Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 142 of 208
Found at i:46268957 original size:27 final size:26
Alignment explanation
Indices: 46268919--46268982 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
46268909 TATTTTAAAG
* *
46268919 TTATTAGTTTATCGATAAATGAATATT
1 TTATTAATTTATCAATAAATGAATA-T
*
46268946 TTATTAATTTATCAATAAATTAATAT
1 TTATTAATTTATCAATAAATGAATAT
46268972 TTATTAATTTA
1 TTATTAATTTA
46268983 GAGAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (26 bp):
TTATTAATTTATCAATAAATGAATAT
Found at i:46269102 original size:36 final size:39
Alignment explanation
Indices: 46269059--46269134 Score: 122
Period size: 36 Copynumber: 2.0 Consensus size: 39
46269049 TGAATCAAAG
*
46269059 TTAATTGGTTCATGTAA-C-AAAA-AAAAAGAGAGTTAA
1 TTAATTGGTTCATGTAACCAAAAAGAAAAAAAGAGTTAA
46269095 TTAATTGGTTCATGTAACCAAAAAGAAAAAAAGAGTTAA
1 TTAATTGGTTCATGTAACCAAAAAGAAAAAAAGAGTTAA
46269134 T
1 T
46269135 AGTTTCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
36 17 0.47
37 1 0.03
38 4 0.11
39 14 0.39
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.28
Consensus pattern (39 bp):
TTAATTGGTTCATGTAACCAAAAAGAAAAAAAGAGTTAA
Found at i:46277702 original size:32 final size:32
Alignment explanation
Indices: 46277666--46277726 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
46277656 AAATAAACAC
46277666 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
46277698 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
46277727 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:46282915 original size:17 final size:17
Alignment explanation
Indices: 46282893--46282929 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
46282883 GTGGATGTTC
*
46282893 AACCTTTCATCTTCCTT
1 AACCTTTCACCTTCCTT
*
46282910 AACCTTTCACCTTTCTT
1 AACCTTTCACCTTCCTT
46282927 AAC
1 AAC
46282930 TCATCATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (17 bp):
AACCTTTCACCTTCCTT
Found at i:46284569 original size:22 final size:22
Alignment explanation
Indices: 46284523--46284571 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
46284513 ATACTTATTC
*
46284523 TTTATATAAAAATATATGTTCT
1 TTTATATAAAAATATAAGTTCT
*
46284545 TTTATATGAATAAATA-AAGTTTT
1 TTTATAT-AA-AAATATAAGTTCT
46284568 TTTA
1 TTTA
46284572 AGATCTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 11 0.48
24 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (22 bp):
TTTATATAAAAATATAAGTTCT
Found at i:46290290 original size:92 final size:92
Alignment explanation
Indices: 46290133--46290316 Score: 305
Period size: 92 Copynumber: 2.0 Consensus size: 92
46290123 GATTATATAG
* * * **
46290133 ATCAAGAAAAGCAACATTCAAAATTAAATCGGGGAAATGATGAAGTCGTGGACTAAACGATCGTA
1 ATCAAGAAAAGCAACATTCAAAATTAAATCAGGGAAAGGATAAAGTCGTGGACTAAAAAATCGTA
46290198 TTTCTCCGTACGAGTTTAAGGTAAGTT
66 TTTCTCCGTACGAGTTTAAGGTAAGTT
* *
46290225 ATCAAGAAAAGCAACTTTCGAAATTAAATCAGGGAAAGGATAAAGTCGTGGACTAAAAAATCGTA
1 ATCAAGAAAAGCAACATTCAAAATTAAATCAGGGAAAGGATAAAGTCGTGGACTAAAAAATCGTA
46290290 TTTCTCCGTACGAGTTTAAGGTAAGTT
66 TTTCTCCGTACGAGTTTAAGGTAAGTT
46290317 CGTGTAATTA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (92 bp):
ATCAAGAAAAGCAACATTCAAAATTAAATCAGGGAAAGGATAAAGTCGTGGACTAAAAAATCGTA
TTTCTCCGTACGAGTTTAAGGTAAGTT
Found at i:46299789 original size:13 final size:13
Alignment explanation
Indices: 46299773--46299797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46299763 AAACAAACTA
46299773 AAACTTTTCTTTT
1 AAACTTTTCTTTT
46299786 AAACTTTTCTTT
1 AAACTTTTCTTT
46299798 CTTTCTTTTT
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:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (13 bp):
AAACTTTTCTTTT
Found at i:46304293 original size:40 final size:39
Alignment explanation
Indices: 46304217--46304293 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
46304207 GAGTTAGTTT
**
46304217 GGGCCTTAGCCCATTCAGATACAGTCTCAGAAATACATTA
1 GGGCCTTAGCCCATTCAGATACAGAATCAG-AATACATTA
*
46304257 GGGCCTTAGCCCATATCCGATACAGAATGCAG-ATACA
1 GGGCCTTAGCCCAT-TCAGATACAGAAT-CAGAATACA
46304294 GTAAATTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 19 0.59
41 10 0.31
42 3 0.09
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (39 bp):
GGGCCTTAGCCCATTCAGATACAGAATCAGAATACATTA
Found at i:46305867 original size:28 final size:28
Alignment explanation
Indices: 46305825--46305913 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
46305815 CTGTTTAGTA
* **
46305825 ACAGT-ACAGTATGGGCCTTAGCCTGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
46305852 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
46305880 ACAGTAATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
46305908 ACAGTA
1 ACAGTA
46305914 TCGGTACAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 5 0.09
28 52 0.91
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:46306260 original size:27 final size:27
Alignment explanation
Indices: 46306230--46306284 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
46306220 AACAAATCAG
46306230 TCATAACATAAGGCCATAACAGTCATT
1 TCATAACATAAGGCCATAACAGTCATT
** * **
46306257 TCATCTCTTAAGGGTATAACAGTCATT
1 TCATAACATAAGGCCATAACAGTCATT
46306284 T
1 T
46306285 TACACTATGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (27 bp):
TCATAACATAAGGCCATAACAGTCATT
Found at i:46306308 original size:27 final size:26
Alignment explanation
Indices: 46306278--46306352 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
46306268 GGGTATAACA
46306278 GTCATTTTACACTATGGGGGTATTTCG
1 GTCATTTTAC-CTATGGGGGTATTTCG
* *
46306305 GTCATTCTACCTTACGGGGGTATTTCG
1 GTCATTTTACC-TATGGGGGTATTTCG
* *
46306332 ATCATTTTACCCTGTGGGGGT
1 GTCATTTTA-CCTATGGGGGT
46306353 TAATTCGGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.16, C:0.19, G:0.27, T:0.39
Consensus pattern (26 bp):
GTCATTTTACCTATGGGGGTATTTCG
Found at i:46310347 original size:27 final size:28
Alignment explanation
Indices: 46310317--46310384 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
46310307 ACATTCTCTC
46310317 TAAAAAAATAGCATATCCTA-GTAAATA-
1 TAAAAAAATAGCATA-CCTACGTAAATAT
* * *
46310344 TAAAAAAATAACATACTTACTTAAATAT
1 TAAAAAAATAGCATACCTACGTAAATAT
46310372 TAAAAAAATAGCA
1 TAAAAAAATAGCA
46310385 CATTTCTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.09
27 20 0.57
28 12 0.34
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.26
Consensus pattern (28 bp):
TAAAAAAATAGCATACCTACGTAAATAT
Found at i:46310453 original size:10 final size:10
Alignment explanation
Indices: 46310420--46310445 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
46310410 TTCATGCTTT
46310420 TTTTTTTGAA
1 TTTTTTTGAA
46310430 TTTTTTTGAA
1 TTTTTTTGAA
46310440 TTTTTT
1 TTTTTT
46310446 ATAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:46312225 original size:25 final size:24
Alignment explanation
Indices: 46312174--46312218 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
46312164 TTAAAGCAAT
**
46312174 TTTTAATTTTTTTTATCTTAATCA
1 TTTTAATTTTTTTTATCACAATCA
46312198 TTTTAATTTTTTTT-TCACAAT
1 TTTTAATTTTTTTTATCACAAT
46312219 TTCATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTAATTTTTTTTATCACAATCA
Found at i:46312471 original size:7 final size:8
Alignment explanation
Indices: 46312449--46312475 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
46312439 GGGTGCTTTC
46312449 ATATTTTT
1 ATATTTTT
46312457 ATATTTTT
1 ATATTTTT
46312465 ATATTTTT
1 ATATTTTT
46312473 ATA
1 ATA
46312476 AACCAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATATTTTT
Found at i:46316343 original size:21 final size:22
Alignment explanation
Indices: 46316319--46316379 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 22
46316309 CACCGCCTGT
*
46316319 TCACAAGGCCATGTCCCT-GGC
1 TCACAAGGCCATGTCCCTCAGC
* * *
46316340 TCACATGGGCATGTGCCTCAGC
1 TCACAAGGCCATGTCCCTCAGC
* *
46316362 -CACAAGGCCGTGTGCCTC
1 TCACAAGGCCATGTCCCTC
46316380 CTCCCACACG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.20
Consensus pattern (22 bp):
TCACAAGGCCATGTCCCTCAGC
Found at i:46326217 original size:22 final size:22
Alignment explanation
Indices: 46326191--46326234 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
46326181 GGGATTAAGG
*
46326191 AAAGTGAGATGTTTGTGGTCGA
1 AAAGTAAGATGTTTGTGGTCGA
46326213 AAAGTAAGATGTTTGTGGTCGA
1 AAAGTAAGATGTTTGTGGTCGA
46326235 GTTCCTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.34, T:0.32
Consensus pattern (22 bp):
AAAGTAAGATGTTTGTGGTCGA
Found at i:46349410 original size:27 final size:27
Alignment explanation
Indices: 46349373--46349424 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
46349363 AAGAAAACTA
46349373 TTTTCAAACTAAGATTTTTCCACCAGT
1 TTTTCAAACTAAGATTTTTCCACCAGT
46349400 TTTTCAAACTAAGATTTTTCCACCA
1 TTTTCAAACTAAGATTTTTCCACCA
46349425 TTACCATGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
TTTTCAAACTAAGATTTTTCCACCAGT
Found at i:46349419 original size:15 final size:15
Alignment explanation
Indices: 46349373--46349419 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
46349363 AAGAAAACTA
46349373 TTTTCAAACTAAGAT
1 TTTTCAAACTAAGAT
* *
46349388 TTTTC-CAC-CAG-T
1 TTTTCAAACTAAGAT
46349400 TTTTCAAACTAAGAT
1 TTTTCAAACTAAGAT
46349415 TTTTC
1 TTTTC
46349420 CACCATTACC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 6 0.24
13 4 0.16
14 4 0.16
15 11 0.44
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (15 bp):
TTTTCAAACTAAGAT
Found at i:46351800 original size:30 final size:32
Alignment explanation
Indices: 46351746--46351806 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
46351736 AAATATTAAC
*
46351746 ATTTTAGAAAAATCAATCTATTTTAAAATCAA
1 ATTTTAGAAAAATCAATATATTTTAAAATCAA
*
46351778 ATTTTAGTAAAA-CAA-ATATTTTAAAATCA
1 ATTTTAGAAAAATCAATATATTTTAAAATCA
46351807 TCTAAATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 13 0.48
31 3 0.11
32 11 0.41
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (32 bp):
ATTTTAGAAAAATCAATATATTTTAAAATCAA
Found at i:46362819 original size:19 final size:18
Alignment explanation
Indices: 46362801--46362855 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
46362791 AGAATTTTTA
46362801 ATAAATTTTTTAAAATTT
1 ATAAATTTTTTAAAATTT
**
46362819 ATCTATTTTTTAAAA--T
1 ATAAATTTTTTAAAATTT
* *
46362835 ATAAA-ATTTGAAAATTT
1 ATAAATTTTTTAAAATTT
46362852 ATAA
1 ATAA
46362856 TTATTTTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 7 0.24
16 4 0.14
17 5 0.17
18 13 0.45
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
ATAAATTTTTTAAAATTT
Found at i:46365431 original size:299 final size:299
Alignment explanation
Indices: 46364893--46365492 Score: 1182
Period size: 299 Copynumber: 2.0 Consensus size: 299
46364883 GTATTGTTGC
46364893 CAGTATAGGAAGATGTGGGTTTGAGTGTACTGAAATGCATTATCTTCCTATTTAAGTGTTAGAGA
1 CAGTATAGGAAGATGTGGGTTTGAGTGTACTGAAATGCATTATCTTCCTATTTAAGTGTTAGAGA
46364958 AAGGCTATGAGTAGTTCTAGGTATTATATAAAAAAATAGATATGGTAATAATTTATAATAAGATT
66 AAGGCTATGAGTAGTTCTAGGTATTATATAAAAAAATAGATATGGTAATAATTTATAATAAGATT
46365023 AATTGACAAATATTCAATTTGACTTTTGAAAATACATGTAATCTGAATTTAAATAATATTTAAAT
131 AATTGACAAATATTCAATTTGACTTTTGAAAATACATGTAATCTGAATTTAAATAATATTTAAAT
46365088 TTAGATATTTTAATTATTATTAGAAAGAGATTTCAAAAGAGATGTATACCTGAATTTATTTTATT
196 TTAGATATTTTAATTATTATTAGAAAGAGATTTCAAAAGAGATGTATACCTGAATTTATTTTATT
46365153 TTTTGCACATAGTGGATTTTAAATTCAAATATATGAATT
261 TTTTGCACATAGTGGATTTTAAATTCAAATATATGAATT
*
46365192 CAGTATAGGAGGATGTGGGTTTGAGTGTACTGAAATGCATTATCTTCCTATTTAAGTGTTAGAGA
1 CAGTATAGGAAGATGTGGGTTTGAGTGTACTGAAATGCATTATCTTCCTATTTAAGTGTTAGAGA
*
46365257 AGGGCTATGAGTAGTTCTAGGTATTATATAAAAAAATAGATATGGTAATAATTTATAATAAGATT
66 AAGGCTATGAGTAGTTCTAGGTATTATATAAAAAAATAGATATGGTAATAATTTATAATAAGATT
46365322 AATTGACAAATATTCAATTTGACTTTTGAAAATACATGTAATCTGAATTTAAATAATATTTAAAT
131 AATTGACAAATATTCAATTTGACTTTTGAAAATACATGTAATCTGAATTTAAATAATATTTAAAT
46365387 TTAGATATTTTAATTATTATTAGAAAGAGATTTCAAAAGAGATGTATACCTGAATTTATTTTATT
196 TTAGATATTTTAATTATTATTAGAAAGAGATTTCAAAAGAGATGTATACCTGAATTTATTTTATT
46365452 TTTTGCACATAGTGGATTTTAAATTCAAATATATGAATT
261 TTTTGCACATAGTGGATTTTAAATTCAAATATATGAATT
46365491 CA
1 CA
46365493 TTATCCGTTT
Statistics
Matches: 299, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
299 299 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (299 bp):
CAGTATAGGAAGATGTGGGTTTGAGTGTACTGAAATGCATTATCTTCCTATTTAAGTGTTAGAGA
AAGGCTATGAGTAGTTCTAGGTATTATATAAAAAAATAGATATGGTAATAATTTATAATAAGATT
AATTGACAAATATTCAATTTGACTTTTGAAAATACATGTAATCTGAATTTAAATAATATTTAAAT
TTAGATATTTTAATTATTATTAGAAAGAGATTTCAAAAGAGATGTATACCTGAATTTATTTTATT
TTTTGCACATAGTGGATTTTAAATTCAAATATATGAATT
Found at i:46376411 original size:29 final size:29
Alignment explanation
Indices: 46376369--46376455 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 29
46376359 CAACGATGCA
* *
46376369 TTCGAACCAATAGCTTGTATATCACTTGG
1 TTCGAACCAATAGCTTGAATACCACTTGG
46376398 TTCGAACCAATAGCTTGAATACCACTTGG
1 TTCGAACCAATAGCTTGAATACCACTTGG
* *
46376427 CTCGAACCAATAGCTTGGATACCCACTTG
1 TTCGAACCAATAGCTTGAATA-CCACTTG
46376456 TTACGGGGCC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 46 0.87
30 7 0.13
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (29 bp):
TTCGAACCAATAGCTTGAATACCACTTGG
Found at i:46378775 original size:18 final size:19
Alignment explanation
Indices: 46378752--46378788 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46378742 ATACCAAAAC
*
46378752 ATAAAATTA-TTAAAAATT
1 ATAAAATAACTTAAAAATT
46378770 ATAAAATAACTTAAAAATT
1 ATAAAATAACTTAAAAATT
46378789 TTATTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAATAACTTAAAAATT
Found at i:46378858 original size:14 final size:14
Alignment explanation
Indices: 46378835--46378868 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
46378825 ATATAAAAAG
46378835 AATA-TTTTTTATA
1 AATATTTTTTTATA
46378848 AATATTTTTTTATA
1 AATATTTTTTTATA
46378862 AATATTT
1 AATATTT
46378869 AGTATTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
AATATTTTTTTATA
Found at i:46378945 original size:11 final size:11
Alignment explanation
Indices: 46378931--46378961 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
46378921 AGTATTTTTA
46378931 TTAAATTAAAT
1 TTAAATTAAAT
46378942 TTAAATT-AAT
1 TTAAATTAAAT
46378952 TTAAATTAAA
1 TTAAATTAAA
46378962 ATTGAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:46378949 original size:16 final size:16
Alignment explanation
Indices: 46378930--46378964 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46378920 AAGTATTTTT
*
46378930 ATTAAATTAAATTTAA
1 ATTAAATTAAATTAAA
*
46378946 ATTAATTTAAATTAAA
1 ATTAAATTAAATTAAA
46378962 ATT
1 ATT
46378965 GAATAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTAAATTAAATTAAA
Found at i:46386050 original size:16 final size:17
Alignment explanation
Indices: 46386017--46386055 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
46386007 CTCTTTTTTG
*
46386017 TTTTTTATTGTTAAATA
1 TTTTTTATTATTAAATA
*
46386034 TTTTTTATTATT-TATA
1 TTTTTTATTATTAAATA
46386050 TTTTTT
1 TTTTTT
46386056 TACTAAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTATTATTAAATA
Found at i:46389687 original size:22 final size:22
Alignment explanation
Indices: 46389662--46389704 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46389652 CTTAGATTAA
46389662 ACATGCGAACCATATATATGTT
1 ACATGCGAACCATATATATGTT
* **
46389684 ACATGTGAATTATATATATGT
1 ACATGCGAACCATATATATGT
46389705 ATATATATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (22 bp):
ACATGCGAACCATATATATGTT
Found at i:46390325 original size:12 final size:13
Alignment explanation
Indices: 46390296--46390325 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
46390286 GAAGAGTGTG
46390296 AAATTAAAACATT
1 AAATTAAAACATT
46390309 AAATTAAAACA-T
1 AAATTAAAACATT
46390321 AAATT
1 AAATT
46390326 TGCATTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATTAAAACATT
Found at i:46400561 original size:16 final size:17
Alignment explanation
Indices: 46400534--46400568 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
46400524 AATAATTGAG
*
46400534 TTGAGTAAATTATTTAA
1 TTGAGTAAATTAATTAA
46400551 TTGAG-AAATTAATTAA
1 TTGAGTAAATTAATTAA
46400567 TT
1 TT
46400569 AATTTATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (17 bp):
TTGAGTAAATTAATTAA
Found at i:46402907 original size:49 final size:48
Alignment explanation
Indices: 46402850--46402981 Score: 185
Period size: 49 Copynumber: 2.7 Consensus size: 48
46402840 CGAATAAGGA
*
46402850 ATAATTTAATTATTATTTAAAAGAGTTTTAGATAAATA-ATAATTAAAAC
1 ATAATTTAATTATTATTTAAAAGAGTTTTAAATAAA-AGATAA-TAAAAC
* * *
46402899 ATAATTTAATTATTATTTAAAAGCGTTTTAAATAAAAGATAATCAAAT
1 ATAATTTAATTATTATTTAAAAGAGTTTTAAATAAAAGATAATAAAAC
*
46402947 AGAATTTAAATTATTATTTAAAAGAGTTTTAAATA
1 ATAATTT-AATTATTATTTAAAAGAGTTTTAAATA
46402982 TATATATAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
48 11 0.15
49 64 0.85
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (48 bp):
ATAATTTAATTATTATTTAAAAGAGTTTTAAATAAAAGATAATAAAAC
Found at i:46404366 original size:11 final size:11
Alignment explanation
Indices: 46404350--46404374 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46404340 TCATTTATCA
46404350 AAATTCTTATT
1 AAATTCTTATT
46404361 AAATTCTTATT
1 AAATTCTTATT
46404372 AAA
1 AAA
46404375 CTTTGCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATTCTTATT
Found at i:46407702 original size:47 final size:47
Alignment explanation
Indices: 46407639--46408067 Score: 651
Period size: 47 Copynumber: 9.1 Consensus size: 47
46407629 GAAATGATAG
*
46407639 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
46407686 TAAGGCCTAATAGCCGATGTGATGAATATGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
46407735 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
46407782 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
46407829 TAAAGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
46407876 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
46407923 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
46407970 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * * *
46408017 CGGGGTCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
46408064 TAAG
1 TAAG
46408068 TCCCGAAGGG
Statistics
Matches: 351, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 306 0.87
49 45 0.13
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:46410258 original size:21 final size:21
Alignment explanation
Indices: 46410232--46410273 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
46410222 GCAATTTTGT
46410232 AATTAAA-TGGAAATTAAAACA
1 AATTAAAGT-GAAATTAAAACA
46410253 AATTAAAGTGAAATTAAAACA
1 AATTAAAGTGAAATTAAAACA
46410274 TTTTAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
AATTAAAGTGAAATTAAAACA
Found at i:46411847 original size:37 final size:37
Alignment explanation
Indices: 46411799--46411947 Score: 216
Period size: 37 Copynumber: 4.1 Consensus size: 37
46411789 CCGAATGCAC
* *
46411799 ATATACACTTATACCCACTTATGCCGAATGCATACAT
1 ATATACACTTATATCCACCTATGCCGAATGCATACAT
* *
46411836 ATATACACTTATTTTCACCTATGCCGAATGCATACAT
1 ATATACACTTATATCCACCTATGCCGAATGCATACAT
* *
46411873 ATATACCCTTATATTCACCTATGCCGAATGCATACAT
1 ATATACACTTATATCCACCTATGCCGAATGCATACAT
46411910 ATAT----TTATATCCACCTATGCCGAATGCATACAT
1 ATATACACTTATATCCACCTATGCCGAATGCATACAT
46411943 ATATA
1 ATATA
46411948 TTTATCTATC
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
33 32 0.31
37 72 0.69
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (37 bp):
ATATACACTTATATCCACCTATGCCGAATGCATACAT
Found at i:46411956 original size:29 final size:29
Alignment explanation
Indices: 46411882--46411956 Score: 80
Period size: 33 Copynumber: 2.4 Consensus size: 29
46411872 TATATACCCT
* *
46411882 TATATTCACCTATGCCGAATGCATACATA
1 TATATTTATCTATGCCGAATGCATACATA
46411911 TAT-TTATATCCACCTATGCCGAATGCATACATA
1 TATATT-TAT----CTATGCCGAATGCATACATA
46411944 TATATTTATCTAT
1 TATATTTATCTAT
46411957 CAATTGCTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
28 2 0.05
29 8 0.21
33 26 0.68
34 2 0.05
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.37
Consensus pattern (29 bp):
TATATTTATCTATGCCGAATGCATACATA
Found at i:46412214 original size:41 final size:41
Alignment explanation
Indices: 46412164--46412270 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
46412154 CCAGCTCTTG
*
46412164 AGCCTGCTAGACTTATAGTCCG-A-AATGTATCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAATAAT-T-TCACCGGCATTA
*
46412205 AGCCTGCTAGACGTATAGTCTGAATAATTTCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAATAATTTCACCGGCATTA
* *
46412246 AGCCTGCTAGACGTAAAGTCTGAAT
1 AGCCTGCTAGACGTATAGTCCGAAT
46412271 TATGTCACTG
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 56 0.92
42 2 0.03
43 3 0.05
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTATAGTCCGAATAATTTCACCGGCATTA
Found at i:46414277 original size:35 final size:35
Alignment explanation
Indices: 46414226--46414314 Score: 151
Period size: 35 Copynumber: 2.5 Consensus size: 35
46414216 TACTCTCTAT
*
46414226 TTGGCGTGTTTCGGTTGGATTAGCTCTTTTGAGCA
1 TTGGCGTGTTTTGGTTGGATTAGCTCTTTTGAGCA
*
46414261 TTGGTGTGTTTTGGTTGGATTAGCTCTTTTGAGCA
1 TTGGCGTGTTTTGGTTGGATTAGCTCTTTTGAGCA
*
46414296 ATGGCGTGTTTTGGTTGGA
1 TTGGCGTGTTTTGGTTGGA
46414315 CTAACTTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.11, C:0.10, G:0.34, T:0.45
Consensus pattern (35 bp):
TTGGCGTGTTTTGGTTGGATTAGCTCTTTTGAGCA
Found at i:46423935 original size:16 final size:17
Alignment explanation
Indices: 46423914--46423946 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
46423904 CACATTGAAG
46423914 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
46423930 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
46423947 CTTCTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:46424896 original size:32 final size:32
Alignment explanation
Indices: 46424805--46424944 Score: 142
Period size: 32 Copynumber: 4.4 Consensus size: 32
46424795 GAATGGTTAC
* * **
46424805 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGACCGGCACA
* * **
46424836 AAGCCATCAGTAGCAGT-GCATGACCGGCACA
1 AAGCCATCAGTAACGGTAATATGACCGGCACA
46424867 CAA-CCATCAGTAACGGTAATATGACCGGCACA
1 -AAGCCATCAGTAACGGTAATATGACCGGCACA
* ** *
46424899 AAGCCATTAGTAACGGTAATATGATTGGCATA
1 AAGCCATCAGTAACGGTAATATGACCGGCACA
46424931 AAGCCATCAGTAAC
1 AAGCCATCAGTAAC
46424945 ATCGCAACAA
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
31 34 0.38
32 56 0.62
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGACCGGCACA
Found at i:46424974 original size:26 final size:26
Alignment explanation
Indices: 46424945--46424998 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
46424935 CATCAGTAAC
*
46424945 ATCGCAACAAAGCTGCC-AGTAATAGT
1 ATCGCAACAAAGCTACCTA-TAATAGT
*
46424971 ATCGCAGCAAAGCTACCTATAATAGT
1 ATCGCAACAAAGCTACCTATAATAGT
46424997 AT
1 AT
46424999 ATGTGGCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (26 bp):
ATCGCAACAAAGCTACCTATAATAGT
Found at i:46425171 original size:24 final size:24
Alignment explanation
Indices: 46425113--46425197 Score: 107
Period size: 24 Copynumber: 3.5 Consensus size: 24
46425103 CCATGCTCAG
** *
46425113 AATCAGTCATACAAATCACAGATA
1 AATCAGTCATTTAAATCACAGAAA
*
46425137 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCACAGAAA
* *
46425161 AATCAGTCATTTACATCACGGAAA
1 AATCAGTCATTTAAATCACAGAAA
*
46425185 AATCAATCATTTA
1 AATCAGTCATTTA
46425198 CACTCGAGGG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGAAA
Found at i:46425292 original size:27 final size:27
Alignment explanation
Indices: 46425220--46425441 Score: 178
Period size: 27 Copynumber: 8.2 Consensus size: 27
46425210 AAAATAGTAA
* * * *
46425220 TTTACCCTCTAGGGGCATTATGGTTAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* * * * * *
46425247 TTTACCTTACATGGATATTTCGGTAAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* * *
46425274 TTAACCCTATGGGGGTATTACGATCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* *
46425301 TTTACCCTATAGGGGCATTACGATCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* * * *
46425328 TTTACCCTAT-GAGGGTTTTTCAGTCAC
1 TTTACCCTATAG-GGGTATTACGGTCAT
*
46425355 TTTACCCTACAGGGGTATTACGGTCAT
1 TTTACCCTATAGGGGTATTACGGTCAT
* * * *
46425382 TTTACCCAACAGGGGCATTATGGTC-T
1 TTTACCCTATAGGGGTATTACGGTCAT
* *
46425408 TTCTACCCTAGAGGGGCATTACGGTCAT
1 TT-TACCCTATAGGGGTATTACGGTCAT
46425436 TTTACC
1 TTTACC
46425442 TATTTTAGGG
Statistics
Matches: 153, Mismatches: 38, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
26 4 0.03
27 145 0.95
28 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
TTTACCCTATAGGGGTATTACGGTCAT
Found at i:46425314 original size:81 final size:81
Alignment explanation
Indices: 46425220--46425417 Score: 213
Period size: 81 Copynumber: 2.4 Consensus size: 81
46425210 AAAATAGTAA
* * * *
46425220 TTTACCCTCTAGGGGCATTATGGTTATTTTACCTTA-CATGGATATTTCGGT-AATTTAACCCTA
1 TTTACCCTATAGGGGCATTATGGTCATTTTACCCTATCA-GGATATTTCAGTCAATTT-ACCCTA
**
46425283 TGGGGGTATTACGATCAT
64 CAGGGGTATTACGATCAT
* * * * * *
46425301 TTTACCCTATAGGGGCATTACGATCATTTTACCCTATGAGGGTTTTTCAGTCACTTTACCCTACA
1 TTTACCCTATAGGGGCATTATGGTCATTTTACCCTATCAGGATATTTCAGTCAATTTACCCTACA
*
46425366 GGGGTATTACGGTCAT
66 GGGGTATTACGATCAT
* *
46425382 TTTACCCAACAGGGGCATTATGGTC-TTTCTACCCTA
1 TTTACCCTATAGGGGCATTATGGTCATTT-TACCCTA
46425418 GAGGGGCATT
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 3 0.03
81 89 0.92
82 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (81 bp):
TTTACCCTATAGGGGCATTATGGTCATTTTACCCTATCAGGATATTTCAGTCAATTTACCCTACA
GGGGTATTACGATCAT
Found at i:46441892 original size:26 final size:26
Alignment explanation
Indices: 46441863--46441926 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
46441853 CGCAAATCAA
46441863 TCATTTACCCTCGAGGAGCAAAATAG
1 TCATTTACCCTCGAGGAGCAAAATAG
46441889 TCATTTACCCTCGAGGAGCAAAATAG
1 TCATTTACCCTCGAGGAGCAAAATAG
46441915 TCATTTACCCTC
1 TCATTTACCCTC
46441927 TAGGGCATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (26 bp):
TCATTTACCCTCGAGGAGCAAAATAG
Found at i:46448695 original size:29 final size:28
Alignment explanation
Indices: 46448659--46448736 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
46448649 TCATGAGATT
46448659 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
46448689 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
46448716 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
46448737 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:46453093 original size:59 final size:59
Alignment explanation
Indices: 46453028--46453215 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 59
46453018 ATTTTATTAA
46453028 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * * * ** * * * *
46453087 ATCATATATTATGATTTTAGTA-AATTCATA-TAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCA-AATTA-TATTTTA-TAGT
* * * *
46453147 ATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTTTATAGT
46453206 ATCATATATT
1 ATCATATATT
46453216 ATGATTTGAG
Statistics
Matches: 91, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
57 5 0.05
58 10 0.11
59 36 0.40
60 25 0.27
61 10 0.11
62 4 0.04
63 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:46453142 original size:119 final size:120
Alignment explanation
Indices: 46453017--46453305 Score: 483
Period size: 119 Copynumber: 2.4 Consensus size: 120
46453007 AATTATTTTA
*
46453017 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
* * * *
46453082 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
* *
46453136 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
46453200 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
*
46453256 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
46453306 GTTTAAATAT
Statistics
Matches: 159, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
119 108 0.68
120 51 0.32
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
Found at i:46453163 original size:18 final size:18
Alignment explanation
Indices: 46453137--46453192 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
46453127 GATTATTAGA
46453137 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
46453154 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
46453170 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
46453184 ATTTTAATT
1 ATTTTAATT
46453193 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:46453273 original size:59 final size:58
Alignment explanation
Indices: 46453091--46453273 Score: 137
Period size: 56 Copynumber: 3.1 Consensus size: 58
46453081 TATAGTATCA
* *
46453091 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAAAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
46453149 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAA-AAATATTATTATTAA--GA-ATTTTATTA-AAT
*
46453208 CATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAAAATATT-ATTATTAAGAATTTTATTAAAT
46453269 TATAT
1 TATAT
46453274 ATTTTAATTA
Statistics
Matches: 93, Mismatches: 15, Indels: 33
0.66 0.11 0.23
Matches are distributed among these distances:
55 7 0.08
56 13 0.14
57 9 0.10
58 6 0.06
59 13 0.14
61 12 0.13
62 12 0.13
63 12 0.13
64 9 0.10
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAAAATATTATTATTAAGAATTTTATTAAAT
Found at i:46453285 original size:18 final size:17
Alignment explanation
Indices: 46453257--46453291 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46453247 ATTATTAAGA
*
46453257 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46453274 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46453292 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46453399 original size:147 final size:149
Alignment explanation
Indices: 46453245--46453519 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
46453235 ATAAAAATAT
*
46453245 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
46453310 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
46453373 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
46453392 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
46453457 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
46453520 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:46453432 original size:18 final size:17
Alignment explanation
Indices: 46453404--46453438 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46453394 ATTATTAAGA
*
46453404 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46453421 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46453439 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46453690 original size:45 final size:44
Alignment explanation
Indices: 46453600--46453694 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
46453590 TTACACCTCT
* ** *
46453600 ATTACATTCAACCAAACACAGTTTTACTATTATGCCTCTATTCC
1 ATTACATTCAACCAAACACAGATTTACTATTACACATCTATTCC
** *
46453644 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACA-CAGATTTACTATTACACATCTATTCC
46453689 ATTACA
1 ATTACA
46453695 CCTCTAATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGATTTACTATTACACATCTATTCC
Found at i:46453694 original size:16 final size:16
Alignment explanation
Indices: 46453675--46453742 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
46453665 GATTTGCTAT
* * *
46453675 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
46453691 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46453707 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46453723 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46453739 TACA
1 TACA
46453743 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:46461663 original size:29 final size:28
Alignment explanation
Indices: 46461627--46461704 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
46461617 TCATGAGATT
46461627 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
46461657 -GCACTAAGTGTACGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
46461684 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
46461705 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:46461922 original size:174 final size:174
Alignment explanation
Indices: 46461657--46461984 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
46461647 AAATTGTACA
* *
46461657 GCACTAAGTGTACGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTACAAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
46461722 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCGA
*
46461787 TTTTGGACAGCGGGAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
** *
46461831 GCACTAAGTGTGTAAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTACAAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
46461896 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCTA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCGA
46461961 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
46461985 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTACAAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:46468755 original size:20 final size:20
Alignment explanation
Indices: 46468730--46468768 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
46468720 TTTTTATATA
46468730 TATTATAATATTT-AATAAAT
1 TATTATAAT-TTTAAATAAAT
*
46468750 TATTATTATTTTAAATAAA
1 TATTATAATTTTAAATAAA
46468769 ATGTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTATAATTTTAAATAAAT
Found at i:46472907 original size:45 final size:45
Alignment explanation
Indices: 46472857--46473001 Score: 256
Period size: 45 Copynumber: 3.2 Consensus size: 45
46472847 TGATGCCATA
46472857 GTCTTACTCACTTTTATCATGATATCATAACATTTTTCGGCTATG
1 GTCTTACTCACTTTTATCATGATATCATAACATTTTTCGGCTATG
46472902 GTCTTACTCACTTTTATCATGATATCATAACATTTTTCGGCTATG
1 GTCTTACTCACTTTTATCATGATATCATAACATTTTTCGGCTATG
* *
46472947 GTCTTACTCTCTTTTATCATGATATCATAACATCTTTT-AGCTATG
1 GTCTTACTCACTTTTATCATGATATCATAACAT-TTTTCGGCTATG
46472992 GTCTTACTCA
1 GTCTTACTCA
46473002 TTATTTTTGT
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
45 92 0.96
46 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (45 bp):
GTCTTACTCACTTTTATCATGATATCATAACATTTTTCGGCTATG
Found at i:46473876 original size:26 final size:26
Alignment explanation
Indices: 46473840--46473892 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
46473830 CATTGCCACC
46473840 ATTCAATCCTAATTATTATGTCTCTT
1 ATTCAATCCTAATTATTATGTCTCTT
46473866 ATTCAATCCTAATTATTATGTCTCTT
1 ATTCAATCCTAATTATTATGTCTCTT
46473892 A
1 A
46473893 CTTTGGACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (26 bp):
ATTCAATCCTAATTATTATGTCTCTT
Found at i:46478099 original size:27 final size:27
Alignment explanation
Indices: 46478069--46478123 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
46478059 ATCATAAAAG
*
46478069 AACATATTTAATGGTATAGCTAACTGA
1 AACATATCTAATGGTATAGCTAACTGA
46478096 AACATATCTAATGGTATAGCTAACTGA
1 AACATATCTAATGGTATAGCTAACTGA
46478123 A
1 A
46478124 GTCACCTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (27 bp):
AACATATCTAATGGTATAGCTAACTGA
Found at i:46481427 original size:24 final size:24
Alignment explanation
Indices: 46481383--46481431 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
46481373 AGGACTGGAC
*
46481383 CGTCGGAGGAAGTGGTGGTTGTTG
1 CGTCGGAGGAACTGGTGGTTGTTG
*
46481407 CGTCGGAGGCAACT-GTTGTTGTTG
1 CGTCGGAGG-AACTGGTGGTTGTTG
46481431 C
1 C
46481432 TGCAGTGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.12, C:0.14, G:0.43, T:0.31
Consensus pattern (24 bp):
CGTCGGAGGAACTGGTGGTTGTTG
Found at i:46481519 original size:3 final size:3
Alignment explanation
Indices: 46481511--46481537 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46481501 ACCACTGGGA
46481511 GGT GGT GGT GGT GGT GGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT
46481538 AGTAGTAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:46483051 original size:16 final size:16
Alignment explanation
Indices: 46483032--46483081 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
46483022 TATTTTTGAA
46483032 TAACATTTAAATAATT
1 TAACATTTAAATAATT
* *
46483048 TAACA-TAATAATAAAT
1 TAACATTTA-AATAATT
*
46483064 T-ATATTTAAATAATT
1 TAACATTTAAATAATT
46483079 TAA
1 TAA
46483082 TATAATAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
TAACATTTAAATAATT
Found at i:46483073 original size:31 final size:30
Alignment explanation
Indices: 46483036--46483104 Score: 102
Period size: 31 Copynumber: 2.3 Consensus size: 30
46483026 TTTGAATAAC
*
46483036 ATTTAAATAATTTAACATAATAATAAATTA
1 ATTTAAATAATTTAACATAATAAAAAATTA
*
46483066 TATTTAAATAATTTAATATAATAAAAAATTA
1 -ATTTAAATAATTTAACATAATAAAAAATTA
*
46483097 ATCTAAAT
1 ATTTAAAT
46483105 TTATAAATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 7 0.20
31 28 0.80
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (30 bp):
ATTTAAATAATTTAACATAATAAAAAATTA
Found at i:46483487 original size:16 final size:17
Alignment explanation
Indices: 46483454--46483487 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
46483444 TATTCTCTCA
*
46483454 ATTCTCTCAAATTATTT
1 ATTCTCTCAAACTATTT
46483471 ATTCTCTC-AACTATTT
1 ATTCTCTCAAACTATTT
46483487 A
1 A
46483488 GTTCCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTCTCTCAAACTATTT
Found at i:46484775 original size:19 final size:19
Alignment explanation
Indices: 46484748--46484784 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46484738 AATGGGAAGT
*
46484748 GAAAGGATGAAGAATGAGA
1 GAAAAGATGAAGAATGAGA
*
46484767 GAAAAGATGACGAATGAG
1 GAAAAGATGAAGAATGAG
46484785 GGATGAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.35, T:0.11
Consensus pattern (19 bp):
GAAAAGATGAAGAATGAGA
Found at i:46492357 original size:16 final size:16
Alignment explanation
Indices: 46492336--46492366 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46492326 AAACAACAAC
*
46492336 TATGTTTTCAAAATTG
1 TATGTTTTAAAAATTG
46492352 TATGTTTTAAAAATT
1 TATGTTTTAAAAATT
46492367 TCTATTGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (16 bp):
TATGTTTTAAAAATTG
Found at i:46503364 original size:17 final size:18
Alignment explanation
Indices: 46503334--46503380 Score: 69
Period size: 17 Copynumber: 2.6 Consensus size: 18
46503324 TTTAATTAGT
*
46503334 ATAAAATATTAATAATTAA
1 ATAAAAT-TAAATAATTAA
46503353 AT-AAATTAAATAATTAA
1 ATAAAATTAAATAATTAA
46503370 ATAAAATTAAA
1 ATAAAATTAAA
46503381 ATTTAAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAATTAAATAATTAA
Found at i:46503367 original size:8 final size:8
Alignment explanation
Indices: 46503344--46503373 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
46503334 ATAAAATATT
46503344 AATAATTA
1 AATAATTA
46503352 AATAAATTA
1 AAT-AATTA
46503361 AATAATTA
1 AATAATTA
46503369 AATAA
1 AATAA
46503374 AATTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATTA
Found at i:46506684 original size:18 final size:18
Alignment explanation
Indices: 46506661--46506698 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
46506651 CCGAGTTGCC
46506661 ATGAGCTTATTCGTAACA
1 ATGAGCTTATTCGTAACA
46506679 ATGAGCTTATTCGTAACA
1 ATGAGCTTATTCGTAACA
46506697 AT
1 AT
46506699 ATAAACATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (18 bp):
ATGAGCTTATTCGTAACA
Found at i:46514000 original size:10 final size:10
Alignment explanation
Indices: 46513953--46514005 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
46513943 GTTCAAATAT
*
46513953 ATCAAAAATA
1 ATCAAAATTA
46513963 ATCAAAATTA
1 ATCAAAATTA
46513973 ATCAAAATTA
1 ATCAAAATTA
*
46513983 ATTATAAAATTA
1 A-T-CAAAATTA
*
46513995 ATTAAAATTA
1 ATCAAAATTA
46514005 A
1 A
46514006 ACATATTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
10 29 0.74
11 2 0.05
12 8 0.21
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (10 bp):
ATCAAAATTA
Found at i:46517894 original size:59 final size:61
Alignment explanation
Indices: 46517823--46517939 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
46517813 ATCACTTTAA
* * * * *
46517823 TATTAAATTAATATAATATTTATC-A-ATATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTACAGATAAACATTAAATTAAATTTAATATTAAATCT
*
46517882 TATTAAAATAATAGAATATTTATCTACTAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATCTAC-AGATAAACATTAAATTAAATTTAATATTAA
46517940 GATAATAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
62 26 0.53
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTATCTACAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:46517965 original size:20 final size:19
Alignment explanation
Indices: 46517918--46517967 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
46517908 CTAGATAAAC
46517918 ATTAAATT--TAATTTAAT
1 ATTAAATTAATAATTTAAT
46517935 ATTAAGA-TAATAATTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
46517955 ATTAAATTAATAA
1 ATTAAATTAATAA
46517968 AATACTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 1 0.04
19 4 0.14
20 17 0.61
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:46517971 original size:25 final size:25
Alignment explanation
Indices: 46517924--46517971 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
46517914 AAACATTAAA
*
46517924 TTTAATTTAATATTAAGATAATAAT
1 TTTAATTTAATATTAAGAAAATAAT
*
46517949 TTTAATATTAA-ATTAATAAAATA
1 TTTAAT-TTAATATTAAGAAAATA
46517972 CTATAAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATAAT
Found at i:46521975 original size:29 final size:30
Alignment explanation
Indices: 46521912--46521979 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
46521902 TAATCAACCG
46521912 CGCACACTTAGTGCCATGCACTTTAAACTT
1 CGCACACTTAGTGCCATGCACTTTAAACTT
* * *
46521942 -ACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTTAAACTT
46521970 CGCACACTTA
1 CGCACACTTA
46521980 CCTTTCCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 7 0.21
29 26 0.79
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (30 bp):
CGCACACTTAGTGCCATGCACTTTAAACTT
Found at i:46522094 original size:173 final size:174
Alignment explanation
Indices: 46521801--46522127 Score: 548
Period size: 173 Copynumber: 1.9 Consensus size: 174
46521791 AACTCAAGGT
* * *
46521801 ACTTACCTTTTCCACTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTCCCACTGTCCAAAATTCACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
46521866 GAAAATATATATTGGGTTCGGACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
46521931 ACTTTAAACTTACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
46521975 ACTTACCTTTCCCGCTGTCCAAAA-TCACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTCCCACTGTCCAAAATTCACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
46522039 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGTACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
46522104 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
46522128 TGTACAATTT
Statistics
Matches: 142, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
173 120 0.85
174 22 0.15
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTCCCACTGTCCAAAATTCACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:46522122 original size:29 final size:30
Alignment explanation
Indices: 46522088--46522158 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 30
46522078 TCAACCACGT
*
46522088 ACACTTAGTGCCATGTAC-TTTAAACTCGC
1 ACACTTAGTGCCATGTACATTTAAACCCGC
46522117 ACACTTAGTG-C-TGTACAATTTAAACCCGC
1 ACACTTAGTGCCATGTAC-ATTTAAACCCGC
46522146 ACACTTAGTGCCA
1 ACACTTAGTGCCA
46522159 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (30 bp):
ACACTTAGTGCCATGTACATTTAAACCCGC
Found at i:46529890 original size:16 final size:16
Alignment explanation
Indices: 46529869--46529927 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
46529859 ATGATTATTG
46529869 TTAGAGGTGTATTGGA
1 TTAGAGGTGTATTGGA
46529885 TTAGAGGTGTATTGGA
1 TTAGAGGTGTATTGGA
*
46529901 TTAGAGGTGTAATGGA
1 TTAGAGGTGTATTGGA
* *
46529917 ATAGATGTGTA
1 TTAGAGGTGTA
46529928 ATAGCAAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (16 bp):
TTAGAGGTGTATTGGA
Found at i:46529959 original size:45 final size:42
Alignment explanation
Indices: 46529908--46530000 Score: 114
Period size: 42 Copynumber: 2.1 Consensus size: 42
46529898 GGATTAGAGG
* **
46529908 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAA-AGCAAA--AACTGTTTGGTTGAA
* *
46529953 TGTAATGGAATAGAGGCATAAAGTAAAAAGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAAAGCAAAAACTGTTTGGTTGAA
46529995 TGTAAT
1 TGTAAT
46530001 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 20 0.47
44 5 0.12
45 18 0.42
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAATGGAATAGAGGCATAAAGCAAAAACTGTTTGGTTGAA
Found at i:46530166 original size:17 final size:18
Alignment explanation
Indices: 46530119--46530166 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 18
46530109 ATTATCAAAA
46530119 TAAATA-ATTTAA-TATT
1 TAAATATATTTAATTATT
* *
46530135 TAAACATAATT-ATTATT
1 TAAATATATTTAATTATT
46530152 T-AATATATTTAATTA
1 TAAATATATTTAATTA
46530167 AAATATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATATATTTAATTATT
Found at i:46530174 original size:17 final size:16
Alignment explanation
Indices: 46530154--46530196 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
46530144 TTATTATTTA
*
46530154 ATATATTTAATTAAAAT
1 ATATAATTAA-TAAAAT
46530171 ATATAATTAATAAAAT
1 ATATAATTAATAAAAT
*
46530187 CTAATAATTA
1 AT-ATAATTA
46530197 GCAGAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATTAATAAAAT
Found at i:46530317 original size:14 final size:15
Alignment explanation
Indices: 46530270--46530319 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 15
46530260 ATTTACTCAT
*
46530270 ATTAAACATAA-TTA
1 ATTAAATATAATTTA
*
46530284 ATTAAATAT-TTTTA
1 ATTAAATATAATTTA
46530298 ATTAAATATAATTTA
1 ATTAAATATAATTTA
*
46530313 ATAAAAT
1 ATTAAAT
46530320 TCTAATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAAATATAATTTA
Found at i:46530329 original size:28 final size:29
Alignment explanation
Indices: 46530268--46530330 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
46530258 TAATTTACTC
* *
46530268 ATATTAAACATAATTAATTAAATATTTTT
1 ATATTAAACATAATTAATTAAATATTCTA
*
46530297 A-ATTAAATATAATTTAA-TAAA-ATTCTA
1 ATATTAAACATAA-TTAATTAAATATTCTA
46530324 ATATTAA
1 ATATTAA
46530331 TATTTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 5 0.17
28 19 0.66
29 5 0.17
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (29 bp):
ATATTAAACATAATTAATTAAATATTCTA
Found at i:46530379 original size:105 final size:107
Alignment explanation
Indices: 46530270--46530533 Score: 305
Period size: 105 Copynumber: 2.5 Consensus size: 107
46530260 ATTTACTCAT
*
46530270 ATTAAACATAATTAATTAAATATTTTTAATT-AAATATAATTTAATAAAATTCTAAT-ATTAATA
1 ATTAAA-ATAATTAATTAAATATTTTTAATTAAAATATAATTTAATAAAATTCTAATAATCAATA
* * *
46530333 T-TTATAT-ATTTACTCAAATC-ATAATATGATACTGTAAATAA-A
65 TCTTATATGAATTACTAAAATCAATAAAATGATAC--TAAA-AATA
*
46530375 ATTAAAAAATAATT-ATTAAATA-TATTAATTAAAATATAATTTAATAAAA-TCTAATAATCAAT
1 ATT--AAAATAATTAATTAAATATTTTTAATTAAAATATAATTTAATAAAATTCTAATAATCAAT
46530437 ATCTTATATGAATTACTAAAATCAATAAAATGATACTAAAAATA
64 ATCTTATATGAATTACTAAAATCAATAAAATGATACTAAAAATA
** *
46530481 ATTTGAATAATTAAATT-AATATATTTAATTAAAATATATGATTTAATAAAATT
1 ATTAAAATAATT-AATTAAATATTTTTAATTAAAATATA--ATTTAATAAAATT
46530534 TAAAATAATC
Statistics
Matches: 136, Mismatches: 9, Indels: 24
0.80 0.05 0.14
Matches are distributed among these distances:
104 20 0.15
105 42 0.31
106 37 0.27
107 14 0.10
108 22 0.16
109 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (107 bp):
ATTAAAATAATTAATTAAATATTTTTAATTAAAATATAATTTAATAAAATTCTAATAATCAATAT
CTTATATGAATTACTAAAATCAATAAAATGATACTAAAAATA
Found at i:46530418 original size:16 final size:15
Alignment explanation
Indices: 46530374--46530429 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 15
46530364 CTGTAAATAA
*
46530374 AATTAAAAAATAATT
1 AATTAAAATATAATT
46530389 -ATT-AAATAT-ATT
1 AATTAAAATATAATT
46530401 AATTAAAATATAATTT
1 AATTAAAATATAA-TT
*
46530417 AA-TAAAATCTAAT
1 AATTAAAATATAAT
46530430 AATCAATATC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 3 0.09
13 8 0.23
14 10 0.29
15 10 0.29
16 4 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTAAAATATAATT
Found at i:46530424 original size:15 final size:16
Alignment explanation
Indices: 46530374--46530429 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 16
46530364 CTGTAAATAA
*
46530374 AATTAAAAAATAA-TT
1 AATTAAAATATAATTT
46530389 -ATT-AAATAT-A-TT
1 AATTAAAATATAATTT
46530401 AATTAAAATATAATTT
1 AATTAAAATATAATTT
*
46530417 AA-TAAAATCTAAT
1 AATTAAAATATAAT
46530430 AATCAATATC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 3 0.09
13 8 0.23
14 9 0.26
15 11 0.31
16 4 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAAATATAATTT
Found at i:46530509 original size:18 final size:18
Alignment explanation
Indices: 46530488--46530533 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
46530478 ATAATTTGAA
46530488 TAATTAAATTAATAT-ATT
1 TAATTAAATT-ATATGATT
*
46530506 TAATTAAAATATATGATT
1 TAATTAAATTATATGATT
*
46530524 TAATAAAATT
1 TAATTAAATT
46530534 TAAAATAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAATTAAATTATATGATT
Found at i:46545082 original size:21 final size:22
Alignment explanation
Indices: 46545058--46545099 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
46545048 TATATATATA
46545058 TATGT-ATATTTATTGTTTTCT
1 TATGTAATATTTATTGTTTTCT
*
46545079 TATGTACATATTTATTTTTTT
1 TATGTA-ATATTTATTGTTTT
46545100 TCAACTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
23 13 0.72
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (22 bp):
TATGTAATATTTATTGTTTTCT
Found at i:46550278 original size:22 final size:24
Alignment explanation
Indices: 46550226--46550279 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
46550216 TTTTTTATGA
*
46550226 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATCCT
*
46550251 TGAAATTATTG-TATT-ATATCCT
1 TTAAATTATTGTTATTAATATCCT
46550273 TTAAATT
1 TTAAATT
46550280 GAATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 12 0.46
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATCCT
Found at i:46551923 original size:25 final size:25
Alignment explanation
Indices: 46551889--46551942 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
46551879 TAAATATAGG
* *
46551889 TTTAATATAT-TATTTAGTATTTAAA
1 TTTAATATATATATATA-TATTAAAA
46551914 TTTAATATATATATATATATTAAAA
1 TTTAATATATATATATATATTAAAA
46551939 TTTA
1 TTTA
46551943 GTACCTGTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTAATATATATATATATATTAAAA
Found at i:46553232 original size:13 final size:12
Alignment explanation
Indices: 46553191--46553256 Score: 50
Period size: 13 Copynumber: 5.6 Consensus size: 12
46553181 TAGATTTTCC
46553191 CTAAATATTATCA
1 CTAAATATTAT-A
* *
46553204 CCAAATA--ATT
1 CTAAATATTATA
46553214 CTAAATATTATCA
1 CTAAATATTAT-A
*
46553227 CTAAATA--ATT
1 CTAAATATTATA
46553237 CTAAATATTATTA
1 CTAAATATTA-TA
46553250 CTAAATA
1 CTAAATA
46553257 ATTTGAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
10 13 0.32
11 4 0.10
12 3 0.07
13 21 0.51
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (12 bp):
CTAAATATTATA
Found at i:46553265 original size:23 final size:23
Alignment explanation
Indices: 46553191--46553259 Score: 120
Period size: 23 Copynumber: 3.0 Consensus size: 23
46553181 TAGATTTTCC
*
46553191 CTAAATATTATCACCAAATAATT
1 CTAAATATTATCACTAAATAATT
46553214 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
46553237 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAATAATT
46553260 TGAAATTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:46560622 original size:103 final size:104
Alignment explanation
Indices: 46560438--46560632 Score: 284
Period size: 103 Copynumber: 1.9 Consensus size: 104
46560428 ATAAGATCGG
* * * * *
46560438 AGGTTGCGAGCTTAACTTTACTAACCTTTAATAACCAGCTGGGAGCGTAGGTTTGCTAGTTGTCT
1 AGGTTGCGAGCTTAACTCTACTAACCTTTAATAACCAGCTAGGAGCATAGGTCTACTAGTTGTCT
*
46560503 GGGAGTTGCAATCTTAACTCTGCTAACTCAAAAGACCAA
66 GGGAGTTGCAAGCTTAACTCTGCTAACTCAAAAGACCAA
* * *
46560542 AGGTTGCGAGCTTAACTCTACTAACC-TTAATAATCAGTTAGGAGCATAGGTCTACTAGTTGTTT
1 AGGTTGCGAGCTTAACTCTACTAACCTTTAATAACCAGCTAGGAGCATAGGTCTACTAGTTGTCT
* *
46560606 GGGAGTTGCGAGCTTAACTCTTCTAAC
66 GGGAGTTGCAAGCTTAACTCTGCTAAC
46560633 CTTAATAATC
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
103 55 0.69
104 25 0.31
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (104 bp):
AGGTTGCGAGCTTAACTCTACTAACCTTTAATAACCAGCTAGGAGCATAGGTCTACTAGTTGTCT
GGGAGTTGCAAGCTTAACTCTGCTAACTCAAAAGACCAA
Found at i:46560658 original size:66 final size:66
Alignment explanation
Indices: 46560544--46560722 Score: 233
Period size: 66 Copynumber: 2.8 Consensus size: 66
46560534 AAGACCAAAG
* * * *
46560544 GTTGCGAGCTTAACTCTACTAACCTTAATAATCAGTTAGGAGCATAGGTCTACTAGTTGTTTGGG
1 GTTGCGAGCTTAACTCTACTAACCTTAATAATCAGTTGGGAGCGTAGGTCTACTAGCTGTCTGGG
46560609 A
66 A
* ** *
46560610 GTTGCGAGCTTAACTCTTCTAACCTTAATAATCAACTGGGA-CTGTAGGTCCACTAGCTGTCTGG
1 GTTGCGAGCTTAACTCTACTAACCTTAATAATCAGTTGGGAGC-GTAGGTCTACTAGCTGTCTGG
46560674 GA
65 GA
*
46560676 GTT----GCTTAACTCTGCTAACCTTAATAATCAGTTGGGAGCGTAGGTCT
1 GTTGCGAGCTTAACTCTACTAACCTTAATAATCAGTTGGGAGCGTAGGTCT
46560723 GCAAGTTTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
62 38 0.38
63 1 0.01
65 1 0.01
66 59 0.60
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (66 bp):
GTTGCGAGCTTAACTCTACTAACCTTAATAATCAGTTGGGAGCGTAGGTCTACTAGCTGTCTGGG
A
Found at i:46561764 original size:72 final size:72
Alignment explanation
Indices: 46561643--46561785 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 72
46561633 TGATGTCCGA
* * * *
46561643 ACTTAGTGTCTTTTCAATTTAGAGACAATAGTGCTTTTTGGGGCAACTGTTGTTTCTTCTTGGAA
1 ACTTAGTGTCTTTTCAATTTAGAGACAACAGTGCTTTTTGGGGCAACTGTTGGTTCTTCGTAGAA
46561708 GACATCT
66 GACATCT
* **
46561715 ACTTAGTGTCTTTTCAGTTTAGAGACAACAGTGCTTTTTGGGGTGACTGTTGGTTCTTCGTAGAA
1 ACTTAGTGTCTTTTCAATTTAGAGACAACAGTGCTTTTTGGGGCAACTGTTGGTTCTTCGTAGAA
46561780 GACATC
66 GACATC
46561786 ATGGTTAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.40
Consensus pattern (72 bp):
ACTTAGTGTCTTTTCAATTTAGAGACAACAGTGCTTTTTGGGGCAACTGTTGGTTCTTCGTAGAA
GACATCT
Found at i:46563553 original size:29 final size:28
Alignment explanation
Indices: 46563517--46563586 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 28
46563507 TCATGAGATT
*
46563517 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
46563547 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
46563574 TGGCACTAAGTGT
1 -GGCACTAAGTGT
46563587 ACGTGGTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 5 0.14
29 32 0.86
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:46563812 original size:174 final size:174
Alignment explanation
Indices: 46563547--46563874 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
46563537 AAATTGTACA
* *
46563547 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTACGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCAAGTTTAAAGTACATGGCACTAAGTGTACGCGGTTGATTATTAAGCACTATG
* *
46563612 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
*
46563677 TTTTGGACAGCGGGAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
46563721 GCACTAAGTGTGTAAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCAAGTTTAAAGTACATGGCACTAAGTGTACGCGGTTGATTATTAAGCACTATG
*
46563786 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
46563851 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
46563875 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCAAGTTTAAAGTACATGGCACTAAGTGTACGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:46583052 original size:10 final size:10
Alignment explanation
Indices: 46583037--46583072 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
46583027 AATATTTAGA
46583037 ATAAAAATTT
1 ATAAAAATTT
46583047 ATAAAAA-TT
1 ATAAAAATTT
46583056 ATTAAAAATTT
1 A-TAAAAATTT
46583067 ATAAAA
1 ATAAAA
46583073 CTCTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 3 0.12
10 18 0.75
11 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:46593542 original size:99 final size:99
Alignment explanation
Indices: 46593419--46593667 Score: 419
Period size: 99 Copynumber: 2.5 Consensus size: 99
46593409 TTAGCCTGAT
* * *
46593419 CTTAAACAACAATTAATCTAAATAAGCATTTTCAAAACTATAACCAGTTTTACGAA-TCCGGATG
1 CTTAAACAACAATTAATCTAAATAAGCATTTTCAAAACTATAAGCAGTTTCACGAATTCAGG-TG
**
46593483 TGGTCTGTACTCGGCCGCCGATTCACGAATCCTGC
65 TGGTCTGTACTCGGCCGCCGATTCACGAATCAGGC
*
46593518 CTTAAACAACAATTAATCTGAATAAGCATTTTCAAAACTATAAGCAGTTTCACGAATTCAGGTGT
1 CTTAAACAACAATTAATCTAAATAAGCATTTTCAAAACTATAAGCAGTTTCACGAATTCAGGTGT
*
46593583 GGTCTGTACTTGGCCGCCGATTCACGAATCAGGC
66 GGTCTGTACTCGGCCGCCGATTCACGAATCAGGC
46593617 CTTAAACAACAATTAATCTAAATAAGCATTTTCAAAACTATAAGCAGTTTC
1 CTTAAACAACAATTAATCTAAATAAGCATTTTCAAAACTATAAGCAGTTTC
46593668 CGCATCTAAG
Statistics
Matches: 141, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
99 137 0.97
100 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (99 bp):
CTTAAACAACAATTAATCTAAATAAGCATTTTCAAAACTATAAGCAGTTTCACGAATTCAGGTGT
GGTCTGTACTCGGCCGCCGATTCACGAATCAGGC
Found at i:46593957 original size:22 final size:22
Alignment explanation
Indices: 46593932--46593976 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
46593922 GAGAAGAACA
* *
46593932 AGAAAAATTAGAGAGAAAGAAG
1 AGAAAAATTAAAGAAAAAGAAG
*
46593954 AGAATAATTAAAGAAAAAGAAG
1 AGAAAAATTAAAGAAAAAGAAG
46593976 A
1 A
46593977 ACAATAATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.11
Consensus pattern (22 bp):
AGAAAAATTAAAGAAAAAGAAG
Found at i:46594164 original size:44 final size:44
Alignment explanation
Indices: 46594080--46594164 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
46594070 GACTTAGAGT
** *
46594080 TAGACTTTAGTTTTAGTTTTAGTTTTATTGGGTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTAGTTGGATTGGGTGGATAATTGGG
*
46594124 TAGACTTTAGTTTTAGTTTTA-TTGGGTTGGGTTGGATAATT
1 TAGACTTTAGTTTTAGTTTTAGTTGGATTGGG-TGGATAATT
46594165 TTATTTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 7 0.19
44 29 0.81
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (44 bp):
TAGACTTTAGTTTTAGTTTTAGTTGGATTGGGTGGATAATTGGG
Found at i:46595585 original size:16 final size:16
Alignment explanation
Indices: 46595564--46595596 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46595554 TTCTCTATAT
46595564 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
46595580 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
46595596 T
1 T
46595597 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:46595847 original size:16 final size:15
Alignment explanation
Indices: 46595819--46595855 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
46595809 TTTAAACTTA
*
46595819 ATTATTATTAAATAT
1 ATTATAATTAAATAT
46595834 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
46595848 A-TATAATT
1 ATTATAATT
46595856 TAAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:46595858 original size:14 final size:14
Alignment explanation
Indices: 46595819--46595860 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
46595809 TTTAAACTTA
*
46595819 ATTATTATTAAATAT
1 ATTATAATTAAA-AT
46595834 ATTATAATTAAAAT
1 ATTATAATTAAAAT
46595848 A-TATAATTTAAAA
1 ATTATAA-TTAAAA
46595861 AAATTCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 9 0.36
15 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATAATTAAAAT
Found at i:46595978 original size:14 final size:15
Alignment explanation
Indices: 46595939--46595980 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46595929 ATTTAACATA
*
46595939 ATTATTATTAAATAT
1 ATTATAATTAAATAT
46595954 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
46595968 A-TATAATTTAATA
1 ATTATAATTAAATA
46595981 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:46596164 original size:120 final size:120
Alignment explanation
Indices: 46595808--46596134 Score: 548
Period size: 120 Copynumber: 2.7 Consensus size: 120
46595798 ATTTAATCGT
* *
46595808 ATTTAAACTTAATTATTATTAAATATATTATAATTAAAATATATAATTTAAAAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
46595873 ATTAATATTCTTATATGAATTTACTTAAATCATAATATATGATACTATAAAAGACA
65 ATTAATATTCTTATATGAATTTACTTAAATCATAATATATGATACTATAAAAGACA
46595929 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* * * *
46595994 TCAATATTCTTATATGAATTTATTTAAATCATAATATATGATACTATAAAATATA
66 TTAATATTCTTATATGAATTTACTTAAATCATAATATATGATACTATAAAAGACA
* * * *
46596049 ATTTAATATAATTATTATTAATTATATTGTAATTAAAATATATAATTTAATAAAATTATTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
46596114 TTAATATTCTTATAT-AATTTA
66 TTAATATTCTTATATGAATTTA
46596135 ATAAAACAAT
Statistics
Matches: 195, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
119 6 0.03
120 185 0.95
121 4 0.02
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTTAAATCATAATATATGATACTATAAAAGACA
Found at i:46601650 original size:13 final size:13
Alignment explanation
Indices: 46601632--46601665 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
46601622 GTAAAAATTT
46601632 AATATTTAATAAA
1 AATATTTAATAAA
46601645 AATATTTAATAAA
1 AATATTTAATAAA
*
46601658 AGTATTTA
1 AATATTTA
46601666 TTAGCTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
AATATTTAATAAA
Found at i:46605538 original size:22 final size:23
Alignment explanation
Indices: 46605510--46605554 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
46605500 ATGATGCCAT
* *
46605510 TATTTTTTTCTTTTA-ATTTTTC
1 TATTTTTTACCTTTATATTTTTC
46605532 TATTTTTTACCTTTATATTTTTC
1 TATTTTTTACCTTTATATTTTTC
46605555 CTTTCACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (23 bp):
TATTTTTTACCTTTATATTTTTC
Found at i:46605545 original size:23 final size:22
Alignment explanation
Indices: 46605513--46605554 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
46605503 ATGCCATTAT
*
46605513 TTTTTTCTTTTA-ATTTTTCTA
1 TTTTTTCCTTTATATTTTTCTA
46605534 TTTTTTACCTTTATATTTTTC
1 TTTTTT-CCTTTATATTTTTC
46605555 CTTTCACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTTCCTTTATATTTTTCTA
Found at i:46608503 original size:27 final size:28
Alignment explanation
Indices: 46608465--46608741 Score: 208
Period size: 27 Copynumber: 10.4 Consensus size: 28
46608455 CTTGGGCCAA
*
46608465 AAAATTACTGAAACACCCTCG-AGGAGT
1 AAAATTACTGAAATACCCTCGAAGGAGT
* *
46608492 AAAATTACTGAAATTCCCTTGAAGG-GT
1 AAAATTACTGAAATACCCTCGAAGGAGT
* *
46608519 AAAATTACCGCAATACCCTCGAAAGGA--
1 AAAATTACTGAAATACCCTCG-AAGGAGT
* *
46608546 AAAATTACTGAAATAACTTCGAAGG-GT
1 AAAATTACTGAAATACCCTCGAAGGAGT
*
46608573 GAAATTA-TCGAAATACCCTCGAAGG-GT
1 AAAATTACT-GAAATACCCTCGAAGGAGT
* * *
46608600 ---GTTA-TCAAAATACCCCCGAAGG-GT
1 AAAATTACT-GAAATACCCTCGAAGGAGT
* * *
46608624 AATATTACCGAAATACCCTTGAAGG-GT
1 AAAATTACTGAAATACCCTCGAAGGAGT
* *
46608651 AAAATTACCGAAATACTCTCGAAGG-GT
1 AAAATTACTGAAATACCCTCGAAGGAGT
** * *
46608678 AAAATTACCAAAATACCCCCGAA-AAGT
1 AAAATTACTGAAATACCCTCGAAGGAGT
* *
46608705 AAAATTATTGAAATACCCTGGAAGG-GT
1 AAAATTACTGAAATACCCTCGAAGGAGT
*
46608732 AAAATGACTG
1 AAAATTACTG
46608742 TTATATCCCA
Statistics
Matches: 201, Mismatches: 37, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
24 21 0.10
26 5 0.02
27 168 0.84
28 7 0.03
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (28 bp):
AAAATTACTGAAATACCCTCGAAGGAGT
Found at i:46608550 original size:54 final size:54
Alignment explanation
Indices: 46608465--46608736 Score: 266
Period size: 54 Copynumber: 5.1 Consensus size: 54
46608455 CTTGGGCCAA
* * * * *
46608465 AAAATTACTGAAACACCCTCG-AGGAGTAAAATTACTGAAATTCCCTTGAAGGGT
1 AAAATTACCGAAATACCCTCGAAAG-GTAAAATTACTGAAATACCCTCGAAGGGT
* * * *
46608519 AAAATTACCGCAATACCCTCGAAAGGAAAAATTACTGAAATAACTTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAAGGTAAAATTACTGAAATACCCTCGAAGGGT
* * * * * *
46608573 GAAATTATCGAAATACCCTCGAAGGGT---GTTA-TCAAAATACCCCCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAAGGTAAAATTACT-GAAATACCCTCGAAGGGT
* * * * *
46608624 AATATTACCGAAATACCCTTGAAGGGTAAAATTACCGAAATACTCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAAGGTAAAATTACTGAAATACCCTCGAAGGGT
* * * * *
46608678 AAAATTACCAAAATACCCCCGAAAAGTAAAATTATTGAAATACCCTGGAAGGGT
1 AAAATTACCGAAATACCCTCGAAAGGTAAAATTACTGAAATACCCTCGAAGGGT
46608732 AAAAT
1 AAAAT
46608737 GACTGTTATA
Statistics
Matches: 174, Mismatches: 38, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
50 1 0.01
51 40 0.23
54 131 0.75
55 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (54 bp):
AAAATTACCGAAATACCCTCGAAAGGTAAAATTACTGAAATACCCTCGAAGGGT
Found at i:46608610 original size:24 final size:24
Alignment explanation
Indices: 46608577--46608623 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
46608567 AAGGGTGAAA
* *
46608577 TTATCGAAATACCCTCGAAGGGTG
1 TTATCAAAATACCCCCGAAGGGTG
46608601 TTATCAAAATACCCCCGAAGGGT
1 TTATCAAAATACCCCCGAAGGGT
46608624 AATATTACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (24 bp):
TTATCAAAATACCCCCGAAGGGTG
Found at i:46608655 original size:105 final size:105
Alignment explanation
Indices: 46608512--46608700 Score: 272
Period size: 105 Copynumber: 1.8 Consensus size: 105
46608502 AAATTCCCTT
* * *
46608512 GAAGGGTAAAATTACCGCAATACCCTCGAAAGGAAAAATTACTGAAATAACT-TCGAAGGGTGAA
1 GAAGGGTAAAATTACCGAAATACCCTCGAAAGGAAAAATTACCGAAAT-ACTCTCGAAGGGTAAA
* * *
46608576 ATTATCGAAATACCCTCGAAGGGTGTTATCAAAATACCCCC
65 ATTACCAAAATACCCCCGAAGGGTGTTATCAAAATACCCCC
* * * *
46608617 GAAGGGTAATATTACCGAAATACCCTTGAAGGGTAAAATTACCGAAATACTCTCGAAGGGTAAAA
1 GAAGGGTAAAATTACCGAAATACCCTCGAAAGGAAAAATTACCGAAATACTCTCGAAGGGTAAAA
46608682 TTACCAAAATACCCCCGAA
66 TTACCAAAATACCCCCGAA
46608701 AAGTAAAATT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
104 3 0.04
105 70 0.96
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (105 bp):
GAAGGGTAAAATTACCGAAATACCCTCGAAAGGAAAAATTACCGAAATACTCTCGAAGGGTAAAA
TTACCAAAATACCCCCGAAGGGTGTTATCAAAATACCCCC
Found at i:46608987 original size:26 final size:26
Alignment explanation
Indices: 46608918--46608988 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
46608908 TTGCCACAAA
* * *
46608918 TACTGTTACTGGCAGCTCTGCTGTGT
1 TACTATTACTGGCAGCTTTGCTGCGT
*
46608944 TACTATTACTTGCAGCTTTGCTGCGT
1 TACTATTACTGGCAGCTTTGCTGCGT
46608970 TACTATTACTGGCAGCTTT
1 TACTATTACTGGCAGCTTT
46608989 ACTACGATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGCTGCGT
Found at i:46609136 original size:27 final size:27
Alignment explanation
Indices: 46609101--46609156 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
46609091 TTGCATTTGT
*
46609101 ACTGATTACTATTTTCGGCTAAGGCTCC
1 ACTGATTACTATATTCGGCTAAGGC-CC
* *
46609129 ACTG-TTACTGTATTGGGCTAAGGCCC
1 ACTGATTACTATATTCGGCTAAGGCCC
46609155 AC
1 AC
46609157 ACTCTGTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.16
27 17 0.68
28 4 0.16
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
ACTGATTACTATATTCGGCTAAGGCCC
Found at i:46616127 original size:27 final size:27
Alignment explanation
Indices: 46616092--46616366 Score: 268
Period size: 27 Copynumber: 10.2 Consensus size: 27
46616082 GCTTAGGTAG
*
46616092 AAAATTATCGAAATACCCTCGAGGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
46616119 AAAATTATCGAAATACCCTCGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* *
46616146 AAAATCATCGATATACCCTCGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* * *
46616173 AAAATTACCGAAATATCCTCGAATGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* * **
46616200 GAAATTATTGAAATACCCTTAAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* *
46616227 GAAATTA-CTGAAATACCCTCGAAAGGT
1 AAAATTATC-GAAATACCCTCGAAGGGT
* * * * *
46616254 GAAATAACCGAAATACCCCCAAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
46616281 AAAATTATCGAAATACCC-CTGAAGGGT
1 AAAATTATCGAAATACCCTC-GAAGGGT
* * * *
46616308 AAAATTACCAAAATACCAC-CAAAAGGT
1 AAAATTATCGAAATACC-CTCGAAGGGT
* * * * *
46616335 AAAAGTACCGAAATGCCTTTGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
46616362 AAAAT
1 AAAAT
46616367 AACTGTTATA
Statistics
Matches: 204, Mismatches: 39, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.00
27 200 0.98
28 3 0.01
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGAAGGGT
Found at i:46616243 original size:81 final size:81
Alignment explanation
Indices: 46616092--46616366 Score: 302
Period size: 81 Copynumber: 3.4 Consensus size: 81
46616082 GCTTAGGTAG
* * * *
46616092 AAAATTATCGAAATACCCTCGAGGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATCA-TCG
1 AAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACT-G
* *
46616156 ATATACCCTCGAAGGGT
65 AAATACCCTCGAAAGGT
* * * * * *
46616173 AAAATTACCGAAATATCCTCGAATGGTGAAATTATTGAAATACCCTTAAAGGGTGAAATTACTGA
1 AAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACTGA
46616238 AATACCCTCGAAAGGT
66 AATACCCTCGAAAGGT
* * * * * **
46616254 GAAATAACCGAAATACCCCCAAAGGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATTACCAA
1 AAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACTGA
*
46616319 AATACCAC-CAAAAGGT
66 AATACC-CTCGAAAGGT
* * * *
46616335 AAAAGTACCGAAATGCCTTTGAAGGGTAAAAT
1 AAAATTACCGAAATACCCTCGAAGGGTAAAAT
46616367 AACTGTTATA
Statistics
Matches: 158, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
81 156 0.99
82 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (81 bp):
AAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACTGA
AATACCCTCGAAAGGT
Found at i:46616577 original size:26 final size:26
Alignment explanation
Indices: 46616561--46616647 Score: 106
Period size: 26 Copynumber: 3.3 Consensus size: 26
46616551 TGTTACTGGT
*
46616561 AGCTTTGCTGCGTTACTGA-AACTAGC
1 AGCTTTGCTGCGTTACT-ATTACTAGC
* *
46616587 AGCTCTACTGCGTTACTATTACT-GAC
1 AGCTTTGCTGCGTTACTATTACTAG-C
*
46616613 AGCTTTGCTGCATTACTATTACTAGC
1 AGCTTTGCTGCGTTACTATTACTAGC
46616639 AGCTTTGCT
1 AGCTTTGCT
46616648 ACGATATTGG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.04
26 49 0.94
27 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (26 bp):
AGCTTTGCTGCGTTACTATTACTAGC
Done.