
*
49189968 AAT AAT AAT AAT AAA AAT AAT AATT AAT -AT AAT AA- AATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AA-T AAT AAT
49190013 A
1 A
49190014 TAAAAGGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 4 0.11
3 28 0.76
4 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:49190840 original size:127 final size:127
Alignment explanation
Indices: 49190721--49191073 Score: 528
Period size: 127 Copynumber: 2.8 Consensus size: 127
49190711 TGCTTCTTTA
* * * * * * *
49190721 CAACTTTAGGGAGATAAGACTGGACGCGATCTGCTCTTCTGTAATTTTAGATACAAAAGATCTGA
1 CAACTTCAGGGAGATAAGACTGGACGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGA
** * *
49190786 TTTTAATCCGCTCTGCTGCAACTTCAGGGAGATAGGATTATTTTCTTCAATCTGCTCCACTG
66 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTAAATCTGCTTCACTG
* *
49190848 CAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGA
1 CAACTTCAGGGAGATAAGACTGGACGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGA
* *
49190913 TTTTAATCCTCTCCATTGCAACTTCAGGGAGATAGGATTATTTTCTTAAATCTG-TTCCACTG
66 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTAAATCTGCTT-CACTG
* * *
49190975 CAACTTCAGGGAGATAAGACTGGACGTGATCCGCTTTTCTGCAACTTCAGAGAGATAAGATCTGA
1 CAACTTCAGGGAGATAAGACTGGACGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGA
49191040 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
66 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
49191074 AGACTAGATG
Statistics
Matches: 203, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
126 1 0.00
127 202 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (127 bp):
CAACTTCAGGGAGATAAGACTGGACGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGA
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTAAATCTGCTTCACTG
Found at i:49190851 original size:44 final size:44
Alignment explanation
Indices: 49190801--49190990 Score: 180
Period size: 44 Copynumber: 4.4 Consensus size: 44
49190791 ATCCGCTCTG
49190801 CTGCAACTTCAGGGAGATAGGATTATTTTCTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAGGATTATTTTCTTCAATCTGCTCCA
* * *** * **
49190845 CTGCAACTTCAGGGAGATA--A-GACTGGATGCAATCTGCTCTT
1 CTGCAACTTCAGGGAGATAGGATTATTTTCTTCAATCTGCTCCA
* *
49190886 CTGCAACTTCAGAGAGATAAGATCTGA--TT-TT-AATCCT-CTCCA
1 CTGCAACTTCAGGGAGATAGGAT-T-ATTTTCTTCAAT-CTGCTCCA
* * *
49190928 TTGCAACTTCAGGGAGATAGGATTATTTTCTTAAATCTGTTCCA
1 CTGCAACTTCAGGGAGATAGGATTATTTTCTTCAATCTGCTCCA
49190972 CTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGGGAGATA
49190991 AGACTGGACG
Statistics
Matches: 115, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
40 1 0.01
41 32 0.28
42 29 0.25
43 8 0.07
44 44 0.38
46 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAGGATTATTTTCTTCAATCTGCTCCA
Found at i:49191069 original size:83 final size:83
Alignment explanation
Indices: 49190968--49191162 Score: 336
Period size: 83 Copynumber: 2.3 Consensus size: 83
49190958 TTAAATCTGT
* *
49190968 TCCACTGCAACTTCAGGGAGATAAGACTGGACGTGATCCGCTTTTCTGCAACTTCAGAGAGATAA
1 TCCACTGCAACTTCAGGGAGATAAGACTAGACGTGATCCGCTCTTCTGCAACTTCAGAGAGATAA
*
49191033 GATCTGATTTTAATCCGC
66 GATCTGATTTTAATCCAC
* * *
49191051 TCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTTCTGCAACTTCAGAGTGATAA
1 TCCACTGCAACTTCAGGGAGATAAGACTAGACGTGATCCGCTCTTCTGCAACTTCAGAGAGATAA
49191116 GATCTGATTTTAATCCAC
66 GATCTGATTTTAATCCAC
49191134 TCCACTGCAACTTCAGGGAGATAAGACTA
1 TCCACTGCAACTTCAGGGAGATAAGACTA
49191163 AAGTTTCACC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 106 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (83 bp):
TCCACTGCAACTTCAGGGAGATAAGACTAGACGTGATCCGCTCTTCTGCAACTTCAGAGAGATAA
GATCTGATTTTAATCCAC
Found at i:49203435 original size:18 final size:17
Alignment explanation
Indices: 49203397--49203443 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
49203387 ATATTTGGAT
49203397 TATAAAATATGAAAAAC
1 TATAAAATATGAAAAAC
*
49203414 TATATAAATATTATAAAA-
1 TATA-AAATATGA-AAAAC
49203432 TATAAATATATG
1 TATAAA-ATATG
49203444 TACTTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 15 0.60
19 4 0.16
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (17 bp):
TATAAAATATGAAAAAC
Found at i:49207645 original size:14 final size:14
Alignment explanation
Indices: 49207623--49207657 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
49207613 CACATTTCAC
* *
49207623 TATTATGTCTTTTT
1 TATTTTGTCTTTTA
49207637 TATTTTGTCTTTTA
1 TATTTTGTCTTTTA
49207651 TATTTTG
1 TATTTTG
49207658 CATGCATAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.06, G:0.09, T:0.71
Consensus pattern (14 bp):
TATTTTGTCTTTTA
Found at i:49209347 original size:31 final size:30
Alignment explanation
Indices: 49209283--49209359 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
49209273 AATATTAAAT
* *
49209283 TTAATTTAATATTTATCTGAATAGTATTTTA
1 TTAATTTAATA-TTAACTGAATAGTATTATA
* *
49209314 TTAATTTAATATTAACTTAATTGTATTCATA
1 TTAATTTAATATTAACTGAATAGTATT-ATA
49209345 TTAAATTTAAT-TTAA
1 TT-AATTTAATATTAA
49209360 TATTTATCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 13 0.32
31 19 0.47
32 8 0.20
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (30 bp):
TTAATTTAATATTAACTGAATAGTATTATA
Found at i:49229026 original size:139 final size:138
Alignment explanation
Indices: 49228769--49229044 Score: 306
Period size: 139 Copynumber: 2.0 Consensus size: 138
49228759 TATTGCATGG
* * * * * * * *
49228769 CAACCACATTTTATGATTGTTAGAATAAATATTTGACGATGACATATAGTTGTTGTGCAATGTTA
1 CAACCACATTTCATGATAGTTAAAATAAATATTTGACAATGACATATAGTCGATGTGCAACGTAA
* ** * * * ** *
49228834 TACACATCTGATTAAAATGTCGTTGCAAAATAATATTTGCAATCAATTGTATTATTGTTATATAA
66 TACACAACCAATTAAAATATCATT-CAAAATAATATTTGCAACCAATTGTATTACAGTTACATAA
*
49228899 ATGATTTGC
130 AAGATTTGC
*
49228908 CAACCACATTTCATGATAGTTAAAATAAATTTTTGACAATGACATATTA-TCGATGTGCAACGTA
1 CAACCACATTTCATGATAGTTAAAATAAATATTTGACAATGACATA-TAGTCGATGTGCAACGTA
*
49228972 ATACACAACCAATTAAAATATTATT-ATAAATAATATTTGGCAACCAATAT-TATTACAGTTACA
65 ATACACAACCAATTAAAATATCATTCA-AAATAATATTT-GCAACCAAT-TGTATTACAGTTACA
49229035 TAAAAGATTT
127 TAAAAGATTT
49229045 AACATCAAAA
Statistics
Matches: 113, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
137 1 0.01
138 11 0.10
139 98 0.87
140 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (138 bp):
CAACCACATTTCATGATAGTTAAAATAAATATTTGACAATGACATATAGTCGATGTGCAACGTAA
TACACAACCAATTAAAATATCATTCAAAATAATATTTGCAACCAATTGTATTACAGTTACATAAA
AGATTTGC
Found at i:49235442 original size:3 final size:3
Alignment explanation
Indices: 49235434--49235473 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
49235424 TGTAACTTAG
*
49235434 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
49235474 ACACTTCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49237531 original size:12 final size:12
Alignment explanation
Indices: 49237506--49237551 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
49237496 TTACTTTCTC
49237506 CTTTTCAGAAGTG
1 CTTTTCA-AAGTG
49237519 CTTTTCAAAGTG
1 CTTTTCAAAGTG
49237531 CTTTTCAAAGTG
1 CTTTTCAAAGTG
49237543 CTTTTCAAA
1 CTTTTCAAA
49237552 AGCACTTCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 26 0.79
13 7 0.21
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (12 bp):
CTTTTCAAAGTG
Found at i:49241658 original size:28 final size:28
Alignment explanation
Indices: 49241638--49241691 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
49241628 CCTAAATTCT
49241638 CAACTCCCAATCTTCAATCCTCAATTTC
1 CAACTCCCAATCTTCAATCCTCAATTTC
* * *
49241666 CAATTTCCAATTTTCAATCCTCAATT
1 CAACTCCCAATCTTCAATCCTCAATT
49241692 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (28 bp):
CAACTCCCAATCTTCAATCCTCAATTTC
Found at i:49241864 original size:16 final size:16
Alignment explanation
Indices: 49241824--49241880 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
49241814 ATGGTAAGAA
* *
49241824 AATTTATTAAATTATT
1 AATTTTTTAGATTATT
* *
49241840 AAATATTTA-ATTATT
1 AATTTTTTAGATTATT
*
49241855 ATATTTTTTAGGTTATT
1 A-ATTTTTTAGATTATT
49241872 AATTTTTTA
1 AATTTTTTA
49241881 TATTTATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 7 0.21
16 20 0.61
17 6 0.18
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (16 bp):
AATTTTTTAGATTATT
Found at i:49263815 original size:27 final size:28
Alignment explanation
Indices: 49263701--49263828 Score: 168
Period size: 28 Copynumber: 4.6 Consensus size: 28
49263691 ATCATGAGAT
* * * *
49263701 TAGCGCTAAGTGTGCGGGTTTAAATTGTA
1 TAGCACTAAGTGTGCGAGTTT-GATTATA
* * *
49263730 CAGTACTAAGTGTGCGAGTTTGATTATG
1 TAGCACTAAGTGTGCGAGTTTGATTATA
49263758 TAGCACTAAGTGTGCGAGTTTGATTATA
1 TAGCACTAAGTGTGCGAGTTTGATTATA
49263786 TAGCACTAAGTGTGCGAG-TTGATTATA
1 TAGCACTAAGTGTGCGAGTTTGATTATA
*
49263813 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
49263829 GACTTAATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 24 0.27
28 47 0.53
29 17 0.19
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGCACTAAGTGTGCGAGTTTGATTATA
Found at i:49263839 original size:27 final size:27
Alignment explanation
Indices: 49263734--49263841 Score: 110
Period size: 28 Copynumber: 3.9 Consensus size: 27
49263724 ATTGTACAGT
* * *
49263734 ACTAAGTGTGCGAGTTTGATTATGTAGC
1 ACTAAGTGTGCGA-CTTGAATATATAGC
* *
49263762 ACTAAGTGTGCGAGTTTGATTATATAGC
1 ACTAAGTGTGCGA-CTTGAATATATAGC
* *
49263790 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGACTTGAATATATAGC
*
49263817 ACTGAGTGTGCGGACTT-AATATATA
1 ACTAAGTGTGC-GACTTGAATATATA
49263842 CTTTTGAATC
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 30 0.41
28 44 0.59
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (27 bp):
ACTAAGTGTGCGACTTGAATATATAGC
Found at i:49272015 original size:56 final size:56
Alignment explanation
Indices: 49271924--49272046 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
49271914 GAGATTGGCG
* * *
49271924 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
49271981 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
49272036 CTGAGTGTGCG
1 CTAAGTGTGCG
49272047 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:49272033 original size:27 final size:28
Alignment explanation
Indices: 49271924--49272046 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
49271914 GAGATTGGCG
* * * *
49271924 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
49271953 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
49271981 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
49272009 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
49272036 CTGAGTGTGCG
1 CTAAGTGTGCG
49272047 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:49272057 original size:27 final size:27
Alignment explanation
Indices: 49271949--49272059 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
49271939 TAAATTGTAC
* * *
49271949 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
49271977 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
49272005 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
49272032 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
49272059 A
1 A
49272060 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:49277150 original size:30 final size:29
Alignment explanation
Indices: 49277116--49277179 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
49277106 TTAGTAATGG
* *
49277116 TAAAATTATATTTTAGTCTTTTAAAAATAA
1 TAAAATT-TAATTTAATCTTTTAAAAATAA
*
49277146 TAAAAATTTAATTTAATCTTTTAAAAATTA
1 T-AAAATTTAATTTAATCTTTTAAAAATAA
49277176 TAAA
1 TAAA
49277180 GATATAGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 3 0.10
30 21 0.70
31 6 0.20
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (29 bp):
TAAAATTTAATTTAATCTTTTAAAAATAA
Found at i:49281624 original size:28 final size:29
Alignment explanation
Indices: 49281585--49281656 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
49281575 TTCTCGGGAC
* *
49281585 ATTTTTTCAGAACCCATCTCGTCAAAATT
1 ATTTTTTCAGAACCCATATCATCAAAATT
49281614 A-TTTTTCAGAACCCATATCATCAAAATT
1 ATTTTTTCAGAACCCATATCATCAAAATT
*
49281642 ATTTTTTCAAAACCC
1 ATTTTTTCAGAACCC
49281657 CTAAACCCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 26 0.67
29 13 0.33
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.38
Consensus pattern (29 bp):
ATTTTTTCAGAACCCATATCATCAAAATT
Found at i:49281912 original size:29 final size:29
Alignment explanation
Indices: 49281870--49281944 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
49281860 AAAAATGCAT
* * *
49281870 TGACCTAGACGCGTTTTTCTTTAGTGTGC
1 TGACCTGGATGCGTTTTTCTTTAGCGTGC
*
49281899 TGACCTGGATGCGTTTTTCTTTAGCGTGT
1 TGACCTGGATGCGTTTTTCTTTAGCGTGC
49281928 TGACCTGGATGCGTTTT
1 TGACCTGGATGCGTTTT
49281945 ATTGGTCAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.12, C:0.19, G:0.27, T:0.43
Consensus pattern (29 bp):
TGACCTGGATGCGTTTTTCTTTAGCGTGC
Found at i:49282357 original size:14 final size:14
Alignment explanation
Indices: 49282338--49282371 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49282328 ATAAAATTTT
49282338 GAGTTAATCGAATC
1 GAGTTAATCGAATC
*
49282352 GAGTTAATTGAATC
1 GAGTTAATCGAATC
*
49282366 AAGTTA
1 GAGTTA
49282372 TTCAAGTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (14 bp):
GAGTTAATCGAATC
Found at i:49282453 original size:18 final size:18
Alignment explanation
Indices: 49282430--49282467 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
49282420 TAAATTTTAC
49282430 AATTTGAATAACTCGAAT
1 AATTTGAATAACTCGAAT
*
49282448 AATTTGAATAATTCGAAT
1 AATTTGAATAACTCGAAT
49282466 AA
1 AA
49282468 CAAATTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (18 bp):
AATTTGAATAACTCGAAT
Found at i:49282587 original size:19 final size:20
Alignment explanation
Indices: 49282544--49282604 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
49282534 CAAAAATTAC
49282544 AAAAAATTCAAAATAATTTTT
1 AAAAAATTCAAAAT-ATTTTT
49282565 --AAAATTCAAAAT-TTTTT
1 AAAAAATTCAAAATATTTTT
* *
49282582 AAAAAATT-ATAATAGTTTT
1 AAAAAATTCAAAATATTTTT
49282601 AAAA
1 AAAA
49282605 TTTTTTCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 5 0.14
18 4 0.11
19 26 0.74
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTTT
Found at i:49284995 original size:15 final size:17
Alignment explanation
Indices: 49284955--49284995 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
49284945 ATCCATTATA
49284955 CATGATTAAATGATAAGT
1 CATGATT-AATGATAAGT
49284973 CATG-TTAATGA-AAGT
1 CATGATTAATGATAAGT
49284988 -ATGATTAA
1 CATGATTAA
49284996 ATTAATTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 8 0.36
16 5 0.23
17 2 0.09
18 4 0.18
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (17 bp):
CATGATTAATGATAAGT
Found at i:49286197 original size:30 final size:30
Alignment explanation
Indices: 49286108--49286200 Score: 118
Period size: 30 Copynumber: 3.2 Consensus size: 30
49286098 TCCCAGATGG
* *
49286108 GTAA-CCTAATATAAT-TCAGCTTGTGTGA
1 GTAACCCTGATATAATGTTAGCTTGTGTGA
* *
49286136 GCAACCTTGATATAATGTTAGCTTGTGTGA
1 GTAACCCTGATATAATGTTAGCTTGTGTGA
* *
49286166 GTAACCCTGATATAATGTTAGCCTGTATGA
1 GTAACCCTGATATAATGTTAGCTTGTGTGA
49286196 GTAAC
1 GTAAC
49286201 TTAATCACCC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 3 0.05
29 9 0.16
30 43 0.78
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (30 bp):
GTAACCCTGATATAATGTTAGCTTGTGTGA
Found at i:49289036 original size:25 final size:26
Alignment explanation
Indices: 49288985--49289037 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
49288975 CAGAATTTTT
* *
49288985 ATATTTTCAAAATGTATATCATTTATC
1 ATATTTTCAAAATATATAACA-TTATC
49289012 ATATTTTCAAAATATATAACA-TATC
1 ATATTTTCAAAATATATAACATTATC
49289037 A
1 A
49289038 GAATAAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
27 19 0.79
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (26 bp):
ATATTTTCAAAATATATAACATTATC
Found at i:49290039 original size:14 final size:15
Alignment explanation
Indices: 49290008--49290041 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
49289998 AAACTTCATA
49290008 AAAAGAAACAAGAAG
1 AAAAGAAACAAGAAG
49290023 AAAAGAAACAA-AAG
1 AAAAGAAACAAGAAG
49290037 AAAAG
1 AAAAG
49290042 GAAGAACGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.76, C:0.06, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAACAAGAAG
Found at i:49297103 original size:17 final size:17
Alignment explanation
Indices: 49297073--49297115 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
49297063 TGTGTAATCA
* *
49297073 CACACGGCCCTGTGCTC
1 CACACGGTCCTGTGATC
* *
49297090 CACACGGTCGTGTGATG
1 CACACGGTCCTGTGATC
49297107 CACACGGTC
1 CACACGGTC
49297116 TGCCACACGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.16, C:0.37, G:0.28, T:0.19
Consensus pattern (17 bp):
CACACGGTCCTGTGATC
Found at i:49309087 original size:36 final size:38
Alignment explanation
Indices: 49309030--49309100 Score: 94
Period size: 36 Copynumber: 1.9 Consensus size: 38
49309020 TTTTTATTTC
49309030 TTTACATTTTTTATAATTTTCT-TATGACTTTATAAAAT
1 TTTACATTTTTTATAATTTTCTATAT-ACTTTATAAAAT
* *
49309068 TTTATATTTTTTAT-A-TTTCTATATATTTTATAA
1 TTTACATTTTTTATAATTTTCTATATACTTTATAA
49309101 TTCGTTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 13 0.43
37 4 0.13
38 13 0.43
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (38 bp):
TTTACATTTTTTATAATTTTCTATATACTTTATAAAAT
Found at i:49309096 original size:17 final size:16
Alignment explanation
Indices: 49309066--49309099 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
49309056 ACTTTATAAA
*
49309066 ATTTTATATTTTTTAT
1 ATTTTATATATTTTAT
49309082 ATTTCTATATATTTTAT
1 ATTT-TATATATTTTAT
49309099 A
1 A
49309100 ATTCGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTATATATTTTAT
Found at i:49309398 original size:87 final size:88
Alignment explanation
Indices: 49309243--49309466 Score: 265
Period size: 87 Copynumber: 2.5 Consensus size: 88
49309233 AATTTTTAAG
* * *
49309243 AAAATCAAGGGCTTAATTGCTTGTTTTGAAAAAGTTTAAAGGC-CTTTTTGATGCATTTTGAAAG
1 AAAAT-AAGGGCTTAATT-CTT-TTTTTAAAAAGTTTAAGGGCTTTTTTTGATGCATTTTGAAAG
*
49309307 TTCAAGTACCCAATTGAGTG-CAAAA
63 TTCAAGTACCCAAATGAGTGACAAAA
* * * *
49309332 AAAGTAGGGGCTTAATT-TTTTTTTAAAAAGGTTTAAGGGCTTTTTTTTATGTATTTTGAAAGTT
1 AAAATAAGGGCTTAATTCTTTTTTTAAAAA-GTTTAAGGGCTTTTTTTGATGCATTTTGAAAGTT
*
49309396 CAAGTACCCAAATGAGTGATAAAA
65 CAAGTACCCAAATGAGTGACAAAA
* * *
49309420 AAAATAAGAGCTTAATTACTTTTTTTGAAAAAGTTTGAGGACTTTTT
1 AAAATAAGGGCTTAATT-CTTTTTTT-AAAAAGTTTAAGGGCTTTTT
49309467 ACACTGTAAG
Statistics
Matches: 115, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
85 9 0.08
86 11 0.10
87 37 0.32
88 29 0.25
89 4 0.03
90 20 0.17
91 5 0.04
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (88 bp):
AAAATAAGGGCTTAATTCTTTTTTTAAAAAGTTTAAGGGCTTTTTTTGATGCATTTTGAAAGTTC
AAGTACCCAAATGAGTGACAAAA
Found at i:49310296 original size:10 final size:9
Alignment explanation
Indices: 49310246--49310310 Score: 55
Period size: 9 Copynumber: 7.1 Consensus size: 9
49310236 TTCCCTTCCC
49310246 TTTCTTCTT
1 TTTCTTCTT
49310255 TTGT-TTCTT
1 TT-TCTTCTT
49310264 CTTTCTTTCTT
1 -TTTC-TTCTT
49310275 TTTC--CTT
1 TTTCTTCTT
*
49310282 CTTCTTCATT
1 TTTCTTC-TT
49310292 TTTCTTCTT
1 TTTCTTCTT
*
49310301 TTTCATCTT
1 TTTCTTCTT
49310310 T
1 T
49310311 CAAGTGAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
7 6 0.13
9 20 0.43
10 15 0.33
11 5 0.11
ACGTcount: A:0.03, C:0.23, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTCTTCTT
Found at i:49310305 original size:16 final size:16
Alignment explanation
Indices: 49310258--49310311 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
49310248 TCTTCTTTTG
49310258 TTTCTTCTTTCTTTC-TT
1 TTTCTTC-TT-TTTCATT
*
49310275 TTTCCTTCTTCTTCATT
1 TTT-CTTCTTTTTCATT
*
49310292 TTTCTTCTTTTTCATC
1 TTTCTTCTTTTTCATT
49310308 TTTC
1 TTTC
49310312 AAGTGAGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 18 0.56
17 10 0.31
18 4 0.12
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTCTTCTTTTTCATT
Found at i:49312394 original size:23 final size:23
Alignment explanation
Indices: 49312368--49312489 Score: 192
Period size: 23 Copynumber: 5.3 Consensus size: 23
49312358 ATAAGTGGCA
49312368 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
49312391 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
49312414 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
49312437 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
49312460 CACTGA-ATTGTAGCCGAATCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
49312483 CACTGAT
1 CACTGAT
49312490 CAATAACACT
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
22 1 0.01
23 89 0.99
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:49312435 original size:46 final size:46
Alignment explanation
Indices: 49312368--49312489 Score: 217
Period size: 46 Copynumber: 2.7 Consensus size: 46
49312358 ATAAGTGGCA
*
49312368 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
49312414 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
* *
49312460 CACTGAATTGTAGCCGAATCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
49312490 CAATAACACT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
Found at i:49313873 original size:42 final size:42
Alignment explanation
Indices: 49313814--49313901 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
49313804 GATATCACAA
* * * *
49313814 TGTGAATCACACGAGCAAGGACACGAGCGTGTGTGCAGGCTG
1 TGTGAACCACACAAGCAAGGACACGAGCGTGTGTCCAGGCCG
*
49313856 TGTGAACCACACAAGCAAGGACACGAGTGTGTGTCCAGGCCG
1 TGTGAACCACACAAGCAAGGACACGAGCGTGTGTCCAGGCCG
49313898 TGTG
1 TGTG
49313902 GCATATTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.34, T:0.17
Consensus pattern (42 bp):
TGTGAACCACACAAGCAAGGACACGAGCGTGTGTCCAGGCCG
Found at i:49322640 original size:25 final size:25
Alignment explanation
Indices: 49322608--49322660 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
49322598 CTAAGTACAA
* *
49322608 TTTTAGAAAGTACTAGCTACAGTGT
1 TTTTAGAAAGTACTAACTACAATGT
*
49322633 TTTTAGAAAGTTCTAACTACAATGT
1 TTTTAGAAAGTACTAACTACAATGT
49322658 TTT
1 TTT
49322661 CTAAATTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (25 bp):
TTTTAGAAAGTACTAACTACAATGT
Found at i:49331346 original size:38 final size:38
Alignment explanation
Indices: 49331282--49331354 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
49331272 TTAACATAGG
49331282 GTTAGTTTTAGTTTAGATTAAATTAATTAATTAATTTT
1 GTTAGTTTTAGTTTAGATTAAATTAATTAATTAATTTT
* * * *
49331320 GTTATTTTTA-TTATAGCTTAATTTAATTAGTTAAT
1 GTTAGTTTTAGTT-TAGATTAAATTAATTAATTAAT
49331355 AATTATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 2 0.07
38 28 0.93
ACGTcount: A:0.33, C:0.01, G:0.10, T:0.56
Consensus pattern (38 bp):
GTTAGTTTTAGTTTAGATTAAATTAATTAATTAATTTT
Found at i:49332423 original size:12 final size:12
Alignment explanation
Indices: 49332406--49332430 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49332396 ATTATATGAG
49332406 TTGATTTAAAAT
1 TTGATTTAAAAT
49332418 TTGATTTAAAAT
1 TTGATTTAAAAT
49332430 T
1 T
49332431 CAGATAACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TTGATTTAAAAT
Found at i:49336228 original size:20 final size:20
Alignment explanation
Indices: 49336203--49336278 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
49336193 CAAAATAGTT
*
49336203 ATATATATTAATTATTTAAA
1 ATATATATTAAATATTTAAA
* *
49336223 ATATATTTTAAAT-TTTAGA
1 ATATATATTAAATATTTAAA
* * * *
49336242 TTAATACACTAACTATTTAAA
1 AT-ATATATTAAATATTTAAA
49336263 ATATAT-TTAAAT-TTTA
1 ATATATATTAAATATTTA
49336279 GATTTATTTA
Statistics
Matches: 41, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
18 4 0.10
19 10 0.24
20 21 0.51
21 6 0.15
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (20 bp):
ATATATATTAAATATTTAAA
Found at i:49336286 original size:17 final size:17
Alignment explanation
Indices: 49336266--49336310 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
49336256 ATTTAAAATA
49336266 TATTTAAATTTTAGATT
1 TATTTAAATTTTAGATT
* **
49336283 TATTTATATTTTATCTT
1 TATTTAAATTTTAGATT
49336300 TATATTAAATT
1 TAT-TTAAATT
49336311 ATTCAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TATTTAAATTTTAGATT
Found at i:49340595 original size:25 final size:25
Alignment explanation
Indices: 49340566--49340616 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
49340556 GGGCAATGGC
*
49340566 ATGAGAGAAAACGGAGAATGGAGAG
1 ATGAGAGAAAACGAAGAATGGAGAG
49340591 ATGAGAGAAAACGAAGAATGGAGAG
1 ATGAGAGAAAACGAAGAATGGAGAG
49340616 A
1 A
49340617 AAAAGGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.37, T:0.08
Consensus pattern (25 bp):
ATGAGAGAAAACGAAGAATGGAGAG
Found at i:49341329 original size:3 final size:3
Alignment explanation
Indices: 49341314--49341394 Score: 90
Period size: 3 Copynumber: 27.0 Consensus size: 3
49341304 TTTAAGATTT
* * ** *
49341314 TTA TTA TTG TTA TTA TTA TTA TTA TTA ATA CCA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
49341362 TTG TTA CCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49341395 AATTGTTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:49341357 original size:24 final size:24
Alignment explanation
Indices: 49341325--49341388 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
49341315 TATTATTGTT
49341325 ATTATTATTATTATTAATACCATC
1 ATTATTATTATTATTAATACCATC
** *
49341349 ATTATTATTATTATTGTTACCATT
1 ATTATTATTATTATTAATACCATC
49341373 ATTATTATTATTATTA
1 ATTATTATTATTATTA
49341389 TTATTAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTATTATTATTATTAATACCATC
Found at i:49347769 original size:19 final size:19
Alignment explanation
Indices: 49347745--49347783 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
49347735 AGGGGAAAAG
* *
49347745 TGGGAGGAAGTAAAAATTT
1 TGGGAGAAAATAAAAATTT
*
49347764 TGGGAGAAAATAAAAGTTT
1 TGGGAGAAAATAAAAATTT
49347783 T
1 T
49347784 TGAGGGTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (19 bp):
TGGGAGAAAATAAAAATTT
Found at i:49348085 original size:9 final size:9
Alignment explanation
Indices: 49348068--49348098 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49348058 TTGAGTTGAT
49348068 TCGAATAAC
1 TCGAATAAC
*
49348077 TCGATTAAC
1 TCGAATAAC
49348086 TCGAATAAC
1 TCGAATAAC
49348095 TCGA
1 TCGA
49348099 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:49350479 original size:15 final size:16
Alignment explanation
Indices: 49350461--49350508 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
49350451 ATTTATATGT
49350461 ATAAGTTATAA-AATA
1 ATAAGTTATAATAATA
*
49350476 ATAATACTTATAATAATA
1 AT-A-AGTTATAATAATA
49350494 AT-AGTTATAATAATA
1 ATAAGTTATAATAATA
49350509 GAATAGAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 14 0.50
16 1 0.04
17 7 0.25
18 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (16 bp):
ATAAGTTATAATAATA
Found at i:49351367 original size:16 final size:16
Alignment explanation
Indices: 49351348--49351381 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49351338 AAATTAATAT
* *
49351348 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
49351364 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
49351380 AT
1 AT
49351382 TGGATATTGG
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:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:49353920 original size:20 final size:20
Alignment explanation
Indices: 49353895--49354019 Score: 144
Period size: 20 Copynumber: 6.2 Consensus size: 20
49353885 TTGTACGAGA
*
49353895 TTGCACTTCGGTGCCTCTAT
1 TTGCACTTCGGTGCCTCTGT
*
49353915 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
* *
49353935 TTCCACTGT-AGTGCCTCTGT
1 TTGCACT-TCGGTGCCTCTGT
* * *
49353955 CTACACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
* *
49353975 TTCCACTTCAGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
49353995 CTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
49354015 TTGCA
1 TTGCA
49354020 TTTCAATGCT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 1 0.01
20 86 0.98
21 1 0.01
ACGTcount: A:0.09, C:0.30, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:49353962 original size:40 final size:40
Alignment explanation
Indices: 49353898--49354016 Score: 168
Period size: 40 Copynumber: 3.0 Consensus size: 40
49353888 TACGAGATTG
* * * *
49353898 CACTTCGGTGCCTCTATTTGCACTTTGGTGCCTCTGTTTC
1 CACTTCAGTGCCTCTGTCTACACTTTGGTGCCTCTGTTTC
49353938 CACTGT-AGTGCCTCTGTCTACACTTTGGTGCCTCTGTTTC
1 CACT-TCAGTGCCTCTGTCTACACTTTGGTGCCTCTGTTTC
* *
49353978 CACTTCAGTGCCTCTGTCTGCACTTCGGTGCCTCTGTTT
1 CACTTCAGTGCCTCTGTCTACACTTTGGTGCCTCTGTTT
49354017 GCATTTCAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 69 0.97
41 1 0.01
ACGTcount: A:0.08, C:0.31, G:0.20, T:0.40
Consensus pattern (40 bp):
CACTTCAGTGCCTCTGTCTACACTTTGGTGCCTCTGTTTC
Found at i:49366607 original size:44 final size:44
Alignment explanation
Indices: 49366559--49367213 Score: 616
Period size: 44 Copynumber: 14.7 Consensus size: 44
49366549 TTAAGGAGTT
**
49366559 AAGATCTGTAATCTTCGATCTACTTCACACCAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* *
49366603 AAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* ***
49366647 AAGATCTTTTTTCTTCGATCTACTTCACGTTAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* * * * * *** *
49366691 AATATCTATTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACACCAATACATGAAGAC
* * * * *
49366736 AAGATCTGTTATCTTTGATCTACTTCACGCTAGTACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* * * ***
49366780 AAGATCTGTTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACACCAATACATGAAGAC
* * *
49366825 AAGATCTATTTTCTTTGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* ***
49366869 AAGATCTGTTTTCTTCGATCTACTTCACCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCA-CACCAATACATGAAGAC
***
49366914 AAGATCTGTTTTCTTCGATCTACTTCACGTTAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* * ***
49366958 AAGATCTGTTTTTTTCGATCTACTTCGCCACCAATATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACACCAATACATGAAGAC
* *
49367003 AAGATCTGTTTTCTTCGATCTACTTTGC-CACCAGTATGA-GAAGAC
1 AAGATCTGTTTTCTTCGATCTAC-TT-CACACCAATA-CATGAAGAC
* * * * *
49367048 AAGATCTATTTTCTTTGATCTACTTCACGCCAGTATATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* * ****
49367092 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTGTGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACACCAATACATGAAGAC
* * *
49367137 AAGATCTGGTATTT-TT-TATCTACTTCGCGCCAATACATGAAGAC
1 AAGATCT-GT-TTTCTTCGATCTACTTCACACCAATACATGAAGAC
* * * *
49367181 AAGATCTATTCTCTTTGATCTACTCCACCACCA
1 AAGATCTGTTTTCTTCGATCTACTTCA-CACCA
49367214 GTATGGGGAA
Statistics
Matches: 499, Mismatches: 97, Indels: 29
0.80 0.16 0.05
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
44 276 0.55
45 206 0.41
46 6 0.01
47 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
Found at i:49366774 original size:89 final size:89
Alignment explanation
Indices: 49366559--49367117 Score: 723
Period size: 89 Copynumber: 6.3 Consensus size: 89
49366549 TTAAGGAGTT
** * * *
49366559 AAGATCTGTAATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
* * * ***
49366624 ACTTC-ACGCCAATACATGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * *
49366647 AAGATCTTTTTTCTTCGATCTACTTCACGTTAATACATGAAGACAATATCTATTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
* *
49366712 GCTTCGCCACCAGTATGGGAAGGC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * *
49366736 AAGATCTGTTATCTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGTTTTCTTTGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
49366801 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * *
49366825 AAGATCTATTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
*
49366890 ACTTCACCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* *
49366914 AAGATCTGTTTTCTTCGATCTACTTCACGTTAATACATGAAGACAAGATCTGTTTTTTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
*
49366979 ACTTCGCCACCAATATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * *
49367003 AAGATCTGTTTTCTTCGATCTACTTTGCCAC-C-AGTATGA-GAAGACAAGATCTATTTTCTTTG
1 AAGATCTGTTTTCTTCGATCTAC-TT--CACGCTAATA-CATGAAGACAAGATCTGTTTTCTTCG
* * **
49367065 ATCTACTTC-ACGCCAGTATATGAAGAC
62 ATCTACTTCGCCACCAGTATGGGAAGAC
49367092 AAGATCTGTTTTCTTCGATCTACTTC
1 AAGATCTGTTTTCTTCGATCTACTTC
49367118 GCCACCAGTG
Statistics
Matches: 415, Mismatches: 51, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
86 1 0.00
88 62 0.15
89 314 0.76
90 34 0.08
91 1 0.00
92 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (89 bp):
AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
ACTTCGCCACCAGTATGGGAAGAC
Found at i:49366883 original size:178 final size:176
Alignment explanation
Indices: 49366559--49367204 Score: 735
Period size: 178 Copynumber: 3.6 Consensus size: 176
49366549 TTAAGGAGTT
* * *
49366559 AAGATCTGTAATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTG-TTTTTTTGATCT
* * * * **
49366624 ACTTC-ACGCCAATACATGAAGACAAGATCTTTTTTCTTCGATCTACTTCACGTTAATACATGAA
65 ACTTCGCCACCAATACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAA
* * *
49366688 GACAATATCTATTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGC
130 GACAAGATCTATTTTCTTCGATCTACTTC-CCACCAGTATGGGAAGAC
* * * *
49366736 AAGATCTGTTATCTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGTTTTCTTTGATCT
1 AAGATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGTTTT-TTTGATCT
* ** *
49366801 ACTTCGCCACCAGTATGGGAAGACAAGATCTATTTTCTTTGATCTACTTCACGCCAATACATGAA
65 ACTTCGCCACCAATACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAA
*
49366866 GACAAGATCTGTTTTCTTCGATCTACTTCACCACCAGTATGGGAAGAC
130 GACAAGATCTATTTTCTTCGATCTACTTC-CCACCAGTATGGGAAGAC
* ***
49366914 AAGATCTGTTTTCTTCGATCTACTTCACGTTAATACATGAAGACAAGATCTGTTTTTTTCGATCT
1 AAGATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGTTTTTTT-GATCT
** * * * *
49366979 ACTTCGCCACCAATATGGGAAGACAAGATCTGTTTTCTTCGATCTACTTTGC-CACCAGTATGA-
65 ACTTCGCCACCAATACAGGAAGACAAGATCTATTTTCTTCGATCTAC-TT-CACGCCAATA-CAT
* * * **
49367042 GAAGACAAGATCTATTTTCTTTGATCTACTTCACGCCAGTATATGAAGAC
127 GAAGACAAGATCTATTTTCTTCGATCTACTTCCCACCAGTATGGGAAGAC
* * * ****
49367092 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTGTGGGAAGACAAGATCTGGTATTTTTT-AT
1 AAGATCTGTTATCTTCGATCTACTTC-ACACCAATACATGAAGACAAGATCT-GT-TTTTTTGAT
* * * *
49367156 CTACTTCG-CGCCAATACATGAAGACAAGATCTATTCTCTTTGATCTACT
63 CTACTTCGCCACCAATACAGGAAGACAAGATCTATTTTCTTCGATCTACT
49367205 CCACCACCAG
Statistics
Matches: 406, Mismatches: 54, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
176 3 0.01
177 63 0.16
178 266 0.66
179 64 0.16
180 4 0.01
181 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (176 bp):
AAGATCTGTTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGTTTTTTTGATCTA
CTTCGCCACCAATACAGGAAGACAAGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAAG
ACAAGATCTATTTTCTTCGATCTACTTCCCACCAGTATGGGAAGAC
Found at i:49367158 original size:89 final size:88
Alignment explanation
Indices: 49366559--49367231 Score: 553
Period size: 89 Copynumber: 7.6 Consensus size: 88
49366549 TTAAGGAGTT
** * * *** * *
49366559 AAGATCTGTAATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTCTTTGATCT
* * ***
49366624 ACTTCACGCCAATACATGAAGAC
66 ACTTCACACCAGTATGGGAAGAC
* * *** * *** * * *
49366647 AAGATCTTTTTTCTTCGATCTACTTCACGTTAATACATGAAGACAATATCTATTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTCTTTGATCT
* * *
49366712 GCTTCGCCACCAGTATGGGAAGGC
66 ACTTC-ACACCAGTATGGGAAGAC
* * * * * ***
49366736 AAGATCTGTTATCTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGTTTTCTTTGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTCTTTGATCT
*
49366801 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTC-ACACCAGTATGGGAAGAC
* * * * * *** *
49366825 AAGATCTATTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTCTTTGATCT
49366890 ACTTCACCACCAGTATGGGAAGAC
66 ACTTCA-CACCAGTATGGGAAGAC
* *** * ***
49366914 AAGATCTGTTTTCTTCGATCTACTTCACGTTAATACATGAAGACAAGATCTGTTTT-TTTCGATC
1 AAGATCTGTTTTCTTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTCTTT-GATC
* *
49366978 TACTTCGCCACCAATATGGGAAGAC
65 TACTTC-ACACCAGTATGGGAAGAC
* * *
49367003 AAGATCTGTTTTCTTCGATCTACTTTGCCACCAGTATGAGAAGACAAGATCTATTTTCTTTGATC
1 AAGATCTGTTTTCTTCGATCTAC-TTCCCACCAGTATGGGAAGACAAGATCTGTTTTCTTTGATC
* **
49367068 TACTTCACGCCAGTATATGAAGAC
65 TACTTCACACCAGTATGGGAAGAC
*
49367092 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTGTGGGAAGACAAGATCTGGTATTT-TTT-A
1 AAGATCTGTTTTCTTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCT-GT-TTTCTTTGA
* * * ***
49367155 TCTACTTCGCGCCAATACATGAAGAC
63 TCTACTTCACACCAGTATGGGAAGAC
* * * *
49367181 AAGATCTATTCTCTTTGATCTACTCCACCACCAGTATGGGGAA-ACAAGATC
1 AAGATCTGTTTTCTTCGATCTACTTC-CCACCAGTAT-GGGAAGACAAGATC
49367232 CACTGCTACT
Statistics
Matches: 507, Mismatches: 68, Indels: 19
0.85 0.11 0.03
Matches are distributed among these distances:
88 64 0.13
89 395 0.78
90 42 0.08
91 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (88 bp):
AAGATCTGTTTTCTTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTCTTTGATCT
ACTTCACACCAGTATGGGAAGAC
Found at i:49375303 original size:20 final size:20
Alignment explanation
Indices: 49375274--49375313 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49375264 TAAAGATCTT
*
49375274 TAATGCATATAATGTGATGC
1 TAATGCATATAATGCGATGC
* *
49375294 TAATGTATATGATGCGATGC
1 TAATGCATATAATGCGATGC
49375314 ATGAGATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (20 bp):
TAATGCATATAATGCGATGC
Found at i:49382141 original size:37 final size:40
Alignment explanation
Indices: 49382094--49382167 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 40
49382084 CAAGTATTCA
* * *
49382094 TTAAATTTTTTAATTTAAA-A-TAAAATAGTTAAATATCT
1 TTAAATTTTTTAATGTAAAGAGGAAAATAATTAAATATCT
49382132 TTAAA-TTTTTAATGTAAAGAGGAAAATAATTAAATA
1 TTAAATTTTTTAATGTAAAGAGGAAAATAATTAAATA
49382168 ATATGTCTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 12 0.39
38 6 0.19
39 13 0.42
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (40 bp):
TTAAATTTTTTAATGTAAAGAGGAAAATAATTAAATATCT
Found at i:49389755 original size:37 final size:38
Alignment explanation
Indices: 49389700--49389779 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
49389690 GAGAAAGTAA
49389700 AAGGAAATAAAAAGGCATTAGTGAATG-AAAACTATAC
1 AAGGAAATAAAAAGGCATTAGTGAATGAAAAACTATAC
* * *
49389737 AAGGTAATAAAGAGGCATTAGTGAATGAAAAAGTATAC
1 AAGGAAATAAAAAGGCATTAGTGAATGAAAAACTATAC
49389775 AAGGA
1 AAGGA
49389780 GCATGATGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 25 0.66
38 13 0.34
ACGTcount: A:0.53, C:0.06, G:0.23, T:0.19
Consensus pattern (38 bp):
AAGGAAATAAAAAGGCATTAGTGAATGAAAAACTATAC
Found at i:49391113 original size:25 final size:25
Alignment explanation
Indices: 49391084--49391132 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
49391074 AAAGAAGAAG
49391084 CGAATTTG-ACACTCACCAAAACAAA
1 CGAATTTGCA-ACTCACCAAAACAAA
*
49391109 CGAATTTGCAAGTCACCAAAACAA
1 CGAATTTGCAACTCACCAAAACAA
49391133 TGGAGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.47, C:0.27, G:0.10, T:0.16
Consensus pattern (25 bp):
CGAATTTGCAACTCACCAAAACAAA
Found at i:49405189 original size:20 final size:20
Alignment explanation
Indices: 49405145--49405182 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49405135 GTGAAACTTG
* *
49405145 CACACAGGTGTGTAGATCAC
1 CACACAGGCGTGTAGACCAC
49405165 CACACAGGCGTGTAGACC
1 CACACAGGCGTGTAGACC
49405183 TCTACACCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (20 bp):
CACACAGGCGTGTAGACCAC
Found at i:49409996 original size:31 final size:28
Alignment explanation
Indices: 49409928--49409998 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 28
49409918 AATGTGTGAC
* *
49409928 AAAATTAAATTTGAGTACTAATTTAAAT
1 AAAATTAAATTTAAATACTAATTTAAAT
49409956 AAAA--AAATTTAAATACTAATTTAAACCTT
1 AAAATTAAATTTAAATACTAATTTAAA---T
49409985 AAAATTAAATTTAA
1 AAAATTAAATTTAA
49409999 GTATGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
26 19 0.53
28 4 0.11
29 5 0.14
31 8 0.22
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATTAAATTTAAATACTAATTTAAAT
Found at i:49410715 original size:87 final size:87
Alignment explanation
Indices: 49410589--49410787 Score: 283
Period size: 87 Copynumber: 2.3 Consensus size: 87
49410579 TAAACTTAAA
* * * *
49410589 AAAAAAACAATTAAGTCCCTCCTTTTTTTTTGCATTCAATTGAGCACTTGAACTTTCAAAATGCA
1 AAAAAAACAATTAAGCCCCTGC--TTTGTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCA
*
49410654 TCAAAAAGACCCTCAAACTTCTTC
64 TCAAAAAGACCCTCAAAATTCTTC
* * *
49410678 AAAAAAAGCAATTAAGCCCCTGCTTTGTTT-CACTCAATTGGGTATTTGAACTTTCAAAATGCAT
1 AAAAAAA-CAATTAAGCCCCTGCTTTGTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCAT
*
49410742 CAAAAAGACCCTCAAAATTTTTC
65 CAAAAAGACCCTCAAAATTCTTC
49410765 AAAAAAACAATTAAGCCCCTGCT
1 AAAAAAACAATTAAGCCCCTGCT
49410788 CTTATTAAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
86 16 0.16
87 58 0.58
88 6 0.06
89 7 0.07
90 13 0.13
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (87 bp):
AAAAAAACAATTAAGCCCCTGCTTTGTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCATC
AAAAAGACCCTCAAAATTCTTC
Found at i:49410838 original size:18 final size:19
Alignment explanation
Indices: 49410815--49410863 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
49410805 AAAAATGATA
49410815 AAAAATAATAAATTTT-AG
1 AAAAATAATAAATTTTAAG
* *
49410833 AAAAATTATTAAATTTTAAT
1 AAAAA-TAATAAATTTTAAG
49410853 AAAAAT-ATAAA
1 AAAAATAATAAA
49410864 AAATTACAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATAATAAATTTTAAG
Found at i:49410884 original size:17 final size:17
Alignment explanation
Indices: 49410862--49410897 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
49410852 TAAAAATATA
49410862 AAAAATTACAATTTATT
1 AAAAATTACAATTTATT
*
49410879 AAAAATTACAATTTTTT
1 AAAAATTACAATTTATT
49410896 AA
1 AA
49410898 TAAAAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTACAATTTATT
Found at i:49410948 original size:29 final size:30
Alignment explanation
Indices: 49410892--49410948 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
49410882 AATTACAATT
***
49410892 TTTTAATAAAAATCATAAAAATTTTTAAAA
1 TTTTAATAAAAATCATAAAAAAAATTAAAA
49410922 TTTT-ATAAAAATCATAAAAAAAATTAA
1 TTTTAATAAAAATCATAAAAAAAATTAA
49410949 TGACCCCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (30 bp):
TTTTAATAAAAATCATAAAAAAAATTAAAA
Found at i:49411153 original size:47 final size:46
Alignment explanation
Indices: 49411090--49411178 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
49411080 ATAAATTTTT
49411090 TTTACAAAATTTATATTTATTTAC-ATTTTGTATAATTTTCTTAGAC
1 TTTACAAAATTTATATTTATTTACGATTTT-TATAATTTTCTTAGAC
* * *
49411136 TTTATAAAATTTTATATTTTTTTACGATTTTTATATTTTTCTT
1 TTTACAAAA-TTTATATTTATTTACGATTTTTATAATTTTCTT
49411179 CTAATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
46 8 0.21
47 25 0.66
48 5 0.13
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (46 bp):
TTTACAAAATTTATATTTATTTACGATTTTTATAATTTTCTTAGAC
Found at i:49411185 original size:20 final size:19
Alignment explanation
Indices: 49411145--49411188 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
49411135 CTTTATAAAA
*
49411145 TTTTATATTTTTTTACGAT
1 TTTTATATTTTTTTACAAT
49411164 TTTTATATTTTTCTT-CTAAT
1 TTTTATATTTTT-TTAC-AAT
49411184 TTTTA
1 TTTTA
49411189 ATAAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTATATTTTTTTACAAT
Found at i:49412261 original size:23 final size:22
Alignment explanation
Indices: 49412230--49412278 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
49412220 TCACTGTTCT
* *
49412230 TTTTGTTTATATATTTCTTTTTA
1 TTTTCTTTAT-TATTTCATTTTA
*
49412253 TTTTCTTTATTTTTTCATTTTA
1 TTTTCTTTATTATTTCATTTTA
49412275 TTTT
1 TTTT
49412279 ATCTAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTCTTTATTATTTCATTTTA
Found at i:49412915 original size:19 final size:19
Alignment explanation
Indices: 49412874--49412915 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
49412864 TTATTCATAT
*
49412874 TATTGTTTATTACTATTTG
1 TATTGTTTATTACTATTTA
*
49412893 TATTAGTTTATTA-TTTTTA
1 TATT-GTTTATTACTATTTA
49412912 TATT
1 TATT
49412916 TATATGCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (19 bp):
TATTGTTTATTACTATTTA
Found at i:49415504 original size:2 final size:2
Alignment explanation
Indices: 49415497--49415523 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49415487 TCATCGGAAA
49415497 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
49415524 AAGAAAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49429552 original size:17 final size:18
Alignment explanation
Indices: 49429520--49429555 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
49429510 CAATTTTTGA
49429520 AAAAATATCATAATTTTT
1 AAAAATATCATAATTTTT
*
49429538 AAAAATA-CATTATTTTT
1 AAAAATATCATAATTTTT
49429555 A
1 A
49429556 TAATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATATCATAATTTTT
Found at i:49433124 original size:11 final size:11
Alignment explanation
Indices: 49433108--49433145 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
49433098 TTTGATATTT
49433108 TAATTGAGTTC
1 TAATTGAGTTC
49433119 TAATTGAGTTC
1 TAATTGAGTTC
49433130 TAATTGAGTTC
1 TAATTGAGTTC
49433141 TAATT
1 TAATT
49433146 AATGATGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (11 bp):
TAATTGAGTTC
Found at i:49433512 original size:451 final size:451
Alignment explanation
Indices: 49432670--49433563 Score: 1529
Period size: 451 Copynumber: 2.0 Consensus size: 451
49432660 TACTCTAGTT
* *
49432670 ATTGAGTTCTAATCAAATTCTAATTAATGATGGACTAGTTAGGAATTAGAACTAATATGCCAATG
1 ATTGAGTTCTAATCAAATTCTAATTAATGATGGAATAGTTAAGAATTAGAACTAATATGCCAATG
* *
49432735 TTATAAATATTGGGGTTATGGTTTTCAAATTAAACACAAGATATCTTTTTTAGTATCCCATCCTT
66 TTATAAATATTGGGGTTATGGTCTTCAAATTAAACACAAAATATCTTTTTTAGTATCCCATCCTT
* * *
49432800 AGCAAAGAGAGAGCAAATATTCTCTAAAGTTCTTATGTGCTAATTTGGAAGATCAAATCTCCAAG
131 AACAAAGAGAGAGCAAATATTCTCTAAAGTTCTTATGTACTAATTTGGAAGATCAAATCCCCAAG
* *
49432865 ATCCATAGATTTCAAGGAATTCATGGATTCAGGTACGCTGTTGCATCTAATTTTGTTCTTGATTT
196 ATCCATAGATTTCAAGGAATTCATAGATTCAAGTACGCTGTTGCATCTAATTTTGTTCTTGATTT
* * *
49432930 ATTTTTGATGATTTGATATGATAGATCTTAGTTTATTAAGTTTTATTTTAGATTTATTTTACAAA
261 ATTCTTGATAATTTGACATGATAGATCTTAGTTTATTAAGTTTTATTTTAGATTTATTTTACAAA
*
49432995 TCTAATAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTATT
326 TCTAACAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTATT
49433060 TTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTTTAATTGAGTTCTA
391 TTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTTTAATTGAGTTCTA
** *
49433121 ATTGAGTTCTAATTGAGTTCTAATTAATGATGGAAT-GATTAAGAATTAGAACTAATATGCCAAT
1 ATTGAGTTCTAATCAAATTCTAATTAATGATGGAATAG-TTAAGAATTAGAACTAATATGCCAAT
* * *
49433185 GTTATAAATATTGGGGTTATGGTCTTCAAATTACACATAAAATATCTTTTTTAGTATCCTATCCT
65 GTTATAAATATTGGGGTTATGGTCTTCAAATTAAACACAAAATATCTTTTTTAGTATCCCATCCT
* * *
49433250 TAATAAAGAGAGAGCAAATATTCTCTGAATTTCTTATGTACTAATTTGGAAGATCAAATCCCCAA
130 TAACAAAGAGAGAGCAAATATTCTCTAAAGTTCTTATGTACTAATTTGGAAGATCAAATCCCCAA
* *
49433315 GATCCGTAGATTTCAAGGAATTCATAGATTCAAGTACGTTGTTGCATCTAATTTTGTTCTTGATT
195 GATCCATAGATTTCAAGGAATTCATAGATTCAAGTACGCTGTTGCATCTAATTTTGTTCTTGATT
*
49433380 TATTCTTGATAATTTGACATGATAGATCTTGGTTTATTAAGTTTTATTTTAGATTTATTTTACAA
260 TATTCTTGATAATTTGACATGATAGATCTTAGTTTATTAAGTTTTATTTTAGATTTATTTTACAA
*
49433445 ATCTAGCAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTAT
325 ATCTAACAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTAT
*
49433510 TTTTGGATTGATTTGTTTTTCTTTTTTTAATTTTATGGATTTGATATTTTAATT
390 TTTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTTTAATT
49433564 ATTTATTATG
Statistics
Matches: 415, Mismatches: 27, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
450 1 0.00
451 414 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (451 bp):
ATTGAGTTCTAATCAAATTCTAATTAATGATGGAATAGTTAAGAATTAGAACTAATATGCCAATG
TTATAAATATTGGGGTTATGGTCTTCAAATTAAACACAAAATATCTTTTTTAGTATCCCATCCTT
AACAAAGAGAGAGCAAATATTCTCTAAAGTTCTTATGTACTAATTTGGAAGATCAAATCCCCAAG
ATCCATAGATTTCAAGGAATTCATAGATTCAAGTACGCTGTTGCATCTAATTTTGTTCTTGATTT
ATTCTTGATAATTTGACATGATAGATCTTAGTTTATTAAGTTTTATTTTAGATTTATTTTACAAA
TCTAACAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTATT
TTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTTTAATTGAGTTCTA
Found at i:49439578 original size:123 final size:123
Alignment explanation
Indices: 49439274--49439675 Score: 734
Period size: 123 Copynumber: 3.3 Consensus size: 123
49439264 TTATTTCGAG
*
49439274 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGGAATTGT
*
49439338 AAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
65 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAA-TTTTT
*
49439398 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGGAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGGAATTGTG
49439463 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTT
66 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTT
49439521 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGGAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGGAATTGTG
*
49439586 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATACTTTTT
66 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTT
*
49439644 TTGACATTTCTGAGCAAATAGTATAAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
49439676 GCCCTCGTGG
Statistics
Matches: 271, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
123 157 0.58
124 113 0.42
125 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.33
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGGAATTGTG
AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTT
Found at i:49442445 original size:32 final size:32
Alignment explanation
Indices: 49442404--49442468 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
49442394 ATCCGCTGAG
49442404 TAATGTGGACGAAGTGTACAAATTAGAAAACA
1 TAATGTGGACGAAGTGTACAAATTAGAAAACA
49442436 TAATGTGGACGAAGTGTACAAATTAGAAAACA
1 TAATGTGGACGAAGTGTACAAATTAGAAAACA
49442468 T
1 T
49442469 GTACAACGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (32 bp):
TAATGTGGACGAAGTGTACAAATTAGAAAACA
Found at i:49442957 original size:29 final size:29
Alignment explanation
Indices: 49442897--49443479 Score: 799
Period size: 29 Copynumber: 20.9 Consensus size: 29
49442887 TTTTGTTAAT
*
49442897 GGTTAGGGTTTTTAATTAAATTAAGTTAAG
1 GGTTAGGGTTTTTAATTAAATTAGGTT-AG
*
49442927 GTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
49442956 GTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
49442985 GTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
49443014 GGTTAAGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
49443043 GGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
*
49443073 GTTTAGGGTTTTTAATTAAATTAGGTTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
49443101 GG--A---TTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
49443125 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
49443154 GGTTAGGGTTTTTAATT--A--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
49443176 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
49443205 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
49443234 GGTTAGAGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
49443257 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
49443286 GATTTAGGGTTTTTAATTAAATTAGGTTAG
1 G-GTTAGGGTTTTTAATTAAATTAGGTTAG
*
49443316 GGTTTAGGGTTTTTAATTAAATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
*
49443346 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
49443375 GGTTAGGGTTTTTAATT-AA-T---TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
49443398 GGTTAGGG-TTTTAATTATTATTAGGTTAG
1 GGTTAGGGTTTTTAATTA-AATTAGGTTAG
49443427 GGTTA-GGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
49443455 TGTTTAGGG-TTTTAATTAAATTAGG
1 -GGTTAGGGTTTTTAATTAAATTAGG
49443480 ATTTTTATTA
Statistics
Matches: 505, Mismatches: 16, Indels: 65
0.86 0.03 0.11
Matches are distributed among these distances:
22 25 0.05
23 47 0.09
24 12 0.02
25 2 0.00
26 5 0.01
27 2 0.00
28 26 0.05
29 276 0.55
30 110 0.22
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:49443046 original size:52 final size:53
Alignment explanation
Indices: 49442897--49443479 Score: 583
Period size: 52 Copynumber: 10.5 Consensus size: 53
49442887 TTTTGTTAAT
49442897 GGTTAGGGTTTTTAATTAAATTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATT-AG----GG-TTAGGGTTTTTAATTAAATTAGGTTAG
*
49442956 GTTTAGGGTTTTTAATTAAATTAGGTTAGGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTA-G---GG-TTAGGGTTTTTAATTAAATTAGGTTAG
*
49443014 GGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATT-AA--A--TTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAG
* *
49443073 GTTTAGGGTTTTTAATTAAATTA-GGTTAGGATTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
49443125 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AATTAGGTTAG
1 GGTTAGGGTTTTTAATT-AA--A--TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
** *
49443182 GGTT----TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTT--TT-AATTAAATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
*
49443234 GGTTAGAGTTTTTAATTAAATTA-GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
49443286 GATTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAG
1 G-GTTAGGGTTTTTAATT-AA--A--TTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAG
*
49443346 GGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAG
1 GGTTAGGGTTTTTAATT--A--AA-TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
**** * **
49443404 GGTTTTAATTATT-ATTAGGTTAGGGTTA-GGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
*
49443455 TGTTTAGGG-TTTTAATTAAATTAGG
1 -GGTTAGGGTTTTTAATTAAATTAGG
49443480 ATTTTTATTA
Statistics
Matches: 454, Mismatches: 37, Indels: 73
0.80 0.07 0.13
Matches are distributed among these distances:
51 46 0.10
52 106 0.23
53 29 0.06
54 7 0.02
55 5 0.01
56 9 0.02
57 21 0.05
58 102 0.22
59 93 0.20
60 30 0.07
61 1 0.00
62 2 0.00
63 3 0.01
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (53 bp):
GGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:49443199 original size:18 final size:20
Alignment explanation
Indices: 49443155--49443208 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
49443145 TTAGGTTAGG
49443155 GTTAGGGTTTTTAATTAATTA
1 GTTAGGGTTTTTAATTAA-TA
49443176 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATT-AA-TA
49443199 GGTTAGGGTT
1 -GTTAGGGTT
49443209 AGGGTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (20 bp):
GTTAGGGTTTTTAATTAATA
Found at i:49443421 original size:18 final size:22
Alignment explanation
Indices: 49443376--49443430 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 22
49443366 TTAAGTTAGG
49443376 GTTAGGGTTTTTAATTAATTTA
1 GTTAGGGTTTTTAATTAATTTA
*
49443398 GGTTAGGG-TTTTAATTATTATTA
1 -GTTAGGGTTTTTAATTAAT-TTA
49443421 GGTTAGGGTT
1 -GTTAGGGTT
49443431 AGGTTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 10 0.34
23 18 0.62
24 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (22 bp):
GTTAGGGTTTTTAATTAATTTA
Found at i:49445905 original size:22 final size:22
Alignment explanation
Indices: 49445880--49445929 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
49445870 TAATATGGAT
49445880 TTGAGA-GATTTTTGGAAGGAAA
1 TTGAGAGGA-TTTTGGAAGGAAA
49445902 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
49445924 TTGAGA
1 TTGAGA
49445930 TAGGATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.34, T:0.30
Consensus pattern (22 bp):
TTGAGAGGATTTTGGAAGGAAA
Found at i:49457363 original size:28 final size:28
Alignment explanation
Indices: 49457300--49457569 Score: 232
Period size: 28 Copynumber: 9.7 Consensus size: 28
49457290 ATTCAATGTA
* * * *
49457300 CGCCGCAAAGGCTTTCC-TCTCAAGATT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
49457327 CGCCACAAAGGCTTTCCTTTTTATGATT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
49457355 CGCCACAAAGGCTATT-CTTTTTATGATT
1 CGCCACAAAGGCT-TTCCTTTTTATGATT
* *
49457383 CACCACAAAGGCTTTCCTTTCTATGAATT
1 CGCCACAAAGGCTTTCCTTTTTATG-ATT
* *
49457412 -GTCACAAAGGCTTTTCTTTTTATGATT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
*
49457439 CGTCC-CAAAGGCTATT-ATTTTTATGATT
1 CG-CCACAAAGGCT-TTCCTTTTTATGATT
* * * *
49457467 CACCATAAAGG-TTTATCTTTTTATGAAT
1 CGCCACAAAGGCTTT-CCTTTTTATGATT
* *
49457495 CACCACAAAGACTTTCCTTTTTATGAATT
1 CGCCACAAAGGCTTTCCTTTTTATG-ATT
** * * *
49457524 -GCCATGAAGTCTTTTCTTTTTATGACT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
*
49457551 C-ACAGCAAAGGCTTTCCTT
1 CGCCA-CAAAGGCTTTCCTT
49457570 ATCTGTCATG
Statistics
Matches: 198, Mismatches: 31, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
26 2 0.01
27 28 0.14
28 155 0.78
29 13 0.07
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (28 bp):
CGCCACAAAGGCTTTCCTTTTTATGATT
Found at i:49457390 original size:56 final size:56
Alignment explanation
Indices: 49457323--49457569 Score: 272
Period size: 56 Copynumber: 4.4 Consensus size: 56
49457313 TTCCTCTCAA
* *
49457323 GATTCGCCACAAAGGCTTTCCTTTTTATG-ATTCGCCACAAAGGCTATTCTTTTTAT
1 GATTCACCACAAAGGCTTTCCTTTTTATGAATT-GCCACAAAGGCTTTTCTTTTTAT
* *
49457379 GATTCACCACAAAGGCTTTCCTTTCTATGAATTGTCACAAAGGCTTTTCTTTTTAT
1 GATTCACCACAAAGGCTTTCCTTTTTATGAATTGCCACAAAGGCTTTTCTTTTTAT
* * * *
49457435 GATTCGTCC-CAAAGGCTATT-ATTTTTATG-ATTCACCATAAAGG-TTTATCTTTTTAT
1 GATTC-ACCACAAAGGCT-TTCCTTTTTATGAATT-GCCACAAAGGCTTT-TCTTTTTAT
* * ** *
49457491 GAATCACCACAAAGACTTTCCTTTTTATGAATTGCCATGAAGTCTTTTCTTTTTAT
1 GATTCACCACAAAGGCTTTCCTTTTTATGAATTGCCACAAAGGCTTTTCTTTTTAT
*
49457547 GACTCA-CAGCAAAGGCTTTCCTT
1 GATTCACCA-CAAAGGCTTTCCTT
49457570 ATCTGTCATG
Statistics
Matches: 162, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
55 12 0.07
56 137 0.85
57 13 0.08
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (56 bp):
GATTCACCACAAAGGCTTTCCTTTTTATGAATTGCCACAAAGGCTTTTCTTTTTAT
Found at i:49457448 original size:84 final size:83
Alignment explanation
Indices: 49457305--49457569 Score: 290
Period size: 84 Copynumber: 3.2 Consensus size: 83
49457295 ATGTACGCCG
* *
49457305 CAAAGGCTTTCCTCTC-AAG-ATTCGCCACAAAGGCTTTCCTTTTTATGATTCGCCACAAAGGCT
1 CAAAGGCTTTCCTTTCTATGAATT-GCCACAAAGGCTTTCCTTTTTATGATTCGCC-CAAAGGCT
49457368 ATTCTTTTTATGATTCACCA
64 ATTCTTTTTATGATTCACCA
* *
49457388 CAAAGGCTTTCCTTTCTATGAATTGTCACAAAGGCTTTTCTTTTTATGATTCGTCCCAAAGGCTA
1 CAAAGGCTTTCCTTTCTATGAATTGCCACAAAGGCTTTCCTTTTTATGATTCG-CCCAAAGGCTA
*
49457453 TTATTTTTATGATTCACCA
65 TTCTTTTTATGATTCACCA
* * * ** * *
49457472 TAAAGG-TTTATCTTTTTATGAATCACCACAAAGACTTTCCTTTTTATGAATT-G-CCATGAAGT
1 CAAAGGCTTT-CCTTTCTATGAATTGCCACAAAGGCTTTCCTTTTTATG-ATTCGCCCA--AAGG
* *
49457534 CTTTTCTTTTTATGACTCA-CA
62 CTATTCTTTTTATGATTCACCA
49457555 GCAAAGGCTTTCCTT
1 -CAAAGGCTTTCCTT
49457570 ATCTGTCATG
Statistics
Matches: 154, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
82 3 0.02
83 20 0.13
84 120 0.78
85 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.40
Consensus pattern (83 bp):
CAAAGGCTTTCCTTTCTATGAATTGCCACAAAGGCTTTCCTTTTTATGATTCGCCCAAAGGCTAT
TCTTTTTATGATTCACCA
Found at i:49460837 original size:18 final size:19
Alignment explanation
Indices: 49460811--49460848 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
49460801 GGAGGGATAC
49460811 GGGACATGTTTGACT-TAT
1 GGGACATGTTTGACTCTAT
*
49460829 GGGATATGTTTGACTCTAT
1 GGGACATGTTTGACTCTAT
49460848 G
1 G
49460849 CTTCACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (19 bp):
GGGACATGTTTGACTCTAT
Found at i:49465723 original size:14 final size:15
Alignment explanation
Indices: 49465706--49465746 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
49465696 TTATTTATTA
49465706 AATTAATTTT-AATT
1 AATTAATTTTCAATT
49465720 AATTAATTTTTCAATT
1 AATTAA-TTTTCAATT
*
49465736 AAATAATTTTC
1 AATTAATTTTC
49465747 TCAACCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:49465737 original size:16 final size:16
Alignment explanation
Indices: 49465706--49465750 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
49465696 TTATTTATTA
49465706 AATTAA-TTTT-AATT
1 AATTAATTTTTCAATT
49465720 AATTAATTTTTCAATT
1 AATTAATTTTTCAATT
*
49465736 AAATAATTTTCTCAA
1 AATTAATTTT-TCAA
49465751 CCCAATTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.22
15 4 0.15
16 13 0.48
17 4 0.15
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTAATTTTTCAATT
Found at i:49466072 original size:44 final size:43
Alignment explanation
Indices: 49466002--49466165 Score: 138
Period size: 44 Copynumber: 3.8 Consensus size: 43
49465992 AGCGTGCTAA
*
49466002 CTTTAGCGGCG-TTTTTCACATAAACGCCGCTAAAGATCACAAG
1 CTTTAGCGGCGCTTTTT-ACACAAACGCCGCTAAAGATCACAAG
* ** *
49466045 CTTTAGCGGCGCTTTTTATCACAAACGCCGCTAAAGGTCATGAT
1 CTTTAGCGGCGCTTTTTA-CACAAACGCCGCTAAAGATCACAAG
** * *
49466089 CTTTAGCAACGCTTTTTGCCACAAACGCCACTATAA-A--ACAAG
1 CTTTAGCGGCGCTTTTT-ACACAAACGCCGCTA-AAGATCACAAG
* * * *
49466131 CCTTTAGCGTCGCTTCTCACAAAAACGCCGCTAAA
1 -CTTTAGCGGCGCTTTTTACACAAACGCCGCTAAA
49466166 AACATAACAT
Statistics
Matches: 96, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 14 0.15
43 25 0.26
44 53 0.55
45 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTTACACAAACGCCGCTAAAGATCACAAG
Found at i:49466212 original size:18 final size:19
Alignment explanation
Indices: 49466185--49466221 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
49466175 TTTAAAAAAA
*
49466185 TTTATTTAAATATT-TATT
1 TTTATATAAATATTATATT
49466203 TTTATATAAATATTATATT
1 TTTATATAAATATTATATT
49466222 ATGTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATATAAATATTATATT
Found at i:49467214 original size:16 final size:16
Alignment explanation
Indices: 49467193--49467223 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49467183 AGTCCCAAAC
49467193 TATTGTAAACATCAGT
1 TATTGTAAACATCAGT
49467209 TATTGTAAACATCAG
1 TATTGTAAACATCAG
49467224 ATAGGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (16 bp):
TATTGTAAACATCAGT
Found at i:49468232 original size:20 final size:22
Alignment explanation
Indices: 49468207--49468247 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
49468197 AAAATTTTAT
49468207 TTATTTTTAT-T-TGTTAAAAA
1 TTATTTTTATATATGTTAAAAA
49468227 TTATTTTTATATATGTTAAAA
1 TTATTTTTATATATGTTAAAA
49468248 TGAGATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
TTATTTTTATATATGTTAAAAA
Found at i:49470383 original size:41 final size:41
Alignment explanation
Indices: 49470297--49470375 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
49470287 GTCACTATTG
* * *
49470297 CCTGAGCATTAGCGGCGTTTTTTCAAAAATGCCGCTAAAGA
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
*
49470338 CCTGATCATTAGCGGCGCTTTCTCAAAAACGCCGCTAA
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAA
49470376 TACCCTGAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
Found at i:49474352 original size:41 final size:41
Alignment explanation
Indices: 49474295--49474377 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
49474285 CATAAGGTTC
*
49474295 AAACGGGGCTCGACAATCATCGTGACATCGTTGATCAATAT
1 AAACGGGGCTCGACAATCATCGTGACATCGTTGAGCAATAT
*
49474336 AAACGGGGCTCGACAATCATCGTGACATTGTTGAGCAATAT
1 AAACGGGGCTCGACAATCATCGTGACATCGTTGAGCAATAT
49474377 A
1 A
49474378 TTAACATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
AAACGGGGCTCGACAATCATCGTGACATCGTTGAGCAATAT
Found at i:49478039 original size:426 final size:426
Alignment explanation
Indices: 49477246--49478097 Score: 1704
Period size: 426 Copynumber: 2.0 Consensus size: 426
49477236 CAAAGGTTAT
49477246 GTGCATTAAAACAATAATTAAATATGTGTAATTGTGGAATTTGACCTTGTGATCTATTCAAACCG
1 GTGCATTAAAACAATAATTAAATATGTGTAATTGTGGAATTTGACCTTGTGATCTATTCAAACCG
49477311 TTGAATATAGTTGGCATGCTATAGAATTGTGAGTAGTCACCTTTGTGTTTTGTGGTTTGGGCATT
66 TTGAATATAGTTGGCATGCTATAGAATTGTGAGTAGTCACCTTTGTGTTTTGTGGTTTGGGCATT
49477376 GAGGCTCCGGGACAGAATGCAGAGATAAGGGAATGTCGAGCTAAGCTCCATTCATTGGGACATGT
131 GAGGCTCCGGGACAGAATGCAGAGATAAGGGAATGTCGAGCTAAGCTCCATTCATTGGGACATGT
49477441 TAGTGTGTTTGAGAGTGTTCTGATTTATGCTACACTTATGGGATATGTTAAATTCTTTGAGTCAT
196 TAGTGTGTTTGAGAGTGTTCTGATTTATGCTACACTTATGGGATATGTTAAATTCTTTGAGTCAT
49477506 TGGTGTGATGAAGATCTGTTTATGCAATGTGTAGTGATAGAGCCGACTTTTATGTTTCATAATCT
261 TGGTGTGATGAAGATCTGTTTATGCAATGTGTAGTGATAGAGCCGACTTTTATGTTTCATAATCT
49477571 CAGGTTGCCAACTTATCATTAAATGAATTATATATATGAGTTATATTTTATGTAATTGTATGTGA
326 CAGGTTGCCAACTTATCATTAAATGAATTATATATATGAGTTATATTTTATGTAATTGTATGTGA
49477636 GAATATATGCTATTTTTATGAATTAATGAAGCATGA
391 GAATATATGCTATTTTTATGAATTAATGAAGCATGA
49477672 GTGCATTAAAACAATAATTAAATATGTGTAATTGTGGAATTTGACCTTGTGATCTATTCAAACCG
1 GTGCATTAAAACAATAATTAAATATGTGTAATTGTGGAATTTGACCTTGTGATCTATTCAAACCG
49477737 TTGAATATAGTTGGCATGCTATAGAATTGTGAGTAGTCACCTTTGTGTTTTGTGGTTTGGGCATT
66 TTGAATATAGTTGGCATGCTATAGAATTGTGAGTAGTCACCTTTGTGTTTTGTGGTTTGGGCATT
49477802 GAGGCTCCGGGACAGAATGCAGAGATAAGGGAATGTCGAGCTAAGCTCCATTCATTGGGACATGT
131 GAGGCTCCGGGACAGAATGCAGAGATAAGGGAATGTCGAGCTAAGCTCCATTCATTGGGACATGT
49477867 TAGTGTGTTTGAGAGTGTTCTGATTTATGCTACACTTATGGGATATGTTAAATTCTTTGAGTCAT
196 TAGTGTGTTTGAGAGTGTTCTGATTTATGCTACACTTATGGGATATGTTAAATTCTTTGAGTCAT
49477932 TGGTGTGATGAAGATCTGTTTATGCAATGTGTAGTGATAGAGCCGACTTTTATGTTTCATAATCT
261 TGGTGTGATGAAGATCTGTTTATGCAATGTGTAGTGATAGAGCCGACTTTTATGTTTCATAATCT
49477997 CAGGTTGCCAACTTATCATTAAATGAATTATATATATGAGTTATATTTTATGTAATTGTATGTGA
326 CAGGTTGCCAACTTATCATTAAATGAATTATATATATGAGTTATATTTTATGTAATTGTATGTGA
49478062 GAATATATGCTATTTTTATGAATTAATGAAGCATGA
391 GAATATATGCTATTTTTATGAATTAATGAAGCATGA
49478098 ATACATTATT
Statistics
Matches: 426, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
426 426 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.38
Consensus pattern (426 bp):
GTGCATTAAAACAATAATTAAATATGTGTAATTGTGGAATTTGACCTTGTGATCTATTCAAACCG
TTGAATATAGTTGGCATGCTATAGAATTGTGAGTAGTCACCTTTGTGTTTTGTGGTTTGGGCATT
GAGGCTCCGGGACAGAATGCAGAGATAAGGGAATGTCGAGCTAAGCTCCATTCATTGGGACATGT
TAGTGTGTTTGAGAGTGTTCTGATTTATGCTACACTTATGGGATATGTTAAATTCTTTGAGTCAT
TGGTGTGATGAAGATCTGTTTATGCAATGTGTAGTGATAGAGCCGACTTTTATGTTTCATAATCT
CAGGTTGCCAACTTATCATTAAATGAATTATATATATGAGTTATATTTTATGTAATTGTATGTGA
GAATATATGCTATTTTTATGAATTAATGAAGCATGA
Found at i:49496732 original size:23 final size:23
Alignment explanation
Indices: 49496686--49496733 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
49496676 TAAAAAGACA
* * **
49496686 TATTGTAATATCCCGAAAGTTAC
1 TATTGAAATACCCCGAAAACTAC
49496709 TATTGAAATACCCCGAAAACTAC
1 TATTGAAATACCCCGAAAACTAC
49496732 TA
1 TA
49496734 CAGTAAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (23 bp):
TATTGAAATACCCCGAAAACTAC
Found at i:49499373 original size:15 final size:15
Alignment explanation
Indices: 49499353--49499383 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49499343 ATACTGAACG
49499353 TGACTTGCTCACCAT
1 TGACTTGCTCACCAT
*
49499368 TGACTTGCTCATCAT
1 TGACTTGCTCACCAT
49499383 T
1 T
49499384 AAGTCATCCT
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:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (15 bp):
TGACTTGCTCACCAT
Found at i:49522964 original size:19 final size:18
Alignment explanation
Indices: 49522936--49522977 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
49522926 ACTTATGTAG
49522936 TTTTTAATTTTGAATTAT
1 TTTTTAATTTTGAATTAT
49522954 TTTTATAATTTTGAATTAT
1 TTTT-TAATTTTGAATTAT
49522973 TTTTT
1 TTTTT
49522978 GATGTGAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTTAATTTTGAATTAT
Found at i:49525636 original size:24 final size:23
Alignment explanation
Indices: 49525588--49525648 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
49525578 ACTGGTCATA
* *
49525588 GAGAGAATTGAGGAGGGATATTT
1 GAGAGATTTGAGGAGGAATATTT
49525611 GGAGAGATTTGAGGAGAGAATA-TT
1 -GAGAGATTTGAGGAG-GAATATTT
49525635 G-G-GATTTGAGGAGG
1 GAGAGATTTGAGGAGG
49525649 TTGTTGTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.32
22 1 0.03
23 1 0.03
24 16 0.47
25 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.25
Consensus pattern (23 bp):
GAGAGATTTGAGGAGGAATATTT
Found at i:49526244 original size:27 final size:27
Alignment explanation
Indices: 49526213--49526533 Score: 394
Period size: 27 Copynumber: 11.9 Consensus size: 27
49526203 GTTATGACCA
**
49526213 AAATACCTTCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * *
49526240 AAATACCCCCATAAGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGATCG
** * * ** *
49526267 AAATACCCTTAAAGGGTAGAATGGCCA
1 AAATACCCCCATAGGGTAAAATGATCG
* *
49526294 AAATACCCCCGTAGGGTAGAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
49526321 AAATACCCCCATAGGGTAAAATGA-CTG
1 AAATACCCCCATAGGGTAAAATGATC-G
* *
49526348 AAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
49526375 AAATACCCTCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
49526402 AAATACCCCCATAGGGTAAAATGA-CTG
1 AAATACCCCCATAGGGTAAAATGATC-G
*
49526429 AAATACCCCCATAGGGTAGAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * **
49526456 AAATACCCCCATAGAGTAGAATGGCCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
49526483 AAATACCCCCATAGGGTAGAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
49526510 AAATACCCCCATATGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
49526534 CTGTTATGGC
Statistics
Matches: 258, Mismatches: 32, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 254 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGATCG
Found at i:49534437 original size:66 final size:66
Alignment explanation
Indices: 49534339--49534462 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
49534329 AATTGGATGC
* * *
49534339 GTTTTCAGAAAATTTTGTAAGAAAACGCTTCCAGCTGGTTGCGCTTTTCTTCTCAGTCTTGGACG
1 GTTTTCAGAAAATTTTGTAAGAAAACGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTCTTGGACG
49534404 T
66 T
*
49534405 GTTTTCA-ACAAATTTTGTAAGAAAATGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTC
1 GTTTTCAGA-AAATTTTGTAAGAAAACGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTC
49534463 AGCAAAGCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 1 0.02
66 52 0.98
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (66 bp):
GTTTTCAGAAAATTTTGTAAGAAAACGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTCTTGGACG
T
Found at i:49534565 original size:11 final size:11
Alignment explanation
Indices: 49534546--49534606 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
49534536 CAAATTTTCC
49534546 TCTCTCTCAAT
1 TCTCTCTCAAT
* *
49534557 TCACTCTCAAC
1 TCTCTCTCAAT
*
49534568 TCTCTCTGAAT
1 TCTCTCTCAAT
*
49534579 TCTCTCTTAAT
1 TCTCTCTCAAT
* *
49534590 TATCACTCAAT
1 TCTCTCTCAAT
49534601 TCTCTC
1 TCTCTC
49534607 ATATCACTCT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.02, T:0.43
Consensus pattern (11 bp):
TCTCTCTCAAT
Found at i:49534756 original size:11 final size:11
Alignment explanation
Indices: 49534724--49534769 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
49534714 TCGCTTCTCC
*
49534724 CTCTCAATTCA
1 CTCTCAATTCT
49534735 CTCTCAATTCT
1 CTCTCAATTCT
*
49534746 CTCTTAATTCT
1 CTCTCAATTCT
* *
49534757 CACTTAATTCT
1 CTCTCAATTCT
49534768 CT
1 CT
49534770 TAGTTCACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTCT
Found at i:49534874 original size:163 final size:164
Alignment explanation
Indices: 49534560--49534877 Score: 507
Period size: 164 Copynumber: 1.9 Consensus size: 164
49534550 TCTCAATTCA
* * *
49534560 CTCTCAACTCTCTCTGAATTCTCTCTTAATTATCACTCAATTCTCTCATATCACTCTTATTTTTT
1 CTCTCAACTCACTCTCAATTCTCTCTTAATTATCACTCAATTCTCTCATATCACTCTGATTTTTT
* *
49534625 ATTAAAATTTTCTTAAGGTTTTTTTAATTAATTTTGTATTACGATTTTTATTTGTATTTATTGAA
66 ATTAAAATTTTCTTAAGGTTTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTGAA
49534690 ATTCTTAATGGAAAATTCTCTTATTCGCTTCTCC
131 ATTCTTAATGGAAAATTCTCTTATTCGCTTCTCC
* * * *
49534724 CTCTCAATTCACTCTCAATTCTCTCTTAATTCTCACTTAATTCTCTTAGT-TCACTCTGATTTTT
1 CTCTCAACTCACTCTCAATTCTCTCTTAATTATCACTCAATTCTCTCA-TATCACTCTGATTTTT
49534788 TATTAAAATTGTT-TTAAGG-TTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTG
65 TATTAAAATT-TTCTTAAGGTTTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTG
*
49534851 AAATTCTTAATGGCAAATTCTCTTATT
129 AAATTCTTAATGGAAAATTCTCTTATT
49534878 TGTTTAGATG
Statistics
Matches: 142, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
163 68 0.48
164 71 0.50
165 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (164 bp):
CTCTCAACTCACTCTCAATTCTCTCTTAATTATCACTCAATTCTCTCATATCACTCTGATTTTTT
ATTAAAATTTTCTTAAGGTTTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTGAA
ATTCTTAATGGAAAATTCTCTTATTCGCTTCTCC
Found at i:49542421 original size:40 final size:40
Alignment explanation
Indices: 49542377--49542544 Score: 200
Period size: 40 Copynumber: 4.2 Consensus size: 40
49542367 GGACTAAGAT
*
49542377 CCGAAGGCATTTGTGCGAGTTATTAATTCCGAGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
49542417 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
49542457 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
* * *
49542497 CCGAAGGCA-TTGTACGAGTTACTATAA--CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTA-T-TAATTCCGGGTTAAGTC
49542536 CCGAAGGCA
1 CCGAAGGCA
49542545 CTTGAACGAG
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
39 29 0.26
40 78 0.70
41 3 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:49542464 original size:80 final size:79
Alignment explanation
Indices: 49542358--49542544 Score: 218
Period size: 80 Copynumber: 2.4 Consensus size: 79
49542348 GTGCTAAGTG
* * * *
49542358 ACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATT-AATTCCGAGTTAAGTCCCGA
1 ACTATAACCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTT-TTAAAATCCGAGTTAAGTCCCGA
* *
49542421 AGGCCTTTGTGCGAGAT
64 AGG-CATTGTACGAGAT
* * *
49542438 ACTA-ATTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTCCCGAA
1 ACTATA-ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAATCCGAGTTAAGTCCCGAA
*
49542502 GGCATTGTACGAGTT
65 GGCATTGTACGAGAT
*
49542517 ACTATAACCGGGCTATGTCCCGAAGGCA
1 ACTATAACCGGGCTAAGTCCCGAAGGCA
49542545 CTTGAACGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
79 37 0.40
80 55 0.60
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (79 bp):
ACTATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAATCCGAGTTAAGTCCCGAAG
GCATTGTACGAGAT
Found at i:49544469 original size:18 final size:20
Alignment explanation
Indices: 49544434--49544472 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
49544424 ATTACACGGG
49544434 TAATTTTAATATTTTCAAAA
1 TAATTTTAATATTTTCAAAA
49544454 TAATTTTAA-A-TTTCAAAA
1 TAATTTTAATATTTTCAAAA
49544472 T
1 T
49544473 TTATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 1 0.05
20 9 0.47
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTTTAATATTTTCAAAA
Found at i:49550277 original size:12 final size:11
Alignment explanation
Indices: 49550239--49550271 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
49550229 AACTTATACT
49550239 TACATACTATA
1 TACATACTATA
49550250 TACATACCTATA
1 TACATA-CTATA
49550262 TACATA-TATA
1 TACATACTATA
49550272 CATACACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 6 0.29
12 11 0.52
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (11 bp):
TACATACTATA
Found at i:49553107 original size:21 final size:21
Alignment explanation
Indices: 49553081--49553121 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49553071 ATCTGCTCAA
* *
49553081 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
49553102 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
49553122 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:49558277 original size:29 final size:30
Alignment explanation
Indices: 49558227--49558284 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
49558217 AATGAAAAAT
* * *
49558227 TAAATACTGAATTTTTAGTATAGAATTTTA
1 TAAATACTAAATTTATAGTATAAAATTTTA
*
49558257 TAAATA-TAAATTTATATTATAAAATTTT
1 TAAATACTAAATTTATAGTATAAAATTTT
49558285 TCTGTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (30 bp):
TAAATACTAAATTTATAGTATAAAATTTTA
Found at i:49561232 original size:3 final size:3
Alignment explanation
Indices: 49561224--49561257 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
49561214 CCCTTAAGTC
49561224 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
49561258 GGTAGGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:49565787 original size:18 final size:19
Alignment explanation
Indices: 49565748--49565788 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
49565738 ATTATTCATA
49565748 ATTTT-ATATTTTTACAGT
1 ATTTTAATATTTTTACAGT
*
49565766 -TTTTAATATTTTTATA-T
1 ATTTTAATATTTTTACAGT
49565783 ATTTTA
1 ATTTTA
49565789 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTAATATTTTTACAGT
Found at i:49567327 original size:8 final size:8
Alignment explanation
Indices: 49567314--49567365 Score: 61
Period size: 8 Copynumber: 6.2 Consensus size: 8
49567304 GTTGAACTAG
49567314 ATTTTATA
1 ATTTTATA
49567322 ATTTTATA
1 ATTTTATA
49567330 ATTTTATA
1 ATTTTATA
49567338 ATTTT-TAA
1 ATTTTAT-A
49567346 ATGTTTATGA
1 AT-TTTAT-A
*
49567356 ATTTTTTA
1 ATTTTATA
49567364 AT
1 AT
49567366 AATTGACTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
7 1 0.03
8 27 0.69
9 7 0.18
10 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (8 bp):
ATTTTATA
Found at i:49569287 original size:39 final size:39
Alignment explanation
Indices: 49569241--49569325 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
49569231 ATAGAAATAT
*
49569241 GGTGATTATTCGAGCTATATGCTTAGCAGGCTGTGTGCC
1 GGTGATTATTCGAGCTATATGCCTAGCAGGCTGTGTGCC
* *
49569280 GGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCC
1 GGTGATTATTCGAGCTATATGCCTAGCAGGCTGTGTGCC
49569319 GGTGATT
1 GGTGATT
49569326 GACTCATACT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.15, C:0.18, G:0.34, T:0.33
Consensus pattern (39 bp):
GGTGATTATTCGAGCTATATGCCTAGCAGGCTGTGTGCC
Found at i:49571383 original size:25 final size:24
Alignment explanation
Indices: 49571332--49571423 Score: 78
Period size: 25 Copynumber: 3.7 Consensus size: 24
49571322 ACACACCACA
* *
49571332 GCTCTTATGAGCATCCCGATATTTG
1 GCTCTTATGAGCTTCCCGAT-TATG
*
49571357 GCTCTTACGAGCTTCCCGATTGATG
1 GCTCTTATGAGCTTCCCGATT-ATG
* * *
49571382 GCTATTTTGAACTTCCCGATTTATG
1 GCTCTTATGAGCTTCCCGA-TTATG
*
49571407 GCT-TGCATGAGCTTCCC
1 GCTCT-TATGAGCTTCCC
49571424 AATATACAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.04
25 50 0.93
26 2 0.04
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGATTATG
Done.