Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 123 of 185
Found at i:37954778 original size:5 final size:5
Alignment explanation
Indices: 37954768--37954820 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
37954758 AATTATAAAA
37954768 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
37954818 TAT
1 TAT
37954821 TATGTAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:37955063 original size:16 final size:17
Alignment explanation
Indices: 37955042--37955073 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37955032 CAGGGGAGAA
37955042 AGAAAGAAA-GAAAAAG
1 AGAAAGAAAGGAAAAAG
37955058 AGAAAGAAAGGAAAAA
1 AGAAAGAAAGGAAAAA
37955074 CTAGGGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGGAAAAAG
Found at i:37956141 original size:45 final size:45
Alignment explanation
Indices: 37956076--37956180 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
37956066 ATGTGCCGAC
* * * *
37956076 TACTGTTGCTGTTACTGATTC-GATACTTTATGTGTCGAATATTGT
1 TACTGTTACTGTTACAGATTCAG-CACTTTATGTGTCGAATACTGT
* *
37956121 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCAGCACTTTATGTGTCGAATACTGT
*
37956166 TCCTGTTACTGTTAC
1 TACTGTTACTGTTAC
37956181 TGTTGCTGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCAGCACTTTATGTGTCGAATACTGT
Found at i:37956177 original size:6 final size:6
Alignment explanation
Indices: 37956160--37956207 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
37956150 GTGTGTTGAA
* * * *
37956160 TACTGT TCCTGT TACTGT TACTGT TGCTGC TACCGT TACTGAT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG
37956208 ATCAGGTACT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:37968248 original size:126 final size:126
Alignment explanation
Indices: 37968035--37968276 Score: 371
Period size: 126 Copynumber: 1.9 Consensus size: 126
37968025 GCTAATTGGT
* * * *
37968035 TTTGTCACTGATTTACCATTTCCTCCTTCAACCACATCCAAGTTAAAAGGGATGTGGACATTGTC
1 TTTGTCACTGATTCACCATTTCCACCTTCAACCACATCCAACTTAAAAGGGATGTGGACATTATC
37968100 CTTCCCCAGCTTTCCATCAAGTGAAGGAACCTGAACATCTTGCTGCTTATTGCTAACTGAG
66 CTTCCCCAGCTTTCCATCAAGTGAAGGAACCTGAACATCTTGCTGCTTATTGCTAACTGAG
* * * *
37968161 TTTGTCACTGATTCATCATTTCCACCTTCAAGCACGTCCAACTTAGAAGGGCTATG-GGA-ATTA
1 TTTGTCACTGATTCACCATTTCCACCTTCAACCACATCCAACTTAAAAGGG--ATGTGGACATTA
*
37968224 TCCTTCCCCAGCTTTCTATCAAGTGAAGGAACCTGAACATCTTGCTGCTTATT
64 TCCTTCCCCAGCTTTCCATCAAGTGAAGGAACCTGAACATCTTGCTGCTTATT
37968277 CTGCAGCTCA
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
126 99 0.94
127 3 0.03
128 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (126 bp):
TTTGTCACTGATTCACCATTTCCACCTTCAACCACATCCAACTTAAAAGGGATGTGGACATTATC
CTTCCCCAGCTTTCCATCAAGTGAAGGAACCTGAACATCTTGCTGCTTATTGCTAACTGAG
Found at i:37975457 original size:21 final size:23
Alignment explanation
Indices: 37975432--37975491 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
37975422 TTATTTCTCA
37975432 ATTTAATTTAATTTTTG-ATTT-
1 ATTTAATTTAATTTTTGTATTTG
*
37975453 ATTTAATTGTTTATTTTTGTTATTTG
1 ATTTAA-T-TTAATTTTTG-TATTTG
37975479 ATTT-ATTTAATTT
1 ATTTAATTTAATTT
37975492 CTAGTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 6 0.19
22 1 0.03
23 15 0.47
24 1 0.03
25 5 0.16
26 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (23 bp):
ATTTAATTTAATTTTTGTATTTG
Found at i:37976958 original size:41 final size:43
Alignment explanation
Indices: 37976884--37976963 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 43
37976874 AGCGCCACTA
* * *
37976884 TAGATCAAGACCTTTAGCGGCGCTTTTATC-AAAACGCCGCTT
1 TAGAACAAGACCTTTAGCGACGCTTTTAGCAAAAACGCCGCTT
37976926 TAGAACAA-ACCTTTAGCGACGCTTCTT-GCAAAAACGCC
1 TAGAACAAGACCTTTAGCGACGCTT-TTAGCAAAAACGCC
37976964 ACTAAAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 16 0.48
42 17 0.52
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
TAGAACAAGACCTTTAGCGACGCTTTTAGCAAAAACGCCGCTT
Found at i:37980397 original size:73 final size:72
Alignment explanation
Indices: 37980296--37980467 Score: 238
Period size: 73 Copynumber: 2.4 Consensus size: 72
37980286 CTGAGCATTA
* ** * *
37980296 GCGGCGCTTTCTTATTAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCCTTGGGCTTAG
37980361 GTTTTTTT
66 G-TTTTTT
* * * *
37980369 GCGGTGCTTTC-CGAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCCTTGGGCTTA
1 GCGGCGCTTTCTC-AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCCTTGGGCTTA
37980433 GGTTTTTT
65 GGTTTTTT
37980441 GCGGCGCTTTCTCAAAAACGCCGCTAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAA
37980468 TGCTTATTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
72 30 0.34
73 57 0.66
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (72 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCCTTGGGCTTAG
GTTTTTT
Found at i:37982370 original size:3 final size:3
Alignment explanation
Indices: 37982364--37982394 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
37982354 TTATTTAAGT
*
37982364 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37982395 ACTAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:38005378 original size:16 final size:16
Alignment explanation
Indices: 38005314--38005381 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
38005304 GAAGTAATAT
* *
38005314 TATTTTAATAGTTTAA
1 TATTTTATTAATTTAA
*
38005330 TATTTAATTTAATTTAA
1 TATTTTA-TTAATTTAA
* *
38005347 TA-TTTATCTAA-ATAG
1 TATTTTAT-TAATTTAA
*
38005362 TATTTTATTAATTTAG
1 TATTTTATTAATTTAA
38005378 TATT
1 TATT
38005382 AAAGTGATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
15 8 0.20
16 24 0.59
17 9 0.22
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (16 bp):
TATTTTATTAATTTAA
Found at i:38005447 original size:16 final size:16
Alignment explanation
Indices: 38005325--38005450 Score: 55
Period size: 16 Copynumber: 7.6 Consensus size: 16
38005315 ATTTTAATAG
38005325 TTTAATATT-TAATTTAA
1 TTTAATATTAT-A-TTAA
38005342 TTTAATATT-TATCTAA
1 TTTAATATTATAT-TAA
* * *
38005358 -ATAGTATTTTATTAA
1 TTTAATATTATATTAA
*
38005373 TTTAGTATTAAAGTGATT-A
1 TTTAATATT--A-T-ATTAA
*
38005392 TCTTAATATTAAATTAA
1 T-TTAATATTATATTAA
* *
38005409 TCTAATATT-TATCAA
1 TTTAATATTATATTAA
* *
38005424 GATAAATATTATATTAA
1 -TTTAATATTATATTAA
38005441 TTTAATATTA
1 TTTAATATTA
38005451 AAGTGATTAA
Statistics
Matches: 83, Mismatches: 15, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
15 14 0.17
16 38 0.46
17 17 0.20
18 1 0.01
19 3 0.04
20 10 0.12
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (16 bp):
TTTAATATTATATTAA
Found at i:38005450 original size:68 final size:68
Alignment explanation
Indices: 38005326--38005459 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 68
38005316 TTTTAATAGT
* * * * *
38005326 TTAATATTTAATTTAATTTAATATTTATCTAAATAGTATTTTATTAATTTAGTATTAAAGTGATT
1 TTAATATTTAAATTAATCTAATATTTATCTAAATAATATTATATTAATTTAATATTAAAGTGATT
38005391 ATC
66 ATC
38005394 TTAATA-TTAAATTAATCTAATATTTATC-AAGATAAATATTATATTAATTTAATATTAAAGTGA
1 TTAATATTTAAATTAATCTAATATTTATCTAA-AT-AATATTATATTAATTTAATATTAAAGTGA
38005457 TTA
64 TTA
38005460 AGTTTAATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
66 2 0.03
67 22 0.37
68 35 0.59
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (68 bp):
TTAATATTTAAATTAATCTAATATTTATCTAAATAATATTATATTAATTTAATATTAAAGTGATT
ATC
Found at i:38008821 original size:33 final size:33
Alignment explanation
Indices: 38008784--38008846 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
38008774 ATCACTGCCC
*
38008784 CATCCACACCACAACC-CTAGGTGTCTCTCTCAA
1 CATCCACACCACAACCTC-AGGTGTCCCTCTCAA
38008817 CATCCACACCACAACCTCAGGTGTCCCTCT
1 CATCCACACCACAACCTCAGGTGTCCCTCT
38008847 GACTCTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.25, C:0.44, G:0.10, T:0.21
Consensus pattern (33 bp):
CATCCACACCACAACCTCAGGTGTCCCTCTCAA
Found at i:38010696 original size:15 final size:17
Alignment explanation
Indices: 38010658--38010698 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
38010648 TTACATAATA
38010658 AAAATAATATTGATATT
1 AAAATAATATTGATATT
*
38010675 AAAATAAT-TTTATATT
1 AAAATAATATTGATATT
38010691 -AAATAATA
1 AAAATAATA
38010699 ATTTTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
17 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
AAAATAATATTGATATT
Found at i:38010700 original size:18 final size:17
Alignment explanation
Indices: 38010656--38010707 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
38010646 TCTTACATAA
*
38010656 TAAAAATAATATTGATAT
1 TAAAAATAAT-TTTATAT
38010674 T-AAAATAATTTTATAT
1 TAAAAATAATTTTATAT
38010690 TAAATAATAATTTTATAT
1 TAAA-AATAATTTTATAT
38010708 ATTTATTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 7 0.23
17 10 0.32
18 14 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TAAAAATAATTTTATAT
Found at i:38012530 original size:19 final size:19
Alignment explanation
Indices: 38012508--38012545 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38012498 AATTTTTGGA
38012508 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
38012527 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
38012546 TGTTTTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:38022949 original size:35 final size:34
Alignment explanation
Indices: 38022910--38022976 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
38022900 TAAAATGCGC
*
38022910 ATATAAATACATACATGTAT-TAAAATATATAAAAA
1 ATATAAACACATACATGTATGT-AAATAT-TAAAAA
* *
38022945 ATATAAACATATATATGTATGTAAATATTAAA
1 ATATAAACACATACATGTATGTAAATATTAAA
38022977 TATGTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 4 0.14
35 23 0.82
36 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (34 bp):
ATATAAACACATACATGTATGTAAATATTAAAAA
Found at i:38024968 original size:19 final size:19
Alignment explanation
Indices: 38024944--38024980 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38024934 TTAATGTGCG
*
38024944 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
38024963 AATATATATATATGTGTG
1 AATATATATATATGTGTG
38024981 GATCGAACAA
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:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:38025254 original size:41 final size:41
Alignment explanation
Indices: 38025192--38025367 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
38025182 GTTTGGAATT
* *
38025192 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
38025233 GGTGATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
38025274 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
38025315 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
38025356 GGTGATCCGAAT
1 GGTGATCTGAAT
38025368 ATGATGAATT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:38025329 original size:82 final size:82
Alignment explanation
Indices: 38025192--38025361 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
38025182 GTTTGGAATT
38025192 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
38025257 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
*
38025274 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
38025339 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
38025356 GGTGAT
1 GGTGAT
38025362 CCGAATATGA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:38032616 original size:19 final size:19
Alignment explanation
Indices: 38032592--38032628 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38032582 TTAATGTGCG
*
38032592 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
38032611 AATATATATATATGTGTG
1 AATATATATATATGTGTG
38032629 GATCGAACAA
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:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:38032896 original size:41 final size:41
Alignment explanation
Indices: 38032839--38033015 Score: 282
Period size: 41 Copynumber: 4.3 Consensus size: 41
38032829 AGTTTGGAGT
* *
38032839 CGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGC
1 CGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGC
* *
38032880 CGGTGATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
1 CGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGC
* *
38032921 CGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGC
1 CGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGC
*
38032962 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
1 CGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGC
*
38033003 CGGTGATCCGAAT
1 CGGTGATCTGAAT
38033016 ATGATGAATT
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
CGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGC
Found at i:38032976 original size:82 final size:82
Alignment explanation
Indices: 38032839--38033009 Score: 333
Period size: 82 Copynumber: 2.1 Consensus size: 82
38032829 AGTTTGGAGT
38032839 CGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAG
1 CGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAG
38032904 CCTAGCAGGCTAAGTGC
66 CCTAGCAGGCTAAGTGC
*
38032921 CGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAG
38032986 CCTAGCAGGCTAAGTGC
66 CCTAGCAGGCTAAGTGC
38033003 CGGTGAT
1 CGGTGAT
38033010 CCGAATATGA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 88 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (82 bp):
CGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAG
CCTAGCAGGCTAAGTGC
Found at i:38046909 original size:24 final size:24
Alignment explanation
Indices: 38046882--38046929 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38046872 TGTTCGATTG
38046882 AGCTCAACTTGAGTATCAAAACCT
1 AGCTCAACTTGAGTATCAAAACCT
38046906 AGCTCAACTTGAGTATCAAAACCT
1 AGCTCAACTTGAGTATCAAAACCT
38046930 TGAGTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (24 bp):
AGCTCAACTTGAGTATCAAAACCT
Found at i:38049788 original size:32 final size:31
Alignment explanation
Indices: 38049733--38049792 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
38049723 GTTTATAAAA
38049733 TTAAGGTTTAGGATTTTTTATTTTTAGGTGG
1 TTAAGGTTTAGGATTTTTTATTTTTAGGTGG
*
38049764 TTAA-GTTTAGGGTTTTATTTATTTTTAGG
1 TTAAGGTTTA-GGATTT-TTTATTTTTAGG
38049793 GTTTAAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 9 0.35
32 12 0.46
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (31 bp):
TTAAGGTTTAGGATTTTTTATTTTTAGGTGG
Found at i:38053526 original size:43 final size:43
Alignment explanation
Indices: 38053465--38053602 Score: 206
Period size: 43 Copynumber: 3.2 Consensus size: 43
38053455 TATAAACAAT
*
38053465 GCCGCTATAGAACATGGCCTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTACCCACAAAC
38053508 GCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTACCCACAAAC
* * * *
38053551 GCTGCTAAAGGACATGACCTTTAGCGGCGCTTTTA-TCACAAAC
1 GCCGCTAAAGAACATGGCCTTTAGCGGCGC-TTTACCCACAAAC
*
38053594 GTCGCTAAA
1 GCCGCTAAA
38053603 AGTACCGTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 83 0.95
44 4 0.05
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (43 bp):
GCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTACCCACAAAC
Found at i:38056398 original size:106 final size:105
Alignment explanation
Indices: 38056146--38056451 Score: 461
Period size: 106 Copynumber: 2.9 Consensus size: 105
38056136 CGAGAAAAGT
* *
38056146 AAAATTTTTTTTTTTGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAATTTTTTTTTTACTT
1 AAAAATTTTTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACC-TTTTAATTTTTTTTTTACTT
* *
38056211 TTTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAA
65 TTTTCATGTCAGATAAGCTATCAGTATACGAAAAAAGTAAA
** * *
38056252 AAAAA-TAATTTTTGGTGGTGGCCTAGCAATGGCCGGCACCACCTTTTAAATTTTTTTTTACTTT
1 AAAAATTTTTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAATTTTTTTTTTACTTT
* **
38056316 TTTCTTGTCAGATAAGCTATCAGTATACGAAAAGGGTAAAA
66 TTTCATGTCAGATAAGCTATCAGTATACGAAAAAAGT-AAA
* * *
38056357 AAAAATTTTTTTTTGGTGGTGGCCTGGTAATGGCCGACACCACCTTTTAATTTTTTTTTTACCTT
1 AAAAATTTTTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAATTTTTTTTTTACTTT
38056422 TTTCATGTCAGATAAGCTATCAGTATACGA
66 TTTCATGTCAGATAAGCTATCAGTATACGA
38056452 GCATGCGCAC
Statistics
Matches: 180, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
104 53 0.29
105 42 0.23
106 85 0.47
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (105 bp):
AAAAATTTTTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAATTTTTTTTTTACTTT
TTTCATGTCAGATAAGCTATCAGTATACGAAAAAAGTAAA
Found at i:38056477 original size:21 final size:21
Alignment explanation
Indices: 38056453--38056505 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
38056443 AGTATACGAG
*
38056453 CATGCGCACACGCTGTATGAA
1 CATGCGCACACGCTGCATGAA
*
38056474 CATGCACACACGCTGCATGAA
1 CATGCGCACACGCTGCATGAA
38056495 CATGCGCACAC
1 CATGCGCACAC
38056506 AATATCGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.15
Consensus pattern (21 bp):
CATGCGCACACGCTGCATGAA
Found at i:38057240 original size:102 final size:101
Alignment explanation
Indices: 38056958--38057290 Score: 447
Period size: 101 Copynumber: 3.2 Consensus size: 101
38056948 TAAAGATTAC
* * *
38056958 ATCTGACACGAAATAATTAAAATTTTTTTTTAAAAAGGTGGAGCGGGCCATTGCCAGGCCACCAC
1 ATCTGACACGAAAAAAGTAAAA-TTTTTTTTAAAAAGGTGGTGC-GGCCATTGCCAGGCCACCAC
*** * *
38057023 CAAAAAAATAAATTTTTTTACTTTTTTCGTATACTGATAGCTT
64 C-----AATTTTTTTTTTTACTTTTTTCGTATATTGATATCTT
* *
38057066 ATCTGACACGAAAAAAGTAAATTTTTTTTTAAAAAAAGGTGGTGCCGGCCATTGCCATGCCACCA
1 ATCTGACACGAAAAAAGTAAAATTTTTTTT--AAAAAGGTGGTG-CGGCCATTGCCAGGCCACCA
38057131 CC-A-TTTTTTTTTTACTTTTTT-GTATATTGATATCTT
63 CCAATTTTTTTTTTTACTTTTTTCGTATATTGATATCTT
*
38057167 ATCTGACACGAAAAAAGTAAAATTTTTTTTAAAAAGGTGGTGTCGGCCATTGCTAGGCCACCACC
1 ATCTGACACGAAAAAAGTAAAATTTTTTTTAAAAAGGTGGTG-CGGCCATTGCCAGGCCACCACC
38057232 AATTTTTTTTTTTACTTTTTTCGTATATTGATATCTT
65 AATTTTTTTTTTTACTTTTTTCGTATATTGATATCTT
38057269 ATCTGACACGAAAAAAGTAAAA
1 ATCTGACACGAAAAAAGTAAAA
38057291 CAATTTTTTT
Statistics
Matches: 205, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
99 32 0.16
100 1 0.00
101 60 0.29
102 52 0.25
103 1 0.00
107 8 0.04
108 19 0.09
109 31 0.15
110 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (101 bp):
ATCTGACACGAAAAAAGTAAAATTTTTTTTAAAAAGGTGGTGCGGCCATTGCCAGGCCACCACCA
ATTTTTTTTTTTACTTTTTTCGTATATTGATATCTT
Found at i:38057298 original size:102 final size:101
Alignment explanation
Indices: 38056958--38057339 Score: 462
Period size: 109 Copynumber: 3.6 Consensus size: 101
38056948 TAAAGATTAC
* * * * *
38056958 ATCTGACACGAAATAATTAAAATTTTTTTTTAAAAAGGTGGAGCGGGCCATTGCCAGGCCACCAC
1 ATCTGACACGAAAAAAGTAAAATTTTTTTTAAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCAC
** * *
38057023 CAAAAAAATAAATTTTTTTACTTTTTTCGTATACTGATAGCTT
66 C------AT-TTTTTTTTTACTTTTTTCGTATATTGATATCTT
* *
38057066 ATCTGACACGAAAAAAGTAAATTTTTTTTTAAAAAAAGGTGGTGCCGGCCATTGCCATGCCACCA
1 ATCTGACACGAAAAAAGTAAAATTTTTTTT-AAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCA
38057131 CCATTTTTTTTTTACTTTTTT-GTATATTGATATCTT
65 CCATTTTTTTTTTACTTTTTTCGTATATTGATATCTT
* *
38057167 ATCTGACACGAAAAAAGTAAAATTTTTTTT-AAAAAGGTGGTGTCGGCCATTGCTAGGCCACCAC
1 ATCTGACACGAAAAAAGTAAAATTTTTTTTAAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCAC
38057231 CAATTTTTTTTTTTACTTTTTTCGTATATTGATATCTT
66 C-A-TTTTTTTTTTACTTTTTTCGTATATTGATATCTT
* * *
38057269 ATCTGACACGAAAAAAGTAAAACAATTTTTTTTTAAAAAAAAGATGGTGCCGACCATTGTCAGGC
1 ATCTGACACGAAAAAAGT--AA-AA-TTTTTTTT--AAAAAAGGTGGTGCCGGCCATTGCCAGGC
38057334 CACCAC
60 CACCAC
38057340 AATATATATA
Statistics
Matches: 243, Mismatches: 20, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
99 32 0.13
100 1 0.00
101 60 0.25
102 48 0.20
103 2 0.01
104 2 0.01
105 2 0.01
106 8 0.03
108 27 0.11
109 61 0.25
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (101 bp):
ATCTGACACGAAAAAAGTAAAATTTTTTTTAAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCAC
CATTTTTTTTTTACTTTTTTCGTATATTGATATCTT
Found at i:38057319 original size:208 final size:205
Alignment explanation
Indices: 38056958--38057339 Score: 536
Period size: 208 Copynumber: 1.8 Consensus size: 205
38056948 TAAAGATTAC
* *
38056958 ATCTGACACGAAATAATTAAAATTTTTTTTTAAAAAGGTGGAGCGGGCCATTGCCAGGCCACCAC
1 ATCTGACACGAAAAAAGTAAAATTTTTTTTTAAAAAGGTGGAGCGGGCCATTGCCAGGCCACCAC
38057023 CAAAAAAATAAATTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAAAT
66 C----AAATAAATTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAAAT
* * *
38057088 TTTTTTTTAAAAAAAGGTGGTGCCGGCCATTGCCATGCCACCACCATTTTTTTTTTACTTTTTTG
127 TTTTTTTTAAAAAAAGATGGTGCCGACCATTGCCAGGCCACCACCATTTTTTTTTTACTTTTTTG
38057153 TATATTGATATCTT
192 TATATTGATATCTT
* *
38057167 ATCTGACACGAAAAAAGTAAAA-TTTTTTTTAAAAAGGTGGTGTC-GGCCATTGCTAGGCCACCA
1 ATCTGACACGAAAAAAGTAAAATTTTTTTTTAAAAAGGTGGAG-CGGGCCATTGCCAGGCCACCA
*** * *
38057230 CC-AATTTTTTTTTTTACTTTTTTCGTATATTGATATCTTATCTGACACGAAAAAAGTAAAACAA
65 CCAAATAAATTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGT---A-AA
*
38057294 TTTTTTTTTAAAAAAAAGATGGTGCCGACCATTGTCAGGCCACCAC
126 TTTTTTTTT-AAAAAAAGATGGTGCCGACCATTGCCAGGCCACCAC
38057340 AATATATATA
Statistics
Matches: 154, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
203 50 0.32
206 1 0.01
207 11 0.07
208 71 0.46
209 21 0.14
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (205 bp):
ATCTGACACGAAAAAAGTAAAATTTTTTTTTAAAAAGGTGGAGCGGGCCATTGCCAGGCCACCAC
CAAATAAATTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAAATTTTT
TTTTAAAAAAAGATGGTGCCGACCATTGCCAGGCCACCACCATTTTTTTTTTACTTTTTTGTATA
TTGATATCTT
Found at i:38064755 original size:5 final size:5
Alignment explanation
Indices: 38064741--38064799 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
38064731 AAAACAAACA
* *
38064741 AAAAG AAAAAG AAAAG AAAA- AAGAA- AAAAG AAAAG AAAGGAA AAAAT
1 AAAAG -AAAAG AAAAG AAAAG AA-AAG AAAAG AAAAG AAA--AG AAAAG
38064788 AAAAG AAAAG AA
1 AAAAG AAAAG AA
38064800 GAAAGAAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.09
5 33 0.72
6 5 0.11
7 4 0.09
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:38064755 original size:12 final size:12
Alignment explanation
Indices: 38064740--38064817 Score: 67
Period size: 12 Copynumber: 6.5 Consensus size: 12
38064730 AAAAACAAAC
38064740 AAAAAGAAAAAG
1 AAAAAGAAAAAG
38064752 -AAAAGAAAAAAG
1 AAAAAG-AAAAAG
38064764 AAAAA-AGAAAAG
1 AAAAAGA-AAAAG
*
38064776 -AAAGGAAAAA-
1 AAAAAGAAAAAG
38064786 ATAAAAG-AAAAG
1 A-AAAAGAAAAAG
38064798 AAGAAAGAAGAAAG
1 AA-AAAGAA-AAAG
38064812 AAAAAG
1 AAAAAG
38064818 GAGAGGCCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
11 18 0.33
12 21 0.39
13 9 0.17
14 6 0.11
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:38064762 original size:7 final size:7
Alignment explanation
Indices: 38064740--38064810 Score: 60
Period size: 7 Copynumber: 10.3 Consensus size: 7
38064730 AAAAACAAAC
38064740 AAAAAG-
1 AAAAAGA
38064746 AAAAAG-
1 AAAAAGA
38064752 -AAAAGA
1 AAAAAGA
38064758 AAAAAGA
1 AAAAAGA
38064765 AAAAAGAA
1 AAAAAG-A
*
38064773 AAGAAAGG
1 AA-AAAGA
38064781 AAAAA-A
1 AAAAAGA
*
38064787 TAAAAGA
1 AAAAAGA
38064794 AAAGAAGA
1 AAA-AAGA
*
38064802 AAGAAGA
1 AAAAAGA
38064809 AA
1 AA
38064811 GAAAAAGGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
5 5 0.09
6 10 0.19
7 24 0.44
8 11 0.20
9 4 0.07
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:38065261 original size:103 final size:103
Alignment explanation
Indices: 38065141--38065443 Score: 419
Period size: 103 Copynumber: 2.9 Consensus size: 103
38065131 TTATTCTCAT
*
38065141 TTTGTATCTTAGCAAAATTTGCTATCTTGATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTC
1 TTTGTATCTTAGCAAAATTTGCTATCTTGATTTATTCATTTCGAGCCTTGTTCTCAATAAAATTC
38065206 CATATTGTCCATTGTGATAATCTTTTTATCTTATTCAA
66 CATATTGTCCATTGTGATAATCTTTTTATCTTATTCAA
*
38065244 TTTGTATCTTAGCAAAATTTGCTATCTTGATTTATTCATTTCGAGCCTTGCTCTCAATAAAATTC
1 TTTGTATCTTAGCAAAATTTGCTATCTTGATTTATTCATTTCGAGCCTTGTTCTCAATAAAATTC
* * * * * *
38065309 TATCTTATCCATTGTCATAATACTTTTCATCTTATTCAG
66 CATATTGTCCATTGTGATAAT-CTTTTTATCTTATTCAA
* * *
38065348 TTCT-TATCTTAGCAAAATTTGCTATATTGATTAACTTATTCATTTTGAGCCTTATTCTCAATAA
1 TT-TGTATCTTAGCAAAATTTGCTATCTTGA-T---TTATTCATTTCGAGCCTTGTTCTCAATAA
* * *
38065412 AATTCCATTTTGTCCATTTTGATCATCTTTTT
61 AATTCCATATTGTCCATTGTGATAATCTTTTT
38065444 CAAGCATTTT
Statistics
Matches: 175, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
103 80 0.46
104 42 0.24
105 2 0.01
107 5 0.03
108 46 0.26
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (103 bp):
TTTGTATCTTAGCAAAATTTGCTATCTTGATTTATTCATTTCGAGCCTTGTTCTCAATAAAATTC
CATATTGTCCATTGTGATAATCTTTTTATCTTATTCAA
Found at i:38066407 original size:46 final size:46
Alignment explanation
Indices: 38066338--38066751 Score: 612
Period size: 46 Copynumber: 9.0 Consensus size: 46
38066328 GACTAAAAGC
* * *
38066338 AGCAGATCTTGTCTTCCTATATTTGGCAGTGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* * *
38066384 AGCAGATCTTGTCTTTCTGTATTTGGCAGCGGAGTAGATCGAGGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* *
38066430 AGCAGATCTTGTCTTTCTGTATTTGGCAGCAGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
38066476 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* *
38066522 AGCAGATCTTGCCTTTCTGTATTTGGCAGCGGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* * *
38066568 AGCAGATATTGTCTTACTGTATTTGGCAGCAGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
38066614 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* *** *
38066660 AGCAGATCTTGTCTTCCTGTATTTGGCAACGGAAAAGATTGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
** * * *
38066706 AGCAGATTCTTGTCTTCCTGTATCCGGCAGTGAAGTAGATCGAAGA
1 AGCAGA-TCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGA
38066752 CACAAGCCTG
Statistics
Matches: 336, Mismatches: 31, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
46 305 0.91
47 31 0.09
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
Found at i:38066921 original size:44 final size:44
Alignment explanation
Indices: 38066848--38067014 Score: 162
Period size: 44 Copynumber: 3.8 Consensus size: 44
38066838 TCAAATTTTG
* * *
38066848 TCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAGCAAACCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATA-CAAACCTTA
* * **
38066892 TC-CCCATGAGGTTGCAGTGGGGCAAGTTGAAGATACAAGTCTTA
1 TCTCCC-TGAAGTTGCAGTGGAGCAAGTTGAAGATACAAACCTTA
* **
38066936 TCTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGTTACTAGTCC-TA
1 TCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGATAC-AAACCTTA
* *
38066980 TCTCCCTGAAGTTGCAGTGGGGCAAGTCGAAGATA
1 TCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATA
38067015 ACAAGTCTTA
Statistics
Matches: 101, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
43 4 0.04
44 87 0.86
45 10 0.10
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAACCTTA
Found at i:38067136 original size:44 final size:44
Alignment explanation
Indices: 38067035--38067124 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
38067025 TGGAAGCTAT
* ** *
38067035 AAATTACAAACCTTACCTCTCTGAAGTTGCAGTAGAGTAGGTTG
1 AAATAACAAACCTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTG
38067079 AAATAACAAACCTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTG
1 AAATAACAAACCTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTG
38067123 AA
1 AA
38067125 GTCACTAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
AAATAACAAACCTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTG
Found at i:38067150 original size:44 final size:44
Alignment explanation
Indices: 38067040--38067195 Score: 129
Period size: 44 Copynumber: 3.5 Consensus size: 44
38067030 GCTATAAATT
* * * * *
38067040 ACAAACCTTA-CCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAATA
1 ACAAACCTTATCC-CCCTAAAGTTGCAGTAGAGCAGGTTGAAGTC
* * * *
38067084 ACAAACCTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTC
1 ACAAACCTTATCCCCCTAAAGTTGCAGTAGAGCAGGTTGAAGTC
* * * * **
38067128 ACTAACCTTATCCCCCTAAAGTTACAGTGGGGCAAATTGAAG-C
1 ACAAACCTTATCCCCCTAAAGTTGCAGTAGAGCAGGTTGAAGTC
38067171 TACAAACCTTATCTCCCC-AAAGTTG
1 -ACAAACCTTATC-CCCCTAAAGTTG
38067196 TAGTGGAGTG
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
43 1 0.01
44 86 0.93
45 5 0.05
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (44 bp):
ACAAACCTTATCCCCCTAAAGTTGCAGTAGAGCAGGTTGAAGTC
Found at i:38067346 original size:44 final size:44
Alignment explanation
Indices: 38067289--38067374 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
38067279 CTCCCTGAGG
38067289 TCGTAGCGAAGCAGGTTGAAG-ATACAAGTCTTATCTCACTGAAA
1 TCGTAGCGAAGCAGGTTGAAGCA-ACAAGTCTTATCTCACTGAAA
* * *
38067333 TCGTAGTGGAGCAGGTTGAAGCAACAAGTCTTATCTCCCTGA
1 TCGTAGCGAAGCAGGTTGAAGCAACAAGTCTTATCTCACTGA
38067375 CGTTGTAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
TCGTAGCGAAGCAGGTTGAAGCAACAAGTCTTATCTCACTGAAA
Found at i:38072554 original size:21 final size:21
Alignment explanation
Indices: 38072530--38072619 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
38072520 ATTCCTAACT
*
38072530 CTTAACCCCTAACCCCTAAAC
1 CTTAATCCCTAACCCCTAAAC
*
38072551 CTTACATCCC-AACCCTTAAAC
1 CTTA-ATCCCTAACCCCTAAAC
* * * *
38072572 CATAATCCCTAATCCATAATC
1 CTTAATCCCTAACCCCTAAAC
* *
38072593 TCTAAATCCAT-ACTCCCTAAAC
1 -CTTAATCCCTAAC-CCCTAAAC
38072615 CTTAA
1 CTTAA
38072620 AATATGAACT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
20 5 0.10
21 30 0.58
22 17 0.33
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.26
Consensus pattern (21 bp):
CTTAATCCCTAACCCCTAAAC
Found at i:38072600 original size:15 final size:15
Alignment explanation
Indices: 38072567--38072613 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
38072557 TCCCAACCCT
38072567 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
38072581 T-AATCCATAATCTC
1 TAAATCCATAATCCC
*
38072595 TAAATCCATACTCCC
1 TAAATCCATAATCCC
38072610 TAAA
1 TAAA
38072614 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:38072826 original size:7 final size:7
Alignment explanation
Indices: 38072810--38072855 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
38072800 CCCTCACTCT
38072810 TAACCCC
1 TAACCCC
*
38072817 TAACCAC
1 TAACCCC
38072824 TAACCCC
1 TAACCCC
38072831 TAAACCCC
1 T-AACCCC
*
38072839 TAACCAC
1 TAACCCC
38072846 TAACCCC
1 TAACCCC
38072853 TAA
1 TAA
38072856 ACCTTAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:38072836 original size:22 final size:22
Alignment explanation
Indices: 38072811--38072858 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
38072801 CCTCACTCTT
38072811 AACCCCTAACCACTAACCCCTA
1 AACCCCTAACCACTAACCCCTA
38072833 AACCCCTAACCACTAACCCCTA
1 AACCCCTAACCACTAACCCCTA
38072855 AACC
1 AACC
38072859 TTAAATCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (22 bp):
AACCCCTAACCACTAACCCCTA
Found at i:38072877 original size:21 final size:20
Alignment explanation
Indices: 38072825--38072887 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
38072815 CCTAACCACT
*
38072825 AACCCCTAAACCCCTAA-CCAC
1 AACCCCTAAA-CCATAATCC-C
*
38072846 TAACCCCTAAACCTTAAATCCC
1 -AACCCCTAAACCAT-AATCCC
*
38072868 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
38072888 TAATCCATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.17
21 15 0.42
22 13 0.36
23 2 0.06
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:38072895 original size:14 final size:14
Alignment explanation
Indices: 38072878--38072904 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38072868 AACCCTTAAA
38072878 CCATAATCCCTAAT
1 CCATAATCCCTAAT
38072892 CCATAATCCCTAA
1 CCATAATCCCTAA
38072905 ATTCACTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:38073435 original size:41 final size:40
Alignment explanation
Indices: 38073272--38073435 Score: 175
Period size: 41 Copynumber: 4.0 Consensus size: 40
38073262 GTTTTTAGTA
* * * * * *
38073272 GCGCTTTTTCAAAAATGTCGCTACAGCCCCCAGCATTAGC
1 GCGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTAGC
* *
38073312 AGCGCTTTTTAAAAAATGCCGCTAAAACACCGAGCATTAGC
1 -GCGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTAGC
* *
38073353 GACGCTTTTTAAAAAACGCCACGAAAACCCCGAGCATTAGC
1 G-CGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTAGC
* * * *
38073394 GTCGCATTTTCAAAAACACCGCTAAAGCCCCGAGCATTAGC
1 G-CGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTAGC
38073435 G
1 G
38073436 GCACTTTCTT
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 104 0.99
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (40 bp):
GCGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTAGC
Found at i:38073460 original size:41 final size:40
Alignment explanation
Indices: 38073296--38073465 Score: 144
Period size: 41 Copynumber: 4.2 Consensus size: 40
38073286 ATGTCGCTAC
* * * * *
38073296 AGCCCCCAGCATTAGCAGCGCTTTTTAAAAAATGCCGCTAA
1 AGCCCCGAGCATTAGCGGCACTTTTT-AAAAACGCCACTAA
* * * * *
38073337 AACACCGAGCATTAGCGACGCTTTTTAAAAAACGCCACGAA
1 AGCCCCGAGCATTAGCGGCACTTTTT-AAAAACGCCACTAA
* * * *
38073378 AACCCCGAGCATTAGCGTCGCA-TTTTCAAAAACACCGCTAA
1 AGCCCCGAGCATTAGCG--GCACTTTTTAAAAACGCCACTAA
* *
38073419 AGCCCCGAGCATTAGCGGCACTTTCTTGAAATCGCCACTAA
1 AGCCCCGAGCATTAGCGGCACTTT-TTAAAAACGCCACTAA
38073460 AGCCCC
1 AGCCCC
38073466 AAAAGGTAAG
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.03
40 3 0.03
41 93 0.89
42 4 0.04
43 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.19
Consensus pattern (40 bp):
AGCCCCGAGCATTAGCGGCACTTTTTAAAAACGCCACTAA
Found at i:38073593 original size:39 final size:40
Alignment explanation
Indices: 38073508--38073594 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
38073498 TTTTTGCGGG
*
38073508 ATTTTTTCGAAAAACGCCGCGAATGCTCATTTTTAGAGGC
1 ATTTTTTCGAAAAACGCCGCGAATGCTCATTTTTACAGGC
*
38073548 ATTTTTT-GAAAAACGCCGCTAATGCTCAATTTTTACCA-GC
1 ATTTTTTCGAAAAACGCCGCGAATGCTC-ATTTTTA-CAGGC
38073588 ATTTTTT
1 ATTTTTT
38073595 GTCCAAGCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 19 0.44
40 23 0.53
41 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (40 bp):
ATTTTTTCGAAAAACGCCGCGAATGCTCATTTTTACAGGC
Found at i:38076081 original size:25 final size:24
Alignment explanation
Indices: 38076035--38076082 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
38076025 AGTTGTAAAT
38076035 TAGAAAATATCTCTAGAAAATTTC
1 TAGAAAATATCTCTAGAAAATTTC
* * *
38076059 TAGAATAATCTCTTTAGAGAATTT
1 TAGAA-AATATCTCTAGAAAATTT
38076083 TCTCTCTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (24 bp):
TAGAAAATATCTCTAGAAAATTTC
Found at i:38076351 original size:37 final size:35
Alignment explanation
Indices: 38076294--38076364 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
38076284 TCACATCAGT
*
38076294 ATTAAATTAATAAAATACTATTAAGATAAGTATTAA
1 ATTAAATTAATAAAATACTATTAAAATAA-TATTAA
*
38076330 ATTAAATTTAATATTAA-ACTATTAAAATAATATTA
1 ATTAAA-TTAATA-AAATACTATTAAAATAATATTA
38076365 TTTTTAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 11 0.35
37 18 0.58
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAAATAATATTAA
Found at i:38080522 original size:35 final size:33
Alignment explanation
Indices: 38080487--38080551 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
38080477 AACTTATACA
*
38080487 AAATT-TAAGTATTTTTTCGTTTTTCGAAATTTAC
1 AAATTCTAAATATTTTTT-GTTTTTC-AAATTTAC
*
38080521 AATTTCTAAATATTTTTTGTTTTTCAAATTT
1 AAATTCTAAATATTTTTTGTTTTTCAAATTT
38080552 TAAACATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 11 0.39
35 11 0.39
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (33 bp):
AAATTCTAAATATTTTTTGTTTTTCAAATTTAC
Found at i:38080961 original size:20 final size:19
Alignment explanation
Indices: 38080936--38080974 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
38080926 GTGTTAAAAC
*
38080936 ATATCACGCTTTATAAATAA
1 ATATCACGC-TAATAAATAA
*
38080956 ATATCATGCTAATAAATAA
1 ATATCACGCTAATAAATAA
38080975 TTTTTGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (19 bp):
ATATCACGCTAATAAATAA
Found at i:38085190 original size:50 final size:50
Alignment explanation
Indices: 38085132--38085264 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 50
38085122 TATTAAGGTT
* *
38085132 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCGAG
* * * * *
38085182 ATGAGAGGTCCCCCGTAAGAACCAAGTCTGAGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAG-ACCATGTCTGGGACATAGCATGGGCACCGAG
** * * *
38085233 ATGAGAACTCTCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
38085265 TATGACATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
50 28 0.42
51 39 0.58
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCGAG
Found at i:38085553 original size:20 final size:20
Alignment explanation
Indices: 38085528--38085576 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
38085518 TGAGTTATCT
38085528 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
38085548 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
38085568 AAG-AAGCAA
1 AAGTAAGCAA
38085577 AGACAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:38093506 original size:15 final size:17
Alignment explanation
Indices: 38093477--38093513 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
38093467 TCTTCATTAA
*
38093477 GTTTTTATCTCAT-AAG
1 GTTTTTATCTAATAAAG
38093493 GTTTTT-TCTAATAAAG
1 GTTTTTATCTAATAAAG
38093509 GTTTT
1 GTTTT
38093514 AATGAGACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.54
Consensus pattern (17 bp):
GTTTTTATCTAATAAAG
Found at i:38100237 original size:14 final size:15
Alignment explanation
Indices: 38100215--38100252 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
38100205 AAAAAAAAAG
38100215 AGAGAAAGGAGAAGA
1 AGAGAAAGGAGAAGA
38100230 AGAG-AAGGAGAAGA
1 AGAGAAAGGAGAAGA
38100244 AGAAGAAAG
1 AG-AGAAAG
38100253 AAAGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.57
15 6 0.29
16 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
AGAGAAAGGAGAAGA
Found at i:38100257 original size:14 final size:15
Alignment explanation
Indices: 38100212--38100258 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
38100202 AGAAAAAAAA
38100212 AAGAGAGAAAGGAGAAG
1 AAGA-AGAAA-GAGAAG
*
38100229 AAG-AGAAGGAGAAG
1 AAGAAGAAAGAGAAG
38100243 AAGAAGAAAGA-AAG
1 AAGAAGAAAGAGAAG
38100257 AA
1 AA
38100259 AAAAGTAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 14 0.52
15 10 0.37
17 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (15 bp):
AAGAAGAAAGAGAAG
Found at i:38100258 original size:17 final size:17
Alignment explanation
Indices: 38100212--38100258 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
38100202 AGAAAAAAAA
* *
38100212 AAGAGAGAAAGGAGAAG
1 AAGAAAGAAAGAAGAAG
*
38100229 AAGAGAAG-GAGAAGAAG
1 AAGA-AAGAAAGAAGAAG
38100246 AAGAAAGAAAGAA
1 AAGAAAGAAAGAA
38100259 AAAAGTAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 3 0.12
17 19 0.79
18 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAGAAGAAG
Found at i:38100445 original size:22 final size:20
Alignment explanation
Indices: 38100419--38100603 Score: 107
Period size: 22 Copynumber: 9.0 Consensus size: 20
38100409 TAGATTAGAA
*
38100419 TTTTGTATGAATATTTTAACTT
1 TTTTGTATGAATATTATAA--T
38100441 TTTTGTATGAATATTATAAT
1 TTTTGTATGAATATTATAAT
*
38100461 TTTT-TATGAATATTGTAA-
1 TTTTGTATGAATATTATAAT
* *
38100479 TGTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
*
38100499 TATTT-TAT-AATTAAATGTGT-AT
1 T-TTTGTATGAA-T--AT-TATAAT
* *
38100521 TTCTAGTTTTG-A-ATTAGTAATT
1 TT-TTG-TATGAATATTA-TAA-T
*
38100543 TTTTGTATGAATATTGTAA-
1 TTTTGTATGAATATTATAAT
*
38100562 TTTTGTATGAATATTATATT
1 TTTTGTATGAATATTATAAT
*
38100582 CGTTTTGTATGAATATTGTAAT
1 --TTTTGTATGAATATTATAAT
38100604 ATTATAATTT
Statistics
Matches: 130, Mismatches: 14, Indels: 38
0.71 0.08 0.21
Matches are distributed among these distances:
18 3 0.02
19 47 0.36
20 16 0.12
21 10 0.08
22 48 0.37
23 3 0.02
24 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.55
Consensus pattern (20 bp):
TTTTGTATGAATATTATAAT
Found at i:38100463 original size:41 final size:38
Alignment explanation
Indices: 38100412--38100603 Score: 113
Period size: 41 Copynumber: 4.7 Consensus size: 38
38100402 TATAGTTTAG
* * *
38100412 ATTAGAATTTTGTATGAATATTTTAACTTTTTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGTAA---TGTTGTATGAAT
*
38100453 ATTATAATTTTTTATGAATATTGTAATGTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
* * * *
38100491 ATTGTAATTATTTTAT-AATTAAATGTGT-ATTTCTAGTTTTG-A-
1 ATTATAATT-TTGTATGAA-T--AT-TGTAATGT-T-G-TATGAAT
*
38100533 ATTAGTAATTTTTTGTATGAATATTGTAATTTTGTATGAAT
1 ATTA-TAA--TTTTGTATGAATATTGTAATGTTGTATGAAT
*
38100574 ATTATATTCGTTTTGTATGAATATTGTAAT
1 ATTATA---ATTTTGTATGAATATTGTAAT
38100604 ATTATAATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
38 21 0.17
39 10 0.08
40 4 0.03
41 56 0.46
42 13 0.11
43 5 0.04
44 9 0.07
45 4 0.03
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.54
Consensus pattern (38 bp):
ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
Found at i:38100468 original size:19 final size:19
Alignment explanation
Indices: 38100412--38100506 Score: 91
Period size: 19 Copynumber: 4.8 Consensus size: 19
38100402 TATAGTTTAG
* *
38100412 ATTAGAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
38100431 ATTTTAACTTTTTTGTATGAAT
1 ATTATAA--TTTTT-TATGAAT
38100453 ATTATAATTTTTTATGAAT
1 ATTATAATTTTTTATGAAT
* * *
38100472 ATTGTAATGTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
38100491 ATTGTAATTATTTTAT
1 ATTATAATT-TTTTAT
38100507 AATTAAATGT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 36 0.57
20 10 0.16
21 4 0.06
22 13 0.21
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.55
Consensus pattern (19 bp):
ATTATAATTTTTTATGAAT
Found at i:38100567 original size:19 final size:19
Alignment explanation
Indices: 38100543--38100657 Score: 89
Period size: 19 Copynumber: 6.1 Consensus size: 19
38100533 ATTAGTAATT
38100543 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
* *
38100562 TTTTGTATGAATATTATATTCG
1 TTTTGTATGAATATTGTA---A
38100584 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
* *
38100603 -TAT-TAT-AATTTTGTATGAA
1 TTTTGTATGAATATTG--T-AA
*
38100622 TATT-T-T-AATATTGTAA
1 TTTTGTATGAATATTGTAA
38100638 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
38100657 T
1 T
38100658 GTGGGGATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
16 11 0.14
17 5 0.07
18 4 0.05
19 37 0.49
20 2 0.03
22 17 0.22
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (19 bp):
TTTTGTATGAATATTGTAA
Found at i:38100620 original size:27 final size:27
Alignment explanation
Indices: 38100584--38100657 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
38100574 ATTATATTCG
38100584 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAA
* *
38100611 TTTTGTATGAATATTTTAATATTGTAA
1 TTTTGTATGAATATTGTAATATTATAA
38100638 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
38100658 GTGGGGATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTATAA
Found at i:38100779 original size:60 final size:60
Alignment explanation
Indices: 38100698--38100819 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
38100688 TGTATGAATA
* * * * * *
38100698 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTGGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
38100758 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
38100818 TT
1 TT
38100820 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:38100898 original size:38 final size:38
Alignment explanation
Indices: 38100853--38100934 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
38100843 CATATAAAGT
38100853 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
* *
38100891 TTATAAAAAAATTAAAAATTATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
38100929 TTATAA
1 TTATAA
38100935 CTGACTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:38101012 original size:15 final size:16
Alignment explanation
Indices: 38100973--38101012 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
38100963 TAACTCATTT
38100973 AATTTTCATATAATGTA
1 AATTTT-ATATAATGTA
*
38100990 ACTTTTATATAAT-TA
1 AATTTTATATAATGTA
38101005 AATTTTAT
1 AATTTTAT
38101013 TTGATTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 9 0.43
16 7 0.33
17 5 0.24
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (16 bp):
AATTTTATATAATGTA
Found at i:38102657 original size:6 final size:6
Alignment explanation
Indices: 38102638--38102671 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
38102628 GCATCATGCA
38102638 CCAGAG CCAG-G CCAGAG CCAGAG CCAGAG CCAGA
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGA
38102672 ACTACATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.32, C:0.35, G:0.32, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:38117210 original size:3 final size:3
Alignment explanation
Indices: 38117197--38117238 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
38117187 TGACACCTTG
38117197 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
38117239 AAGAGAACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:38118333 original size:85 final size:85
Alignment explanation
Indices: 38118174--38118338 Score: 251
Period size: 85 Copynumber: 1.9 Consensus size: 85
38118164 ATTCAAATCC
* * * *
38118174 ATGCTGAAGAACTTTGCATGCCTTAAATACAAGGCTAATAAGACCCCAACAGCAAAAAGAGAAAG
1 ATGCTAAAGAACTTTGCATACCTTAAATACAAGGCTAATAAGACCCCAACACCAAAAAGAGAAAA
*
38118239 ACGGTATCACAAAATTGGAT
66 ACGGCATCACAAAATTGGAT
38118259 ATGCTAAAGAACTTTGCATACCTTAAATACAAGGCTAATAGAGACCCCAACACCAAAAAG-GAAA
1 ATGCTAAAGAACTTTGCATACCTTAAATACAAGGCTAATA-AGACCCCAACACCAAAAAGAGAAA
* *
38118323 AATGGCATCACGAAAT
65 AACGGCATCACAAAAT
38118339 CAGCTATGGT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 54 0.75
86 18 0.25
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (85 bp):
ATGCTAAAGAACTTTGCATACCTTAAATACAAGGCTAATAAGACCCCAACACCAAAAAGAGAAAA
ACGGCATCACAAAATTGGAT
Found at i:38125874 original size:20 final size:20
Alignment explanation
Indices: 38125849--38125886 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38125839 ATAATTATAT
*
38125849 TAATTATATATGTTAAATAA
1 TAATTATATATATTAAATAA
38125869 TAATTATATATATTAAAT
1 TAATTATATATATTAAAT
38125887 TACTAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTATATATATTAAATAA
Found at i:38126028 original size:39 final size:39
Alignment explanation
Indices: 38125985--38126093 Score: 157
Period size: 39 Copynumber: 2.8 Consensus size: 39
38125975 AAAAATTATA
*
38125985 TTTAATACAATAAAAAAATTATTATATTTA-TTTGTGTTT
1 TTTAATACAATAAAAAATTTATTATATTTATTTTG-GTTT
*
38126024 TTTAATACAATAAAACATTTATTATATTTATTTTGGTTT
1 TTTAATACAATAAAAAATTTATTATATTTATTTTGGTTT
* * *
38126063 TTTAATATAATAAAATATTTATCATATTTAT
1 TTTAATACAATAAAAAATTTATTATATTTAT
38126094 GGTAATTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 60 0.94
40 4 0.06
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (39 bp):
TTTAATACAATAAAAAATTTATTATATTTATTTTGGTTT
Found at i:38126104 original size:40 final size:39
Alignment explanation
Indices: 38125985--38126112 Score: 114
Period size: 39 Copynumber: 3.3 Consensus size: 39
38125975 AAAAATTATA
* * * * * **
38125985 TTTAATACAATAAAAAAATTATTATATTTATTTGTGTTT
1 TTTAATATAATAAAACATTTATCATATTTATGTAAGTTT
* * * **
38126024 TTTAATACAATAAAACATTTATTATATTTATTTTGGTTT
1 TTTAATATAATAAAACATTTATCATATTTATGTAAGTTT
*
38126063 TTTAATATAATAAAATATTTATCATATTTATGGTAA-TTT
1 TTTAATATAATAAAACATTTATCATATTTAT-GTAAGTTT
38126102 TTTAAATATAA
1 TTT-AATATAA
38126113 ATACTTTATT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 69 0.90
40 8 0.10
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATCATATTTATGTAAGTTT
Found at i:38139742 original size:31 final size:31
Alignment explanation
Indices: 38139678--38139744 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
38139668 AACATCCCAA
* *
38139678 TGACTTAAATAGAAACTTTTGAATAGTTGAG
1 TGACTTAAATAGAAACTTTAGAATAATTGAG
* *
38139709 TGACTTAAAT-GAAAACTTTAGCATAATTTAG
1 TGACTTAAATAG-AAACTTTAGAATAATTGAG
38139740 TGACT
1 TGACT
38139745 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAGAAACTTTAGAATAATTGAG
Found at i:38141913 original size:20 final size:19
Alignment explanation
Indices: 38141886--38141923 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
38141876 GCTCAATCTC
*
38141886 TTTTTTTTTTTTGTTTTAA
1 TTTTTTTTTATTGTTTTAA
38141905 TTTTGTTTTTATTGTTTTA
1 TTTT-TTTTTATTGTTTTA
38141924 TCCTTTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTATTGTTTTAA
Found at i:38144118 original size:50 final size:50
Alignment explanation
Indices: 38144043--38144163 Score: 242
Period size: 50 Copynumber: 2.4 Consensus size: 50
38144033 AAATGCTACA
38144043 TCTGGTGGTACCCATGAACAAATAAAGTATATTCCCTTTGCCATAATCAT
1 TCTGGTGGTACCCATGAACAAATAAAGTATATTCCCTTTGCCATAATCAT
38144093 TCTGGTGGTACCCATGAACAAATAAAGTATATTCCCTTTGCCATAATCAT
1 TCTGGTGGTACCCATGAACAAATAAAGTATATTCCCTTTGCCATAATCAT
38144143 TCTGGTGGTACCCATGAACAA
1 TCTGGTGGTACCCATGAACAA
38144164 TTTGTTCTAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (50 bp):
TCTGGTGGTACCCATGAACAAATAAAGTATATTCCCTTTGCCATAATCAT
Found at i:38153592 original size:37 final size:37
Alignment explanation
Indices: 38153545--38153617 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
38153535 CATGATTTAA
*
38153545 ACTTACGTTCTTCTTTACGAGTACAATTTACTTTACT
1 ACTTACGTTCTTCTTTACGAGTACAATTTAATTTACT
* * * *
38153582 ACTTATGTTCTTCTTTATGTGTATAATTTAATTTAC
1 ACTTACGTTCTTCTTTACGAGTACAATTTAATTTAC
38153618 CACTACACCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (37 bp):
ACTTACGTTCTTCTTTACGAGTACAATTTAATTTACT
Found at i:38156526 original size:14 final size:11
Alignment explanation
Indices: 38156490--38156522 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
38156480 CTCAACACCA
38156490 AAATTGAGAGG
1 AAATTGAGAGG
38156501 AAATTGAGAGG
1 AAATTGAGAGG
38156512 AAATTTGAGAG
1 AAA-TTGAGAG
38156523 AGGATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.21
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:38159222 original size:68 final size:68
Alignment explanation
Indices: 38159104--38159237 Score: 178
Period size: 68 Copynumber: 2.0 Consensus size: 68
38159094 TATTGAAGTA
* * * ** ** * *
38159104 AATTAGTGCCAACACACATCATAACAGGTATTATATCAATGATTTTAACTCAGACAATTTTTAAA
1 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAACAATTTCTAAA
38159169 AAT
66 AAT
*
38159172 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAATAATTTCTAAA
1 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAACAATTTCTAAA
38159237 A
66 A
38159238 GAAAATAACC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (68 bp):
AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAACAATTTCTAAA
AAT
Found at i:38159863 original size:22 final size:24
Alignment explanation
Indices: 38159806--38159872 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
38159796 ATGAATTATA
38159806 AAAAAATATATTTATATTAAAACGTT
1 AAAAAATATATTTATATT-AAAC-TT
** *
38159832 AAAAGTTATATTTATATT-GA-TT
1 AAAAAATATATTTATATTAAACTT
*
38159854 AAAAAATATATTGATATTA
1 AAAAAATATATTTATATTA
38159873 GCCGTTTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 17 0.50
24 1 0.03
26 16 0.47
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (24 bp):
AAAAAATATATTTATATTAAACTT
Found at i:38167463 original size:27 final size:27
Alignment explanation
Indices: 38167421--38167487 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
38167411 CTTTTAGAGT
* *
38167421 CAGTAAACATGGGGTAGTCCGCCGA-GA
1 CAGTAAACACGAGGTAGTCCG-CGAGGA
* **
38167448 CAGTAAACACGAGGTAGTTCGTTAGGA
1 CAGTAAACACGAGGTAGTCCGCGAGGA
38167475 CAGTAAACACGAG
1 CAGTAAACACGAG
38167488 AGAGTCCACC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.16
Consensus pattern (27 bp):
CAGTAAACACGAGGTAGTCCGCGAGGA
Found at i:38171136 original size:9 final size:10
Alignment explanation
Indices: 38171121--38171162 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 10
38171111 TTAGTCATTT
38171121 AATTTTAAAA
1 AATTTTAAAA
38171131 AATTTATAAAA
1 AATTT-TAAAA
38171142 TAATTATTAAAA
1 -AATT-TTAAAA
38171154 AA-TTTAAAA
1 AATTTTAAAA
38171163 TTTTTCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 6 0.21
10 6 0.21
11 7 0.24
12 9 0.31
13 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:38174323 original size:13 final size:13
Alignment explanation
Indices: 38174305--38174334 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
38174295 AGCCCAAACT
38174305 CAATTACCCAACC
1 CAATTACCCAACC
38174318 CAATTACCCAACC
1 CAATTACCCAACC
38174331 CAAT
1 CAAT
38174335 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:38174488 original size:9 final size:9
Alignment explanation
Indices: 38174476--38174534 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
38174466 AATAAAAAAA
38174476 AATTCGGGT
1 AATTCGGGT
38174485 AATTCGGGT
1 AATTCGGGT
* **
38174494 ATTTTTTGGT
1 A-ATTCGGGT
*
38174504 AATTCGGTT
1 AATTCGGGT
38174513 AATTCGGGT
1 AATTCGGGT
38174522 AATTCGGGT
1 AATTCGGGT
38174531 AATT
1 AATT
38174535 GTTAACCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
9 35 0.85
10 6 0.15
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:38174706 original size:12 final size:12
Alignment explanation
Indices: 38174689--38174713 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38174679 AGTAATTTCA
38174689 GGTCGGTTAACC
1 GGTCGGTTAACC
38174701 GGTCGGTTAACC
1 GGTCGGTTAACC
38174713 G
1 G
38174714 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:38175814 original size:14 final size:15
Alignment explanation
Indices: 38175794--38175834 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
38175784 TTTGATTGCC
38175794 AGTAAAATATTTTC-
1 AGTAAAATATTTTCT
* *
38175808 CGTAAAATAATTTCT
1 AGTAAAATATTTTCT
38175823 AG-AAAATATTTT
1 AGTAAAATATTTT
38175835 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.95
15 1 0.05
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
AGTAAAATATTTTCT
Found at i:38175847 original size:34 final size:35
Alignment explanation
Indices: 38175803--38175869 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
38175793 CAGTAAAATA
38175803 TTTTCCGTAAAATAATTT-CTAGAAAATATTTTAC
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
* *
38175837 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
38175870 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:38176396 original size:13 final size:13
Alignment explanation
Indices: 38176378--38176408 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
38176368 ATTCTTTCTC
38176378 TATTTATGAAGTT
1 TATTTATGAAGTT
38176391 TATTTATGAAGTT
1 TATTTATGAAGTT
38176404 TATTT
1 TATTT
38176409 GTACAAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:38188791 original size:52 final size:48
Alignment explanation
Indices: 38188772--38188974 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
38188762 TGACAAGTGG
* *
38188772 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
38188818 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
38188870 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
38188916 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
38188962 AAAGTGATAAGTG
1 AAAGTGATAAGTG
38188975 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:38188826 original size:98 final size:98
Alignment explanation
Indices: 38188706--38188974 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
38188696 TTTGAGTACT
*
38188706 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
38188771 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
38188804 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
38188869 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
38188902 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
38188967 GATAAGTG
65 GAAAAGTG
38188975 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:38188982 original size:37 final size:37
Alignment explanation
Indices: 38188938--38189083 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
38188928 GATAGCTTTA
*
38188938 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
38188975 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
38189012 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
38189049 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
38189084 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:38192785 original size:22 final size:21
Alignment explanation
Indices: 38192759--38192802 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
38192749 ACAAAAGAAA
38192759 ATGTTT-TACAAACAAGACAAAG
1 ATGTTTCT-CAAACAAGA-AAAG
*
38192781 ATGTTTCTGAAACAAGAAAAG
1 ATGTTTCTCAAACAAGAAAAG
38192802 A
1 A
38192803 CATTTATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 14 0.70
23 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.23
Consensus pattern (21 bp):
ATGTTTCTCAAACAAGAAAAG
Found at i:38194422 original size:29 final size:29
Alignment explanation
Indices: 38194356--38194422 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
38194346 AAGTTTGATG
*
38194356 TGTATAATTACATTAAATTAAAATTTATA
1 TGTATAATTACATTAAATTAAAAATTATA
* * *
38194385 TATACAATTATATACTAAA-TAAAAATTA-A
1 TGTATAATTACAT--TAAATTAAAAATTATA
38194414 TGTATAATT
1 TGTATAATT
38194423 TTAAGATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
29 18 0.60
30 8 0.27
31 4 0.13
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (29 bp):
TGTATAATTACATTAAATTAAAAATTATA
Found at i:38202650 original size:26 final size:26
Alignment explanation
Indices: 38202581--38202650 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 26
38202571 AGAACTTGAA
*
38202581 AATATATAAAATT-TATTATAAAATG
1 AATATATAAAATTAAATTATAAAATG
38202606 ACATA-A-AAAATATAAATTATTAAAA-G
1 A-ATATATAAAAT-TAAATTA-TAAAATG
*
38202632 AATATATAAAATTACATTA
1 AATATATAAAATTAAATTA
38202651 AGGCTTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
24 5 0.14
25 6 0.16
26 16 0.43
27 10 0.27
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (26 bp):
AATATATAAAATTAAATTATAAAATG
Found at i:38202714 original size:11 final size:11
Alignment explanation
Indices: 38202698--38202735 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
38202688 ATATTTCTTG
38202698 AATTTTAACAA
1 AATTTTAACAA
38202709 AATTTTCAAC-A
1 AATTTT-AACAA
38202720 AATTTTAACAA
1 AATTTTAACAA
38202731 AATTT
1 AATTT
38202736 CTCTCGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.12
11 19 0.76
12 3 0.12
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTTTAACAA
Found at i:38202745 original size:22 final size:22
Alignment explanation
Indices: 38202690--38202747 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
38202680 TCAAATCAAT
38202690 ATTTCT-T-GAATTTTAACAAA
1 ATTTCTCTCGAATTTTAACAAA
* *
38202710 ATTT-TCAACAAATTTTAACAAA
1 ATTTCTC-TCGAATTTTAACAAA
38202732 ATTTCTCTCGAATTTT
1 ATTTCTCTCGAATTTT
38202748 TTGAATCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.03
20 4 0.13
22 23 0.77
23 2 0.07
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.45
Consensus pattern (22 bp):
ATTTCTCTCGAATTTTAACAAA
Found at i:38207912 original size:3 final size:3
Alignment explanation
Indices: 38207904--38207986 Score: 52
Period size: 3 Copynumber: 28.7 Consensus size: 3
38207894 AAACTATCGT
* *
38207904 ATA ATA AT- ATG ATAA ATA A-A ATA AT- ATA ATA ATA ATA GA-A ATC
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * *
38207947 ATA AGA ATA ATA ATA ATGA ATG ATA AT- ATA TTA A-A ATA AT
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT
38207987 GAAGAAAATA
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
2 11 0.18
3 45 0.73
4 6 0.10
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:38209069 original size:20 final size:20
Alignment explanation
Indices: 38209041--38209083 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
38209031 GCTGAAAATG
*
38209041 GGTTGGGGTGTTTTGGGC-TA
1 GGTTGGGGT-ATTTGGGCTTA
*
38209061 GGTTTGGGTATTTGGGCTTA
1 GGTTGGGGTATTTGGGCTTA
38209081 GGT
1 GGT
38209084 AGGTTATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.07, C:0.05, G:0.47, T:0.42
Consensus pattern (20 bp):
GGTTGGGGTATTTGGGCTTA
Found at i:38209471 original size:44 final size:41
Alignment explanation
Indices: 38209374--38209615 Score: 214
Period size: 44 Copynumber: 5.7 Consensus size: 41
38209364 ATGATTTATG
* * * **
38209374 TCTGCTCCACTGCAAGTTTAGGGAGATAAGACTGGATGCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTTTAA
* *
38209415 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGTTTTAA
* * **
38209459 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGG-TT-TT-AA
* * * * ***
38209503 TGTGTTCCACTACAACTTCAGGGAGATAAGACTGGATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTTTAA
* *
38209544 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCCGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--C-TGGTTTTAA
*
38209588 TCCGCTCCACTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
38209616 GGATTGGCTT
Statistics
Matches: 157, Mismatches: 35, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
41 56 0.36
42 3 0.02
43 4 0.03
44 94 0.60
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (41 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTTTAA
Found at i:38209573 original size:129 final size:129
Alignment explanation
Indices: 38209379--38209629 Score: 439
Period size: 129 Copynumber: 1.9 Consensus size: 129
38209369 TTATGTCTGC
* * *
38209379 TCCACTGCAAGTTTAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAA
1 TCCACTACAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAA
* *
38209444 GATCTATGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTGTGT
66 GATCCATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTGTGT
*
38209508 TCCACTACAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAA
1 TCCACTACAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAA
*
38209573 GATCCGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTC
66 GATCCATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTC
38209630 AATCTGTTTA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 115 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (129 bp):
TCCACTACAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAA
GATCCATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTGTGT
Found at i:38209644 original size:44 final size:43
Alignment explanation
Indices: 38209374--38209646 Score: 175
Period size: 44 Copynumber: 6.3 Consensus size: 43
38209364 ATGATTTATG
* * * * * *
38209374 TCTGCTCCACTGCAAGTTTAGGGAGATAAGACTGG--ATGCAA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAA
* * *
38209415 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTT-TT-AA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTCTTCAA
* * **
38209459 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTG
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTGG-TTCTTCAA
* * * * * *
38209503 TGTGTTCCACTACAACTTCAGGGAGATAAGACTGG--ATGCGA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAA
* * *
38209544 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCCGTGGTT-TT-AA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGAT---TGGTTCTTCAA
* * *
38209588 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCAA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTGG-TTCTTCAA
**
38209632 TCTGTTTAACTGCAA
1 TCTGTTCCACTGCAA
38209647 TGTCGAGAAA
Statistics
Matches: 180, Mismatches: 36, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
41 61 0.34
42 5 0.03
43 4 0.02
44 108 0.60
45 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (43 bp):
TCTGTTCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAA
Found at i:38209685 original size:50 final size:49
Alignment explanation
Indices: 38209626--38210385 Score: 469
Period size: 50 Copynumber: 15.2 Consensus size: 49
38209616 GGATTGGCTT
* * * **
38209626 CTTCAATCTGTTTAACTGCAATGTCGAGAAAGTAAGATTCACCGTCATAG
1 CTTCAATCT-TTTAACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAG
* * * *
38209676 CTTCAATCTGTTCT-GCTGCACTGCCTGGGG-AGTAAGATTCGCCGTTGTGG
1 CTTCAATCT-TT-TAACTGCAATGTC-GGGGAAGTAAGATTCGCCGTTGTAG
* * * * *
38209726 CTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGTTTCACCGTCGTAG
1 CTTCAATCTTTT-AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAG
** * ** * * *
38209776 CTTCAATCTATTTCGCTGC-ATCGCCTAGAAAGTAAGATTCGCCATTGTGG
1 CTTCAATCT-TTTAACTGCAAT-GTCGGGGAAGTAAGATTCGCCGTTGTAG
* * * * * *
38209826 CTTCAATCTTTTAAATTGTAACGTCGGGGAAGTGAGATACGCCGTCGTAG
1 CTTCAATCTTTT-AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAG
* * *
38209876 CTTCAAT-TTGTT--CTGCTACATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTT-TTAACTGC-A-AT-GTCGGGGAAGTAAGATTCGCCGTTGTAG
* * * * *
38209926 CTTCAATCTTTTAAATTGTAATGTCGAGGAAGCAAGATTCACCGTTGTAG
1 CTTCAATCTTTT-AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAG
* * ** *
38209976 CTTCAATCTATTCT-GCTGCACTACCTGGGG-AGTAAGATTTGCCGTTGTAG
1 CTTCAATCT-TT-TAACTGCAATGTC-GGGGAAGTAAGATTCGCCGTTGTAG
* * **
38210026 CTTCAATCTTTTTAATTGTAATGTCGGGGAAACAAGATTCGCCGTTGTAG
1 CTTCAATC-TTTTAACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAG
* ** * * * *
38210076 CTTCAATCTGTTCT-GCTGCACCGCCTGGGAAAGTAAGATTCACCGTTGTGG
1 CTTCAATCT-TT-TAACTGCAATGTC-GGGGAAGTAAGATTCGCCGTTGTAG
* * * * *
38210127 CTTCAATCTTTTGAATTACAATGTCGGGGAAGTGAGATTCGCCATCGTAG
1 CTTCAATCTTTT-AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAG
*** ** * * *
38210177 CTTCAATCTGTTCCGCTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCT-TTTAACTGCAATGTC-GGGGAAGTAAGATTCGCCGTTGTAG
* * ** * *
38210228 CCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACTGTTGTAG
1 CTTCAATCTTTTAACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAG
* ** * * *
38210277 CTTCAAT-TTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTT-TT-AACTGCAATGTC-GGGGAAGTAAGATTCGCCGTTGTAG
* * ** *
38210328 CTTCAATCTTTTAATTGCAATGTCGAGGAAGCGAGATTCGCCATTGTAG
1 CTTCAATCTTTTAACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAG
*
38210377 CTTTAATCT
1 CTTCAATCT
38210386 GTTCCACTGC
Statistics
Matches: 521, Mismatches: 155, Indels: 69
0.70 0.21 0.09
Matches are distributed among these distances:
47 2 0.00
48 4 0.01
49 75 0.14
50 324 0.62
51 110 0.21
52 4 0.01
53 2 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (49 bp):
CTTCAATCTTTTAACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAG
Found at i:38209767 original size:100 final size:100
Alignment explanation
Indices: 38209626--38210423 Score: 985
Period size: 100 Copynumber: 8.0 Consensus size: 100
38209616 GGATTGGCTT
* * * ** *
38209626 CTTCAATCTGTTTAACTGCAATGTCGAGAAAGTAAGATTCACCGTCATAGCTTCAATCTGTTCTG
1 CTTCAATCT-TTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCTG
* *
38209691 CTGCACTGCCTGGG-GAGTAAGATTCGCCGTTGTGG
65 CTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
* * *
38209726 CTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGTTTCACCGTCGTAGCTTCAATCTATT-TC
1 CTTCAATCTTTT-AATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCT-
* * *
38209790 GCTGCATCGCCT-AGAAAGTAAGATTCGCCATTGTGG
64 GCTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
* * * * * *
38209826 CTTCAATCTTTTAAATTGTAACGTCGGGGAAGTGAGATACGCCGTCGTAGCTTCAATTTGTTCTG
1 CTTCAATCTTTT-AATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCTG
* *
38209891 CTACATCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
65 CTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
* * * * *
38209926 CTTCAATCTTTTAAATTGTAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCTG
1 CTTCAATCTTTT-AATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCTG
** * * *
38209991 CTGCACTACCTGGG-GAGTAAGATTTGCCGTTGTAG
65 CTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
* * * * *
38210026 CTTCAATCTTTTTAATTGTAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCTG
1 CTTCAATC-TTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCTG
*
38210091 CTGCACCGCCTGGGAAAGTAAGATTCACCGTTGTGG
65 CTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
* * * * *
38210127 CTTCAATCTTTTGAATTACAATGTCGGGGAAGTGAGATTCGCCATCGTAGCTTCAATCTGTTCCG
1 CTTCAATCTTTT-AATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCTG
38210192 CTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
65 CTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
* * * * **
38210228 CCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACTGTTGTAGCTTCAATTTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCTGC
38210293 TGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
66 TGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
* * * * * **
38210328 CTTCAATCTTTTAATTGCAATGTCGAGGAAGCGAGATTCGCCATTGTAGCTTTAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCTGC
*
38210393 TGCACCGCCTGGGAAAGTAAGATCCGCCGTT
66 TGCACCGCCTGGGAAAGTAAGATTCGCCGTT
38210424 ACATTTGGAT
Statistics
Matches: 616, Mismatches: 74, Indels: 16
0.87 0.10 0.02
Matches are distributed among these distances:
99 5 0.01
100 490 0.80
101 121 0.20
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCTGC
TGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
Found at i:38215676 original size:25 final size:27
Alignment explanation
Indices: 38215620--38215714 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 27
38215610 TATCTAAAAA
* * *
38215620 ATATATATAAAAAAATATACATGTGAG
1 ATATATATAAAAAAAGATAAATATGAG
*
38215647 TTATATA-AAAAAAAGATAAATAT-AG
1 ATATATATAAAAAAAGATAAATATGAG
*
38215672 ATATAGATATAAAAGAAACCGTATAAATAT-AT
1 ATAT--ATATAAAA-AAA--G-ATAAATATGAG
38215704 ATATATATAAA
1 ATATATATAAA
38215715 TATATATACA
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
25 5 0.09
26 13 0.24
27 9 0.16
28 4 0.07
29 3 0.05
30 7 0.13
31 1 0.02
32 13 0.24
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.29
Consensus pattern (27 bp):
ATATATATAAAAAAAGATAAATATGAG
Found at i:38215714 original size:16 final size:16
Alignment explanation
Indices: 38215693--38215728 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
38215683 AAAGAAACCG
*
38215693 TATAAATATATATATA
1 TATAAATATATATACA
38215709 TATAAATATATATACA
1 TATAAATATATATACA
38215725 TATA
1 TATA
38215729 TTCGTGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAATATATATACA
Found at i:38215876 original size:17 final size:17
Alignment explanation
Indices: 38215854--38215894 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
38215844 ACTATCGTAT
*
38215854 AATAATATGATAAATA-A
1 AATAATATAAT-AATAGA
38215871 AATAATATAATAATAGA
1 AATAATATAATAATAGA
38215888 AATAATA
1 AATAATA
38215895 AGAACAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAATATAATAATAGA
Found at i:38215894 original size:12 final size:11
Alignment explanation
Indices: 38215865--38215943 Score: 52
Period size: 12 Copynumber: 6.6 Consensus size: 11
38215855 ATAATATGAT
38215865 AAATAA-AATA
1 AAATAATAATA
*
38215875 ATATAATAATA
1 AAATAATAATA
*
38215886 GAAATAATAAGA
1 -AAATAATAATA
38215898 ACAATAATAATGA
1 A-AATAATAAT-A
*
38215911 ATGATAATATATTA
1 A-AATAATA-A-TA
*
38215925 AAATAATGAAGA
1 AAATAAT-AATA
38215937 AAATAAT
1 AAATAAT
38215944 GAAAATGCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
10 5 0.09
11 5 0.09
12 25 0.46
13 14 0.26
14 4 0.07
15 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.27
Consensus pattern (11 bp):
AAATAATAATA
Found at i:38217136 original size:205 final size:204
Alignment explanation
Indices: 38216784--38217192 Score: 764
Period size: 205 Copynumber: 2.0 Consensus size: 204
38216774 CCCCTTACAA
38216784 TTTGTTTTGAATGGCCTTTTATAGCCATTTTTACAATGTTTTTATATTATTTCTTGTCCTTTCTT
1 TTTGTTTTGAATGGCCTTTTATAGCCATTTTTACAATGTTTTTATATTATTTCTTGTCCTTTCTT
38216849 GCAGGCCACTTGAAGGCGGTGGAGTAGGTGGGCAAAGACGTGACGTGCGGCGGCCAGCAGAGCAA
66 GCAGGCCACTTGAAGGCGGTGGAGTAGGTGGGCAAAGACGTGACGTGCGGCGGCCAGCAGAGCAA
*
38216914 CAGTGGCAGGGCAAGTGGGCGACCCTAGGTGTGGCGCACCTAGGGTTAAGGTTACTGATTTTTTT
131 CAGTGGCAGGGCAAGTGGGCGACCCTAGGTGCGGCGCACCTAGGGTTAAGGTTACTG-TTTTTTT
*
38216979 GTTGAAAATG
195 GCTGAAAATG
38216989 TTTGTTTTGAATGGCCTTTTATAGCCATTTTTACAATGTTTTTATATTATTTCTTGTCCTTTCTT
1 TTTGTTTTGAATGGCCTTTTATAGCCATTTTTACAATGTTTTTATATTATTTCTTGTCCTTTCTT
* *
38217054 GCAGGCCACTTGAAGGCGGTGGAGTAGGTGGGCAGAGACGTGACGTGCGGCGGCCGGCAGAGCAA
66 GCAGGCCACTTGAAGGCGGTGGAGTAGGTGGGCAAAGACGTGACGTGCGGCGGCCAGCAGAGCAA
*
38217119 CGGTGGCAGGGCAAGTGGGCGACCCTAGGTGCGGCGCACCTAGGGTTAAGGTTACTGTTTTTTTG
131 CAGTGGCAGGGCAAGTGGGCGACCCTAGGTGCGGCGCACCTAGGGTTAAGGTTACTGTTTTTTTG
38217184 CTGAAAATG
196 CTGAAAATG
38217193 GGTTGGGTGT
Statistics
Matches: 199, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
204 16 0.08
205 183 0.92
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.32
Consensus pattern (204 bp):
TTTGTTTTGAATGGCCTTTTATAGCCATTTTTACAATGTTTTTATATTATTTCTTGTCCTTTCTT
GCAGGCCACTTGAAGGCGGTGGAGTAGGTGGGCAAAGACGTGACGTGCGGCGGCCAGCAGAGCAA
CAGTGGCAGGGCAAGTGGGCGACCCTAGGTGCGGCGCACCTAGGGTTAAGGTTACTGTTTTTTTG
CTGAAAATG
Found at i:38221362 original size:19 final size:17
Alignment explanation
Indices: 38221329--38221361 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38221319 ATATATTTTA
38221329 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
38221346 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
38221362 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:38227437 original size:31 final size:32
Alignment explanation
Indices: 38227399--38227512 Score: 98
Period size: 31 Copynumber: 3.7 Consensus size: 32
38227389 GGTCCATTTT
38227399 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTAAAAAATTAAAAAAAG
* *
38227430 TATTTTAAAAATATTT-TAAAATTTAAAAAA-
1 TATTTTAAAAATATTTAAAAAATTAAAAAAAG
** * *
38227460 T-TTAAAAAAAGTATTTTAAAATTTAAAAAAA-
1 TATTTTAAAAA-TATTTAAAAAATTAAAAAAAG
*
38227491 -A-TTTAAAAAGTATGTAAAAAAT
1 TATTTTAAAAA-TATTTAAAAAAT
38227513 ATTTTAAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
29 7 0.10
30 22 0.33
31 35 0.52
32 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAAATTAAAAAAAG
Found at i:38227480 original size:12 final size:11
Alignment explanation
Indices: 38227399--38227521 Score: 63
Period size: 11 Copynumber: 11.9 Consensus size: 11
38227389 GGTCCATTTT
38227399 TATTTT-AAAA
1 TATTTTAAAAA
38227409 -ATTTTAAAAA
1 TATTTTAAAAA
**
38227419 -ATTAAAAAAA
1 TATTTTAAAAA
38227429 GTATTTTAAAAA
1 -TATTTTAAAAA
38227441 TATTTT--AAA
1 TATTTTAAAAA
38227450 -A-TTTAAAAA
1 TATTTTAAAAA
*
38227459 -ATTTAAAAAAA
1 TATTT-TAAAAA
38227470 GTATTTT--AAA
1 -TATTTTAAAAA
38227480 -A-TTTAAAAA
1 TATTTTAAAAA
* *
38227489 AAATTTAAAAA
1 TATTTTAAAAA
* *
38227500 GTATGTAAAAAA
1 -TATTTTAAAAA
38227512 TATTTTAAAA
1 TATTTTAAAA
38227522 TTAAAAAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
7 6 0.07
8 2 0.02
9 15 0.17
10 18 0.21
11 27 0.31
12 15 0.17
13 4 0.05
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:38227499 original size:9 final size:9
Alignment explanation
Indices: 38227402--38227468 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
38227392 CCATTTTTAT
*
38227402 TTTAAAAAT
1 TTTAAAAAA
38227411 TTTAAAAAA
1 TTTAAAAAA
*
38227420 TTAAAAAAAGTA
1 TT-TAAAAA--A
38227432 TTTTAAAAATA
1 -TTTAAAAA-A
*
38227443 TTT-TAAAA
1 TTTAAAAAA
38227451 TTTAAAAAA
1 TTTAAAAAA
38227460 TTTAAAAAA
1 TTTAAAAAA
38227469 AGTATTTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
8 4 0.08
9 26 0.54
10 8 0.17
11 2 0.04
12 6 0.12
13 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:38227522 original size:41 final size:40
Alignment explanation
Indices: 38227405--38227532 Score: 145
Period size: 41 Copynumber: 3.2 Consensus size: 40
38227395 TTTTTATTTT
* * *
38227405 AAAAATTTTAAAAAAT-TAAAAAAAGTATTTTAAAAATATT
1 AAAAAATTTAAAAAATGTAAAAAAAGTATTTTAAAATTA-A
** *
38227445 TTAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAATTTAA
1 AAAAAATTTAAAAAATGTAAAAAAAGTATTTTAAAA-TTAA
38227486 AAAAAATTTAAAAAGTATGT-AAAAAA-TATTTTAAAATTAA
1 AAAAAATTTAAAAA--ATGTAAAAAAAGTATTTTAAAATTAA
38227526 AAAAAAT
1 AAAAAAT
38227533 AAATATATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
40 24 0.32
41 41 0.54
42 8 0.11
43 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (40 bp):
AAAAAATTTAAAAAATGTAAAAAAAGTATTTTAAAATTAA
Found at i:38228825 original size:38 final size:37
Alignment explanation
Indices: 38228772--38228870 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 37
38228762 CATTTAATTA
*
38228772 ATTTTTAAAATTTAAAAAAATTAA-AAACTATAAAAACT
1 ATTTTTAAAAATTAAAAAAATTAATAAACTAT-AAAA-T
* *
38228810 ATTTTTAAAAATT--AAAAATTATATTAATTATAAAAT
1 ATTTTTAAAAATTAAAAAAATTA-ATAAACTATAAAAT
*
38228846 ATTTTTAAAAATAAAAAAAATTAAT
1 ATTTTTAAAAATTAAAAAAATTAAT
38228871 TAAATGTTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
36 21 0.40
37 7 0.13
38 25 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (37 bp):
ATTTTTAAAAATTAAAAAAATTAATAAACTATAAAAT
Found at i:38228859 original size:17 final size:17
Alignment explanation
Indices: 38228804--38228861 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
38228794 AAAAACTATA
38228804 AAAACTATTTTTAAAAATT
1 AAAA-TATTTTTAAAAA-T
**
38228823 AAAA-ATTATATTAATTAT
1 AAAATATT-T-TTAAAAAT
38228841 AAAATATTTTTAAAAAT
1 AAAATATTTTTAAAAAT
38228858 AAAA
1 AAAA
38228862 AAAATTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 13 0.41
18 7 0.22
19 12 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATTTTTAAAAAT
Found at i:38229608 original size:7 final size:7
Alignment explanation
Indices: 38229596--38229626 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
38229586 CAATCATTCA
38229596 CACCATC
1 CACCATC
38229603 CACCATC
1 CACCATC
38229610 CACCATC
1 CACCATC
*
38229617 CACAATC
1 CACCATC
38229624 CAC
1 CAC
38229627 AATTATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.32, C:0.55, G:0.00, T:0.13
Consensus pattern (7 bp):
CACCATC
Found at i:38230937 original size:1 final size:1
Alignment explanation
Indices: 38230933--38230957 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
38230923 CCCCCAACCA
38230933 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
38230958 AAAAAAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:38231671 original size:21 final size:19
Alignment explanation
Indices: 38231647--38231685 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
38231637 GCGACGAAGA
38231647 ATATTTATAGAAAAAAAAAGC
1 ATATTTA-A-AAAAAAAAAGC
38231668 ATATTTAAAAAAAAAAAG
1 ATATTTAAAAAAAAAAAG
38231686 TTGTGATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (19 bp):
ATATTTAAAAAAAAAAAGC
Found at i:38233107 original size:275 final size:275
Alignment explanation
Indices: 38232616--38233165 Score: 1091
Period size: 275 Copynumber: 2.0 Consensus size: 275
38232606 AAGTCTTCAA
38232616 TAGTGCTCGAGCGATGCGTATACCATACACTTGCCCACTAGCCAGGATCAGACCTCTAGTGGGAA
1 TAGTGCTCGAGCGATGCGTATACCATACACTTGCCCACTAGCCAGGATCAGACCTCTAGTGGGAA
*
38232681 GATATGTGCCACCAGAGGTTGTTGCTGTTAGGGTTCCCCTTCTACATCTCTCAAATTTCCAAATT
66 GATATGTGCCACCAGAGGTTGTTGCTGTTAGGGTACCCCTTCTACATCTCTCAAATTTCCAAATT
38232746 AATGACTGGCCTGAACTCTCTGCGAAAAGCTATGCAGTTATGGTTCTTATTCTCCCCACGGAAAG
131 AATGACTGGCCTGAACTCTCTGCGAAAAGCTATGCAGTTATGGTTCTTATTCTCCCCACGGAAAG
38232811 TGCCAGAAAATGGCGAGACCATGAATTGGAACTTGTCGAAGTTGTGGCAGACCAGGTCATCTTAT
196 TGCCAGAAAATGGCGAGACCATGAATTGGAACTTGTCGAAGTTGTGGCAGACCAGGTCATCTTAT
38232876 GATTTATGTGCTTTC
261 GATTTATGTGCTTTC
38232891 TAGTGCTCGAGCGATGCGTATACCATACACTTGCCCACTAGCCAGGATCAGACCTCTAGTGGGAA
1 TAGTGCTCGAGCGATGCGTATACCATACACTTGCCCACTAGCCAGGATCAGACCTCTAGTGGGAA
38232956 GATATGTGCCACCAGAGGTTGTTGCTGTTAGGGTACCCCTTCTACATCTCTCAAATTTCCAAATT
66 GATATGTGCCACCAGAGGTTGTTGCTGTTAGGGTACCCCTTCTACATCTCTCAAATTTCCAAATT
38233021 AATGACTGGCCTGAACTCTCTGCGAAAAGCTATGCAGTTATGGTTCTTATTCTCCCCACGGAAAG
131 AATGACTGGCCTGAACTCTCTGCGAAAAGCTATGCAGTTATGGTTCTTATTCTCCCCACGGAAAG
38233086 TGCCAGAAAATGGCGAGACCATGAATTGGAACTTGTCGAAGTTGTGGCAGACCAGGTCATCTTAT
196 TGCCAGAAAATGGCGAGACCATGAATTGGAACTTGTCGAAGTTGTGGCAGACCAGGTCATCTTAT
38233151 GATTTATGTGCTTTC
261 GATTTATGTGCTTTC
38233166 ATTCATTGGT
Statistics
Matches: 274, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
275 274 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (275 bp):
TAGTGCTCGAGCGATGCGTATACCATACACTTGCCCACTAGCCAGGATCAGACCTCTAGTGGGAA
GATATGTGCCACCAGAGGTTGTTGCTGTTAGGGTACCCCTTCTACATCTCTCAAATTTCCAAATT
AATGACTGGCCTGAACTCTCTGCGAAAAGCTATGCAGTTATGGTTCTTATTCTCCCCACGGAAAG
TGCCAGAAAATGGCGAGACCATGAATTGGAACTTGTCGAAGTTGTGGCAGACCAGGTCATCTTAT
GATTTATGTGCTTTC
Found at i:38235399 original size:22 final size:22
Alignment explanation
Indices: 38235374--38235415 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
38235364 ACTTACGCTT
*
38235374 TAAATAAAATTTTAA-AAAATTA
1 TAAA-AAAATATTAATAAAATTA
38235396 TAAAAAAATATTAATAAAAT
1 TAAAAAAATATTAATAAAAT
38235416 ATTACGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAAAATATTAATAAAATTA
Done.