Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 112 of 141
Found at i:32724261 original size:200 final size:200
Alignment explanation
Indices: 32723911--32724278 Score: 637
Period size: 200 Copynumber: 1.8 Consensus size: 200
32723901 AAGACTGATC
* *
32723911 TTTAGAACGAGGTACGGACACTATGAATTTCTTGTGATCCTGTTTGGTTTAACTAATGCAGCTCC
1 TTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATCCTGTTTGGTTTAACTAATGCACCTCC
*
32723976 AGTATTTATGGATTTGATGAATAGAATCTTCAGATCGTATTTAGACAGATTTGTTGTGGAATTTA
66 AGTATTTATGGATTTGATGAATAGAATCTTCAGACCGTATTTAGACAGATTTGTTGTGGAATTTA
32724041 TTGATGATATTTTGATATATTATTGAGATGAGACTGAATAATGCTCGATTTGGATGTGCTTAAAA
131 TTGATGATATTTTGATATATTATTGAGATGAGACTGAATAATGCTCGATTTGGATGTGCTTAAAA
32724106 CTATA
196 CTATA
* *
32724111 TTTAGAACCAGGTACGGACACTATGTATTTCTTGTGATGCTGTTTGGTTTAACTAATGCACCTCC
1 TTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATCCTGTTTGGTTTAACTAATGCACCTCC
* * * *
32724176 AGTATTTATGGATTTGATGAATAGAATCTTTAGACCGTATTTAGAGAGATTTTTTGTGGTATTTA
66 AGTATTTATGGATTTGATGAATAGAATCTTCAGACCGTATTTAGACAGATTTGTTGTGGAATTTA
* *
32724241 TTGATGATATTTTTATATATTCTTGAGATGAGACTGAA
131 TTGATGATATTTTGATATATTATTGAGATGAGACTGAA
32724279 CACGCCGAGC
Statistics
Matches: 157, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
200 157 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.40
Consensus pattern (200 bp):
TTTAGAACCAGGTACGGACACTATGAATTTCTTGTGATCCTGTTTGGTTTAACTAATGCACCTCC
AGTATTTATGGATTTGATGAATAGAATCTTCAGACCGTATTTAGACAGATTTGTTGTGGAATTTA
TTGATGATATTTTGATATATTATTGAGATGAGACTGAATAATGCTCGATTTGGATGTGCTTAAAA
CTATA
Found at i:32730908 original size:40 final size:39
Alignment explanation
Indices: 32730864--32730939 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
32730854 AGATTTGATA
* * *
32730864 GGAAAGAATATGATTCCTTTTTAGATGGTTGTGGTTGACG
1 GGAAAGAATATGATTACTTTCT-GATGGTTATGGTTGACG
32730904 GGAAAGAATATGATTACTTTCTGATGGTTATGGTTG
1 GGAAAGAATATGATTACTTTCTGATGGTTATGGTTG
32730940 GTATGACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.39
40 20 0.61
ACGTcount: A:0.26, C:0.07, G:0.29, T:0.38
Consensus pattern (39 bp):
GGAAAGAATATGATTACTTTCTGATGGTTATGGTTGACG
Found at i:32733371 original size:40 final size:40
Alignment explanation
Indices: 32733322--32733407 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
32733312 TTTTCAAATT
* *
32733322 TGTGCATTACTCAAGATGACTAATGAAATAAGTTTGA-GGG
1 TGTGGATTACTCAAGACGACTAATGAAATAA-TTTGAGGGG
* * *
32733362 TGTGGATTACTCAGGACGAGTAATGAAATAATTTTAGGGG
1 TGTGGATTACTCAAGACGACTAATGAAATAATTTGAGGGG
32733402 TGTGGA
1 TGTGGA
32733408 AACACGAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.10
40 36 0.90
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (40 bp):
TGTGGATTACTCAAGACGACTAATGAAATAATTTGAGGGG
Found at i:32733548 original size:10 final size:10
Alignment explanation
Indices: 32733535--32733579 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
32733525 ATGAAAATTT
32733535 TTAATTTTAA
1 TTAATTTTAA
32733545 TTAATTTTATA
1 TTAATTTTA-A
* *
32733556 TCAAATTTTTA
1 T-TAATTTTAA
32733567 TTAATTTTAA
1 TTAATTTTAA
32733577 TTA
1 TTA
32733580 TTCTTGACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 19 0.66
11 4 0.14
12 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:32736529 original size:25 final size:25
Alignment explanation
Indices: 32736501--32736640 Score: 108
Period size: 25 Copynumber: 5.6 Consensus size: 25
32736491 GGTTACTGAT
*
32736501 TTCAGCTCTTATGAGCTTACCTTTA
1 TTCAGCTCGTATGAGCTTACCTTTA
*
32736526 TTCAGCTCGTATGAGCTTA-CTATAA
1 TTCAGCTCGTATGAGCTTACCT-TTA
* * * * **
32736551 TTCATCTTGGAGGAGCTTACCGCTA
1 TTCAGCTCGTATGAGCTTACCTTTA
* * *
32736576 TTCAGCTCGTACGAGCTTATCGTTA
1 TTCAGCTCGTATGAGCTTACCTTTA
* *
32736601 TTCAGCTTAG-AGGAGCTTACCATTTA
1 TTCAGC-TCGTATGAGCTTACC-TTTA
32736627 --CAGCTCGTATGAGC
1 TTCAGCTCGTATGAGC
32736641 ACACATGTAC
Statistics
Matches: 89, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
23 2 0.02
24 11 0.12
25 70 0.79
26 6 0.07
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
TTCAGCTCGTATGAGCTTACCTTTA
Found at i:32736578 original size:50 final size:49
Alignment explanation
Indices: 32736513--32736640 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 49
32736503 CAGCTCTTAT
* * *
32736513 GAGCTTACCTTTATTCAGCTCGTATGAGCTTA-C-TATAATTCATCTTGGAG
1 GAGCTTACC-ATATTCAGCTCGTATGAGCTTATCGT-T-ATTCAGCTTAGAG
* *
32736563 GAGCTTACCGCTATTCAGCTCGTACGAGCTTATCGTTATTCAGCTTAGAG
1 GAGCTTACC-ATATTCAGCTCGTATGAGCTTATCGTTATTCAGCTTAGAG
32736613 GAGCTTACCAT-TTACAGCTCGTATGAGC
1 GAGCTTACCATATT-CAGCTCGTATGAGC
32736641 ACACATGTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
48 2 0.03
49 14 0.21
50 49 0.72
51 2 0.03
52 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (49 bp):
GAGCTTACCATATTCAGCTCGTATGAGCTTATCGTTATTCAGCTTAGAG
Found at i:32736811 original size:26 final size:26
Alignment explanation
Indices: 32736782--32736833 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
32736772 CATAGGTATT
32736782 TACATGAGATATATGA-AAATGATTTG
1 TACATGAGATATA-GATAAATGATTTG
* *
32736808 TACATGATATATAGATACATGATTTG
1 TACATGAGATATAGATAAATGATTTG
32736834 GAAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (26 bp):
TACATGAGATATAGATAAATGATTTG
Found at i:32748886 original size:28 final size:23
Alignment explanation
Indices: 32748827--32748873 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
32748817 TTGTCAGGAC
32748827 TTAGCAAAAATTTAATATTTTAT
1 TTAGCAAAAATTTAATATTTTAT
32748850 TTAGCAAAAATTTAATATTTTAT
1 TTAGCAAAAATTTAATATTTTAT
32748873 T
1 T
32748874 CTGCTTTGCA
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:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAGCAAAAATTTAATATTTTAT
Found at i:32749569 original size:25 final size:26
Alignment explanation
Indices: 32749531--32749582 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
32749521 CTAATATTGG
32749531 AAAATGCTAAGGCAAAT-CAAGAATA
1 AAAATGCTAAGGCAAATACAAGAATA
*
32749556 AAAATGC-AATGGCAATTACAAGAATA
1 AAAATGCTAA-GGCAAATACAAGAATA
32749582 A
1 A
32749583 TCAAGCGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 2 0.08
25 13 0.54
26 9 0.38
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (26 bp):
AAAATGCTAAGGCAAATACAAGAATA
Found at i:32752251 original size:24 final size:25
Alignment explanation
Indices: 32752207--32752270 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
32752197 TGGGCTCTTA
32752207 AGTAGC-AGTTTGAGT-ATGTGCCTC
1 AGTAGCAAG-TTGAGTGATGTGCCTC
* * *
32752231 GGTAGCAAGTTGAGTGA-GTGCTTT
1 AGTAGCAAGTTGAGTGATGTGCCTC
*
32752255 AGTAGCAACTTGAGTG
1 AGTAGCAAGTTGAGTG
32752271 GGCTCCTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.31
Consensus pattern (25 bp):
AGTAGCAAGTTGAGTGATGTGCCTC
Found at i:32757572 original size:52 final size:52
Alignment explanation
Indices: 32757501--32757604 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
32757491 GCTAATTCCC
** *
32757501 TTTATATCAGCCAGGGTCCATCTTAATGCCCTTTTAAATCCCCGAAGAACTT
1 TTTATATCAGCCAGGGTCCATCCCAATGCCCTCTTAAATCCCCGAAGAACTT
* * * **
32757553 TTTATATTAGCTAGTGTCCATCCCAATGCCCTCTTAAATTGCCGAAGAACTT
1 TTTATATCAGCCAGGGTCCATCCCAATGCCCTCTTAAATCCCCGAAGAACTT
32757605 CTAACAACCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (52 bp):
TTTATATCAGCCAGGGTCCATCCCAATGCCCTCTTAAATCCCCGAAGAACTT
Found at i:32758842 original size:18 final size:18
Alignment explanation
Indices: 32758808--32758843 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32758798 TATATTATAT
* *
32758808 TATAATAATAAATTAAAG
1 TATAATAAAAAAATAAAG
32758826 TATAATAAAAAAATAAAG
1 TATAATAAAAAAATAAAG
32758844 AAAGAGAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
TATAATAAAAAAATAAAG
Found at i:32759298 original size:35 final size:34
Alignment explanation
Indices: 32759240--32759362 Score: 108
Period size: 35 Copynumber: 3.5 Consensus size: 34
32759230 TTTAGGTGAG
*
32759240 TCTACGCC-AACAT-TTTTATGGTTGTCTTAAACAGA
1 TCTAC-CCTAACATCTTTTA-GGTTGTCTTAGAC-GA
* * *
32759275 TCTACCCTAACCTCTTTTAGGTTGCCTTGGACGA
1 TCTACCCTAACATCTTTTAGGTTGTCTTAGACGA
* * *
32759309 GTCTACCCCAACATTTTTTAGGTT-TCCTTAGACGGT
1 -TCTACCCTAACATCTTTTAGGTTGT-CTTAGAC-GA
32759345 TCTACCCTAACATCTTTT
1 TCTACCCTAACATCTTTT
32759363 GAGTCGAGTT
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
34 4 0.06
35 61 0.86
36 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (34 bp):
TCTACCCTAACATCTTTTAGGTTGTCTTAGACGA
Found at i:32760625 original size:22 final size:21
Alignment explanation
Indices: 32760597--32760647 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
32760587 TTTAAAACAG
32760597 TAATTATGTTTTA-AAATACTAT
1 TAATTAT-TTTTACAAA-ACTAT
32760619 TAATTA-TTTTACAAAACTAT
1 TAATTATTTTTACAAAACTAT
32760639 TCAATTATT
1 T-AATTATT
32760648 AAATTACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 11 0.42
21 8 0.31
22 7 0.27
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (21 bp):
TAATTATTTTTACAAAACTAT
Found at i:32760637 original size:20 final size:21
Alignment explanation
Indices: 32760605--32760647 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
32760595 AGTAATTATG
32760605 TTTTAAAATACTATT-AATTA
1 TTTTAAAATACTATTCAATTA
32760625 TTTTACAAA-ACTATTCAATTA
1 TTTTA-AAATACTATTCAATTA
32760646 TT
1 TT
32760648 AAATTACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAATACTATTCAATTA
Found at i:32760646 original size:21 final size:20
Alignment explanation
Indices: 32760605--32760676 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 20
32760595 AGTAATTATG
32760605 TTTTAAAATACTATTAATTA
1 TTTTAAAATACTATTAATTA
32760625 TTTTACAAA-ACTATTCAATTA
1 TTTTA-AAATACTATT-AATTA
*
32760646 --TTAAATTACTATT-ATT-
1 TTTTAAAATACTATTAATTA
**
32760662 TTTTACCATACTATT
1 TTTTAAAATACTATT
32760677 TTAAAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
17 3 0.07
18 12 0.28
19 9 0.21
20 11 0.26
21 8 0.19
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTAAAATACTATTAATTA
Found at i:32761540 original size:28 final size:29
Alignment explanation
Indices: 32761472--32761538 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
32761462 ATTAGGATCG
* * *
32761472 AAATAA-TATATCAGTTTAAATATTATTT
1 AAATAATTAAATCAGTTTAAATATAATTA
*
32761500 AAATAATTAAATCATTTTAAATATAATTA
1 AAATAATTAAATCAGTTTAAATATAATTA
*
32761529 AAATCATTAA
1 AAATAATTAA
32761539 TCTGAATTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (29 bp):
AAATAATTAAATCAGTTTAAATATAATTA
Found at i:32767563 original size:79 final size:82
Alignment explanation
Indices: 32767446--32767630 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
32767436 GCTACTCGTT
* * *
32767446 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
32767509 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
32767526 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
32767589 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
32767606 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32767631 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:32767630 original size:40 final size:40
Alignment explanation
Indices: 32767428--32767630 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
32767418 GGAATTTAAT
** *
32767428 CGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCC
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCC
* * *
32767468 CGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
*
32767508 CGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
32767547 CGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCC
* * *
32767587 CGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
32767627 CGGA
1 CGGA
32767631 CATCATTCAA
Statistics
Matches: 138, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
Found at i:32776268 original size:85 final size:85
Alignment explanation
Indices: 32776125--32776416 Score: 584
Period size: 85 Copynumber: 3.4 Consensus size: 85
32776115 ATGTTACCCC
32776125 CTACACACACTTTAGTTGACACATTGTCCTCAATGTGCAGCCCATAAAAATATGAGGAAATAAGT
1 CTACACACACTTTAGTTGACACATTGTCCTCAATGTGCAGCCCATAAAAATATGAGGAAATAAGT
32776190 TACCTGATTTATCACGGTCG
66 TACCTGATTTATCACGGTCG
32776210 CTACACACACTTTAGTTGACACATTGTCCTCAATGTGCAGCCCATAAAAATATGAGGAAATAAGT
1 CTACACACACTTTAGTTGACACATTGTCCTCAATGTGCAGCCCATAAAAATATGAGGAAATAAGT
32776275 TACCTGATTTATCACGGTCG
66 TACCTGATTTATCACGGTCG
32776295 CTACACACACTTTAGTTGACACATTGTCCTCAATGTGCAGCCCATAAAAATATGAGGAAATAAGT
1 CTACACACACTTTAGTTGACACATTGTCCTCAATGTGCAGCCCATAAAAATATGAGGAAATAAGT
32776360 TACCTGATTTATCACGGTCG
66 TACCTGATTTATCACGGTCG
32776380 CTACACACACTTTAGTTGACACATTGTCCTCAATGTG
1 CTACACACACTTTAGTTGACACATTGTCCTCAATGTG
32776417 TAGCTCTTTG
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 207 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (85 bp):
CTACACACACTTTAGTTGACACATTGTCCTCAATGTGCAGCCCATAAAAATATGAGGAAATAAGT
TACCTGATTTATCACGGTCG
Found at i:32782556 original size:16 final size:18
Alignment explanation
Indices: 32782521--32782557 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
32782511 AGTGATCCTT
*
32782521 ATGCAATTTCTAATCTAA
1 ATGCAATTTCTAACCTAA
32782539 ATGCAATTT-T-ACCTAA
1 ATGCAATTTCTAACCTAA
32782555 ATG
1 ATG
32782558 TATGAATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (18 bp):
ATGCAATTTCTAACCTAA
Found at i:32785970 original size:40 final size:40
Alignment explanation
Indices: 32785872--32786135 Score: 370
Period size: 40 Copynumber: 6.6 Consensus size: 40
32785862 TCCTCGTTCA
* * * * *
32785872 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32785911 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32785951 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
32785991 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32786031 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
32786071 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32786111 AAGGCCTTC-GGATCTTAATCCGGAT
1 AATGCCTTCGGGA-CTTAACCCGGAT
32786136 ATATTCACTT
Statistics
Matches: 209, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 37 0.18
40 172 0.82
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:32786158 original size:32 final size:32
Alignment explanation
Indices: 32786116--32786180 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
32786106 GCACAAAGGC
*
32786116 CTTCGGATCTTAATCCGGATATATTCACTTAG
1 CTTCGAATCTTAATCCGGATATATTCACTTAG
32786148 CTTCGAATCTTAATCCGGATATATTCACTTAG
1 CTTCGAATCTTAATCCGGATATATTCACTTAG
32786180 C
1 C
32786181 ACAAAGCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (32 bp):
CTTCGAATCTTAATCCGGATATATTCACTTAG
Found at i:32788209 original size:243 final size:242
Alignment explanation
Indices: 32787777--32788253 Score: 785
Period size: 243 Copynumber: 2.0 Consensus size: 242
32787767 GCCTAAGGTT
**
32787777 GAGCTAATATAATTTATGAGTGTGCAGGAGACCATTAGAAGGCATATTAACTCGATAATGGTTGC
1 GAGCTAATATAATTTATGAGTGTGCAGGAGACCATTAGAAGGCATATTAACTAAATAATGGTTGC
*
32787842 TAGATTGCAACACGGAGCATGGGATGTCACAACATAGGAAGAAGAATCAGAAAAATCCAAGACTA
66 TAGATTGCAACACAGAGCATGGGATGTCACAACATAGGAAGAAGAATCAGAAAAATCCAAGACTA
*
32787907 CCTTCAATATCATGACACAGCCTAAGGATGTCATGAAATACCCCTGAAGACAACAAGAAACTTAG
131 CCTTCAATATCATGACACAGCCTAAGGATGTCATGAAATACCCCTGAAGACAACAAGAAACTTAA
*
32787972 CATATTGCCCTCAATGTCACGACACAGGACTTGGTGTGTCACGACATC
196 CATATTGCCCTCAATGTCA-GACACAAGACTTGGTGTGTCACGACATC
*
32788020 GAGCTAATATACTTTATGAGTGTGCAGGAGACCATTAGAAGGCATATTAACTAAATAATGGTTGC
1 GAGCTAATATAATTTATGAGTGTGCAGGAGACCATTAGAAGGCATATTAACTAAATAATGGTTGC
* * * * **
32788085 TAGGTTGCAACACAGAGCATGGGATTTCGCAACTTAAGG-AGAAGAATTTGAAAAATCCAAGACT
66 TAGATTGCAACACAGAGCATGGGATGTCACAACAT-AGGAAGAAGAATCAGAAAAATCCAAGACT
* * * *
32788149 ACCTTTAATGTCATGACACAGCCTAAGGATGTCGTGAAATACCCCTGAAGACATCAAGAAACTTA
130 ACCTTCAATATCATGACACAGCCTAAGGATGTCATGAAATACCCCTGAAGACAACAAGAAACTTA
32788214 ACATATTGCCCTCAATGTCAGACACAAGACTTGGTGTGTC
195 ACATATTGCCCTCAATGTCAGACACAAGACTTGGTGTGTC
32788254 GTGACATTGT
Statistics
Matches: 217, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
242 19 0.09
243 195 0.90
244 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (242 bp):
GAGCTAATATAATTTATGAGTGTGCAGGAGACCATTAGAAGGCATATTAACTAAATAATGGTTGC
TAGATTGCAACACAGAGCATGGGATGTCACAACATAGGAAGAAGAATCAGAAAAATCCAAGACTA
CCTTCAATATCATGACACAGCCTAAGGATGTCATGAAATACCCCTGAAGACAACAAGAAACTTAA
CATATTGCCCTCAATGTCAGACACAAGACTTGGTGTGTCACGACATC
Found at i:32795146 original size:41 final size:41
Alignment explanation
Indices: 32795101--32795216 Score: 196
Period size: 41 Copynumber: 2.8 Consensus size: 41
32795091 TCATTTGTTG
* * *
32795101 TCCTTTTTGGATAACATCCTTTCCAACCTTTTCATTTAATA
1 TCCTTTCTGGATAACATCCTTTTCAACCTTTTCATTCAATA
32795142 TCCTTTCTGGATAACATCCTTTTCAACCTTTTCATTCAATA
1 TCCTTTCTGGATAACATCCTTTTCAACCTTTTCATTCAATA
*
32795183 TCCTTTCTGGATAACATCCTTTTCACCCTTTTCA
1 TCCTTTCTGGATAACATCCTTTTCAACCTTTTCA
32795217 CTGATTCGGG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.22, C:0.28, G:0.05, T:0.45
Consensus pattern (41 bp):
TCCTTTCTGGATAACATCCTTTTCAACCTTTTCATTCAATA
Found at i:32799771 original size:31 final size:31
Alignment explanation
Indices: 32799733--32799794 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
32799723 CTCCTTCACA
*
32799733 CTTTCTCTGCAAACGCGTTCAAAGTTGCTTC
1 CTTTCTCTGCAAACGCATTCAAAGTTGCTTC
* *
32799764 CTTTCTCTGTAAATGCATTCAAAGTTGCTTC
1 CTTTCTCTGCAAACGCATTCAAAGTTGCTTC
32799795 TTTTATCACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.39
Consensus pattern (31 bp):
CTTTCTCTGCAAACGCATTCAAAGTTGCTTC
Found at i:32808036 original size:43 final size:42
Alignment explanation
Indices: 32807900--32808037 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 42
32807890 TGAGATATAG
*
32807900 TGTAAGACCATGTCTGGGACACAA-GCCTCG-ATTGAGATTTACA
1 TGTAAGACCATGTCTGGGACA-AAGGCATCGTATTGA-A-TTACA
* * * ** *
32807943 TATAAGGCCGTGTCTGGGACATCGGCATCGTATCTG-ATTTCA
1 TGTAAGACCATGTCTGGGACAAAGGCATCGTAT-TGAATTACA
* *
32807985 TGTAAGACCCTGTCTGGGACAAAGGTATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAAAGGCATCG-TATTGAATTACA
32808028 TGTAAGACCA
1 TGTAAGACCA
32808038 CGTCCGAGAC
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
42 30 0.40
43 41 0.55
44 2 0.03
45 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAAAGGCATCGTATTGAATTACA
Found at i:32813282 original size:11 final size:11
Alignment explanation
Indices: 32813266--32813291 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32813256 AAAATTGAAG
32813266 TTAAAAAACTT
1 TTAAAAAACTT
32813277 TTAAAAAACTT
1 TTAAAAAACTT
32813288 TTAA
1 TTAA
32813292 TTAATGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAAAAAACTT
Found at i:32819418 original size:20 final size:20
Alignment explanation
Indices: 32819390--32819429 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
32819380 CTGTAATTAA
*
32819390 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
32819410 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
32819430 TCAATGCTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:32827663 original size:7 final size:8
Alignment explanation
Indices: 32827636--32827664 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
32827626 AAAAGGAAAT
32827636 TTTTTGTA
1 TTTTTGTA
32827644 TTTTTGTA
1 TTTTTGTA
32827652 TTTTT-TA
1 TTTTTGTA
32827659 TTTTTG
1 TTTTTG
32827665 GCTATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (8 bp):
TTTTTGTA
Found at i:32828534 original size:20 final size:19
Alignment explanation
Indices: 32828491--32828537 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
32828481 TGTTCATATA
* *
32828491 TATTT-AAACCTTTTTATT
1 TATTTAAAACCATTTTAGT
32828509 TATTTAAAACCATTTTAGT
1 TATTTAAAACCATTTTAGT
*
32828528 TATTTTAAAC
1 TATTTAAAAC
32828538 TTTGTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (19 bp):
TATTTAAAACCATTTTAGT
Found at i:32828844 original size:33 final size:31
Alignment explanation
Indices: 32828789--32828860 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 31
32828779 TTTTATGTAT
32828789 TATATTTTAAACTCTTTATATTTTATTATAAA
1 TATATTTTAAACTCTTTATA-TTTATTATAAA
* *
32828821 TATATTCTTAAACT-TTATTTATTTATTTTAAA
1 TATATT-TTAAACTCTT-TATATTTATTATAAA
*
32828853 -ATTTTTTA
1 TATATTTTA
32828861 TTTATTACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
30 3 0.09
31 4 0.11
32 18 0.51
33 10 0.29
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (31 bp):
TATATTTTAAACTCTTTATATTTATTATAAA
Found at i:32828862 original size:19 final size:21
Alignment explanation
Indices: 32828823--32828866 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
32828813 ATTATAAATA
*
32828823 TATTCTTAAACTTTATTTATT
1 TATTCTTAAAATTTATTTATT
32828844 TATT-TTAAAATTT-TTTATT
1 TATTCTTAAAATTTATTTATT
32828863 TATT
1 TATT
32828867 ACCCATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 8 0.36
21 4 0.18
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTCTTAAAATTTATTTATT
Found at i:32829836 original size:132 final size:131
Alignment explanation
Indices: 32829651--32830117 Score: 381
Period size: 132 Copynumber: 3.5 Consensus size: 131
32829641 CACGGAATAG
* * * * *
32829651 TGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTCCTTCAAAATTT
1 TGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGCTCAAAACAATCGAATATTCCTTCAAAATTT
* ** *
32829716 CACTCATGCCTTTTAAAAAATTCTTTAAAACGAAAGCAATATTCGGCGTTTGACAATTCGGGAAT
66 CACTCATGCCTTTTAAAAAATTCTTTAAAACGAAAG-AATGTTCGATGTTTGGCAATTCGGGAAT
32829781 CA
130 CA
** * ***
32829783 TGCCCTATCGTGCTGGGTTGTGATTTCTCATTTGCTCAAAACAATCGAATATTCCTTTAGGTTTT
1 TGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGCTCAAAACAATCGAATATTCCTTCAAAATTT
* * * * * * * *
32829848 CACTCATG-TTTATTAAAAACTT-TTCAAAAC-AAAGGATGTTCGATGCTTGGCGATTTGAGAAT
66 CACTCATGCCTT-TTAAAAAATTCTTTAAAACGAAAGAATGTTCGATGTTTGGCAATTCGGGAAT
*
32829910 CG
130 CA
* ** * * * * * *
32829912 TGCCTTATCGTGCTGGGTTGCGCTTTTTTTTTCATTTGGTCTAAACAATCGAAGATCCCTTCGAA
1 TGCCCTATCGTGCTGGGTT--GC--AATTTCTCATTTGCTCAAAACAATCGAATATTCCTTCAAA
* * * * *
32829977 ATTTCATTCA--CGTTTTCTAAAAGTCCTTTAAAACGAAAGAAGTGTTCGATGTTTGGCAATTCG
62 ATTTCACTCATGCCTTTT-AAAAAATTCTTTAAAACGAAAGAA-TGTTCGATGTTTGGCAATTC-
32830040 GGGAAT-A
124 GGGAATCA
* * * * * * *
32830047 GTACCCTATCGTGCTGGGTAGCAATTTCCCGTTTGGTCAAAATAATCGAATA-TCTCTTCGAAAT
1 -TGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGCTCAAAACAATCGAATATTC-CTTCAAAAT
32830111 TTCACTC
64 TTCACTC
32830118 GTATTTTATA
Statistics
Matches: 259, Mismatches: 63, Indels: 26
0.74 0.18 0.07
Matches are distributed among these distances:
129 38 0.15
130 4 0.02
131 13 0.05
132 115 0.44
133 44 0.17
134 7 0.03
135 17 0.07
136 21 0.08
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (131 bp):
TGCCCTATCGTGCTGGGTTGCAATTTCTCATTTGCTCAAAACAATCGAATATTCCTTCAAAATTT
CACTCATGCCTTTTAAAAAATTCTTTAAAACGAAAGAATGTTCGATGTTTGGCAATTCGGGAATC
A
Found at i:32831990 original size:587 final size:587
Alignment explanation
Indices: 32830868--32832044 Score: 2086
Period size: 587 Copynumber: 2.0 Consensus size: 587
32830858 ATGGGCTAGT
* *
32830868 GGATTACTTTCGGGATACATCCGTACCTATGATTTCGTGAGATTTTCATCTCTGCATGGTCATAG
1 GGATTACTTCCGGGATACATCCGTACCTATGATTTCGTGAGATTTTCATCTCCGCATGGTCATAG
* *
32830933 CGAAATGTATTCCCCTGAATTGAACTCGATCCGTATGAGCCTATAAAGGGTGAGGATCGAGGAAT
66 CGAAATGTATTCCCATGAACTGAACTCGATCCGTATGAGCCTATAAAGGGTGAGGATCGAGGAAT
*
32830998 CTGCTGGTTCAGGTACCCTTACTCTAGAACCGAGCCACATATAGAGAAACCTAGGAGGTTACCCT
131 CTGCTGCTTCAGGTACCCTTACTCTAGAACCGAGCCACATATAGAGAAACCTAGGAGGTTACCCT
* * *
32831063 AGGTAGAGCCACTCCGAACCCTTAGTGATCACCCGATTAGGTACTTTGTTGGTTATTTATTTCTG
196 AGATAGAGCCACTCCGAACCCCTAGTGATCACCCGATTAGGTACTTTGTTGGTTATTTATTTCTA
32831128 TACAAACGTGTTTTGTTTTTTGTTTGTTCATGAATGCATTGCATTACATCATCATAGAAAGGAGG
261 TACAAACGTGTTTTGTTTTTTGTTTGTTCATGAATGCATTGCATTACATCATCATAGAAAGGAGG
*
32831193 TGTTGATTCATACTCGATTGCTAAATAGAACAGTTTGTCATAAGAAAACGAATTTCTTAATAACG
326 TGTTGATTCATACTCGATTGCTAAATAGAACAGTTTGTCATAAGAAAACAAATTTCTTAATAACG
32831258 CGGATTACAATACGGTTGTCCGAATTTGGTCCAAGTGAACACGACAGAAGAAGGCTAACAGTTCT
391 CGGATTACAATACGGTTGTCCGAATTTGGTCCAAGTGAACACGACAGAAGAAGGCTAACAGTTCT
32831323 TGGAGGAAAACCAAACTTTACCTAAGGATTCAAGCTGATAAAGATTATCCAAAAGCCGTCGCGTC
456 TGGAGGAAAACCAAACTTTACCTAAGGATTCAAGCTGATAAAGATTATCCAAAAGCCGTCGCGTC
32831388 CCAACTTTCTTAAAGGAGCTAATCAACATTGCGAGGATAGTAATTCGTGGCCTAGATCAAGCAAA
521 CCAACTTTCTTAAAGGAGCTAATCAACATTGCGAGGATAGTAATTCGTGGCCTAGATCAAGCAAA
32831453 AA
586 AA
* *
32831455 GGATTACTTCCGGGATACATTCGTACCTATGATTTCGTGAGATTTTCATCTCCGCATGGTTATAG
1 GGATTACTTCCGGGATACATCCGTACCTATGATTTCGTGAGATTTTCATCTCCGCATGGTCATAG
* * *
32831520 GGAAATGTATTCCCATGCACTGAACTCGATCCGTATGAGCCTATAATGGGTGAGGATCGAGGAAT
66 CGAAATGTATTCCCATGAACTGAACTCGATCCGTATGAGCCTATAAAGGGTGAGGATCGAGGAAT
*
32831585 CTGCTGACTT-AGGTACCCTTACTCTAGAACCGAGCCACATATAGAGAGACCTAGGAGGTTACCC
131 CTGCTG-CTTCAGGTACCCTTACTCTAGAACCGAGCCACATATAGAGAAACCTAGGAGGTTACCC
*
32831649 TAGATAGAGCCACTCTGAACCCCTAGTGATCACCCGATTAGGTACTTTGTTGGTTATTTATTTCT
195 TAGATAGAGCCACTCCGAACCCCTAGTGATCACCCGATTAGGTACTTTGTTGGTTATTTATTTCT
* * *
32831714 ATACTAACGTGTTTTGTTTTTTGTTTGTTCATGACTGCATTGCATTACATCATTATAGAAAGGAG
260 ATACAAACGTGTTTTGTTTTTTGTTTGTTCATGAATGCATTGCATTACATCATCATAGAAAGGAG
* *
32831779 GTGTTGATTCATACTCGATTGCTAAATAGAACAGTTTGTTATAAGAAAATAAATTTCTTAATAAC
325 GTGTTGATTCATACTCGATTGCTAAATAGAACAGTTTGTCATAAGAAAACAAATTTCTTAATAAC
32831844 GCGGATTACAATACGGTTGTCCGAATTTGGTCCAAGTGAACACGACAGAAGAAGGCTAACAGTTC
390 GCGGATTACAATACGGTTGTCCGAATTTGGTCCAAGTGAACACGACAGAAGAAGGCTAACAGTTC
* *
32831909 TTGGAGTAAAACCAAACTTTACCTAAGGATTCAAGCTGATAAAGATTATCCAAAAGTCGTCGCGT
455 TTGGAGGAAAACCAAACTTTACCTAAGGATTCAAGCTGATAAAGATTATCCAAAAGCCGTCGCGT
** * * *
32831974 CCTGACTTTTTTAAAGGAGCTAATCAACATTGCGAGGATAGTAATTTGTGGCCTGGATCAAGCAA
520 CCCAACTTTCTTAAAGGAGCTAATCAACATTGCGAGGATAGTAATTCGTGGCCTAGATCAAGCAA
32832039 AAA
585 AAA
32832042 GGA
1 GGA
32832045 GCTAGTAGAG
Statistics
Matches: 561, Mismatches: 28, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
587 559 1.00
588 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (587 bp):
GGATTACTTCCGGGATACATCCGTACCTATGATTTCGTGAGATTTTCATCTCCGCATGGTCATAG
CGAAATGTATTCCCATGAACTGAACTCGATCCGTATGAGCCTATAAAGGGTGAGGATCGAGGAAT
CTGCTGCTTCAGGTACCCTTACTCTAGAACCGAGCCACATATAGAGAAACCTAGGAGGTTACCCT
AGATAGAGCCACTCCGAACCCCTAGTGATCACCCGATTAGGTACTTTGTTGGTTATTTATTTCTA
TACAAACGTGTTTTGTTTTTTGTTTGTTCATGAATGCATTGCATTACATCATCATAGAAAGGAGG
TGTTGATTCATACTCGATTGCTAAATAGAACAGTTTGTCATAAGAAAACAAATTTCTTAATAACG
CGGATTACAATACGGTTGTCCGAATTTGGTCCAAGTGAACACGACAGAAGAAGGCTAACAGTTCT
TGGAGGAAAACCAAACTTTACCTAAGGATTCAAGCTGATAAAGATTATCCAAAAGCCGTCGCGTC
CCAACTTTCTTAAAGGAGCTAATCAACATTGCGAGGATAGTAATTCGTGGCCTAGATCAAGCAAA
AA
Found at i:32832249 original size:19 final size:19
Alignment explanation
Indices: 32832225--32832270 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
32832215 CTTTCTTTCC
32832225 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
**
32832244 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCCCATCA
32832263 TTTGCATT
1 TTTGCATT
32832271 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:32835878 original size:47 final size:47
Alignment explanation
Indices: 32835766--32836093 Score: 454
Period size: 47 Copynumber: 7.1 Consensus size: 47
32835756 GAAATGATAG
32835766 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
32835815 TAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
32835862 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
32835909 TAA----T-A--GCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
32835949 TAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
32835996 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
32836043 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
32836090 TAAG
1 TAAG
32836094 TCCCGAAGGG
Statistics
Matches: 253, Mismatches: 19, Indels: 16
0.88 0.07 0.06
Matches are distributed among these distances:
40 37 0.15
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
47 177 0.70
49 35 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:32835965 original size:134 final size:135
Alignment explanation
Indices: 32835773--32836042 Score: 470
Period size: 134 Copynumber: 2.0 Consensus size: 135
32835763 TAGTAAGGCC
* *
32835773 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGAT
1 TAATAGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATCGCCGATGCGAT
*
32835838 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
65 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
*
32835903 GTGTGA
130 ATGTGA
*
32835909 TAATAGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATCGCCGATGTGATG
1 TAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATCGCCGATGCGATG
*
32835973 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
66 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
32836038 TGTGA
131 TGTGA
32836043 CGGGGCCGAG
Statistics
Matches: 128, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
134 100 0.78
136 28 0.22
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (135 bp):
TAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATCGCCGATGCGATG
AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGA
Found at i:32836291 original size:37 final size:38
Alignment explanation
Indices: 32836212--32836291 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
32836202 CCGAGCTCTA
* * *
32836212 AAGACCCGATGACTACGTGTGGGAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTTATGTCCAGGT
*
32836250 AAGACCCGATAACTTCGTGT-GGAGA-TTATGTCCAGGT
1 AAGACCCGATAACTACGTGTGGGA-ATTTATGTCCAGGT
32836287 AAGAC
1 AAGAC
32836292 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 18 0.49
38 19 0.51
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (38 bp):
AAGACCCGATAACTACGTGTGGGAATTTATGTCCAGGT
Found at i:32839294 original size:3 final size:3
Alignment explanation
Indices: 32839288--32839322 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
32839278 AACAAAAAGA
* *
32839288 AAG AAG AAG AAG AAG AAA AAG AAA AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
32839323 AAGGAGAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:32839310 original size:18 final size:18
Alignment explanation
Indices: 32839287--32839324 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
32839277 AAACAAAAAG
*
32839287 AAAGAAGAAGAAGAAGAA
1 AAAGAAAAAGAAGAAGAA
32839305 AAAGAAAAAGAAGAAGAA
1 AAAGAAAAAGAAGAAGAA
32839323 AA
1 AA
32839325 GGAGAGGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAAGAAGAA
Found at i:32840495 original size:64 final size:64
Alignment explanation
Indices: 32840419--32840542 Score: 180
Period size: 64 Copynumber: 1.9 Consensus size: 64
32840409 TCATTCATAA
* * *
32840419 CACATTTAGTTAGGAGCATTTGATTCAT-TTCGATCATAGCAT-TCTAATTATTTGACATAAACA
1 CACATCTAGTTAGGAACAATTGATTCATGTT-GATCATAGCATCT-TAATTATTTGACATAAACA
32840482 T
64 T
*
32840483 CACATCTAGTTAGGAACAATTGATTCATGTTGATCATAGCATCTTAATTATTTGGCATAA
1 CACATCTAGTTAGGAACAATTGATTCATGTTGATCATAGCATCTTAATTATTTGACATAA
32840543 GCATAGGCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
64 51 0.94
65 3 0.06
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAACAATTGATTCATGTTGATCATAGCATCTTAATTATTTGACATAAACAT
Found at i:32840798 original size:131 final size:131
Alignment explanation
Indices: 32840564--32841365 Score: 1313
Period size: 131 Copynumber: 6.1 Consensus size: 131
32840554 CGAAACAGAA
*
32840564 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCAGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
*
32840629 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGTTGAATA
66 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTGAATA
32840694 T
131 T
* ** * *
32840695 TGTAGATCTTGTCTCCCTGAAGATGCAGTGGGGTGAATCGAAGACGATGGATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* *
32840760 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAATAGGCTAAATA
66 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTGAATA
32840825 T
131 T
*
32840826 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCGAATCGAAGACGACGAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* * * * *
32840891 AGTTACAATGAAGTAGATTTAAGCAAATCCTAGCTCCCTAAAGATGTAGTGGAGTAGGTTGAATA
66 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTGAATA
32840956 T
131 T
*
32840957 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGAAGAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
32841022 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTGAATA
66 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTGAATA
32841087 T
131 T
* * * *
32841088 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGAAAATCGAAGGCGACGAATCTTGGTTTCTTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
*
32841153 AGTTGCA--GAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAATA
66 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTGAATA
32841216 T
131 T
* *
32841217 TGTAGATTTTGTCTCCCTAAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
*
32841282 AGTTGCAGTGAAGCAGATTTAAGCCACCA-TCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
66 AGTTGCAGTGAAGCAGATTTAAG-CA--AGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTGA
*
32841346 AGAT
128 ATAT
* *
32841350 TGTAGGTCTTATCTCC
1 TGTAGATCTTGTCTCC
32841366 TCGAAGCCGC
Statistics
Matches: 623, Mismatches: 43, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
129 122 0.20
131 447 0.72
132 2 0.00
133 51 0.08
134 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (131 bp):
TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTGAATA
T
Found at i:32840987 original size:45 final size:44
Alignment explanation
Indices: 32840924--32841118 Score: 103
Period size: 45 Copynumber: 4.4 Consensus size: 44
32840914 CAAATCCTAG
* * * * *
32840924 CTCCCTAAAGATGTAGTGGAGTAGGTTGAATATTGTAGATCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAATA-TGTAGATCTTGT
* * * * * * *
32840969 CTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGAAGAATCTTGG
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAATATGTAG-ATCTTGT
* * * * *
32841014 CTTCCTGAAGTTGCAGTGAAGCAGATT---TAAGCA-AGTCCTAG-
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAATATGTAGA-T-CTTGT
* * * * **
32841055 CTCCCTAAAGATGTAGTGGAGTAGGCTGAATATTGTAGATCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAATA-TGTAGATCTTGT
32841100 CTCCCTGAAGTTGCAGTGG
1 CTCCCTGAAGTTGCAGTGG
32841119 GGAAAATCGA
Statistics
Matches: 106, Mismatches: 35, Indels: 18
0.67 0.22 0.11
Matches are distributed among these distances:
40 1 0.01
41 20 0.19
42 6 0.06
44 8 0.08
45 70 0.66
46 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCAGATTGAATATGTAGATCTTGT
Found at i:32842711 original size:20 final size:19
Alignment explanation
Indices: 32842668--32842714 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
32842658 TGTTCTTATA
* *
32842668 TATTT-AAACCTTTTTATT
1 TATTTAAAACCATTTTAGT
32842686 TATTTAAAACCATTTTAGT
1 TATTTAAAACCATTTTAGT
*
32842705 TATTTTAAAC
1 TATTTAAAAC
32842715 TTTGTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (19 bp):
TATTTAAAACCATTTTAGT
Found at i:32851028 original size:19 final size:20
Alignment explanation
Indices: 32851004--32851041 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
32850994 GGTACCACCA
32851004 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
32851023 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
32851042 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:32851380 original size:93 final size:93
Alignment explanation
Indices: 32851270--32851440 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
32851260 GCCCCTAAGT
* *
32851270 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
32851335 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
32851363 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
32851428 CGAGTTCGGATGC
66 CGAGTTCGGATGC
32851441 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:32851437 original size:46 final size:46
Alignment explanation
Indices: 32851265--32851437 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
32851255 AACCCGCCCC
* * * *
32851265 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
32851311 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
32851359 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
32851404 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32851438 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:32851894 original size:30 final size:30
Alignment explanation
Indices: 32851860--32851919 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
32851850 ATTTAATACG
32851860 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
32851890 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
32851920 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:32854569 original size:20 final size:21
Alignment explanation
Indices: 32854541--32854581 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32854531 ATGTGCCTAG
*
32854541 GGTGATTTA-GCATTGAGTTT
1 GGTGATTTATGAATTGAGTTT
*
32854561 GGTGTTTTATGAATTGAGTTT
1 GGTGATTTATGAATTGAGTTT
32854582 TATGGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (21 bp):
GGTGATTTATGAATTGAGTTT
Found at i:32856032 original size:47 final size:47
Alignment explanation
Indices: 32855974--32856847 Score: 1451
Period size: 47 Copynumber: 18.6 Consensus size: 47
32855964 ATTCAGCCAA
*
32855974 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGATTGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
32856021 GAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856068 GAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGATTGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856115 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856162 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856209 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856256 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856303 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856350 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856397 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856444 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856491 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856538 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856585 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856632 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
32856679 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
32856726 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
32856773 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
32856820 GAAAGTGTATATATGTAATAAGGCCTAA
1 GAAAGTGTATATATGTGATAAGGCCTAA
32856848 NNNNNNNNNN
Statistics
Matches: 771, Mismatches: 56, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 771 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:32856079 original size:94 final size:94
Alignment explanation
Indices: 32855974--32856847 Score: 1676
Period size: 94 Copynumber: 9.3 Consensus size: 94
32855964 ATTCAGCCAA
*
32855974 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
*
32856039 TAAGGCCTAATGGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
* *
32856068 GAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
32856133 TAAGGCCTAATAGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
32856162 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
32856227 TAAGGCCTAATAGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
32856256 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
32856321 TAAGGCCTAATAGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
32856350 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
32856415 TAAGGCCTAATAGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
32856444 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
32856509 TAAGGCCTAATAGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
32856538 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
32856603 TAAGGCCTAATAGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
32856632 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
32856697 TAAGGCCTAATAGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
* * *
32856726 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
*
32856791 TAAGGCCTAATGGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
32856820 GAAAGTGTATATATGTAATAAGGCCTAA
1 GAAAGTGTATATATGTAATAAGGCCTAA
32856848 NNNNNNNNNN
Statistics
Matches: 772, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 772 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (94 bp):
GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATTGTGAAAGTGTATATGTGTGA
TAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:32857242 original size:15 final size:15
Alignment explanation
Indices: 32857222--32857276 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
32857212 ACTTTCATCA
*
32857222 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
32857237 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
32857252 TT-GTTTCTCTCTTT
1 TTCTTTTCTCTCTTT
*
32857266 TTATTTT-TCTC
1 TTCTTTTCTCTC
32857277 GCTCAATGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.73
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:32861457 original size:47 final size:47
Alignment explanation
Indices: 32861397--32861489 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
32861387 AATTGCATTC
32861397 CATGCATGTATTGCCAAATACATTGAATGCAACATGCATGCATCTTG
1 CATGCATGTATTGCCAAATACATTGAATGCAACATGCATGCATCTTG
32861444 CATGCATGTATTGCCAAATACATTGAATGCAACATGCATGCATCTT
1 CATGCATGTATTGCCAAATACATTGAATGCAACATGCATGCATCTT
32861490 TTAACTGCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (47 bp):
CATGCATGTATTGCCAAATACATTGAATGCAACATGCATGCATCTTG
Found at i:32872386 original size:39 final size:37
Alignment explanation
Indices: 32872306--32872388 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 37
32872296 AAGAAAAAAG
*
32872306 AAAAGAGTGAAAATTAAAAAGAAAATAAAATTGAGAAA
1 AAAAGAGGGAAAATTAAAAAGAAAATAAAA-TGAGAAA
*
32872344 AAAAGAGGGAAAATTGCAAAAGAAAATGAAAA-GAGAGTAA
1 AAAAGAGGGAAAATT-AAAAAGAAAAT-AAAATGAGA--AA
32872384 AAAAG
1 AAAAG
32872389 GAAATCAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
38 18 0.46
39 10 0.26
40 11 0.28
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.12
Consensus pattern (37 bp):
AAAAGAGGGAAAATTAAAAAGAAAATAAAATGAGAAA
Found at i:32876763 original size:29 final size:29
Alignment explanation
Indices: 32876730--32876802 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
32876720 TTAGATACTA
*
32876730 TTAAATATGTCCTAATTAGTTTAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
32876759 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
32876788 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
32876803 ACTAATACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:32887691 original size:20 final size:20
Alignment explanation
Indices: 32887658--32887702 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
32887648 TAAATTCACA
32887658 TAATTAAAACAAGACAC-AAT
1 TAATTAAAACAAGAC-CTAAT
**
32887678 TAATTAAATTAAGACCTAAT
1 TAATTAAAACAAGACCTAAT
32887698 TAATT
1 TAATT
32887703 TAGTTAGGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (20 bp):
TAATTAAAACAAGACCTAAT
Found at i:32893424 original size:19 final size:20
Alignment explanation
Indices: 32893389--32893438 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
32893379 AAAGAAAGAC
*
32893389 AGAAAATGA-AATCAAAA-A
1 AGAAAAAGAGAATCAAAATA
*
32893407 AGAAAAAGAGAATGAAAATA
1 AGAAAAAGAGAATCAAAATA
32893427 AGCAAAAAGAGA
1 AG-AAAAAGAGA
32893439 TTGAGAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 3 0.11
21 9 0.33
ACGTcount: A:0.70, C:0.04, G:0.18, T:0.08
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAATA
Found at i:32895458 original size:13 final size:12
Alignment explanation
Indices: 32895427--32895452 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32895417 TAGGTACGTG
32895427 AAAAAAATTTGA
1 AAAAAAATTTGA
32895439 AAAAAAATTTGA
1 AAAAAAATTTGA
32895451 AA
1 AA
32895453 TTAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
AAAAAAATTTGA
Found at i:32903367 original size:17 final size:16
Alignment explanation
Indices: 32903345--32903376 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
32903335 TTGCAGGTAT
32903345 AAAAAAAGGAAAAGAAC
1 AAAAAAA-GAAAAGAAC
32903362 AAAAAAAGAAAAGAA
1 AAAAAAAGAAAAGAA
32903377 AATGATAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAGAAC
Found at i:32911387 original size:27 final size:27
Alignment explanation
Indices: 32911357--32911534 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32911347 ATATTGAGTC
* * * *
32911357 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32911384 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32911411 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32911439 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32911466 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32911493 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32911520 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32911535 GTACCATTCA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32911496 original size:82 final size:81
Alignment explanation
Indices: 32911378--32911533 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32911368 TGCTATATAA
* *
32911378 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32911443 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32911460 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32911524 CACTTAGTGC
65 CACTTAGTGC
32911534 TGTACCATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32928442 original size:14 final size:15
Alignment explanation
Indices: 32928425--32928457 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
32928415 AATCAAAGTC
32928425 AAAATGAAAAAGGAA
1 AAAATGAAAAAGGAA
*
32928440 AAAATGAAAAAGTAA
1 AAAATGAAAAAGGAA
32928455 AAA
1 AAA
32928458 TGGAGAGGCT
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:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (15 bp):
AAAATGAAAAAGGAA
Found at i:32928458 original size:14 final size:14
Alignment explanation
Indices: 32928419--32928459 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
32928409 AATCAAAATC
*
32928419 AAAGTCAAAATGAA
1 AAAGTAAAAATGAA
*
32928433 AAAGGAAAAAATGAA
1 AAA-GTAAAAATGAA
32928448 AAAGTAAAAATG
1 AAAGTAAAAATG
32928460 GAGAGGCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.68, C:0.02, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAGTAAAAATGAA
Found at i:32930069 original size:219 final size:219
Alignment explanation
Indices: 32929685--32930144 Score: 803
Period size: 219 Copynumber: 2.1 Consensus size: 219
32929675 ACAGATCAGT
*
32929685 GAATTCCAGATCTTATCTCCCTGAGCAATAGTGGAGCTAATCGAAAATGGTGAATCTTATCTCCC
1 GAATTCCAGATCTTATCTCCCTAAGCAATAGTGGAGCTAATCGAAAATGGTGAATCTTATCTCCC
*
32929750 TGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGGGGAGCGGAT
66 TGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGGGGAACGGAT
* *
32929815 TAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCT
131 TAAAATAAAGGATCTTATCTATCTGAAGATACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCT
*
32929880 GAGATTACAGTGGAATAGACCAAA
196 GAGATTACAATGGAATAGACCAAA
* *
32929904 GAATTCCAGATCTTATCTCCCTAAGCAATTGTGGAGCTAATCGAAAATGGTGAATCTTATCTCCT
1 GAATTCCAGATCTTATCTCCCTAAGCAATAGTGGAGCTAATCGAAAATGGTGAATCTTATCTCCC
*
32929969 TGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAACGGAT
66 TGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGGGGAACGGAT
* *
32930034 TAAAATAAAGGATCTTATCTATTTGAAGATACAGTAGAGTAGATTGCATCAGGTCTTATCTCCCT
131 TAAAATAAAGGATCTTATCTATCTGAAGATACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCT
*
32930099 GAGATTACAATGGAATAGACCGAA
196 GAGATTACAATGGAATAGACCAAA
* *
32930123 GAATTACAGATCTTATTTCCCT
1 GAATTCCAGATCTTATCTCCCT
32930145 GGTGGTGCAG
Statistics
Matches: 228, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
219 228 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (219 bp):
GAATTCCAGATCTTATCTCCCTAAGCAATAGTGGAGCTAATCGAAAATGGTGAATCTTATCTCCC
TGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGGGGAACGGAT
TAAAATAAAGGATCTTATCTATCTGAAGATACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCT
GAGATTACAATGGAATAGACCAAA
Found at i:32930192 original size:50 final size:50
Alignment explanation
Indices: 32930149--32930319 Score: 146
Period size: 50 Copynumber: 3.4 Consensus size: 50
32930139 TTCCCTGGTG
* ** * *
32930149 GTGCAGTGGAACAGATTAACGCCACAACGGTGAATCTTGTTTCCCCGACA
1 GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTACTTCCCAGGCA
* ** * * * **
32930199 TTGCAGTTAAAAAGATTAAAGCTACTAC-ACGAATCTTACTTCCCAGGCA
1 GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTACTTCCCAGGCA
* * * *
32930248 GTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACA
1 GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTACTTCCCAGGCA
* * * *
32930298 TTGTAGTTGAATAGATTAAAGC
1 GTGCAGTGGAACAGATTAAAGC
32930320 TGTAACAGCG
Statistics
Matches: 91, Mismatches: 29, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
49 36 0.40
50 55 0.60
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTACTTCCCAGGCA
Found at i:32930314 original size:99 final size:101
Alignment explanation
Indices: 32930149--32930342 Score: 295
Period size: 99 Copynumber: 1.9 Consensus size: 101
32930139 TTCCCTGGTG
* *
32930149 GTGCAGTGGAACAGATTAACGCCACAACGGTGAATCTTGTTTCCCCGACATTGCAGTTAAAAAGA
1 GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
32930214 TTAAAGCTACT-ACA-CGAATCTTA-CTTCCCAGGCA
66 TTAAAGCT-CTAACAGCGAATCTTACCTTCCCAGGCA
* * * *
32930248 GTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTGAATAGA
1 GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
*
32930313 TTAAAGCTGTAACAGCGAATCTTACCTTCC
66 TTAAAGCTCTAACAGCGAATCTTACCTTCC
32930343 TGATATAACA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
98 1 0.01
99 70 0.82
100 9 0.11
101 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (101 bp):
GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
TTAAAGCTCTAACAGCGAATCTTACCTTCCCAGGCA
Found at i:32930333 original size:50 final size:50
Alignment explanation
Indices: 32930180--32930335 Score: 145
Period size: 50 Copynumber: 3.1 Consensus size: 50
32930170 CCACAACGGT
* *
32930180 GAATCTTGTTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACT-ACA-C
1 GAATCTTGCTTCCCCGACATTGCAGTTGAAAAGATTAAAGCTA-TAACAGC
* * * * * * * * * * *
32930229 GAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGT
1 GAATCTTGCTTCCCCGACATTGCAGTTGAAAAGATTAAAGCTATAACAGC
* * *
32930279 GAATCTTGCTTCCCCGACATTGTAGTTGAATAGATTAAAGCTGTAACAGC
1 GAATCTTGCTTCCCCGACATTGCAGTTGAAAAGATTAAAGCTATAACAGC
32930329 GAATCTT
1 GAATCTT
32930336 ACCTTCCTGA
Statistics
Matches: 79, Mismatches: 26, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
49 35 0.44
50 44 0.56
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (50 bp):
GAATCTTGCTTCCCCGACATTGCAGTTGAAAAGATTAAAGCTATAACAGC
Found at i:32930595 original size:202 final size:202
Alignment explanation
Indices: 32930249--32930651 Score: 797
Period size: 202 Copynumber: 2.0 Consensus size: 202
32930239 TCCCAGGCAG
32930249 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTGAATAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTGAATAGAT
32930314 TAAAGCTGTAACAGCGAATCTTACCTTCCTGATATAACAGTTAAACAGATTAAGAGTTACAAATC
66 TAAAGCTGTAACAGCGAATCTTACCTTCCTGATATAACAGTTAAACAGATTAAGAGTTACAAATC
32930379 CTATCTCCCCGACGTTGCGGTGGAGTGGATTGAAGCACCAATTCCTATACCTCTGAAAATGCAGT
131 CTATCTCCCCGACGTTGCGGTGGAGTGGATTGAAGCACCAATTCCTATACCTCTGAAAATGCAGT
32930444 AGGATGA
196 AGGATGA
*
32930451 TGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTGAATAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTGAATAGAT
32930516 TAAAGCTGTAACAGCGAATCTTACCTTCCTGATATAACAGTTAAACAGATTAAGAGTTACAAATC
66 TAAAGCTGTAACAGCGAATCTTACCTTCCTGATATAACAGTTAAACAGATTAAGAGTTACAAATC
32930581 CTATCTCCCCGACGTTGCGGTGGAGTGGATTGAAGCACCAATTCCTATACCTCTGAAAATGCAGT
131 CTATCTCCCCGACGTTGCGGTGGAGTGGATTGAAGCACCAATTCCTATACCTCTGAAAATGCAGT
32930646 AGGATG
196 AGGATG
32930652 GAATGAGGCT
Statistics
Matches: 200, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 200 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (202 bp):
TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTGAATAGAT
TAAAGCTGTAACAGCGAATCTTACCTTCCTGATATAACAGTTAAACAGATTAAGAGTTACAAATC
CTATCTCCCCGACGTTGCGGTGGAGTGGATTGAAGCACCAATTCCTATACCTCTGAAAATGCAGT
AGGATGA
Found at i:32932065 original size:18 final size:18
Alignment explanation
Indices: 32932023--32932069 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
32932013 AAGTCTTATA
32932023 TTATTATTGTATGTTAATG
1 TTATTATT-TATGTTAATG
*
32932042 TT-TTATTTATGTT-TTAG
1 TTATTATTTATGTTAAT-G
32932059 TTATTATTTAT
1 TTATTATTTAT
32932070 AAATTCATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 1 0.04
17 9 0.36
18 13 0.52
19 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (18 bp):
TTATTATTTATGTTAATG
Found at i:32951917 original size:9 final size:9
Alignment explanation
Indices: 32951903--32951930 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
32951893 TGAATTTTCA
32951903 AATTCGAAT
1 AATTCGAAT
32951912 AATTCGAAT
1 AATTCGAAT
32951921 AATTCGAAT
1 AATTCGAAT
32951930 A
1 A
32951931 TAAACTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:32951976 original size:29 final size:29
Alignment explanation
Indices: 32951936--32951994 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
32951926 GAATATAAAC
*
32951936 TATATTTTTTATTTTTAAAATACACCACA
1 TATATTTTTTATTTTTAAAAAACACCACA
*
32951965 TATATTTTTTATTTTTAAAAAACACTACA
1 TATATTTTTTATTTTTAAAAAACACCACA
32951994 T
1 T
32951995 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAAAACACCACA
Found at i:32967211 original size:8 final size:8
Alignment explanation
Indices: 32967200--32967239 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
32967190 ATAATAAATT
32967200 ATATTATA
1 ATATTATA
32967208 ATATTATA
1 ATATTATA
32967216 ATATTATA
1 ATATTATA
*
32967224 ATAATATA
1 ATATTATA
32967232 ATATTATA
1 ATATTATA
32967240 TAATAGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATATTATA
Found at i:32967221 original size:16 final size:16
Alignment explanation
Indices: 32967190--32967249 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
32967180 TTTAAATAAA
*
32967190 ATAATAA-ATTATATT
1 ATAATAATATAATATT
*
32967205 ATAATATTATAATATT
1 ATAATAATATAATATT
32967221 ATAATAATATAATATT
1 ATAATAATATAATATT
*
32967237 AT-ATAATAGAATA
1 ATAATAATATAATA
32967250 ATAGATAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
15 16 0.40
16 24 0.60
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
ATAATAATATAATATT
Found at i:32985065 original size:35 final size:35
Alignment explanation
Indices: 32985019--32985194 Score: 219
Period size: 35 Copynumber: 5.1 Consensus size: 35
32985009 TACTCTATGT
*
32985019 TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TTGGCATGTTTTGGTTGGACTAGCTCTTATGAGCA
* * * *
32985054 TTGGCGTGTTTCGGCTGGACAAGCTCTTATGAGCA
1 TTGGCATGTTTTGGTTGGACTAGCTCTTATGAGCA
* * *
32985089 TTGGCATGTTTTGGCTGGACTAGATCTTATGCGCA
1 TTGGCATGTTTTGGTTGGACTAGCTCTTATGAGCA
* *
32985124 TTGGCAT-TTTTGGTTGGACCAGCTCTTATGAGTA
1 TTGGCATGTTTTGGTTGGACTAGCTCTTATGAGCA
* * * *
32985158 TTGGCGTGTTTTGATTGGACTAGCTCTTGTAAGCA
1 TTGGCATGTTTTGGTTGGACTAGCTCTTATGAGCA
32985193 TT
1 TT
32985195 TGGTGTGTTT
Statistics
Matches: 121, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
34 28 0.23
35 93 0.77
ACGTcount: A:0.17, C:0.16, G:0.28, T:0.38
Consensus pattern (35 bp):
TTGGCATGTTTTGGTTGGACTAGCTCTTATGAGCA
Found at i:32985169 original size:69 final size:70
Alignment explanation
Indices: 32985019--32985194 Score: 228
Period size: 69 Copynumber: 2.5 Consensus size: 70
32985009 TACTCTATGT
* *
32985019 TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCATTGGCGTGTTTCGGCTGGACAAGCTCTTAT
1 TTGGCATGTTTTGGTTGGACTAGCTCTTATGAGCATTGGCATGTTTCGGCTGGACAAGCTCTTAT
32985084 GAGCA
66 GAGCA
* * * * * *
32985089 TTGGCATGTTTTGGCTGGACTAGATCTTATGCGCATTGGCAT-TTTTGGTTGGACCAGCTCTTAT
1 TTGGCATGTTTTGGTTGGACTAGCTCTTATGAGCATTGGCATGTTTCGGCTGGACAAGCTCTTAT
*
32985153 GAGTA
66 GAGCA
* * * *
32985158 TTGGCGTGTTTTGATTGGACTAGCTCTTGTAAGCATT
1 TTGGCATGTTTTGGTTGGACTAGCTCTTATGAGCATT
32985195 TGGTGTGTTT
Statistics
Matches: 90, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
69 53 0.59
70 37 0.41
ACGTcount: A:0.17, C:0.16, G:0.28, T:0.38
Consensus pattern (70 bp):
TTGGCATGTTTTGGTTGGACTAGCTCTTATGAGCATTGGCATGTTTCGGCTGGACAAGCTCTTAT
GAGCA
Found at i:32985764 original size:19 final size:19
Alignment explanation
Indices: 32985735--32985780 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
32985725 AGTATAATAG
32985735 ATTTT-GTTTA-TTATTTT
1 ATTTTAGTTTATTTATTTT
*
32985752 ATTTCTAGTTTATTTTTTTT
1 ATTT-TAGTTTATTTATTTT
32985772 ATTTTAGTT
1 ATTTTAGTT
32985781 GGGGGAGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 1 0.04
19 10 0.40
20 10 0.40
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (19 bp):
ATTTTAGTTTATTTATTTT
Found at i:32987104 original size:15 final size:14
Alignment explanation
Indices: 32987084--32987114 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
32987074 TTTCTAGTTC
32987084 TGAGTGATTGGTGTG
1 TGAGTGATT-GTGTG
32987099 TGAGTGATTGTGTG
1 TGAGTGATTGTGTG
32987113 TG
1 TG
32987115 GTGCGCATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (14 bp):
TGAGTGATTGTGTG
Found at i:33008270 original size:17 final size:16
Alignment explanation
Indices: 33008248--33008279 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
33008238 AACTAAAAAC
33008248 AGAAAATAAACATGTAA
1 AGAAAATAAA-ATGTAA
33008265 AGAAAATAAAATGTA
1 AGAAAATAAAATGTA
33008280 CTTAAGCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.66, C:0.03, G:0.12, T:0.19
Consensus pattern (16 bp):
AGAAAATAAAATGTAA
Found at i:33011716 original size:37 final size:37
Alignment explanation
Indices: 33011671--33011871 Score: 181
Period size: 37 Copynumber: 5.4 Consensus size: 37
33011661 CATGTATTCT
*
33011671 GTATAATCAGTAGATATCGCTTGTTTGAGCCCATTTA
1 GTATAATCAGTAGATATCGCTCGTTTGAGCCCATTTA
**
33011708 GTATAATCAGTAGATATCGCTCGTTTGAG-AAACTTTCA
1 GTATAATCAGTAGATATCGCTCGTTTGAGCCCA-TTT-A
* * * * * * * * * *
33011746 ATATAATCAATACACATTGATCTTTTGAGCACGTTCA
1 GTATAATCAGTAGATATCGCTCGTTTGAGCCCATTTA
* * * *
33011783 GTATATTCATTAGATATTGCTCATTTGAGCCCATTTA
1 GTATAATCAGTAGATATCGCTCGTTTGAGCCCATTTA
* *
33011820 GTATAATCAGTGGATATCGCTCGTTTGAG-CAACTTTCA
1 GTATAATCAGTAGATATCGCTCGTTTGAGCCCA-TTT-A
33011858 GTATAATCAGTAGA
1 GTATAATCAGTAGA
33011872 CATTGTTCTT
Statistics
Matches: 129, Mismatches: 30, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
36 3 0.02
37 86 0.67
38 39 0.30
39 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (37 bp):
GTATAATCAGTAGATATCGCTCGTTTGAGCCCATTTA
Found at i:33011875 original size:112 final size:112
Alignment explanation
Indices: 33011671--33011906 Score: 364
Period size: 112 Copynumber: 2.1 Consensus size: 112
33011661 CATGTATTCT
* **
33011671 GTATAATCAGTAGATATCGCTTGTTTGAGCCCATTTAGTATAATCAGTAGATATCGCTCGTTTGA
1 GTATATTCAGTAGATATCGCTCATTTGAGCCCATTTAGTATAATCAGTAGATATCGCTCGTTTGA
33011736 GAAACTTTCAATATAATCAATACACATTGATCTTTTGAGCACGTTCA
66 GAAACTTTCAATATAATCAATACACATTGATCTTTTGAGCACGTTCA
* * *
33011783 GTATATTCATTAGATATTGCTCATTTGAGCCCATTTAGTATAATCAGTGGATATCGCTCGTTTGA
1 GTATATTCAGTAGATATCGCTCATTTGAGCCCATTTAGTATAATCAGTAGATATCGCTCGTTTGA
* * * * * *
33011848 GCAACTTTCAGTATAATCAGTAGACATTGTTCTTTTGAGCATGTTCA
66 GAAACTTTCAATATAATCAATACACATTGATCTTTTGAGCACGTTCA
33011895 GTATATTCAGTA
1 GTATATTCAGTA
33011907 TTCATTTTTT
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (112 bp):
GTATATTCAGTAGATATCGCTCATTTGAGCCCATTTAGTATAATCAGTAGATATCGCTCGTTTGA
GAAACTTTCAATATAATCAATACACATTGATCTTTTGAGCACGTTCA
Found at i:33011898 original size:75 final size:74
Alignment explanation
Indices: 33011671--33011906 Score: 217
Period size: 75 Copynumber: 3.2 Consensus size: 74
33011661 CATGTATTCT
* * * *
33011671 GTATAATCAGTAGATATCGCTTGTTTGAGCCCATTT-AGTATAATCAGTAGATATCGCTCGTTTG
1 GTATAATCAGTAGATATCGCTCGTTTGAGCAC-TTTCAGTATAATCAGTAGATATTGCTCATTTG
**
33011735 AGAAACTTTCA
65 AGCCA-TTTCA
* * * * * * * * * *
33011746 ATATAATCAATACACATTGATCTTTTGAGCACGTTCAGTATATTCATTAGATATTGCTCATTTGA
1 GTATAATCAGTAGATATCGCTCGTTTGAGCACTTTCAGTATAATCAGTAGATATTGCTCATTTGA
33011811 GCCCATTT-A
66 G-CCATTTCA
* * * *
33011820 GTATAATCAGTGGATATCGCTCGTTTGAGCAACTTTCAGTATAATCAGTAGACATTGTTCTTTTG
1 GTATAATCAGTAGATATCGCTCGTTTGAGC-ACTTTCAGTATAATCAGTAGATATTGCTCATTTG
33011885 AG-CATGTTCA
65 AGCCAT-TTCA
*
33011895 GTATATTCAGTA
1 GTATAATCAGTA
33011907 TTCATTTTTT
Statistics
Matches: 124, Mismatches: 32, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
73 3 0.02
74 27 0.22
75 93 0.75
76 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (74 bp):
GTATAATCAGTAGATATCGCTCGTTTGAGCACTTTCAGTATAATCAGTAGATATTGCTCATTTGA
GCCATTTCA
Found at i:33011905 original size:37 final size:36
Alignment explanation
Indices: 33011671--33011906 Score: 163
Period size: 37 Copynumber: 6.3 Consensus size: 36
33011661 CATGTATTCT
* *
33011671 GTATAATCAGTAGATATCGCT-TGTTTGAGCCCATTT-A
1 GTATAATCAGTAGACATTGCTCT-TTTGAG--CATTTCA
* * * *
33011708 GTATAATCAGTAGATATCGCTCGTTTGAGAAACTTTCA
1 GTATAATCAGTAGACATTGCTCTTTTGAG-CA-TTTCA
* * * * *
33011746 ATATAATCAATACACATTGATCTTTTGAGCACGTTCA
1 GTATAATCAGTAGACATTGCTCTTTTGAGCA-TTTCA
* * * *
33011783 GTATATTCATTAGATATTGCTCATTTGAGCCCATTT-A
1 GTATAATCAGTAGACATTGCTCTTTTGAG--CATTTCA
* * * *
33011820 GTATAATCAGTGGATATCGCTCGTTTGAGCAACTTTCA
1 GTATAATCAGTAGACATTGCTCTTTTGAGC-A-TTTCA
*
33011858 GTATAATCAGTAGACATTGTTCTTTTGAGCATGTTCA
1 GTATAATCAGTAGACATTGCTCTTTTGAGCAT-TTCA
*
33011895 GTATATTCAGTA
1 GTATAATCAGTA
33011907 TTCATTTTTT
Statistics
Matches: 159, Mismatches: 31, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
35 1 0.01
36 3 0.02
37 102 0.64
38 51 0.32
39 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (36 bp):
GTATAATCAGTAGACATTGCTCTTTTGAGCATTTCA
Found at i:33013238 original size:65 final size:68
Alignment explanation
Indices: 33013151--33013282 Score: 182
Period size: 65 Copynumber: 2.0 Consensus size: 68
33013141 TTTTAATAGT
*
33013151 TTAATATTAAATTAAATTTAATATTTATATT-AGT-AT-TT-TATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATCTAATATTTATATTGA-TAATATTATATTAATTTAATATTAAAGTGAT
33013212 TATC
65 TATC
* * *
33013216 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATGTTAAAGTGAT
1 TTAATATTAAATTAAATCTAATATTTATATTGAT-AATATTATATTAATTTAATATTAAAGTGAT
33013281 TA
65 TA
33013283 AGTTTAATCA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
65 29 0.50
66 1 0.02
67 2 0.03
68 2 0.03
69 24 0.41
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTAAATCTAATATTTATATTGATAATATTATATTAATTTAATATTAAAGTGATT
ATC
Found at i:33017580 original size:48 final size:48
Alignment explanation
Indices: 33017503--33017598 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
33017493 TAAATCATTA
* * *
33017503 GGATGATGATCCACTCACTTACGAGGAGGCTATGCAAGACGTTGATTC
1 GGATGATGATCCACTCACTTACAAAGAGGCTATACAAGACGTTGATTC
* * *
33017551 GGATGATGATCTACTCACTTATAAAGAGGCTATACAGGACGTTGATTC
1 GGATGATGATCCACTCACTTACAAAGAGGCTATACAAGACGTTGATTC
33017599 CAAGCTCTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (48 bp):
GGATGATGATCCACTCACTTACAAAGAGGCTATACAAGACGTTGATTC
Found at i:33020866 original size:37 final size:35
Alignment explanation
Indices: 33020815--33020922 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 35
33020805 ATTCCAAAAA
*
33020815 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATATTAATA-TTTAATATT-AATTTAATAT
* **
33020851 TAATAATTATCTTAATATTATTTTATTAATTTAATAT
1 TAAT-ATTATATTAATATT-TAATATTAATTTAATAT
33020888 TAAAGTGATTATATTAATATTTAAT-TTAATTTAAT
1 T-AA-T-ATTATATTAATATTTAATATTAATTTAAT
33020923 GTTTATCTTG
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
36 14 0.23
37 28 0.47
38 4 0.07
39 14 0.23
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (35 bp):
TAATATTATATTAATATTTAATATTAATTTAATAT
Found at i:33020888 original size:11 final size:11
Alignment explanation
Indices: 33020815--33020890 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
33020805 ATTCCAAAAA
*
33020815 TAATATTATTT
1 TAATATTAATT
33020826 TAATAGTTTAATAT
1 TAATA--TTAAT-T
33020840 TAA-ATTTAATT
1 TAATA-TTAATT
33020851 TAATAATT-ATCT
1 TAAT-ATTAAT-T
33020863 TAATATT-ATT
1 TAATATTAATT
33020873 T--TATTAATT
1 TAATATTAATT
33020882 TAATATTAA
1 TAATATTAA
33020891 AGTGATTATA
Statistics
Matches: 55, Mismatches: 1, Indels: 18
0.74 0.01 0.24
Matches are distributed among these distances:
8 4 0.07
9 4 0.07
10 2 0.04
11 22 0.40
12 13 0.24
13 6 0.11
14 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:33020995 original size:20 final size:20
Alignment explanation
Indices: 33020970--33021011 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
33020960 GATTTAATAT
33020970 TAAATTTAATCTAATATTTA
1 TAAATTTAATCTAATATTTA
*
33020990 TAAATTTAATGTAATATTTA
1 TAAATTTAATCTAATATTTA
33021010 TA
1 TA
33021012 TTGATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
TAAATTTAATCTAATATTTA
Found at i:33020996 original size:82 final size:77
Alignment explanation
Indices: 33020865--33021037 Score: 183
Period size: 79 Copynumber: 2.2 Consensus size: 77
33020855 AATTATCTTA
* * *
33020865 ATATTATTTT-ATTAATTTAATATTAAAGTGATTATATTAATATTTAATTTAATTTAATGTTTAT
1 ATATTATTTTAATAAATTTAATATTAAAGT-ATTATATTAATATTTAATTTAATGTAATATTTAT
*
33020929 CTTGTAGATAAATATT
65 -AT-T-GATAAATATT
*
33020945 CTATTATTTTAATAAGATTTAATATTAAA-T-TTA-ATCTAATATTTATAAATTTAATGTAATAT
1 ATATTATTTTAATAA-ATTTAATATTAAAGTATTATAT-TAATA-TT-T-AATTTAATGTAATAT
33021007 TTATATTGATAAATATT
61 TTATATTGATAAATATT
*
33021024 ATATTAATTTAATA
1 ATATTATTTTAATA
33021038 TTAAAGCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
78 2 0.03
79 30 0.38
80 12 0.15
81 6 0.08
82 30 0.38
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (77 bp):
ATATTATTTTAATAAATTTAATATTAAAGTATTATATTAATATTTAATTTAATGTAATATTTATA
TTGATAAATATT
Found at i:33024770 original size:13 final size:14
Alignment explanation
Indices: 33024738--33024769 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33024728 AAAGAAAGTT
33024738 AAAAATAATTAAAC
1 AAAAATAATTAAAC
*
33024752 AAAAATAATTAGAC
1 AAAAATAATTAAAC
33024766 AAAA
1 AAAA
33024770 TTTAAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAAATAATTAAAC
Found at i:33036426 original size:24 final size:24
Alignment explanation
Indices: 33036377--33036426 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
33036367 GATCATCTCA
* * *
33036377 AACATAATATCAAAGTTATACTAT
1 AACATAATATAAAAATTATACAAT
33036401 AACATAATATAAATAATTATA-AAT
1 AACATAATATAAA-AATTATACAAT
33036425 AA
1 AA
33036427 TTATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (24 bp):
AACATAATATAAAAATTATACAAT
Found at i:33036441 original size:10 final size:10
Alignment explanation
Indices: 33036398--33036433 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
33036388 AAAGTTATAC
33036398 TATAACATAA-
1 TATAA-ATAAT
33036408 TATAAATAAT
1 TATAAATAAT
33036418 TATAAATAAT
1 TATAAATAAT
33036428 TATAAA
1 TATAAA
33036434 AATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 4 0.16
10 21 0.84
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
TATAAATAAT
Found at i:33036443 original size:22 final size:22
Alignment explanation
Indices: 33036377--33036444 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 22
33036367 GATCATCTCA
**
33036377 AACATAATATCAAAGTTATACTAT
1 AACATAATAT-AAAAATATA-TAT
*
33036401 AACATAATATAAATA-AT-TAT
1 AACATAATATAAAAATATATAT
33036421 AA-ATAATTATAAAAATATATAT
1 AACATAA-TATAAAAATATATAT
33036443 AA
1 AA
33036445 GAAGATGAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.11
20 12 0.32
21 2 0.05
22 7 0.18
23 3 0.08
24 10 0.26
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (22 bp):
AACATAATATAAAAATATATAT
Found at i:33037516 original size:16 final size:16
Alignment explanation
Indices: 33037424--33037526 Score: 57
Period size: 16 Copynumber: 6.2 Consensus size: 16
33037414 ATCTACAAGA
33037424 TAAATATTAAATTTAAT
1 TAAATATTAAA-TTAAT
* *
33037441 TTAATATTAAATAATCACT
1 TAAATATTAAAT--T-AAT
* *
33037460 TTAATATGAAATTAAT
1 TAAATATTAAATTAAT
* * * *
33037476 AAAATACTATCA-TGA-
1 TAAATATTA-AATTAAT
*
33037491 TAAGTATTAAATTAAT
1 TAAATATTAAATTAAT
*
33037507 TAAATATTAAATTTAT
1 TAAATATTAAATTAAT
33037523 TAAA
1 TAAA
33037527 ATAATATTAT
Statistics
Matches: 63, Mismatches: 17, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
14 1 0.02
15 8 0.13
16 28 0.44
17 12 0.19
18 1 0.02
19 13 0.21
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAATATTAAATTAAT
Found at i:33041184 original size:74 final size:75
Alignment explanation
Indices: 33041062--33041211 Score: 284
Period size: 74 Copynumber: 2.0 Consensus size: 75
33041052 AACTAAGAGA
33041062 TTTCCCTTCTTTCTCCCCTTTTTTTCTTTTTGGTATTTCAAGGTCCTTTTTATACCATTAAAGAT
1 TTTCCCTTCTTTCTCCCCTTTTTTTCTTTTTGGTATTTCAAGGTCCTTTTTATACCATTAAAGAT
33041127 CTCAAAGGTC
66 CTCAAAGGTC
*
33041137 TTTCCCTTCTTTTTCCCC-TTTTTTCTTTTTGGTATTTCAAGGTCCTTTTTATACCATTAAAGAT
1 TTTCCCTTCTTTCTCCCCTTTTTTTCTTTTTGGTATTTCAAGGTCCTTTTTATACCATTAAAGAT
33041201 CTCAAAGGTC
66 CTCAAAGGTC
33041211 T
1 T
33041212 CCTTTTTGTT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
74 57 0.77
75 17 0.23
ACGTcount: A:0.17, C:0.23, G:0.09, T:0.50
Consensus pattern (75 bp):
TTTCCCTTCTTTCTCCCCTTTTTTTCTTTTTGGTATTTCAAGGTCCTTTTTATACCATTAAAGAT
CTCAAAGGTC
Found at i:33057489 original size:25 final size:25
Alignment explanation
Indices: 33057461--33057512 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
33057451 AAAGGTAGGA
33057461 ATGACAATTCAGATTGCGGATTCTG
1 ATGACAATTCAGATTGCGGATTCTG
33057486 ATGACAATTCAGATTGCGGATTCTG
1 ATGACAATTCAGATTGCGGATTCTG
33057511 AT
1 AT
33057513 ATCCACAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
ATGACAATTCAGATTGCGGATTCTG
Found at i:33062193 original size:21 final size:21
Alignment explanation
Indices: 33062126--33062237 Score: 71
Period size: 21 Copynumber: 5.3 Consensus size: 21
33062116 ATGGGTTTTC
* *
33062126 GTTCAGCTCTTTTGAGCTTCA
1 GTTCAGCTCTTATGAGCTTCT
* * * * *
33062147 GTTTAACTCTTATGGGTTTCC
1 GTTCAGCTCTTATGAGCTTCT
*
33062168 CTTCAGCTCTTATGAGCTTCT
1 GTTCAGCTCTTATGAGCTTCT
* * * *
33062189 GTTCAACCCTTACGAGTTTCT
1 GTTCAGCTCTTATGAGCTTCT
* * * *
33062210 ATTTAGCACTTATGTGCTTCT
1 GTTCAGCTCTTATGAGCTTCT
*
33062231 GTGCAGC
1 GTTCAGC
33062238 CTTCGGGATT
Statistics
Matches: 64, Mismatches: 27, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
GTTCAGCTCTTATGAGCTTCT
Found at i:33062208 original size:42 final size:42
Alignment explanation
Indices: 33062094--33062232 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 42
33062084 TCTTAACTAA
* * * *
33062094 TATGAGTTTCTGTTTAACCCTAATGGGTTTTCGTTCAGCTCT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCT
* * * *
33062136 TTTGAGCTTCAGTTTAACTCTTATGGGTTTCCCTTCAGCTCT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCT
* * * * * *
33062178 TATGAGCTTCTGTTCAACCCTTACGAGTTTCTATTTAGCACT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCT
*
33062220 TATGTGCTTCTGT
1 TATGAGCTTCTGT
33062233 GCAGCCTTCG
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.45
Consensus pattern (42 bp):
TATGAGCTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCT
Found at i:33065518 original size:23 final size:24
Alignment explanation
Indices: 33065465--33065523 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
33065455 GTTAGCCCTC
*
33065465 TCGAGCTTCCCGTTATATGGTTCTT
1 TCGAGCTTCCCGTTATA-GGCTCTT
33065490 TCGAGCTTCCCGTTATA-GCTC-T
1 TCGAGCTTCCCGTTATAGGCTCTT
33065512 TCGGAGCTTCCC
1 TC-GAGCTTCCC
33065524 ATTAGGTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 3 0.09
23 12 0.38
25 17 0.53
ACGTcount: A:0.12, C:0.31, G:0.20, T:0.37
Consensus pattern (24 bp):
TCGAGCTTCCCGTTATAGGCTCTT
Found at i:33065678 original size:25 final size:25
Alignment explanation
Indices: 33065650--33065701 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
33065640 CTTGCTTGAA
*
33065650 CTTCTCGATAT-ATGGCTATTCGGAG
1 CTTCTCGAT-TGATGGCTATTCAGAG
33065675 CTTCTCGATTGATGGCTATTCAGAG
1 CTTCTCGATTGATGGCTATTCAGAG
33065700 CT
1 CT
33065702 ACCCATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (25 bp):
CTTCTCGATTGATGGCTATTCAGAG
Found at i:33069522 original size:20 final size:20
Alignment explanation
Indices: 33069497--33069536 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33069487 CCCTCTACAC
33069497 GGGCGTGTAGACCACCACAT
1 GGGCGTGTAGACCACCACAT
*
33069517 GGGCGTGTAGACCTCCACAT
1 GGGCGTGTAGACCACCACAT
33069537 AGCCTAGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (20 bp):
GGGCGTGTAGACCACCACAT
Found at i:33071383 original size:12 final size:13
Alignment explanation
Indices: 33071356--33071380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33071346 TATGCTTAAG
33071356 GTTTGTAGTTTTT
1 GTTTGTAGTTTTT
33071369 GTTTGTAGTTTT
1 GTTTGTAGTTTT
33071381 GTTAATAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
GTTTGTAGTTTTT
Found at i:33075184 original size:13 final size:13
Alignment explanation
Indices: 33075138--33075188 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
33075128 AGTTTTTCAT
33075138 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
33075151 TGCTGTGGAAAAT
1 TGCTTTTGAAAAG
* *
33075164 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
33075177 TGCTTTTGAAAA
1 TGCTTTTGAAAA
33075189 ATTTGAGTGT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:33080155 original size:18 final size:18
Alignment explanation
Indices: 33080134--33080176 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
33080124 ACCATTATTT
*
33080134 GGCCCAATACCATCC-TTC
1 GGCCCAACACCA-CCATTC
33080152 GGCCCAACACCACCATTC
1 GGCCCAACACCACCATTC
33080170 GGCCCAA
1 GGCCCAA
33080177 AAGTACCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.26, C:0.47, G:0.14, T:0.14
Consensus pattern (18 bp):
GGCCCAACACCACCATTC
Found at i:33080245 original size:72 final size:72
Alignment explanation
Indices: 33080156--33080294 Score: 251
Period size: 72 Copynumber: 1.9 Consensus size: 72
33080146 TCCTTCGGCC
*
33080156 CAACACCACCATTCGGCCCAAAAGTACCATTAATCCCATCATGCGGCCCATAACTTTGAGGCCTA
1 CAACACCACCATTCGGCCCAAAAGTACCATCAATCCCATCATGCGGCCCATAACTTTGAGGCCTA
33080221 TAACCAA
66 TAACCAA
* *
33080228 CAACACCACCATTCGGCCCAACAGTACCATCAATCCCATCATGCGGCCCATAATTTTGAGGCCTA
1 CAACACCACCATTCGGCCCAAAAGTACCATCAATCCCATCATGCGGCCCATAACTTTGAGGCCTA
33080293 TA
66 TA
33080295 TGCGCAACGC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.32, C:0.35, G:0.13, T:0.20
Consensus pattern (72 bp):
CAACACCACCATTCGGCCCAAAAGTACCATCAATCCCATCATGCGGCCCATAACTTTGAGGCCTA
TAACCAA
Found at i:33083706 original size:72 final size:72
Alignment explanation
Indices: 33083614--33083757 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
33083604 TAATAATTTT
33083614 GAATCTTTTTTGTACTTGTTGCATTTATTTTTTTAATCAATTAACTCTTCAATATTACATTAATA
1 GAATCTTTTTTGTACTTGTTGCATTTATTTTTTTAATCAATTAACTCTTCAATATTACATTAATA
33083679 TATATTA
66 TATATTA
*
33083686 GAATCTTTTTTGTACTTGTTGCATTTATTTTTTTAATCAATTAACTCTTTAATATTACATTAATA
1 GAATCTTTTTTGTACTTGTTGCATTTATTTTTTTAATCAATTAACTCTTCAATATTACATTAATA
33083751 TATATTA
66 TATATTA
33083758 TTAGTACAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (72 bp):
GAATCTTTTTTGTACTTGTTGCATTTATTTTTTTAATCAATTAACTCTTCAATATTACATTAATA
TATATTA
Found at i:33084078 original size:40 final size:41
Alignment explanation
Indices: 33084021--33084110 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
33084011 TCCTCGTAGG
* * *
33084021 CGCGATTTGTGTCCACGTAAGC-AAATCGCGCTGACGTGGA
1 CGCGATTTGTGTACACGTAACCGAAATAGCGCTGACGTGGA
** *
33084061 CGCGATTTGCTG-ACACGTCCCCTGACATAGCGCTGACGTGGA
1 CGCGATTTG-TGTACACGTAACC-GAAATAGCGCTGACGTGGA
33084103 CGCGATTT
1 CGCGATTT
33084111 CGGGGAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 15 0.37
41 2 0.05
42 24 0.59
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.23
Consensus pattern (41 bp):
CGCGATTTGTGTACACGTAACCGAAATAGCGCTGACGTGGA
Found at i:33086888 original size:26 final size:26
Alignment explanation
Indices: 33086852--33086902 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
33086842 GCAGCCATGG
33086852 ATCTTTCCATTTATTAATAGACGTGA
1 ATCTTTCCATTTATTAATAGACGTGA
*
33086878 ATCTTTTCATTTATTAATAGACGTG
1 ATCTTTCCATTTATTAATAGACGTG
33086903 CCACTGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (26 bp):
ATCTTTCCATTTATTAATAGACGTGA
Found at i:33093683 original size:17 final size:18
Alignment explanation
Indices: 33093657--33093695 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
33093647 ATCCATGTGG
33093657 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
33093673 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
33093691 AAAAT
1 AAAAT
33093696 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:33093873 original size:15 final size:15
Alignment explanation
Indices: 33093853--33093883 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33093843 AAAACAATAT
33093853 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
33093868 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
33093883 A
1 A
33093884 CTTACATGAC
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:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:33098027 original size:17 final size:18
Alignment explanation
Indices: 33098001--33098039 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
33097991 CAAATTGTGG
33098001 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
33098017 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
33098035 AAAAT
1 AAAAT
33098040 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:33098217 original size:15 final size:15
Alignment explanation
Indices: 33098197--33098227 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33098187 AAAACAATAT
33098197 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
33098212 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
33098227 A
1 A
33098228 CTTACATGAC
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:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:33100395 original size:20 final size:19
Alignment explanation
Indices: 33100372--33100436 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
33100362 ATTATGTTTA
33100372 TTTTATTTAAATTAAGTGTG
1 TTTT-TTTAAATTAAGTGTG
* *
33100392 TTTTTTT-AATTACA-TCTA
1 TTTTTTTAAATTA-AGTGTG
*
33100410 TTTTCTTTAAATTAAGAGTG
1 TTTT-TTTAAATTAAGTGTG
33100430 TTTTTTT
1 TTTTTTT
33100437 TACTTCATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.31
19 11 0.31
20 14 0.39
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (19 bp):
TTTTTTTAAATTAAGTGTG
Found at i:33100438 original size:20 final size:20
Alignment explanation
Indices: 33100372--33100438 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 20
33100362 ATTATGTTTA
* *
33100372 TTTTATTTAAATTAAGTGTG
1 TTTTTTTTAAATTAAGAGTG
* *
33100392 -TTTTTTT-AATT-ACA-TC
1 TTTTTTTTAAATTAAGAGTG
33100408 TATTTTCTTTAAATTAAGAGTG
1 T-TTTT-TTTAAATTAAGAGTG
33100430 TTTTTTTTA
1 TTTTTTTTA
33100439 CTTCATAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
16 1 0.03
17 1 0.03
18 8 0.23
19 9 0.26
20 8 0.23
21 6 0.17
22 2 0.06
ACGTcount: A:0.27, C:0.04, G:0.09, T:0.60
Consensus pattern (20 bp):
TTTTTTTTAAATTAAGAGTG
Found at i:33109689 original size:7 final size:7
Alignment explanation
Indices: 33109679--33109703 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33109669 ATTAGTAATT
33109679 TTTTATA
1 TTTTATA
33109686 TTTTATA
1 TTTTATA
33109693 TTTTATA
1 TTTTATA
33109700 TTTT
1 TTTT
33109704 TCATATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:33109709 original size:16 final size:15
Alignment explanation
Indices: 33109679--33109721 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
33109669 ATTAGTAATT
33109679 TTTTATA-TTTTATA
1 TTTTATATTTTTATA
33109693 TTTTATATTTTTCATA
1 TTTTATATTTTT-ATA
*
33109709 TTTAATTATTTTT
1 TTTTA-TATTTTT
33109722 TTAAATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 7 0.28
15 4 0.16
16 7 0.28
17 7 0.28
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATATTTTTATA
Found at i:33111990 original size:9 final size:9
Alignment explanation
Indices: 33111976--33112002 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
33111966 CTGAAATAGC
33111976 ATTAACCGA
1 ATTAACCGA
33111985 ATTAACCGA
1 ATTAACCGA
33111994 ATTAACCGA
1 ATTAACCGA
33112003 CCTTTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (9 bp):
ATTAACCGA
Found at i:33112148 original size:9 final size:9
Alignment explanation
Indices: 33112135--33112237 Score: 109
Period size: 9 Copynumber: 11.4 Consensus size: 9
33112125 TTTGGTTAAA
*
33112135 AATTAACCA
1 AATTAACCG
*
33112144 AATTAACCA
1 AATTAACCG
*
33112153 AATTAACCA
1 AATTAACCG
33112162 AATTAACCG
1 AATTAACCG
33112171 AATT-ACCTG
1 AATTAACC-G
33112180 AATTAACCG
1 AATTAACCG
* *
33112189 AATTACCCA
1 AATTAACCG
*
33112198 AATTAACTG
1 AATTAACCG
**
33112207 AATTATTCG
1 AATTAACCG
33112216 AATTAACCG
1 AATTAACCG
*
33112225 AATTAACCT
1 AATTAACCG
33112234 AATT
1 AATT
33112238 GAATCACACA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
8 3 0.04
9 74 0.93
10 3 0.04
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:33112184 original size:36 final size:36
Alignment explanation
Indices: 33112144--33112237 Score: 127
Period size: 36 Copynumber: 2.6 Consensus size: 36
33112134 AAATTAACCA
*
33112144 AATTAACCAAATTAACCAAATTAACCGAATTAC-CTG
1 AATTAACCGAATTAACCAAATTAACCGAATTACTC-G
* * *
33112180 AATTAACCGAATTACCCAAATTAACTGAATTATTCG
1 AATTAACCGAATTAACCAAATTAACCGAATTACTCG
*
33112216 AATTAACCGAATTAACCTAATT
1 AATTAACCGAATTAACCAAATT
33112238 GAATCACACA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
36 50 0.98
37 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (36 bp):
AATTAACCGAATTAACCAAATTAACCGAATTACTCG
Found at i:33115115 original size:16 final size:18
Alignment explanation
Indices: 33115094--33115126 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33115084 CTAATTATCG
33115094 AATAT-CTCATT-TAAAT
1 AATATCCTCATTATAAAT
33115110 AATATCCTCATTATAAA
1 AATATCCTCATTATAAA
33115127 ATCTTCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (18 bp):
AATATCCTCATTATAAAT
Done.