Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 101 of 345
Found at i:27355387 original size:21 final size:21
Alignment explanation
Indices: 27355363--27355427 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
27355353 AAGTCTAACT
27355363 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
27355384 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
*
27355402 GAAGCACATAAGTGCTATACG
1 GAAGCACATAAGTGCTAAACG
27355423 GAAGC
1 GAAGC
27355428 CCGAAGGCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 7 0.21
21 12 0.35
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:27355400 original size:39 final size:39
Alignment explanation
Indices: 27355345--27355445 Score: 184
Period size: 39 Copynumber: 2.6 Consensus size: 39
27355335 ATCGTGATCT
*
27355345 GAAGCCCGAAGTCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
27355384 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTATACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
27355423 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
27355446 TCACCAGAGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:27372382 original size:16 final size:16
Alignment explanation
Indices: 27372361--27372399 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
27372351 AATGTGTAAG
27372361 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
27372377 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
27372393 ACCATGG
1 ACCATGG
27372400 CAACATGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (16 bp):
ACCATGGTTGAAAGAT
Found at i:27372386 original size:62 final size:62
Alignment explanation
Indices: 27372315--27372443 Score: 204
Period size: 62 Copynumber: 2.1 Consensus size: 62
27372305 AATGTGTAAG
* * **
27372315 ACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATACCATGGCAACATAATAGGAAATGAATAAGACCATGGTTGAAAGAT
* *
27372377 ACCATGGTTGAAAGATACCATGGCAACATGATGGGAAATGAATAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATACCATGGCAACATAATAGGAAATGAATAAGACCATGGTTGAAAGAT
27372439 ACCAT
1 ACCAT
27372444 TGCAACGTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (62 bp):
ACCATGGTTGAAAGATACCATGGCAACATAATAGGAAATGAATAAGACCATGGTTGAAAGAT
Found at i:27372427 original size:46 final size:46
Alignment explanation
Indices: 27372377--27372528 Score: 232
Period size: 46 Copynumber: 3.3 Consensus size: 46
27372367 GTTGAAAGAT
**
27372377 ACCATGGTTGAAAGATACCATGGCAACATGATGGGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAG
* * *
27372423 ACCATGGTTGAAAGATACCATTGCAACGTGACATGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAG
* *
27372469 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAG
*
27372515 ACCATAGTTGAAAG
1 ACCATGGTTGAAAG
27372529 TCACAATGGA
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAG
Found at i:27375712 original size:12 final size:13
Alignment explanation
Indices: 27375695--27375754 Score: 63
Period size: 12 Copynumber: 4.8 Consensus size: 13
27375685 GCATTGAGTC
27375695 TATTTTT-TTATT
1 TATTTTTATTATT
27375707 TATTTTTATTATT
1 TATTTTTATTATT
*
27375720 CAATTTTTATT-TT
1 -TATTTTTATTATT
*
27375733 TATTTTT-TTGTT
1 TATTTTTATTATT
*
27375745 TATTTGTATT
1 TATTTTTATT
27375755 TCCTAGACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 2 0.05
12 21 0.51
13 9 0.22
14 9 0.22
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (13 bp):
TATTTTTATTATT
Found at i:27375738 original size:5 final size:6
Alignment explanation
Indices: 27375695--27375755 Score: 54
Period size: 6 Copynumber: 9.8 Consensus size: 6
27375685 GCATTGAGTC
*
27375695 TATTTT T-TTATT TATTTT TATTATT CAATTTT TATTTT TATTTT T-TTGTT
1 TATTTT TATT-TT TATTTT TATT-TT -TATTTT TATTTT TATTTT TATT-TT
*
27375745 TATTTG TATTT
1 TATTTT TATTT
27375756 CCTAGACTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
5 4 0.09
6 31 0.67
7 8 0.17
8 3 0.07
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:27375749 original size:24 final size:26
Alignment explanation
Indices: 27375693--27375755 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
27375683 GAGCATTGAG
27375693 TCTATTTTT-TTATTTATTTTTATTAT
1 TCTATTTTTATT-TTTATTTTTATTAT
* *
27375719 TCAATTTTTATTTTTATTTTT-TTGT
1 TCTATTTTTATTTTTATTTTTATTAT
*
27375744 T-TATTTGTATTT
1 TCTATTTTTATTT
27375756 CCTAGACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 9 0.28
25 4 0.12
26 17 0.53
27 2 0.06
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (26 bp):
TCTATTTTTATTTTTATTTTTATTAT
Found at i:27376762 original size:26 final size:27
Alignment explanation
Indices: 27376726--27376779 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
27376716 TGATCTAAAA
*
27376726 AAAAAGT-AAAAAAACGTATACTTATT
1 AAAAAGTAAAAAAAAAGTATACTTATT
27376752 AAAAAGTAAAAAAAAAAGTATACTTATT
1 AAAAAGT-AAAAAAAAAGTATACTTATT
27376780 TTGGTTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.28
28 18 0.72
ACGTcount: A:0.61, C:0.06, G:0.07, T:0.26
Consensus pattern (27 bp):
AAAAAGTAAAAAAAAAGTATACTTATT
Found at i:27377561 original size:20 final size:20
Alignment explanation
Indices: 27377536--27377574 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27377526 GCATAGGGAA
27377536 AAAATCAGACAAAACGGGCC
1 AAAATCAGACAAAACGGGCC
* *
27377556 AAAATCGGATAAAACGGGC
1 AAAATCAGACAAAACGGGC
27377575 TATTTTAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.21, G:0.23, T:0.08
Consensus pattern (20 bp):
AAAATCAGACAAAACGGGCC
Found at i:27381227 original size:30 final size:30
Alignment explanation
Indices: 27381170--27381227 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
27381160 TATAATTTCA
* *
27381170 TTTTATTTTTATTTTAATTTGGCCCTAACC
1 TTTTATTTTTATTTCAATTTAGCCCTAACC
* * *
27381200 TTTTATTTTTGTTTCACTTTAGTCCTAA
1 TTTTATTTTTATTTCAATTTAGCCCTAA
27381228 TGGCCATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.07, T:0.59
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGCCCTAACC
Found at i:27381409 original size:29 final size:29
Alignment explanation
Indices: 27381365--27381432 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
27381355 TAGAGTTTTG
27381365 TTTTTAT-T-TAATTTTAATCCT-TTTTAAA
1 TTTTTATATATAATTTT-AT-CTATTTTAAA
*
27381393 TTTTTATATATAA-TTTATTTATTTTAAA
1 TTTTTATATATAATTTTATCTATTTTAAA
27381421 TATTTTATATAT
1 T-TTTTATATAT
27381433 TATCTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
27 1 0.03
28 17 0.49
29 14 0.40
30 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTTATATATAATTTTATCTATTTTAAA
Found at i:27381440 original size:29 final size:28
Alignment explanation
Indices: 27381386--27381441 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
27381376 TTTTAATCCT
*
27381386 TTTTAAATTTTTATATATAATTTATTTA
1 TTTTAAATTTTTATATATAATCTATTTA
*
27381414 TTTTAAATATTTTATATATTATCTATTT
1 TTTTAAAT-TTTTATATATAATCTATTT
27381442 TACTATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTAAATTTTTATATATAATCTATTTA
Found at i:27381483 original size:20 final size:19
Alignment explanation
Indices: 27381447--27381484 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
27381437 TATTTTACTA
*
27381447 TAAACATTATTTATATATG
1 TAAAAATTATTTATATATG
27381466 TAAAAATTATTATATATAT
1 TAAAAATTATT-TATATAT
27381485 TATTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
TAAAAATTATTTATATATG
Found at i:27381488 original size:12 final size:12
Alignment explanation
Indices: 27381471--27381650 Score: 112
Period size: 12 Copynumber: 15.1 Consensus size: 12
27381461 ATATGTAAAA
27381471 ATTATTATATAT
1 ATTATTATATAT
* *
27381483 ATTATTTTTATTT
1 ATTA-TTATATAT
27381496 ATGTATTATATAT
1 AT-TATTATATAT
27381509 -TATATTATTTATAT
1 AT-TATTA--TATAT
* *
27381523 TTTATTATATTT
1 ATTATTATATAT
*
27381535 TTTATT-TATAT
1 ATTATTATATAT
27381546 ATT-TTAT-TAT
1 ATTATTATATAT
27381556 A-TATTATATCAT
1 ATTATTATAT-AT
27381568 -TTATTATATAT
1 ATTATTATATAT
27381579 ATTATTCAT-TAT
1 ATTATT-ATATAT
27381591 ATTATT-T-TAT
1 ATTATTATATAT
* *
27381601 TTTGTTATATAT
1 ATTATTATATAT
27381613 -TATATTATAT-T
1 AT-TATTATATAT
*
27381624 ATTATTTATTATTT
1 ATTA-TTA-TATAT
*
27381638 ATTATTATGTAT
1 ATTATTATATAT
27381650 A
1 A
27381651 ATTTTAAAAA
Statistics
Matches: 136, Mismatches: 13, Indels: 38
0.73 0.07 0.20
Matches are distributed among these distances:
9 1 0.01
10 18 0.13
11 15 0.11
12 62 0.46
13 22 0.16
14 17 0.12
15 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:27381544 original size:65 final size:66
Alignment explanation
Indices: 27381475--27381645 Score: 188
Period size: 68 Copynumber: 2.5 Consensus size: 66
27381465 GTAAAAATTA
* *
27381475 TTATATATATTATTTTTATTTATGTA-TTATATATTATATTATTTA-TATTTTATTATATTTT-T
1 TTATATATATTATTTTTATTTAT-TATTTAT-TATTATATTATTCATTATATTATTATATTTTGT
27381537 TAT
64 TAT
* * * *
27381540 TTATATATTTTATTATATATTATATCATTTATTATATATATTATTCATTATATTATTTTATTTTG
1 TTATATATATTATT-TTTATT-TATTATTTATTAT-TATATTATTCATTATATTATTATATTTTG
27381605 TTAT
63 TTAT
*
27381609 ATAT-TATATTATATTATTATTTATTATTTATTATTAT
1 TTATATATATTAT-TT-TTATTTATTATTTATTATTAT
27381646 GTATAATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
65 13 0.15
66 9 0.10
67 20 0.23
68 34 0.39
69 12 0.14
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (66 bp):
TTATATATATTATTTTTATTTATTATTTATTATTATATTATTCATTATATTATTATATTTTGTTA
T
Found at i:27381573 original size:58 final size:62
Alignment explanation
Indices: 27381488--27381645 Score: 186
Period size: 58 Copynumber: 2.6 Consensus size: 62
27381478 TATATATTAT
*
27381488 TTTTATTTATGTATTATATATTATATTATTTATATT-TT-ATTATATT-TTTTA-TTT-ATATA
1 TTTTA-TTATATATTATATATT-TATTATTTATATTATTCATTATATTATTTTATTTTGATATA
* *
27381547 TTTTATTATATATTATATCATTTATTATATATATTATTCATTATATTATTTTATTTTGTTATA
1 TTTTATTATATATTATAT-ATTTATTATTTATATTATTCATTATATTATTTTATTTTGATATA
*
27381610 TATTA-TATTATATTAT-TATTTATTATTTATTATTAT
1 TTTTATTA-TATATTATATATTTATTATTTA-TATTAT
27381646 GTATAATTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
58 24 0.28
59 10 0.12
60 8 0.09
61 16 0.19
62 12 0.14
63 16 0.19
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (62 bp):
TTTTATTATATATTATATATTTATTATTTATATTATTCATTATATTATTTTATTTTGATATA
Found at i:27381643 original size:7 final size:7
Alignment explanation
Indices: 27381472--27381643 Score: 97
Period size: 7 Copynumber: 23.1 Consensus size: 7
27381462 TATGTAAAAA
27381472 TTATTAT
1 TTATTAT
27381479 ATATATTAT
1 -T-TATTAT
27381488 TT-TTAT
1 TTATTAT
27381494 TTATGTA-
1 TTAT-TAT
27381501 TTATATAT
1 TTAT-TAT
27381509 TATATTAT
1 T-TATTAT
27381517 TTA-TATT
1 TTATTA-T
27381524 TTATTATAT
1 TTA-T-TAT
*
27381533 TTTTTAT
1 TTATTAT
27381540 TTATATATT
1 TTAT-TA-T
27381549 TTATTAT
1 TTATTAT
*
27381556 ATATTA-
1 TTATTAT
*
27381562 -TATCAT
1 TTATTAT
27381568 TTATTAT
1 TTATTAT
*
27381575 ATA-TA-
1 TTATTAT
27381580 TTATTCAT
1 TTATT-AT
27381588 TATATTATT
1 T-TATTA-T
*
27381597 TTATTTT
1 TTATTAT
27381604 GTTATATAT
1 -TTAT-TAT
27381613 TATATTAT
1 T-TATTAT
27381621 ATTATTAT
1 -TTATTAT
27381629 TTATTAT
1 TTATTAT
27381636 TTATTAT
1 TTATTAT
27381643 T
1 T
27381644 ATGTATAATT
Statistics
Matches: 132, Mismatches: 10, Indels: 45
0.71 0.05 0.24
Matches are distributed among these distances:
5 6 0.05
6 11 0.08
7 50 0.38
8 34 0.26
9 29 0.22
10 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (7 bp):
TTATTAT
Found at i:27387522 original size:25 final size:25
Alignment explanation
Indices: 27387493--27387543 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
27387483 GTTCTCACAT
27387493 GAAAATATGCCATAATGTAGTGAGA
1 GAAAATATGCCATAATGTAGTGAGA
27387518 GAAAATATGCCATAATGTAGTGAGA
1 GAAAATATGCCATAATGTAGTGAGA
27387543 G
1 G
27387544 CATTCGATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.24
Consensus pattern (25 bp):
GAAAATATGCCATAATGTAGTGAGA
Found at i:27393056 original size:90 final size:90
Alignment explanation
Indices: 27392947--27393225 Score: 477
Period size: 90 Copynumber: 3.1 Consensus size: 90
27392937 TTGAAGAAGT
* * * *
27392947 AGATTTGGCGTTTCTGTATTAGACGGGGAGTAGATCGAAGATAGCAGATCAGACATTAGTGTATT
1 AGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
27393012 TACATCGAAGCAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
*
27393037 AGATTTGGCGTTTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
1 AGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
27393102 TACATCGAAGCAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* * *
27393127 AGATGTGGTGTTTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTT
1 AGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
*
27393192 TACATTGAAGCAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
27393217 AGATTTGGC
1 AGATTTGGC
27393226 ATCTCTACAT
Statistics
Matches: 177, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 177 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.27
Consensus pattern (90 bp):
AGATTTGGCGTTTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
TACATCGAAGCAGATCGAAGATGAC
Found at i:27393220 original size:45 final size:45
Alignment explanation
Indices: 27392978--27393213 Score: 198
Period size: 45 Copynumber: 5.2 Consensus size: 45
27392968 GACGGGGAGT
* *
27392978 AGATCGAAGATAGCAGATCAGACATTAGTGTATTTACATCGAAGC
1 AGATCGAAGATAGCAGATCTGACATTCGTGTATTTACATCGAAGC
* * * * * *
27393023 AGATCGAAGAT-GACAGATTTGGCGTTTC-TGTATTAGACA-GGGAGC
1 AGATCGAAGATAG-CAGATCTGAC-ATTCGTGTATT-TACATCGAAGC
*
27393068 AGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGC
1 AGATCGAAGATAGCAGATCTGACATTCGTGTATTTACATCGAAGC
* *** * *
27393113 AGATCGAAGAT-GACAGATGTGGTGTTTC-TGTA-TTAGA-CGGGGAGC
1 AGATCGAAGATAG-CAGATCT-GACATTCGTGTATTTACATC--GAAGC
* * *
27393158 AGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATTGAAGC
1 AGATCGAAGATAGCAGATCTGACATTCGTGTATTTACATCGAAGC
27393203 AGATCGAAGAT
1 AGATCGAAGAT
27393214 GACAGATTTG
Statistics
Matches: 145, Mismatches: 32, Indels: 28
0.71 0.16 0.14
Matches are distributed among these distances:
43 1 0.01
44 16 0.11
45 113 0.78
46 15 0.10
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (45 bp):
AGATCGAAGATAGCAGATCTGACATTCGTGTATTTACATCGAAGC
Found at i:27393305 original size:74 final size:74
Alignment explanation
Indices: 27393164--27393305 Score: 239
Period size: 74 Copynumber: 1.9 Consensus size: 74
27393154 GAGCAGATCA
* *
27393164 AAGATAGCAGATCTGACATTCGTGTGTTTACATTGAAGCAGATCGAAGATGACAGATTTGGCATC
1 AAGATAGCAGATCTGACATTCGTGTGTTTACAATGAAGCAGATCGAAGATGACAGATTTGACATC
27393229 TCTACATCG
66 TCTACATCG
* * *
27393238 AAGATAGCAGATCTGACATTCGTGTGTTTACAATGAAGTAGATTGAAGATGACAGATTTGACGTC
1 AAGATAGCAGATCTGACATTCGTGTGTTTACAATGAAGCAGATCGAAGATGACAGATTTGACATC
27393303 TCT
66 TCT
27393306 GTATTAGACG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (74 bp):
AAGATAGCAGATCTGACATTCGTGTGTTTACAATGAAGCAGATCGAAGATGACAGATTTGACATC
TCTACATCG
Found at i:27393350 original size:90 final size:90
Alignment explanation
Indices: 27393238--27393603 Score: 511
Period size: 90 Copynumber: 4.1 Consensus size: 90
27393228 CTCTACATCG
* * * *
27393238 AAGATAGCAGATCTGACATTCGTGTGTTTACAAT-GAAGTAGATTGAAGATGACAGATTTGACGT
1 AAGATAGCAGATCTGACATTCGTGTGTTTAC-ATCGAAGCAGATCGAAAATGACAGATTTGGCGT
27393302 CTCTGTATTAGACGGGGAGCAGATCA
65 CTCTGTATTAGACGGGGAGCAGATCA
* * *
27393328 AAGATAGCAGATCTAACATTCGTGTGTTTGCATCGAAGCAGATCGAAAATGACAAATTTGGCGTC
1 AAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAAATGACAGATTTGGCGTC
* *
27393393 TCTGTATTAGACGGGAAGCAGATCG
66 TCTGTATTAGACGGGGAGCAGATCA
* * * *
27393418 AAGATAGTAGATCTGACATTTGTGTGTTTACATCAAAGCAGATCGAAAATGACAGATTTGGCATC
1 AAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAAATGACAGATTTGGCGTC
* *
27393483 TCTGTATTAGACGGGGAGCAGGTCG
66 TCTGTATTAGACGGGGAGCAGATCA
* * *
27393508 AAGATAGCAGATTTGACATTCGTATGTTTACATCGAAGCAGATCGAAGAT-AGCAGATTTGGCGT
1 AAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAAATGA-CAGATTTGGCGT
* *
27393572 CTCTGTATTTGACGGGGAGTAGATCA
65 CTCTGTATTAGACGGGGAGCAGATCA
*
27393598 AGGATA
1 AAGATA
27393604 TTAACATGGT
Statistics
Matches: 244, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
89 3 0.01
90 241 0.99
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (90 bp):
AAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAAATGACAGATTTGGCGTC
TCTGTATTAGACGGGGAGCAGATCA
Found at i:27393432 original size:254 final size:254
Alignment explanation
Indices: 27392980--27393485 Score: 789
Period size: 254 Copynumber: 2.0 Consensus size: 254
27392970 CGGGGAGTAG
*
27392980 ATCGAAGATAGCAGATCAGACATTAGTGTATTTACATCGAAGCAGATCGAAGATGACAGATTTGG
1 ATCGAAGATAGCAGATCAGACATTAGTGTATTTACATCGAAGCAGATCGAAGATGACAGATTTGA
* * *
27393045 CGTTTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
66 CGTCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCAGATCTAACATTCGTGTGTTTACATCGA
* * * * *
27393110 AGCAGATCGAAGATGACAGATGTGGTGTTTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGA
131 AGCAGATCGAAAATGACAAATGTGGCGTCTCTGTATTAGACGGGAAGCAGATCAAAGATAGCAGA
** *
27393175 TCTGACATTCGTGTGTTTACATTGAAGCAGATCGAAGATGACAGATTTGGCATCTCTAC
196 TCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAAATGACAGATTTGGCATCTCTAC
* * * * *
27393234 ATCGAAGATAGCAGATCTGACATTCGTGTGTTTACAAT-GAAGTAGATTGAAGATGACAGATTTG
1 ATCGAAGATAGCAGATCAGACATTAGTGTATTTAC-ATCGAAGCAGATCGAAGATGACAGATTTG
* *
27393298 ACGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTAACATTCGTGTGTTTGCATCG
65 ACGTCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCAGATCTAACATTCGTGTGTTTACATCG
* * *
27393363 AAGCAGATCGAAAATGACAAATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAG
130 AAGCAGATCGAAAATGACAAATGTGGCGTCTCTGTATTAGACGGGAAGCAGATCAAAGATAGCAG
*
27393428 ATCTGACATTTGTGTGTTTACATCAAAGCAGATCGAAAATGACAGATTTGGCATCTCT
195 ATCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAAATGACAGATTTGGCATCTCT
27393486 GTATTAGACG
Statistics
Matches: 228, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
254 226 0.99
255 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (254 bp):
ATCGAAGATAGCAGATCAGACATTAGTGTATTTACATCGAAGCAGATCGAAGATGACAGATTTGA
CGTCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCAGATCTAACATTCGTGTGTTTACATCGA
AGCAGATCGAAAATGACAAATGTGGCGTCTCTGTATTAGACGGGAAGCAGATCAAAGATAGCAGA
TCTGACATTCGTGTGTTTACATCAAAGCAGATCGAAAATGACAGATTTGGCATCTCTAC
Found at i:27393503 original size:45 final size:45
Alignment explanation
Indices: 27393272--27393596 Score: 195
Period size: 45 Copynumber: 7.2 Consensus size: 45
27393262 TGTTTACAAT
* * *
27393272 GAAGTAGATTGAAGAT-GACAGATTTGACGTCTCTGTATTAGACGG
1 GAAGCAGATCGAAGATAG-CAGATTTGACATCTCTGTATTAGACGG
* * * * * *
27393317 GGAGCAGATCAAAGATAGCAGATCTAACAT-TCGTGTGTTTGCATC--
1 GAAGCAGATCGAAGATAGCAGATTTGACATCTC-TGTATTAG-A-CGG
* * * *
27393362 GAAGCAGATCGAAAAT-GACAAATTTGGCGTCTCTGTATTAGACGG
1 GAAGCAGATCGAAGATAG-CAGATTTGACATCTCTGTATTAGACGG
* * * * * *
27393407 GAAGCAGATCGAAGATAGTAGATCTGACATTTGTGTGTTTACATC--
1 GAAGCAGATCGAAGATAGCAGATTTGACATCTCTGT-ATTAGA-CGG
* * *
27393452 AAAGCAGATCGAAAAT-GACAGATTTGGCATCTCTGTATTAGACGG
1 GAAGCAGATCGAAGATAG-CAGATTTGACATCTCTGTATTAGACGG
* * * *
27393497 GGAGCAGGTCGAAGATAGCAGATTTGACATTCGTATGT-TTACATC--
1 GAAGCAGATCGAAGATAGCAGATTTGACA-TC-TCTGTATTAGA-CGG
* * *
27393542 GAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTTGACGG
1 GAAGCAGATCGAAGATAGCAGATTTGACATCTCTGTATTAGACGG
* *
27393587 GGAGTAGATC
1 GAAGCAGATC
27393597 AAGGATATTA
Statistics
Matches: 205, Mismatches: 54, Indels: 42
0.68 0.18 0.14
Matches are distributed among these distances:
43 7 0.03
44 14 0.07
45 161 0.79
46 16 0.08
47 7 0.03
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (45 bp):
GAAGCAGATCGAAGATAGCAGATTTGACATCTCTGTATTAGACGG
Found at i:27394846 original size:30 final size:30
Alignment explanation
Indices: 27394789--27394846 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
27394779 TTTCATTTTA
* *
27394789 TTTTATTTTTATTTTAATTTGGCCCTAACC
1 TTTTATTTTTATTTCAATTTAGCCCTAACC
* * *
27394819 TTTTATTTTTGTTTCACTTTAGTCCTAA
1 TTTTATTTTTATTTCAATTTAGCCCTAA
27394847 TGGCCAATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.07, T:0.59
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGCCCTAACC
Found at i:27395038 original size:29 final size:29
Alignment explanation
Indices: 27395006--27395062 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
27394996 TTTTAATCCT
* * *
27395006 TTTTAATTTTTTTATATATAATTTATTTA
1 TTTTAAATATTTTATATATAATCTATTTA
*
27395035 TTTTAAATATTTTATATATTATCTATTT
1 TTTTAAATATTTTATATATAATCTATTT
27395063 TTACTATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTAAATATTTTATATATAATCTATTTA
Found at i:27395147 original size:25 final size:26
Alignment explanation
Indices: 27395094--27395261 Score: 137
Period size: 23 Copynumber: 6.7 Consensus size: 26
27395084 TATGTAAAAA
27395094 ATTATTATATATATT-TTTAT-TTATGT
1 ATTATT-TATATATTATTTATATTAT-T
27395120 ATTATTTATATATTATTTATATT-TT
1 ATTATTTATATATTATTTATATTATT
*
27395145 ATTA--TATATTTTATTTATA-TATT
1 ATTATTTATATATTATTTATATTATT
27395168 -TTA-TTATATATTA--TATCATT-TT
1 ATTATTTATATATTATTTAT-ATTATT
*
27395190 ATTATATATATTATTCA-TTATATTATT
1 ATTATTTATA-TATT-ATTTATATTATT
*
27395217 TTTATTTTATATATTATATTATATTATT
1 ATTA-TTTATATATTAT-TTATATTATT
*
27395245 ATT-TATTATTTATTATT
1 ATTAT-TTATATATTATT
27395262 ATGTATAATT
Statistics
Matches: 119, Mismatches: 7, Indels: 32
0.75 0.04 0.20
Matches are distributed among these distances:
21 3 0.03
22 7 0.06
23 28 0.24
24 4 0.03
25 17 0.14
26 19 0.16
27 24 0.20
28 17 0.14
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (26 bp):
ATTATTTATATATTATTTATATTATT
Found at i:27395164 original size:57 final size:60
Alignment explanation
Indices: 27395095--27395263 Score: 172
Period size: 59 Copynumber: 2.8 Consensus size: 60
27395085 ATGTAAAAAA
*
27395095 TTATTATATATATTTTTATTTATGTATTATTTATATATTATTTATATT-TT-ATTATA-TA-TT
1 TTATT-TATATA-TTTTATTTAT-TATTATTTAT-TATTATATATATTATTCATTATATTATTT
*
27395155 TTATTTATATATTTTA-TTATATATTATATCATTTTATTATATATATTATTCATTATATTATTT
1 TTATTTATATATTTTATTTAT-TATTAT-T--TATTATTATATATATTATTCATTATATTATTT
*
27395218 TTATTTTATATATTATATTATATTATTATTTATTATT-TAT-TATTAT
1 TTA-TTTATATATTTTATT-TATTATTATTTATTATTATATATATTAT
27395264 GTATAATTTT
Statistics
Matches: 94, Mismatches: 5, Indels: 20
0.79 0.04 0.17
Matches are distributed among these distances:
57 10 0.11
58 6 0.06
59 18 0.19
60 15 0.16
61 9 0.10
62 8 0.09
63 5 0.05
64 13 0.14
65 7 0.07
66 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.66
Consensus pattern (60 bp):
TTATTTATATATTTTATTTATTATTATTTATTATTATATATATTATTCATTATATTATTT
Found at i:27395171 original size:32 final size:32
Alignment explanation
Indices: 27395103--27395261 Score: 111
Period size: 32 Copynumber: 5.0 Consensus size: 32
27395093 AATTATTATA
* *
27395103 TATATTTTTATT-TATGTATTATTTATATATTATT
1 TATA-TTTTATTATATATTTTATTTATATA-T-TT
27395137 TATATTTTATTATATATTTTATTTATATATTT
1 TATATTTTATTATATATTTTATTTATATATTT
* *
27395169 TAT-TATATATTATATCATTTTA-TTATATA-TA
1 TATAT-TTTATTATAT-ATTTTATTTATATATTT
* *
27395200 T-TA-TTCATTATATTATTTTTATTT-TATATAT
1 TATATTTTATTATA-TA-TTTTATTTATATATTT
*
27395231 TATATTATATTAT-TATTTATTATTTAT-TATT
1 TATATTTTATTATATA-TT-TTATTTATATATT
27395262 ATGTATAATT
Statistics
Matches: 102, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
29 8 0.08
30 11 0.11
31 11 0.11
32 32 0.31
33 21 0.21
34 19 0.19
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (32 bp):
TATATTTTATTATATATTTTATTTATATATTT
Found at i:27399853 original size:2 final size:2
Alignment explanation
Indices: 27399846--27399896 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
27399836 ACATACAAAG
27399846 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27399888 AT AT AT AT A
1 AT AT AT AT A
27399897 ACATGTATTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27399976 original size:33 final size:33
Alignment explanation
Indices: 27399937--27400006 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
27399927 ACAAACATAC
*
27399937 AAAGTAATAATTAAATAATGCATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
27399970 AAAGTAATAATTAAATAATGCATGACATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
27400003 AAAG
1 AAAG
27400007 AGTAATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (33 bp):
AAAGTAATAATTAAATAATGCATGACATACAAA
Found at i:27400212 original size:28 final size:27
Alignment explanation
Indices: 27400149--27400214 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 27
27400139 TATAACACAA
*
27400149 ATAAAGACATAATATTTAATAATAATCT
1 ATAAA-ACATAATATTTAATAATAATAT
**
27400177 -T-AAA-ATAATATTTGCTATATAATAT
1 ATAAAACATAATATTTAATA-ATAATAT
27400202 ATAAAACATAATA
1 ATAAAACATAATA
27400215 ACAAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 11 0.35
25 7 0.23
26 3 0.10
27 4 0.13
28 6 0.19
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (27 bp):
ATAAAACATAATATTTAATAATAATAT
Found at i:27400620 original size:19 final size:19
Alignment explanation
Indices: 27400565--27400621 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
27400555 AAAATAACGA
* *
27400565 AAATATAT-ATGTAAGAA-
1 AAATATATAATATAAAAAT
*
27400582 AAATATATAA-ATAATTAAT
1 AAATATATAATATAA-AAAT
27400601 AAATATATAATATAAAAAT
1 AAATATATAATATAAAAAT
27400620 AA
1 AA
27400622 TGATGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 11 0.33
18 3 0.09
19 15 0.45
20 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
AAATATATAATATAAAAAT
Found at i:27402900 original size:27 final size:27
Alignment explanation
Indices: 27402870--27402924 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
27402860 TTGATGGTGA
* *
27402870 TAGACTCGTTTGTGTAGTTCTTTTGTT
1 TAGACTCGTTCGTATAGTTCTTTTGTT
27402897 TAGACTCGTTCGTATAGTTCTTTTGTT
1 TAGACTCGTTCGTATAGTTCTTTTGTT
27402924 T
1 T
27402925 CCTAAACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.55
Consensus pattern (27 bp):
TAGACTCGTTCGTATAGTTCTTTTGTT
Found at i:27405194 original size:26 final size:27
Alignment explanation
Indices: 27405165--27405319 Score: 87
Period size: 26 Copynumber: 6.0 Consensus size: 27
27405155 AAAGTAAACA
*
27405165 ATAAAACAA-TTTAAAATGAATAATAC
1 ATAAAACAAGTTTAAAATAAATAATAC
**
27405191 ATAAAACAAGTTTAAAATAAATAATGT
1 ATAAAACAAGTTTAAAATAAATAATAC
* * *
27405218 ATAAAGC-ATTTTAAAGTAAA-AGAT--
1 ATAAAACAAGTTTAAAATAAATA-ATAC
* * * **
27405242 ATAAAA-AGGTTTCAAATAAAGAATGT
1 ATAAAACAAGTTTAAAATAAATAATAC
*
27405268 ATAAAA-AA-CTTAAAATAAATAATAC
1 ATAAAACAAGTTTAAAATAAATAATAC
* **
27405293 -T-AAAGAAGCCTAAAATAAATAAATAC
1 ATAAAACAAGTTTAAAATAAAT-AATAC
27405319 A
1 A
27405320 AAAGAAATTT
Statistics
Matches: 101, Mismatches: 18, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
23 3 0.03
24 19 0.19
25 25 0.25
26 34 0.34
27 20 0.20
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (27 bp):
ATAAAACAAGTTTAAAATAAATAATAC
Found at i:27405332 original size:26 final size:25
Alignment explanation
Indices: 27405273--27405332 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
27405263 AATGTATAAA
*
27405273 AAACTTAAAATAAATAATACTAAAG
1 AAACTTAAAATAAATAATACAAAAG
* *
27405298 AAGCCTAAAATAAATAAATACAAAAG
1 AAACTTAAAATAAAT-AATACAAAAG
*
27405324 AAATTTAAA
1 AAACTTAAA
27405333 GGTCAATAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.22
Consensus pattern (25 bp):
AAACTTAAAATAAATAATACAAAAG
Found at i:27405697 original size:25 final size:26
Alignment explanation
Indices: 27405647--27405704 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
27405637 CCAAAATATG
* *
27405647 TAAAAACTTAGAATACATGATGATAA
1 TAAAAACTTAAAATACATAATGATAA
*
27405673 TAAAAATTTAAAATACATAAT-ATAA
1 TAAAAACTTAAAATACATAATGATAA
*
27405698 GAAAAAC
1 TAAAAAC
27405705 AAGCTTTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (26 bp):
TAAAAACTTAAAATACATAATGATAA
Found at i:27407500 original size:90 final size:90
Alignment explanation
Indices: 27407268--27407502 Score: 295
Period size: 88 Copynumber: 2.6 Consensus size: 90
27407258 ACGTGAGCTA
* * * * *
27407268 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTG-AAA-CTTAATTTGAAAAGTAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATCATAAATTGAAAAGAACATT
27407331 TTGAAAATACCTCGACATGTGACCCG
66 TTGAAAATACCTCGACA-GTGACCCG
*
27407357 AGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGAAAATCATAAATTGAAAA-AACATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATCATAAATTGAAAAGAACATT
*
27407419 AATTGAAAATACCTC-AGC-GTGCCCCG
66 --TTGAAAATACCTCGA-CAGTGACCCG
* * *
27407445 AGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTTTGAAAATCAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATCATAAATTGAAAA
27407503 TACCTCAGCA
Statistics
Matches: 128, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
87 6 0.05
88 43 0.34
89 42 0.33
90 37 0.29
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (90 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATCATAAATTGAAAAGAACATT
TTGAAAATACCTCGACAGTGACCCG
Found at i:27407619 original size:72 final size:74
Alignment explanation
Indices: 27407442--27407630 Score: 231
Period size: 72 Copynumber: 2.5 Consensus size: 74
27407432 TCAGCGTGCC
* * *
27407442 CCGAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTTTGAAAATCAGAAATTGAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG--AATCAGAAATTAAAAATACC
27407507 TCAGCATGTGAG
64 TCA-CATGTGAG
* * * * *
27407519 CCAAGGCTCAACTCTCCCCTCGCAATATGAGTTGATTTTTTTG-ATGATAAATTAAAAATACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAATCAGAAATTAAAAATACCTC
27407583 A-ATGTGA-
66 ACATGTGAG
* *
27407590 CTTGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTT
1 C-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
27407631 GAAAAATAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
71 1 0.01
72 40 0.41
74 19 0.19
77 38 0.39
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (74 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAATCAGAAATTAAAAATACCTC
ACATGTGAG
Found at i:27407776 original size:73 final size:73
Alignment explanation
Indices: 27407651--27409169 Score: 878
Period size: 75 Copynumber: 19.7 Consensus size: 73
27407641 TTAAAACACA
* ** * *
27407651 AAAATTGACAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-ATTT
1 AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
27407715 TGAAAAAC
66 TGAAAAAC
* * *
27407723 AGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
*
27407788 TTTGACAAAC
64 TTTGAAAAAC
* * *
27407798 AATAATTGAAAATACCTTAGCGTGCCCCGAGGCTTAACTCACCTCCCGCAATATGAGTTGATTTT
1 AA-AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
27407863 TTTAACAAAC
65 TTGAA-AAAC
* * * *
27407873 AATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCGCCTTTAGCAATATGAATTGA-TTT
1 AA-AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
27407937 TTG-AAAAC
65 TTGAAAAAC
* *** * * * * *
27407945 ATAAATTGAAAA-ACAGAAATCGAAAATACCTCGGCATGTCCTGAGGCTCAACTCACCTCTCGCA
1 A-AAATTGAAAATAC----CTC-AGCGTGCC-CCG-A-G-GCTCA---AC---TCACCTCTCGCA
* ** *
27408009 GTATGAGTTGA-TTTTTGCCAAAT
50 ATATGAGTTGATTTTTTGAAAAAC
*
27408032 AGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
27408097 TTTGAAAAAC
64 TTTGAAAAAC
*
27408107 AATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTA
1 AA-AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-
***
27408172 GAAAACAGACATAAAAAC
64 ----TTTG----AAAAAC
* ** * ** * * *
27408190 AGAAATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAACTCACCTTTCACAATATGAGTTGATT
1 A-AAATTGAAAATACCTCA--GCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
**
27408255 TTTTTG-ATGA-
62 TTTTTGAAAAAC
* * * *
27408265 TAAATTAAAAATACCTCAGCGTACCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAG
1 AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT--
***
27408330 AAAACAGACATAAAAAC
64 ---TTTG----AAAAAC
* ** * ** * *
27408347 AGAAATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATT
1 A-AAATTGAAAATACCTCA--GCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
**
27408412 TTTTTG-ATGA-
62 TTTTTGAAAAAC
* * ** * ** *
27408422 TAAATTAAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCGATATGAGTTGA-TTTT
1 AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
27408486 TGAAAAA-
66 TGAAAAAC
* * *** * * * * * * * *
27408493 TAAATT-AAAACACAAAAATTGACAATATCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGTAAT
1 AAAATTGAAAATAC-CTCA--G-C-GT-GCCCCGAG-GCTC-A---AC---TCACCTCTCGCAAT
*
27408557 ATGAGTTGA-ATTTTGAAAAAC
52 ATGAGTTGATTTTTTGAAAAAC
* * *
27408578 AGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
*
27408643 TTTGACAAAC
64 TTTGAAAAAC
* *
27408653 AATAATTAAAAATACCCCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AA-AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
27408718 TAT-AACAAAC
65 T-TGAA-AAAC
* * *
27408728 AATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTTTAGCAATATGAATTGA-TTT
1 AA-AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
27408792 TTG-AAAAC
65 TTGAAAAAC
* *** * * * * * *
27408800 ATAAATTGAAAA-ACAGAAATCGAAAATACACAGCATGTCCTGAGGCTCAACTCACCTCTCGCAG
1 A-AAATTGAAAATAC----CTC-AGCGTGCCCCG-A-G-GCT----C-AA-CTCACCTCTCGCAA
**
27408864 TATGAGTTGA-TTTTTGCCAAAC
51 TATGAGTTGATTTTTTGAAAAAC
*
27408886 AGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
27408951 TTTGAAAAAC
64 TTTGAAAAAC
*
27408961 AATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTA
1 AA-AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-
***
27409026 GAAAACAGACATAAAAAC
64 ----TTTG----AAAAAC
* ** * ** * *
27409044 AGAAATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATT
1 A-AAATTGAAAATACCTCA--GCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* **
27409109 TTTTGGAAAGT
63 TTTTGAAAAAC
* * *
27409120 AGAATTTGAAAATACCTCGGCGTGCTCCGAGGCTCAACTCACCTCTCGCA
1 A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCA
27409170 GAAATGAAAC
Statistics
Matches: 1114, Mismatches: 223, Indels: 218
0.72 0.14 0.14
Matches are distributed among these distances:
70 12 0.01
71 16 0.01
72 100 0.09
73 126 0.11
74 83 0.07
75 387 0.35
76 35 0.03
77 6 0.01
78 3 0.00
79 11 0.01
80 9 0.01
81 10 0.01
82 8 0.01
83 62 0.06
84 37 0.03
85 137 0.12
86 50 0.04
87 20 0.02
88 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (73 bp):
AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TGAAAAAC
Found at i:27408045 original size:309 final size:304
Alignment explanation
Indices: 27407410--27409024 Score: 1093
Period size: 308 Copynumber: 5.2 Consensus size: 304
27407400 CATAAATTGA
* * *
27407410 AAAAACATTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATAAGTT
1 AAAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
** * *
27407475 GATTTTTTTGAAAATCAGA-AATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCTCC-CC
66 GATTTTTTTGAAAA-CA-ATAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCC
* ** * * **
27407538 TCGCAATATGAGTTGATTTTTTTGATGATAAATTAAAAATACCTCAATGTGACTTGAGGCTCAAC
127 -CGCAATATGAGTTGATTTTTTTAAAAAAAAATTAAAAATACCTCAACGTGACCCGAGGCTCAAC
* * * * *
27407603 TCACCTCTCGCGATATGAGTTGATTTTTGAAAAATAAATTAAAACACAAAAATTGACAATACCTC
191 TCACCTCTAGCAATATGAATTGATTTTTGAAAAATAAATTAAAACACAAAAATCGAAAATACCTC
* *
27407668 AGCGTGCCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGAATTTTG
256 AGCATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG
* * * *
27407717 AAAAACAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
27407782 GATTTTTTTGACAAACAATAATTGAAAATACCTTAGCGTGCCCCGAGGCTTAACTCACCTCCCGC
66 GATTTTTTTGA-AAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGC
* * *
27407847 AATATGAGTTGATTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACT
130 AATATGAGTTGATTTTTTTAA-AAA-AA-AATTAAAAATACCTCAACGTGACCCGAGGCTCAACT
* * *
27407912 CGCCTTTAGCAATATGAATTGATTTTTGAAAACATAAATTGAAAA-ACAGAAATCGAAAATACCT
192 CACCTCTAGCAATATGAATTGATTTTTGAAAA-ATAAATT-AAAACACAAAAATCGAAAATACCT
* * *
27407976 CGGCATGTCC-TGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTG
255 CAGCATG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG
** *
27408026 CCAAATAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
27408091 GATTTTTTTGAAAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGC
66 GATTTTTTTG-AAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGC
*** * * *
27408156 AATATGAGTTGATTTAGAAAACAGACATAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGCC
130 AATATGAGTTGATTT---------TTTTAAAAA-A-AAATTAAAAAT-ACCTC-A-ACGTGACCC
* * * **
27408220 AAGGCTCAACTCACCTTTCA-CAATATGAGTTGATTTTTTTG-ATGATAAATT-----------A
181 GAGGCTCAACTCACCTCT-AGCAATATGAATTGA--TTTTTGAAAAATAAATTAAAACACAAAAA
* * ***
27408272 ---AAAATACCTCAGCGTACCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTAGAAA
243 TCGAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT-----
*
27408333 ACAG
303 --TG
* * * ** * *
27408337 ACATAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGCCAAGGCTCAACTCACCTTTCGCAAT
1 ----AAAAACAGTAATTGAAAAT-ACCTC-A-GCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
** * * ** * **
27408401 ATGAGTTGATTTTTTTGATGA-TA-AATTAAAAATACCTCAATGTGACTTGAGGCTCAACTCACC
59 ATGAGTTGATTTTTTTGAAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACC
* * * * * *
27408464 TCTCGCGATATGAGTTGATTTTTGAAAAATAAATTAAAACACAAAAATTGACAATATCTCAGCGT
124 TCCCGCAATATGAGTTGA-TTTT------T---TT-AAA-A-AAAAATTAAAAATACCTCAACGT
* * * * *
27408529 G-CCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGAATTTTG-----------AAAA-ACAGA
176 GACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAAATAAATTAAAACACAAA
* * * *
27408581 AATTGAAAATATCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
241 AATCGAAAATACCTCAGCATG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTT
27408645 TG
303 TG
* * * *
27408647 ACAAACAATAATTAAAAATACCCCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * ***
27408712 GATTTTTATAACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTTTAGC
66 GATTTTTTTGA-AAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGC
* ** * * * * *
27408777 AATATGAATTGATTTTTGAAAACATAAATTGAAAAACAGAAATCGAAAATA-CACAGCATGTCCT
130 AATATGAGTTGA-TTTT-------T---TT-AAAAA-A-AAATTAAAAATACCTCAACGTGACCC
* * * ** ** *
27408841 GAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTG-----------CCAA-ACAGTAATTG
181 GAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAAATAAATTAAAACACAAAAATCG
* ** *
27408894 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
246 AAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTG
* *
27408955 AAAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
27409020 GATTT
66 GATTT
27409025 AGAAAACAGA
Statistics
Matches: 1074, Mismatches: 152, Indels: 163
0.77 0.11 0.12
Matches are distributed among these distances:
304 49 0.05
305 86 0.08
306 22 0.02
307 153 0.14
308 255 0.24
309 197 0.18
310 8 0.01
311 7 0.01
313 30 0.03
314 99 0.09
315 26 0.02
316 19 0.02
317 67 0.06
318 7 0.01
319 41 0.04
320 2 0.00
321 6 0.01
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (304 bp):
AAAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCA
ATATGAGTTGATTTTTTTAAAAAAAAATTAAAAATACCTCAACGTGACCCGAGGCTCAACTCACC
TCTAGCAATATGAATTGATTTTTGAAAAATAAATTAAAACACAAAAATCGAAAATACCTCAGCAT
GCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG
Found at i:27408109 original size:234 final size:231
Alignment explanation
Indices: 27407714--27409024 Score: 840
Period size: 233 Copynumber: 5.6 Consensus size: 231
27407704 GAGTTGAATT
*
27407714 TTGAAAAACAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATA-CTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
27407779 GTTGATTTTTTTGACAAACAATAATTGAAAATACCTTAGCGTGCCCCGAGGCTTAACTCACCTCC
65 GTTGA--TTTTTGACAAA-TATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT
*
27407844 CGCAATATGAGTTGATTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCA
127 CGCAATATGAGTTGATTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCA
* * * *
27407909 ACTCGCCTTTAGCAATATGAATTGATTTTTGAAAACATAAA
192 ACTCACCTCTAGCAATATGAATTGA-TTTAGAAAACAGAAA
* * *
27407950 TTGAAAAACAGAAATCGAAAATACCTCGGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGA
1 TTGAAAAACAGAAATTGAAAATA-CTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
27408015 GTTGATTTTTGCCAAATAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCG
65 GTTGATTTTTGACAAATA-TAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCG
27408080 CAATATGAGTTGATTTTTTTGAA-AAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAA
129 CAATATGAGTTGATTTTTTT-AACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAA
* * *
27408144 CTCACCTCTCGCAATATGAGTTGATTTAGAAAACAGACA
193 CTCACCTCTAGCAATATGAATTGATTTAGAAAACAGAAA
* * * * * *
27408183 -T-AAAAACAGAAATTGAAAGTGACTCAACACGTGAGCC-AAGGCTCAACTCACCTTTCACAATA
1 TTGAAAAACAGAAATTGAAAAT-ACTCAGCA--TG-TCCTGAGGCTCAACTCACCTCTCGCAATA
** * * *
27408245 TGAGTTGATTTTTTTGA-TGATA-AATTAAAAATACCTCAGCGTACCCCAAGGCTCAACTCACCT
62 TGAGTTGA--TTTTTGACAAATATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCT
**** * *
27408308 CTCGCAATATGAGTTGATTTAGAAAACAGACATAAAAACAGA-AATTGAAAGTGA-CTCAACACG
125 CTCGCAATATGAGTTGATTT---TTTTA-AC----AAACA-ATAATTGAAAAT-ACCTC-A-GCG
* * * * * **
27408371 TGA-GCCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATTT----------TT
178 T-ACCCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTAGAAAACAGAAA
** * * * *
27408415 TTG---ATGATAAATTAAAAATACCTCA--ATGTGACTTGAGGCTCAACTCACCTCTCGCGATAT
1 TTGAAAAACAGAAATTGAAAATA-CTCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
27408475 GAGTTGATTTTTGAAAAATAAATTAAAACACAAAAATTGACAATATCTCAGCGTG-CCCGAGGCT
63 GAGTTGATTTTTGACAAAT--A-T----------AATTGAAAATACCTCAGCGTGCCCCGAGGCT
* * * *
27408539 CAACTCACCTCTCGTAATATGAGTTGA-ATTTTGAA-AAACAGA-AATTGAAAATATCTCAGCGT
115 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAAACA-ATAATTGAAAATACCTCAGCGT
** * * * **
27408601 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT----------TT
179 ACCCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTAGAAAACAGAAA
* * * * * *
27408644 TTGACAAACA-ATAATTAAAAATACCCCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGA-AATTGAAAATA-CTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
27408708 AGTTGATTTTTATAACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTT
64 AGTTGA-TTTT-TGACAAA-TATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTC
* * * * *
27408773 TAGCAATATGAATTGATTTTTGAAAACATAAATTGAA-AAACAGA-AATCGAAAATA-CACAGCA
126 TCGCAATATGAGTTGA-TTTT-------T---TT-AACAAACA-ATAATTGAAAATACCTCAGCG
** * * * *
27408835 TGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTT------------
178 TACCCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTAGAAAACAGAAA
** * * * *
27408877 TTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATA-CTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
27408942 GTTGATTTTTTTGAAAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCT
65 GTTGA--TTTTTGACAAA-TATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT
27409007 CGCAATATGAGTTGATTT
127 CGCAATATGAGTTGATTT
27409025 AGAAAACAGA
Statistics
Matches: 897, Mismatches: 108, Indels: 144
0.78 0.09 0.13
Matches are distributed among these distances:
222 19 0.02
223 32 0.04
225 2 0.00
227 9 0.01
228 3 0.00
229 73 0.08
230 4 0.00
231 57 0.06
232 115 0.13
233 178 0.20
234 151 0.17
235 56 0.06
236 85 0.09
237 1 0.00
240 18 0.02
241 37 0.04
242 56 0.06
243 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (231 bp):
TTGAAAAACAGAAATTGAAAATACTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGACAAATATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTC
ACCTCTAGCAATATGAATTGATTTAGAAAACAGAAA
Found at i:27408642 original size:157 final size:156
Alignment explanation
Indices: 27408035--27409034 Score: 910
Period size: 157 Copynumber: 6.5 Consensus size: 156
27408025 GCCAAATAGT
* *
27408035 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATA-CTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTT
*
27408100 GAAAAACA-ATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAG
63 GAAAAACAGA-AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
27408164 TTGA-TTTAGAAAACAGACA-TAAAAACAGA
127 TTGATTTTTGAAAACATA-ATTAAAAACAAA
* * * * * *
27408193 AATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAACTCACCTTTCACAATATGAGTTG-ATTTT
1 AATTGAAAAT-ACTC-A-GCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
**** ** * * * *
27408257 TTTGATGATAAATTAAAAATACCTCAGCGTACCCCAAGGCTCAACTCACCTCTCGCAATATGAGT
63 GAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
27408322 TGA-TTTAGAAAACAGACA-TAAAAACAGA
128 TGATTTTTGAAAACATA-ATTAAAAACAAA
* * * * *
27408350 AATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTTG-ATTTT
1 AATTGAAAAT-ACTC-A-GCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
**** ** * * ** * ** *
27408414 TTTGATGATAAATTAAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCGATATGAGT
63 GAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
27408479 TGATTTTTGAAAA-ATAAATTAAAACACAAA
128 TGATTTTTGAAAACAT-AATTAAAA-ACAAA
* *
27408509 AATTGACAATATCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGAATTTTGA
1 AATTGAAAATA-CTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA
* * *
27408573 AAAACAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
65 AAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
27408638 ATTTTT-------T--TGACAAACAAT
130 ATTTTTGAAAACATAATTAAAAACAAA
* * * * *
27408656 AATTAAAAATACCCCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAT
1 AATTGAAAATA-CTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT-G
* * *
27408721 AACAAACA-ATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTTTAGCAATATGAA
64 AA-AAACAGA-AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
27408785 TTGATTTTTGAAAACATAAATTGAAAAACAGA
127 TTGATTTTTGAAAACAT-AATT-AAAAACAAA
* * * * * * * **
27408817 AATCGAAAATACACAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGCC
1 AATTGAAAATACTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAA
*
27408882 AAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
66 AAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
27408947 TTTTT-------T--TGAAAAACAAT
131 TTTTTGAAAACATAATTAAAAACAAA
*
27408964 AATTGAAAATACCTCAGCGT-ACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTAG
1 AATTGAAAATA-CTCAGCGTGA-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG
27409027 -AAAACAGA
64 AAAAACAGA
27409035 CATAAAAACA
Statistics
Matches: 718, Mismatches: 96, Indels: 68
0.81 0.11 0.08
Matches are distributed among these distances:
146 6 0.01
147 42 0.06
148 83 0.12
149 3 0.00
150 62 0.09
151 2 0.00
156 31 0.04
157 281 0.39
158 94 0.13
159 17 0.02
160 82 0.11
161 15 0.02
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (156 bp):
AATTGAAAATACTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAA
AAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAACATAATTAAAAACAAA
Found at i:27415986 original size:23 final size:23
Alignment explanation
Indices: 27415956--27416002 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
27415946 GCTTCTCCAA
27415956 AAGTTTTGGGTACAGTTCCCCAT
1 AAGTTTTGGGTACAGTTCCCCAT
27415979 AAGTTTTGGGTACAGTTCCCCAT
1 AAGTTTTGGGTACAGTTCCCCAT
27416002 A
1 A
27416003 TGACACAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (23 bp):
AAGTTTTGGGTACAGTTCCCCAT
Found at i:27418213 original size:26 final size:26
Alignment explanation
Indices: 27418169--27418218 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
27418159 TGACAATCCA
* *
27418169 GAGCTTCCCATTAAAAGCTTTTTGAT
1 GAGCTTCCCAATAAAAGCTCTTTGAT
* *
27418195 GAGCTTCCTAATAACAGCTCTTTG
1 GAGCTTCCCAATAAAAGCTCTTTG
27418219 GAGTTATCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (26 bp):
GAGCTTCCCAATAAAAGCTCTTTGAT
Found at i:27418758 original size:32 final size:32
Alignment explanation
Indices: 27418717--27418781 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
27418707 ATGTGAAATA
27418717 AATGGTAAGTTGATTTCTTGTTATAGGGACTT
1 AATGGTAAGTTGATTTCTTGTTATAGGGACTT
27418749 AATGGTAAGTTGATTTCTTGTTATAGGGACTT
1 AATGGTAAGTTGATTTCTTGTTATAGGGACTT
27418781 A
1 A
27418782 CTAAGCTTTA
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:0.26, C:0.06, G:0.25, T:0.43
Consensus pattern (32 bp):
AATGGTAAGTTGATTTCTTGTTATAGGGACTT
Found at i:27426773 original size:18 final size:18
Alignment explanation
Indices: 27426730--27426775 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
27426720 GGCTATGGCT
* *
27426730 ATGAGCATGACCGTGATC
1 ATGACCATGACCGTGACC
27426748 ATTG-CCATGACCGTGACC
1 A-TGACCATGACCGTGACC
27426766 ATGACCATGA
1 ATGACCATGA
27426776 TCATGGCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (18 bp):
ATGACCATGACCGTGACC
Found at i:27441275 original size:30 final size:30
Alignment explanation
Indices: 27441226--27441285 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27441216 TTCATCCATG
*
27441226 GAAAATAAAATAAAGAAAAGGATGA-AATTA
1 GAAAATAAAAAAAAGAAAA-GATGATAATTA
* *
27441256 GAAAGTAAAAAAAATAAAAGATGATAATTA
1 GAAAATAAAAAAAAGAAAAGATGATAATTA
27441286 ATTAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (30 bp):
GAAAATAAAAAAAAGAAAAGATGATAATTA
Found at i:27441939 original size:26 final size:26
Alignment explanation
Indices: 27441904--27441974 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
27441894 TGGCTATCTA
27441904 GAGC-TCCTGATTAATGGCTCTTCGT
1 GAGCTTCCTGATTAATGGCTCTTCGT
**** *
27441929 GAGCTTCCTGATTAAAATTTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTCGT
*
27441955 GAACTTCCTGATT-ATGGCTC
1 GAGCTTCCTGATTAATGGCTC
27441975 CTACGATCTT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
25 7 0.20
26 28 0.80
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTCGT
Found at i:27442912 original size:26 final size:27
Alignment explanation
Indices: 27442848--27442914 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
27442838 AAATCAATTG
*
27442848 TGGTTATAA-TGGCATGTATAGGTTAAT
1 TGGTTATAATTGGCATGTATAGATT-AT
* *
27442875 TGGTCA-ATATTGGCATGTATATATT-T
1 TGGTTATA-ATTGGCATGTATAGATTAT
27442901 TGGTTATAATTGGC
1 TGGTTATAATTGGC
27442915 CATTAGTATG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
26 13 0.39
27 7 0.21
28 13 0.39
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (27 bp):
TGGTTATAATTGGCATGTATAGATTAT
Found at i:27450394 original size:30 final size:30
Alignment explanation
Indices: 27450343--27450403 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
27450333 GATTCATCCA
27450343 TGGAAAATAAAATAAAGAAAAGGATGA-AAT
1 TGGAAAATAAAATAAAGAAAA-GATGATAAT
* *
27450373 TGGAAAGTGAAAA-AAATAAAAGATGATAAT
1 TGGAAAAT-AAAATAAAGAAAAGATGATAAT
27450403 T
1 T
27450404 AATTAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.19
30 18 0.67
31 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.20
Consensus pattern (30 bp):
TGGAAAATAAAATAAAGAAAAGATGATAAT
Found at i:27450990 original size:65 final size:65
Alignment explanation
Indices: 27450903--27451046 Score: 225
Period size: 65 Copynumber: 2.2 Consensus size: 65
27450893 CTACCATAGT
* * *
27450903 TCTTTGTGAGTGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGTAGACACAAACGTAGC
1 TCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAACGCAGC
* * * *
27450968 TCTTTGTAAGCGTCCTGTTATATGATTGGTTGTGATCCTGCATATATTGCAGATACAAACGCATC
1 TCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAACGCAGC
27451033 TCTTTGTGAGCGTC
1 TCTTTGTGAGCGTC
27451047 TTAATATGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 71 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (65 bp):
TCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAACGCAGC
Found at i:27452483 original size:29 final size:27
Alignment explanation
Indices: 27452424--27452486 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
27452414 TGTCTTAGCT
27452424 GTGTGTGACACACGGCCTAGCATATGG
1 GTGTGTGACACACGGCCTAGCATATGG
27452451 GTGTGTGACACACGGCCTAGCATATGG
1 GTGTGTGACACACGGCCTAGCATATGG
*
27452478 GCGTGTGAC
1 GTGTGTGAC
27452487 CTAGCCATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.22
Consensus pattern (27 bp):
GTGTGTGACACACGGCCTAGCATATGG
Found at i:27454066 original size:5 final size:5
Alignment explanation
Indices: 27454056--27454168 Score: 122
Period size: 5 Copynumber: 23.0 Consensus size: 5
27454046 TAATAATTAT
*
27454056 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TTATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
* * * * * * * *
27454106 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TAATA TAATA -AACA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
*
27454155 TAA-A TTATA TAATA
1 TAATA TAATA TAATA
27454169 GAAATAAAGA
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
4 6 0.06
5 95 0.94
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (5 bp):
TAATA
Found at i:27456391 original size:27 final size:28
Alignment explanation
Indices: 27456354--27456493 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
27456344 AGCATGGCTG
* *
27456354 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
27456380 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
27456408 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
27456435 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
27456462 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
27456489 CCAGA
1 CCAGA
27456494 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:27456624 original size:27 final size:26
Alignment explanation
Indices: 27456598--27456671 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
27456588 AAATTAACCT
*
27456598 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTGCACC
* *
27456624 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTGC--ACC
* *
27456652 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
27456672 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTGCACC
Found at i:27458148 original size:26 final size:26
Alignment explanation
Indices: 27458112--27458221 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
27458102 CATGAAATTC
27458112 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
27458138 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
27458164 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
27458190 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
27458216 TTATCA
1 TTATCA
27458222 ATTTTATCAA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:27461881 original size:20 final size:21
Alignment explanation
Indices: 27461856--27461900 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
27461846 GTTTATTGTT
27461856 TTTTTTATT-TCTTTTCTTCC
1 TTTTTTATTATCTTTTCTTCC
* *
27461876 TTTTTTATTATTTTTTCTTTC
1 TTTTTTATTATCTTTTCTTCC
27461897 TTTT
1 TTTT
27461901 CAAAACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTATTATCTTTTCTTCC
Found at i:27461881 original size:21 final size:22
Alignment explanation
Indices: 27461855--27461900 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
27461845 GGTTTATTGT
27461855 TTTTTTTATT-TCTTTTCTTCC
1 TTTTTTTATTATCTTTTCTTCC
* *
27461876 -TTTTTTATTATTTTTTCTTTC
1 TTTTTTTATTATCTTTTCTTCC
27461897 TTTT
1 TTTT
27461901 CAAAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 9 0.43
21 9 0.43
22 3 0.14
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTTATTATCTTTTCTTCC
Found at i:27462695 original size:3 final size:3
Alignment explanation
Indices: 27462680--27463015 Score: 218
Period size: 3 Copynumber: 110.0 Consensus size: 3
27462670 TTGTTATCAC
*
27462680 TAT TAT T-T CTAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
27462725 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GAT GAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
27462773 GAT GAT TAT TAT TGT TGT CAT TAT TGT TAT TGT TAT TAT TAT TAT GAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * ** * * * *
27462821 TCT TTT TGT TAA TAT TGC TAT TAT AAT TA- TAC T-T TAT TTT TGT GT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * *
27462867 TATT TATT TAT TCAT T-T TAT TAT TAGT CCAT TAA T-T TAT TAT TAC
1 TA-T TA-T TAT T-AT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT
* * * * * * *
27462912 TAA CA- TAT TCT TAT TAT TTT TAT TAACG TAT TAT TAT TATT TGT TGCT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT TA-T TAT T-AT
27462960 CTACT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27463007 TAT TAT TAT
1 TAT TAT TAT
27463016 CATCAATATT
Statistics
Matches: 266, Mismatches: 48, Indels: 38
0.76 0.14 0.11
Matches are distributed among these distances:
2 9 0.03
3 232 0.87
4 21 0.08
5 4 0.02
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:27462938 original size:23 final size:23
Alignment explanation
Indices: 27462902--27463001 Score: 74
Period size: 23 Copynumber: 4.2 Consensus size: 23
27462892 GTCCATTAAT
* *
27462902 TTATTATTACTAACATATTCTTA
1 TTATTTTTACTAACATATTATTA
* *
27462925 TTATTTTTATTAACGTATTATTA
1 TTATTTTTACTAACATATTATTA
* * *
27462948 TTATTTGTTGCTCTACTTATTATTA
1 TTATTT-TTACT-AACATATTATTA
* * **
27462973 TTATTATTATTATTATTATTATTA
1 TTATTTTTACTAACA-TATTATTA
27462997 TTATT
1 TTATT
27463002 ATTATTATTA
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
23 25 0.42
24 19 0.32
25 15 0.25
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (23 bp):
TTATTTTTACTAACATATTATTA
Found at i:27469333 original size:51 final size:52
Alignment explanation
Indices: 27469278--27469375 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 52
27469268 CATTTTCAGC
* **
27469278 AGAAAACCATATTCATTTTTAAATGA-TTCT-ATTTCTCCATTTTCATTTTGA
1 AGAAAACCATAATCATTTCCAAAT-ATTTCTCATTTCTCCATTTTCATTTTGA
*
27469329 AGAAAATCATAATCATTTCCAAATATTTCTCATTTCTCCATTTTCAT
1 AGAAAACCATAATCATTTCCAAATATTTCTCATTTCTCCATTTTCAT
27469376 CATTTCTATC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 1 0.02
51 24 0.59
52 16 0.39
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.45
Consensus pattern (52 bp):
AGAAAACCATAATCATTTCCAAATATTTCTCATTTCTCCATTTTCATTTTGA
Found at i:27470885 original size:39 final size:37
Alignment explanation
Indices: 27470842--27470945 Score: 84
Period size: 39 Copynumber: 2.7 Consensus size: 37
27470832 ATTGAAAGTA
27470842 TTAAAAATTGTAAATAATTATTAAATATTGTCAAAAAAT
1 TTAAAAATTGTAAATAATTATTAAAT-TTGT-AAAAAAT
* * * *
27470881 TT-AAATTTATAAAAAAATTACTTAAATTTGTTAAAAAT
1 TTAAAAATTGT-AAATAATTA-TTAAATTTGTAAAAAAT
* **
27470919 TAGTAACAACAGTAAATAATTATTAAA
1 T--TAAAAATTGTAAATAATTATTAAA
27470946 AAATTGTGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
38 13 0.26
39 19 0.38
40 15 0.30
41 3 0.06
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (37 bp):
TTAAAAATTGTAAATAATTATTAAATTTGTAAAAAAT
Found at i:27470916 original size:21 final size:20
Alignment explanation
Indices: 27470852--27470917 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
27470842 TTAAAAATTG
*
27470852 TAAATAATTATTAAATATTGT
1 TAAAAAATTATTAAAT-TTGT
* *
27470873 CAAAAAA-T-TTAAATTTAT
1 TAAAAAATTATTAAATTTGT
*
27470891 AAAAAAATTACTTAAATTTGT
1 TAAAAAATTA-TTAAATTTGT
27470912 TAAAAA
1 TAAAAA
27470918 TTAGTAACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 9 0.25
19 7 0.19
20 1 0.03
21 19 0.53
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
TAAAAAATTATTAAATTTGT
Found at i:27471004 original size:21 final size:21
Alignment explanation
Indices: 27470964--27471094 Score: 107
Period size: 19 Copynumber: 6.5 Consensus size: 21
27470954 AAATTTCTGA
27470964 TTAAATAATTTTTTTACAATTT
1 TTAAAT-ATTTTTTTACAATTT
*
27470986 TTTAATATTTATTTT-CAATTT
1 TTAAATATTT-TTTTACAATTT
* *
27471007 TTAAATA-ATTTTCACAATTT
1 TTAAATATTTTTTTACAATTT
* *
27471027 TT-AATA-ATTTTTACAACTT
1 TTAAATATTTTTTTACAATTT
*
27471046 TT-AA-ATTTTTTTATAA-TT
1 TTAAATATTTTTTTACAATTT
27471064 TT-AATAATTTTTTTACAATTT
1 TTAAAT-ATTTTTTTACAATTT
**
27471085 AAAAATATTT
1 TTAAATATTT
27471095 AATAATTTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
18 7 0.08
19 30 0.33
20 20 0.22
21 22 0.24
22 12 0.13
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAATATTTTTTTACAATTT
Found at i:27471009 original size:20 final size:20
Alignment explanation
Indices: 27470971--27471084 Score: 112
Period size: 20 Copynumber: 5.8 Consensus size: 20
27470961 TGATTAAATA
27470971 ATTTTTTTACAATTTTTTAAT
1 ATTTTTTTACAA-TTTTTAAT
27470992 ATTTATTTT-CAATTTTTAA-
1 ATTT-TTTTACAATTTTTAAT
* *
27471011 ATAATTTTCACAATTTTTAAT
1 AT-TTTTTTACAATTTTTAAT
* *
27471032 A-ATTTTTACAACTTTTAA-
1 ATTTTTTTACAATTTTTAAT
*
27471050 ATTTTTTTATAA-TTTTAAT
1 ATTTTTTTACAATTTTTAAT
27471069 AATTTTTTTACAATTT
1 -ATTTTTTTACAATTT
27471085 AAAAATATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
18 7 0.09
19 28 0.36
20 29 0.37
21 10 0.13
22 4 0.05
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTTTACAATTTTTAAT
Found at i:27471117 original size:28 final size:29
Alignment explanation
Indices: 27471063--27471139 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
27471053 TTTTTATAAT
27471063 TTTAATAATTTTTTTACAATTTAAAAATA
1 TTTAATAATTTTTTTACAATTTAAAAATA
27471092 TTTAATAATTTTTTTACAATTTAAAAATA
1 TTTAATAATTTTTTTACAATTTAAAAATA
*
27471121 TTTAATAA-TTATTTACAAT
1 TTTAATAATTTTTTTACAAT
27471140 ATTTTTTACA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 10 0.21
29 37 0.79
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTAATAATTTTTTTACAATTTAAAAATA
Found at i:27471143 original size:20 final size:19
Alignment explanation
Indices: 27470985--27471139 Score: 72
Period size: 19 Copynumber: 8.1 Consensus size: 19
27470975 TTTTACAATT
* *
27470985 TTTTAATATTTATTTTCAA
1 TTTTAATAATTATTTACAA
*
27471004 TTTTTAAATAATT-TTCACAA
1 -TTTT-AATAATTATTTACAA
27471024 TTTTTAATAATT-TTTACAA
1 -TTTTAATAATTATTTACAA
* * *
27471043 CTTTTAA-ATTTTTTTATAA
1 -TTTTAATAATTATTTACAA
*
27471062 TTTTAATAATTTTTTTACAA
1 TTTTAATAA-TTATTTACAA
* *
27471082 -TTTAA-AAATATTTAATAA
1 TTTTAATAATTATTT-ACAA
** *
27471100 TTTTTTTACA--ATTTAAAAA
1 TTTTAATA-ATTATTT-ACAA
27471119 TATTTAATAATTATTTACAA
1 T-TTTAATAATTATTTACAA
27471139 T
1 T
27471140 ATTTTTTACA
Statistics
Matches: 106, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
17 4 0.04
18 14 0.13
19 44 0.42
20 33 0.31
21 11 0.10
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATAATTATTTACAA
Found at i:27471159 original size:19 final size:19
Alignment explanation
Indices: 27471137--27471196 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
27471127 AATTATTTAC
27471137 AATATTTTTTACAATTTTT
1 AATATTTTTTACAATTTTT
* *
27471156 AATA-TTTCTA-AATAATTT
1 AATATTTTTTACAAT-TTTT
*
27471174 AA-ATATTTTTACTATTTTT
1 AATAT-TTTTTACAATTTTT
27471193 AATA
1 AATA
27471197 AATCTTTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
17 4 0.13
18 10 0.32
19 14 0.45
20 3 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
AATATTTTTTACAATTTTT
Found at i:27471211 original size:21 final size:22
Alignment explanation
Indices: 27471173--27471213 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27471163 CTAAATAATT
*
27471173 TAAATATTTTTACTATTTTTAA
1 TAAATATTTTTACAATTTTTAA
*
27471195 TAAATCTTTTT-CAATTTTT
1 TAAATATTTTTACAATTTTT
27471214 TGGTTTAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (22 bp):
TAAATATTTTTACAATTTTTAA
Found at i:27474187 original size:16 final size:16
Alignment explanation
Indices: 27474153--27474186 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
27474143 ATGACACATG
27474153 TTTGTTTTAATTTATT
1 TTTGTTTTAATTTATT
*
27474169 TTTGTTTT-TTTTATT
1 TTTGTTTTAATTTATT
27474184 TTT
1 TTT
27474187 TAATATTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (16 bp):
TTTGTTTTAATTTATT
Found at i:27474530 original size:16 final size:16
Alignment explanation
Indices: 27474504--27474537 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
27474494 TTTAAGGTTG
27474504 AAAGATAAAAAATAGAA
1 AAAGATAAAAAATA-AA
27474521 AAAG-TAAAAAATAAA
1 AAAGATAAAAAATAAA
27474536 AA
1 AA
27474538 TTAATTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAGATAAAAAATAAA
Found at i:27474881 original size:4 final size:4
Alignment explanation
Indices: 27474872--27474897 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
27474862 TAAGGGCTTA
27474872 ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT
27474898 ATTAATCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:27476146 original size:21 final size:21
Alignment explanation
Indices: 27476120--27476160 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
27476110 TATTTGTCGT
27476120 GTTCA-TTAGTTATTTAATTTA
1 GTTCATTTAGTT-TTTAATTTA
27476141 GTTCATTTTAGTTTTTAATT
1 GTTCA-TTTAGTTTTTAATT
27476161 GATAACTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.61
Consensus pattern (21 bp):
GTTCATTTAGTTTTTAATTTA
Found at i:27476857 original size:13 final size:13
Alignment explanation
Indices: 27476824--27476857 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
27476814 TAGGGTTCGG
*
27476824 GTTTGAGCTTTGA
1 GTTTGGGCTTTGA
27476837 GCTTTGGGCTTTGA
1 G-TTTGGGCTTTGA
27476851 GTTTGGG
1 GTTTGGG
27476858 GTTCAAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.09, C:0.09, G:0.38, T:0.44
Consensus pattern (13 bp):
GTTTGGGCTTTGA
Found at i:27476894 original size:27 final size:28
Alignment explanation
Indices: 27476862--27476917 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
27476852 TTTGGGGTTC
*
27476862 AAGTTTAGGTT-TAGGGTTCGAG-GTTAT
1 AAGTTTAGGTTAAAGGGTTC-AGTGTTAT
*
27476889 AAGTTTGGGTTAAAGGGTTCAGTGTTAT
1 AAGTTTAGGTTAAAGGGTTCAGTGTTAT
27476917 A
1 A
27476918 TATTACAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.25, C:0.04, G:0.32, T:0.39
Consensus pattern (28 bp):
AAGTTTAGGTTAAAGGGTTCAGTGTTAT
Found at i:27477764 original size:17 final size:17
Alignment explanation
Indices: 27477742--27477780 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
27477732 ATTACTTCTA
27477742 AAAAAT-ACTTTTAAATC
1 AAAAATCACTTTTAAA-C
*
27477759 AAAAATCATTTTTAAAC
1 AAAAATCACTTTTAAAC
27477776 AAAAA
1 AAAAA
27477781 CTAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATCACTTTTAAAC
Found at i:27478987 original size:17 final size:17
Alignment explanation
Indices: 27478961--27479002 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
27478951 ACTAAATGAG
*
27478961 TAACTTTTGGACAT-TTA
1 TAACTATTGGA-ATGTTA
27478978 TAACTATTGGAATGTTA
1 TAACTATTGGAATGTTA
*
27478995 TAAATATT
1 TAACTATT
27479003 TTGAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (17 bp):
TAACTATTGGAATGTTA
Found at i:27481550 original size:17 final size:19
Alignment explanation
Indices: 27481518--27481552 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
27481508 AAAATTGGGA
27481518 AAAATTAAATATAAATTTT
1 AAAATTAAATATAAATTTT
27481537 AAAA-TAAA-ATAAATTT
1 AAAATTAAATATAAATTT
27481553 AGCAACTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTAAATATAAATTTT
Found at i:27485206 original size:30 final size:30
Alignment explanation
Indices: 27485170--27485229 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
27485160 TTCCCGAGCC
*
27485170 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
27485200 TAGGGGCAAAAATGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
27485230 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:27486456 original size:15 final size:15
Alignment explanation
Indices: 27486436--27486466 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27486426 GTCCATGAAA
27486436 ATCCTTAGTAAAGTG
1 ATCCTTAGTAAAGTG
27486451 ATCCTTAGTAAAGTG
1 ATCCTTAGTAAAGTG
27486466 A
1 A
27486467 AATTTGCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (15 bp):
ATCCTTAGTAAAGTG
Found at i:27489042 original size:30 final size:32
Alignment explanation
Indices: 27489008--27489075 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 32
27488998 TTGCATAAGA
* * *
27489008 GTAAATAAT-CAAAATTTGAGGGGCTAA-AGT
1 GTAAATAATAAAAAATTTGAAGGACTAATAGT
27489038 GTAAAT-ATAAAAAATTTGAAGGACTAATAGT
1 GTAAATAATAAAAAATTTGAAGGACTAATAGT
*
27489069 GCAAATA
1 GTAAATA
27489076 TTTTAAGGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 2 0.06
30 21 0.68
31 8 0.26
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (32 bp):
GTAAATAATAAAAAATTTGAAGGACTAATAGT
Found at i:27489349 original size:26 final size:26
Alignment explanation
Indices: 27489274--27489349 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
27489264 TGATGTTGAT
* *
27489274 GATATTTTATAATTATTAATTAGATAA
1 GATATTTTATTATTATTTATTA-ATAA
27489301 -ATATTATT-TTATTAATATT-TTAATAA
1 GATATT-TTATTATT-AT-TTATTAATAA
27489327 GATATTTTATTATTATTTATTAA
1 GATATTTTATTATTATTTATTAA
27489350 GTATAAAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
25 2 0.05
26 21 0.51
27 17 0.41
28 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
GATATTTTATTATTATTTATTAATAA
Found at i:27496282 original size:47 final size:44
Alignment explanation
Indices: 27496232--27496428 Score: 169
Period size: 46 Copynumber: 4.2 Consensus size: 44
27496222 CTTAGATACG
*
27496232 GTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACAT
1 GTCTTACACTGGCT-ATATCTCAAGCCGATG-CATGTCCCAGACAT
**
27496278 GGTCTTACACTGGCTATCATCTTGTAGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTGGCTAT-ATC-TCAAGCCGATGCATGTCCCAGACAT
* * * *
27496325 GTCTTACACTGGCTTACATCTCGAGGCCGATGCATATCCCAAACAT
1 GTCTTACACTGGC-TATATCTC-AAGCCGATGCATGTCCCAGACAT
* * ** * * *
27496371 GTCTTACAATAGCCCTCGTCTCAATGCCGATGTTATGTCCTAGACAT
1 GTCTTACACTGGCTAT-ATCTCAA-GCCGATG-CATGTCCCAGACAT
27496418 CGTCTTACACT
1 -GTCTTACACT
27496429 AGCTCTCACA
Statistics
Matches: 121, Mismatches: 21, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.02
46 59 0.49
47 43 0.36
48 17 0.14
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (44 bp):
GTCTTACACTGGCTATATCTCAAGCCGATGCATGTCCCAGACAT
Found at i:27496345 original size:46 final size:45
Alignment explanation
Indices: 27496232--27496378 Score: 170
Period size: 46 Copynumber: 3.2 Consensus size: 45
27496222 CTTAGATACG
* * ** *
27496232 GTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACAT
1 GTCTTACACTGGCTTACATCTTGAGCCGATG-CATGTCCCAGACAT
27496278 GGTCTTACACTGGC-TATCATCTTGTAGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTGGCTTA-CATCTTG-AGCCGATGCATGTCCCAGACAT
* * *
27496325 GTCTTACACTGGCTTACATCTCGAGGCCGATGCATATCCCAAACAT
1 GTCTTACACTGGCTTACATCTTGA-GCCGATGCATGTCCCAGACAT
27496371 GTCTTACA
1 GTCTTACA
27496379 ATAGCCCTCG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
45 1 0.01
46 47 0.53
47 33 0.38
48 7 0.08
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
GTCTTACACTGGCTTACATCTTGAGCCGATGCATGTCCCAGACAT
Found at i:27497969 original size:10 final size:9
Alignment explanation
Indices: 27497937--27497962 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27497927 AAGTTTTTAC
27497937 TTTTAAAAA
1 TTTTAAAAA
27497946 TTTTAAAAA
1 TTTTAAAAA
27497955 TTTTAAAA
1 TTTTAAAA
27497963 TAATTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:27498654 original size:21 final size:19
Alignment explanation
Indices: 27498630--27498690 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 19
27498620 AGAGAAGGCC
27498630 AAGAAGGAAAGGAAGAAAGAA
1 AAGAAGG-AA-GAAGAAAGAA
27498651 AAGAAGG-AGAAGAAAGAGA
1 AAGAAGGAAGAAGAAAGA-A
* *
27498670 AAAAATGAGAGAAGAAAGAA
1 AAGAAGGA-AGAAGAAAGAA
27498690 A
1 A
27498691 GAGATAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 9 0.26
19 7 0.20
20 2 0.06
21 17 0.49
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (19 bp):
AAGAAGGAAGAAGAAAGAA
Found at i:27500910 original size:60 final size:59
Alignment explanation
Indices: 27500834--27500973 Score: 167
Period size: 60 Copynumber: 2.3 Consensus size: 59
27500824 CCCAACTGTG
* * * *
27500834 TTGATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTATTGCCAAGATTGATA
1 TTGATATGGGCTAGGCCCAATATACCCT-GA-TATGTAA-AGGGCTATGGCCAAGATTAATA
* *
27500894 TTGATATGGGCTAGGCCCAGTATACCCTGATACTGTAAAGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAGGCCCAATATACCCTGATA-TGTAAAGGGCTATGGCCAAGATTAATA
27500954 TTGATATGGGCTAAGGCCCA
1 TTGATATGGGCT-AGGCCCA
27500974 GTTAACTCTG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
59 1 0.01
60 55 0.79
61 14 0.20
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAATATACCCTGATATGTAAAGGGCTATGGCCAAGATTAATA
Found at i:27503512 original size:15 final size:16
Alignment explanation
Indices: 27503475--27503512 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27503465 TGTGTGTTGG
*
27503475 ATTAAATTGAATATGA
1 ATTAAATTAAATATGA
27503491 ATTAAATTAAAT-TGA
1 ATTAAATTAAATATGA
*
27503506 GTTAAAT
1 ATTAAAT
27503513 CATTTGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (16 bp):
ATTAAATTAAATATGA
Found at i:27503850 original size:25 final size:25
Alignment explanation
Indices: 27503830--27503890 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
27503820 GTTCTCTTGC
* *
27503830 GCTTCCTGATACTTGGCTCTCATGA
1 GCTTCCCGATAATTGGCTCTCATGA
* *
27503855 GCTTCCCGATAATTGGCTCGCAAGA
1 GCTTCCCGATAATTGGCTCTCATGA
27503880 GCTTCCCGATA
1 GCTTCCCGATA
27503891 CAAAGCTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.30
Consensus pattern (25 bp):
GCTTCCCGATAATTGGCTCTCATGA
Found at i:27503932 original size:50 final size:50
Alignment explanation
Indices: 27503851--27503964 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 50
27503841 CTTGGCTCTC
* ** * * *
27503851 ATGAGCTTCCCGATAATTGGCTCGCAAGAGCTTCCCGATACAAAGCTTGT
1 ATGAGCTTCCCGTTAATTAACTCACAAGAGCTTCCCGATACAAAGCTAGG
* * * * *
27503901 ATGAGCTTCCCGTTACTTAACTCACATGAGCTTCCCGTTATATAGCTAGG
1 ATGAGCTTCCCGTTAATTAACTCACAAGAGCTTCCCGATACAAAGCTAGG
*
27503951 AAGAGCTTCCCGTT
1 ATGAGCTTCCCGTT
27503965 TACATGCTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (50 bp):
ATGAGCTTCCCGTTAATTAACTCACAAGAGCTTCCCGATACAAAGCTAGG
Found at i:27511086 original size:15 final size:16
Alignment explanation
Indices: 27511049--27511087 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
27511039 TGTGTGTTCG
*
27511049 ATTAAATTGAATATGA
1 ATTAAATTAAATATGA
27511065 ATTAAATTAAAT-TGA
1 ATTAAATTAAATATGA
*
27511080 GTTAAATT
1 ATTAAATT
27511088 CATTCGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (16 bp):
ATTAAATTAAATATGA
Found at i:27511472 original size:25 final size:25
Alignment explanation
Indices: 27511428--27511486 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
27511418 TGGCTTGCAA
***
27511428 GAGCTTCCCGATATACAGCTTGTAT
1 GAGCTTCCCGATATACAGCTCACAT
27511453 GAGCTTCCCG-T-TACTTAGCTCACAT
1 GAGCTTCCCGATATAC--AGCTCACAT
27511478 GAGCTTCCC
1 GAGCTTCCC
27511487 ATTATATGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 1 0.03
25 25 0.86
ACGTcount: A:0.20, C:0.31, G:0.19, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGATATACAGCTCACAT
Found at i:27516585 original size:15 final size:15
Alignment explanation
Indices: 27516565--27516597 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
27516555 TGAGGTTAAT
27516565 TCATGAGCAATGGAG
1 TCATGAGCAATGGAG
*
27516580 TCATGAGTAATGGAG
1 TCATGAGCAATGGAG
27516595 TCA
1 TCA
27516598 AATCATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.24
Consensus pattern (15 bp):
TCATGAGCAATGGAG
Found at i:27539306 original size:42 final size:42
Alignment explanation
Indices: 27539247--27539334 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
27539237 ACGATAAAAT
27539247 TAAAGTATAAAAATACAAATACATGTCAAAACAACCACAAAG
1 TAAAGTATAAAAATACAAATACATGTCAAAACAACCACAAAG
*
27539289 TAAAGTATAAAAATACAAATACATGTCAAATCAACCACAAAG
1 TAAAGTATAAAAATACAAATACATGTCAAAACAACCACAAAG
27539331 TAAA
1 TAAA
27539335 ATAAATTATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.59, C:0.16, G:0.07, T:0.18
Consensus pattern (42 bp):
TAAAGTATAAAAATACAAATACATGTCAAAACAACCACAAAG
Found at i:27542732 original size:35 final size:35
Alignment explanation
Indices: 27542693--27542761 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
27542683 ACCATGGTTG
*
27542693 ATCCATAGCAAAG-TGTGAAACGTAGGTATGGTATC
1 ATCCATA-CAAAGTTGTGAAACGTAGGTATCGTATC
**
27542728 ATCCATACTGAGTTGTGAAACGTAGGTATCGTAT
1 ATCCATACAAAGTTGTGAAACGTAGGTATCGTAT
27542762 TATCAAATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 3 0.10
35 27 0.90
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (35 bp):
ATCCATACAAAGTTGTGAAACGTAGGTATCGTATC
Found at i:27542777 original size:40 final size:35
Alignment explanation
Indices: 27542706--27542836 Score: 111
Period size: 35 Copynumber: 3.6 Consensus size: 35
27542696 CATAGCAAAG
*
27542706 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAAT
*
27542741 TGTGAAACGTAGGTATCGTATTATCAAATCCATACTGAAT
1 TGTGAAACGTAGGTAT-G--GTATC--ATCCATACTGAAT
** ** * * *
27542781 TAAGAAACGTAGGTATGACAT-TTCTCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATC-CATACTGAAT
*
27542816 TGTGAAATGTAGGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
27542837 TTTAATGAGG
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
34 2 0.03
35 40 0.53
36 1 0.01
37 2 0.03
38 4 0.05
39 1 0.01
40 26 0.34
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAAT
Found at i:27546867 original size:31 final size:29
Alignment explanation
Indices: 27546832--27546889 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
27546822 AATAATATTT
*
27546832 TATTAATTTAATATTGAAGTGATTATCTTAA
1 TATTAAATTAA-ATTGAA-TGATTATCTTAA
* *
27546863 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTGAATGATTATCTT
27546890 GTAAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTGAATGATTATCTTAA
Found at i:27547098 original size:34 final size:34
Alignment explanation
Indices: 27547055--27547125 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
27547045 TGTACAGAAA
27547055 AAATTCTCTGAAGAAATTATTTTAGAAAATTTCT
1 AAATTCTCTGAAGAAATTATTTTAGAAAATTTCT
27547089 AAATTCTCTGAAGAAATTATTTTAGAAAATTTCT
1 AAATTCTCTGAAGAAATTATTTTAGAAAATTTCT
27547123 AAA
1 AAA
27547126 GATACTTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (34 bp):
AAATTCTCTGAAGAAATTATTTTAGAAAATTTCT
Found at i:27555731 original size:17 final size:18
Alignment explanation
Indices: 27555702--27555740 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
27555692 TTGTTTGTTC
27555702 AAAATAAATAAAT-TATTA
1 AAAATAAATAAATAT-TTA
27555720 AAAATAAA-AAATATTTA
1 AAAATAAATAAATATTTA
27555737 AAAA
1 AAAA
27555741 ATATAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATAAATAAATATTTA
Found at i:27557122 original size:24 final size:24
Alignment explanation
Indices: 27557095--27557152 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
27557085 AGAATTAAAT
27557095 TGTATATTTTTACGATGATAAAAA
1 TGTATATTTTTACGATGATAAAAA
** *
27557119 TG--TATTTTTACGATTTTAATAA
1 TGTATATTTTTACGATGATAAAAA
*
27557141 TTTATATTTTTA
1 TGTATATTTTTA
27557153 TAAGATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 18 0.64
24 10 0.36
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (24 bp):
TGTATATTTTTACGATGATAAAAA
Found at i:27557665 original size:33 final size:33
Alignment explanation
Indices: 27557623--27557688 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
27557613 CATAAAATGA
27557623 GATAAAAAATCAAAATGATTATGTAATTTAACT
1 GATAAAAAATCAAAATGATTATGTAATTTAACT
*
27557656 GATAAAAAATCAAAATGATTTTGTAATTTAACT
1 GATAAAAAATCAAAATGATTATGTAATTTAACT
27557689 CAATATCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (33 bp):
GATAAAAAATCAAAATGATTATGTAATTTAACT
Found at i:27563027 original size:37 final size:37
Alignment explanation
Indices: 27562962--27563072 Score: 123
Period size: 37 Copynumber: 2.9 Consensus size: 37
27562952 ATTTGATGTG
*
27562962 TATCCGGGTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGTT-AA-ATCCGCAGGCTTCGTGCTGGTAAAA
**
27563001 TATCCGGGTTAAATCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCGCAGGCTTCGTGCTGGTAAAA
* * * * *
27563038 TATCAGGGATAAATCCCGTAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAAT-CCGCAGGCTTCGTGCTGGTA
27563073 TATATTCGGG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
37 34 0.54
38 19 0.30
39 10 0.16
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (37 bp):
TATCCGGGTTAAATCCGCAGGCTTCGTGCTGGTAAAA
Found at i:27563195 original size:43 final size:43
Alignment explanation
Indices: 27563075--27563186 Score: 215
Period size: 43 Copynumber: 2.6 Consensus size: 43
27563065 TGCTGGTATA
*
27563075 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
27563118 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
27563161 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
27563187 GTAATGCCGT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.11, C:0.27, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:27568608 original size:38 final size:38
Alignment explanation
Indices: 27568511--27568613 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
27568501 GGCTTAAAGA
** * *
27568511 CCCGCAGGCTTCGTGCTGGTAAAATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
27568549 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
* *
27568587 CCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
27568614 TCGGGCCTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
Found at i:27568659 original size:43 final size:43
Alignment explanation
Indices: 27568611--27568808 Score: 378
Period size: 43 Copynumber: 4.6 Consensus size: 43
27568601 GCTGGTATTA
27568611 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
27568654 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
27568697 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
27568740 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
27568783 TATTCGGGCCTTCGTGCCTACCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
27568809 GTAATGCCAG
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 152 1.00
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:27570634 original size:23 final size:19
Alignment explanation
Indices: 27570601--27570647 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
27570591 AAAAAATTGT
27570601 AAAAAACTAAAGAATATATAA
1 AAAAAACTAAA-AA-ATATAA
27570622 GAAAAAACTTAAAAAATATAA
1 -AAAAAAC-TAAAAAATATAA
27570643 AAAAA
1 AAAAA
27570648 TTTAAACACC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 9 0.38
23 4 0.17
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (19 bp):
AAAAAACTAAAAAATATAA
Found at i:27573473 original size:17 final size:17
Alignment explanation
Indices: 27573431--27573475 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
27573421 GATATTGAAG
27573431 TTTGATAATTTTTTTTAA
1 TTTGAT-ATTTTTTTTAA
** *
27573449 AGTAATATTTTTTTTAA
1 TTTGATATTTTTTTTAA
27573466 TTTGATATTT
1 TTTGATATTT
27573476 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
TTTGATATTTTTTTTAA
Found at i:27582653 original size:13 final size:13
Alignment explanation
Indices: 27582635--27582660 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27582625 CTGTGTGTTC
27582635 TTTATTTTATTTT
1 TTTATTTTATTTT
27582648 TTTATTTTATTTT
1 TTTATTTTATTTT
27582661 CTCAGATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:27582867 original size:16 final size:16
Alignment explanation
Indices: 27582846--27582876 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27582836 TATTTTTTGG
*
27582846 ATTTAGGGTTATTTCA
1 ATTTAGGATTATTTCA
27582862 ATTTAGGATTATTTC
1 ATTTAGGATTATTTC
27582877 GACTTCAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (16 bp):
ATTTAGGATTATTTCA
Found at i:27582911 original size:6 final size:6
Alignment explanation
Indices: 27582902--27582941 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
27582892 TTCGATGCTA
* *
27582902 ATTTTG ATTTTA ATTTTG ATTTTG GTTTTG ATTTTG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
27582942 CAATTTAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (6 bp):
ATTTTG
Found at i:27583373 original size:63 final size:61
Alignment explanation
Indices: 27583263--27583396 Score: 205
Period size: 63 Copynumber: 2.2 Consensus size: 61
27583253 AAATGTTTGG
* *
27583263 TTATTGTCTGCCATGTGCATGACAGAAATGGTTGTGCTTGTACTAAATTATTTTCTGTATTGA
1 TTATTGTCTGCCATGTGCATGACAGAAATGATTGTGCTTATACTAAATTA-TTT-TGTATTGA
* * *
27583326 TTATTGTCTGCCATGTGCATGACAGAAATGATTGTGTTTATATTAAATTATTTTGTATTGG
1 TTATTGTCTGCCATGTGCATGACAGAAATGATTGTGCTTATACTAAATTATTTTGTATTGA
27583387 TTATTGTCTG
1 TTATTGTCTG
27583397 ACAAAAATGG
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 17 0.26
62 3 0.05
63 46 0.70
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (61 bp):
TTATTGTCTGCCATGTGCATGACAGAAATGATTGTGCTTATACTAAATTATTTTGTATTGA
Found at i:27583523 original size:15 final size:15
Alignment explanation
Indices: 27583499--27583531 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
27583489 GAAGAAGAAA
27583499 TGTCTAGTAGTGATG
1 TGTCTAGTAGTGATG
*
27583514 TGTCTGGTAGTGATG
1 TGTCTAGTAGTGATG
27583529 TGT
1 TGT
27583532 AACGCCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.06, G:0.36, T:0.42
Consensus pattern (15 bp):
TGTCTAGTAGTGATG
Found at i:27585882 original size:2 final size:2
Alignment explanation
Indices: 27585877--27585915 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
27585867 TCCACTTATC
27585877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27585916 TGGGCTTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:27585953 original size:25 final size:25
Alignment explanation
Indices: 27585925--27585976 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
27585915 TTGGGCTTAA
**
27585925 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
27585950 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
27585975 CA
1 CA
27585977 AATTATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:27587795 original size:9 final size:9
Alignment explanation
Indices: 27587770--27587813 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
27587760 CCGTTTCCAA
27587770 AAATAGAAAT
1 AAATA-AAAT
27587780 AAAATAAAAT
1 -AAATAAAAT
*
27587790 AAATAAAAC
1 AAATAAAAT
27587799 AAATAAAAAT
1 AAAT-AAAAT
27587809 AAATA
1 AAATA
27587814 TTAAAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 13 0.43
10 12 0.40
11 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (9 bp):
AAATAAAAT
Found at i:27587795 original size:14 final size:15
Alignment explanation
Indices: 27587770--27587811 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
27587760 CCGTTTCCAA
* *
27587770 AAATAGAAATAAAAT
1 AAATAAAAATAAAAC
*
27587785 AAA-ATAAATAAAAC
1 AAATAAAAATAAAAC
27587799 AAATAAAAATAAA
1 AAATAAAAATAAA
27587812 TATTAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (15 bp):
AAATAAAAATAAAAC
Found at i:27587842 original size:23 final size:22
Alignment explanation
Indices: 27587776--27587842 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 22
27587766 CCAAAAATAG
27587776 AAAT-AAAATAAAATAAATAAAAC
1 AAATAAAAAT-AAATAAA-AAAAC
*
27587799 AAATAAAAATAAATATTAAAAAC
1 AAATAAAAATAAATA-AAAAAAC
*
27587822 AAA-ACAAAGCTAAATAAAAAA
1 AAATA-AAA-ATAAATAAAAAA
27587843 TAATTCCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.03
23 24 0.65
24 12 0.32
ACGTcount: A:0.76, C:0.06, G:0.01, T:0.16
Consensus pattern (22 bp):
AAATAAAAATAAATAAAAAAAC
Found at i:27590167 original size:39 final size:39
Alignment explanation
Indices: 27590115--27590271 Score: 226
Period size: 39 Copynumber: 4.0 Consensus size: 39
27590105 TGATATTGGG
*
27590115 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGG
1 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
27590154 AATATA-CCTGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AATATATCC-GGACATGAGGTCCGCAGGCTATATGCTGGA
*
27590193 AATATATCCGGACATGAGGTTCGCAGGCTATATGCTGGA
1 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * * **
27590232 AATATATCTGGACTTGAAGTCAGCAGGCTACGTGCTGGA
1 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
27590271 A
1 A
27590272 TGGAATCCGG
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.02
39 103 0.96
40 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (39 bp):
AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Done.