Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 209 of 218
Found at i:62097141 original size:62 final size:62
Alignment explanation
Indices: 62097056--62097231 Score: 228
Period size: 62 Copynumber: 2.8 Consensus size: 62
62097046 CTGTGTAGCT
* * * * * *
62097056 TTGTACC-CTAAACAGTAAGTTACACAGCTTGGGCACACGCTCGTGTCCCTGGTCGTATTGTC
1 TTGTACCAC-AAATAGTGAGTTACACAGCTTAGGCACACGCTCGTGTCCCTAGCCGTATGGTC
*
62097118 TTGTACCACAAATAGTGAGTTACACAGCTTAGGCACACGCTTGTGTCCCTAGCCGTATGGTC
1 TTGTACCACAAATAGTGAGTTACACAGCTTAGGCACACGCTCGTGTCCCTAGCCGTATGGTC
* * * * *
62097180 TTGTACCACAACTAGTGAGTTACACGGCCTAGGCACACGCACGTGTGCCTAG
1 TTGTACCACAAATAGTGAGTTACACAGCTTAGGCACACGCTCGTGTCCCTAG
62097232 ATGTATGAAC
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 99 0.99
63 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (62 bp):
TTGTACCACAAATAGTGAGTTACACAGCTTAGGCACACGCTCGTGTCCCTAGCCGTATGGTC
Found at i:62100348 original size:18 final size:17
Alignment explanation
Indices: 62100305--62100379 Score: 79
Period size: 18 Copynumber: 4.5 Consensus size: 17
62100295 TGAATTATAG
62100305 GTTGAATTGAATACTTGA
1 GTTGAATTGAATACTT-A
62100323 GATT-AATTGAAGTACTTA
1 G-TTGAATTGAA-TACTTA
62100341 GTTGAATT-AA-A-TTA
1 GTTGAATTGAATACTTA
62100355 GTT-AATTGAAGTACTTA
1 GTTGAATTGAA-TACTTA
62100372 GTTGAATT
1 GTTGAATT
62100380 AAATTATCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
13 4 0.08
14 8 0.16
15 1 0.02
16 1 0.02
17 10 0.20
18 18 0.37
19 7 0.14
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (17 bp):
GTTGAATTGAATACTTA
Found at i:62100360 original size:31 final size:31
Alignment explanation
Indices: 62100325--62100385 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
62100315 ATACTTGAGA
62100325 TTAATTGAAGTACTTAGTTGAATTAAATTAG
1 TTAATTGAAGTACTTAGTTGAATTAAATTAG
62100356 TTAATTGAAGTACTTAGTTGAATTAAATTA
1 TTAATTGAAGTACTTAGTTGAATTAAATTA
62100386 TCTTAGATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (31 bp):
TTAATTGAAGTACTTAGTTGAATTAAATTAG
Found at i:62100361 original size:13 final size:14
Alignment explanation
Indices: 62100338--62100385 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
62100328 ATTGAAGTAC
62100338 TTAGTTGAATTAAA
1 TTAGTTGAATTAAA
62100352 TTAGTT-AATTGAAGTA
1 TTAGTTGAATT-AA--A
62100368 CTTAGTTGAATTAAA
1 -TTAGTTGAATTAAA
62100383 TTA
1 TTA
62100386 TCTTAGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 4 0.14
14 11 0.38
15 1 0.03
16 1 0.03
17 8 0.28
18 4 0.14
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (14 bp):
TTAGTTGAATTAAA
Found at i:62103044 original size:102 final size:104
Alignment explanation
Indices: 62102868--62103099 Score: 380
Period size: 102 Copynumber: 2.3 Consensus size: 104
62102858 TTTAAATGTG
* *
62102868 AAGGGGGTTGCTAAGTGCTGATTCCCCCAACGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAACGGGTTGCTAAGTGATGATTCCCCGAATCATTGGT
*
62102933 GGTTGCTAAGTGCTGATTCCACCGTATC-TTGAATAT-A
66 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATATGA
* * *
62102970 AAGGGGGTTGCTAAGTGCTGATCCCCCCAAGGGGTTGCTATGTGATGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAACGGGTTGCTAAGTGATGATTCCCCGAATCATTGGT
*
62103035 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGA
66 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATATGA
62103074 AA-GGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
62103100 GAATCACTGG
Statistics
Matches: 120, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
102 87 0.73
103 30 0.25
104 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (104 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAACGGGTTGCTAAGTGATGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATATGA
Found at i:62114526 original size:25 final size:23
Alignment explanation
Indices: 62114498--62114554 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 23
62114488 TTTTAAAGTT
* *
62114498 AATACTAATGGACAATAAATAATAA
1 AATACTAATAGAAAAT-AA-AATAA
*
62114523 AATAATAATAGAAAATAAAATAA
1 AATACTAATAGAAAATAAAATAA
*
62114546 AAAACTAAT
1 AATACTAAT
62114555 CTTCATCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 12 0.44
24 2 0.07
25 13 0.48
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (23 bp):
AATACTAATAGAAAATAAAATAA
Found at i:62115015 original size:20 final size:20
Alignment explanation
Indices: 62114970--62115022 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
62114960 GCAATTAATT
62114970 AATTTTAAAATATTTTAT-A
1 AATTTTAAAATATTTTATAA
* *
62114989 TATTTTTAAATATTTTTATAA
1 AATTTTAAAATA-TTTTATAA
62115010 AATTTTCAAAATA
1 AATTTT-AAAATA
62115023 AAATAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 10 0.37
20 6 0.22
21 6 0.22
22 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTTAAAATATTTTATAA
Found at i:62116296 original size:19 final size:19
Alignment explanation
Indices: 62116272--62116363 Score: 103
Period size: 19 Copynumber: 4.8 Consensus size: 19
62116262 AATTTTTGAG
*
62116272 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
* *
62116291 GATATGCAATCCTAGACAT
1 GATATGCAATCTTAGATAT
*
62116310 TATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
62116329 GATGTATAATCTTTGATAT
1 GATATGCAATCTTAGATAT
*
62116348 GACATGCAATCTTAGA
1 GATATGCAATCTTAGA
62116364 AGATATGATT
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 57 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:62116516 original size:17 final size:17
Alignment explanation
Indices: 62116488--62116537 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
62116478 TAAAAGTGGG
62116488 GGGAAGAG--AAAAAAA
1 GGGAAGAGAAAAAAAAA
*
62116503 GGGAAGAGAAAAAAAGA
1 GGGAAGAGAAAAAAAAA
*
62116520 -GGAAGAGGAATAAAAAA
1 GGGAAGA-GAAAAAAAAA
62116537 G
1 G
62116538 AGAATGATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 8 0.29
16 6 0.21
17 14 0.50
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (17 bp):
GGGAAGAGAAAAAAAAA
Found at i:62116539 original size:19 final size:16
Alignment explanation
Indices: 62116489--62116526 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
62116479 AAAAGTGGGG
62116489 GGAAGAGAAAAAAAG-
1 GGAAGAGAAAAAAAGA
62116504 GGAAGAGAAAAAAAGA
1 GGAAGAGAAAAAAAGA
62116520 GGAAGAG
1 GGAAGAG
62116527 GAATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (16 bp):
GGAAGAGAAAAAAAGA
Found at i:62117955 original size:98 final size:98
Alignment explanation
Indices: 62117827--62118021 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
62117817 TAAAATCATG
*
62117827 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
62117892 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
62117925 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
62117990 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
62118022 TTTATTGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:62121612 original size:510 final size:510
Alignment explanation
Indices: 62120653--62121652 Score: 1770
Period size: 510 Copynumber: 2.0 Consensus size: 510
62120643 TGTGATTATT
62120653 CAAGTGCTATCCATGTGATTATTCTTATATTTAAATATAATAAGTTCATTTAATAATTTTTATAA
1 CAAGTGCTATCCATGTGATTATTCTTATATTTAAATATAATAAGTTCATTTAATAATTTTTATAA
*
62120718 TAAATATAATAATTCAATCAATATCAATTAAGCGAATTTTTAATCAATCAATTGAATTTAATCTG
66 TAAATATAATAATTCAATCAATATCAATTAAGCGAATTTTTAATCAATCAATTGAATTTAATCTA
* * *
62120783 ATTATAAAAAGTCAATAATCCAAACTTATTCAATTCGGATTCAAATGAACTTGAAAGGGATTTAT
131 ATTATAAAAAGTCAACAATCCAAACTTATTCAATTCGGATTCAAATGAACTTAAAAGGAATTTAT
*
62120848 TGGAAAATTCAATCTTCAAACTCAAGTGATTTGAATTTTGTTAGGGATTGACCCGGTTAAGCAAC
196 TGGAAAATTCAATCTTCAAACTCAAGTGATTTGAACTTTGTTAGGGATTGACCCGGTTAAGCAAC
*
62120913 GAACAAGTAAAAATAAGGAAAGAAATTAAGAAATTGAACACACAAATTTAACATGTTAAAACCCC
261 GAACAAGTAAAAATAAGAAAAGAAATTAAGAAATTGAACACACAAATTTAACATGTTAAAACCCC
*
62120978 TCCAAAGAGGATAAAAAATCACGAGTAAAGATAATTTTACTATGATGGCAAAAGAATGAAGAGTA
326 TCCAAAGAGGATAAAAAATCACGAGTAAAAATAATTTTACTATGATGGCAAAAGAATGAAGAGTA
* * *
62121043 TAGAAGATGAAGATAAAAACTAAATCCCAAAAACCAAATTCATAGGTCAAATAATAATAAAATAA
391 CAAAAGATCAAGATAAAAACTAAATCCCAAAAACCAAATTCATAGGTCAAATAATAATAAAATAA
* * *
62121108 TCTAGATTAATCAGAGTTTGATTAAAATAAATAAATACAATCTAACTATTGATAA
456 TCTAGATTAATAAGAATTTGATTAAAACAAATAAATACAATCTAACTATTGATAA
62121163 CAAGTGCTATCCATGTGATTATTCTTATATTTAAATATAATAAGTTCATTTAATAATTTTTATAA
1 CAAGTGCTATCCATGTGATTATTCTTATATTTAAATATAATAAGTTCATTTAATAATTTTTATAA
62121228 TAAATATAATAATTCAATCAATATCAATTAAGCGAATTTTTAATCAATCAATTGAATTTAATCTA
66 TAAATATAATAATTCAATCAATATCAATTAAGCGAATTTTTAATCAATCAATTGAATTTAATCTA
62121293 ATTATAAAAAGTCAACAATCCAAACTTATTCAATTCGGATTCAAATGAACTTAAAAGGAATTTAT
131 ATTATAAAAAGTCAACAATCCAAACTTATTCAATTCGGATTCAAATGAACTTAAAAGGAATTTAT
*
62121358 TGGAAAATTCAATCTTCAAACTCAAGTGATTTGAACTTTGTTAGGGATTGACCCGGTTAAGCAAT
196 TGGAAAATTCAATCTTCAAACTCAAGTGATTTGAACTTTGTTAGGGATTGACCCGGTTAAGCAAC
* **
62121423 GAACAATTAAAAAT-AGCAAAAGAAATTAAGAAATTGAACACACAAATTTAACATGTTAAAACTT
261 GAACAAGTAAAAATAAG-AAAAGAAATTAAGAAATTGAACACACAAATTTAACATGTTAAAACCC
*
62121487 CTCCAAAGAGGATAAAAAATTAC-AGGTAAAAATAATTTTACTATGATGGCAAAAGAATGAAGAG
325 CTCCAAAGAGGATAAAAAATCACGA-GTAAAAATAATTTTACTATGATGGCAAAAGAATGAAGAG
* * * *
62121551 TACAAAAGATCAATATAAAAACTAAATCCCAAAAATCATATTGATAGGTCAAATAATAATAAAAT
389 TACAAAAGATCAAGATAAAAACTAAATCCCAAAAACCAAATTCATAGGTCAAATAATAATAAAAT
62121616 AATCTAGATTAATAAGAATTTGATTAAAACAAATAAA
454 AATCTAGATTAATAAGAATTTGATTAAAACAAATAAA
62121653 CACAGTTTAA
Statistics
Matches: 466, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
509 3 0.01
510 463 0.99
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (510 bp):
CAAGTGCTATCCATGTGATTATTCTTATATTTAAATATAATAAGTTCATTTAATAATTTTTATAA
TAAATATAATAATTCAATCAATATCAATTAAGCGAATTTTTAATCAATCAATTGAATTTAATCTA
ATTATAAAAAGTCAACAATCCAAACTTATTCAATTCGGATTCAAATGAACTTAAAAGGAATTTAT
TGGAAAATTCAATCTTCAAACTCAAGTGATTTGAACTTTGTTAGGGATTGACCCGGTTAAGCAAC
GAACAAGTAAAAATAAGAAAAGAAATTAAGAAATTGAACACACAAATTTAACATGTTAAAACCCC
TCCAAAGAGGATAAAAAATCACGAGTAAAAATAATTTTACTATGATGGCAAAAGAATGAAGAGTA
CAAAAGATCAAGATAAAAACTAAATCCCAAAAACCAAATTCATAGGTCAAATAATAATAAAATAA
TCTAGATTAATAAGAATTTGATTAAAACAAATAAATACAATCTAACTATTGATAA
Found at i:62131953 original size:56 final size:56
Alignment explanation
Indices: 62131891--62132041 Score: 284
Period size: 56 Copynumber: 2.7 Consensus size: 56
62131881 AAAATTTACT
62131891 GTAAATATTGTATGAAATAAGCAAATTTATTTATTAATTAACCAAATTTATCTACG
1 GTAAATATTGTATGAAATAAGCAAATTTATTTATTAATTAACCAAATTTATCTACG
*
62131947 GTAAATATTGTATGAAATAAGCAAATTTATTTATTAATTAACCAAATTTATTTACG
1 GTAAATATTGTATGAAATAAGCAAATTTATTTATTAATTAACCAAATTTATCTACG
*
62132003 GTAAATACTGTATGAAATAAGCAAATTTATTTATTAATT
1 GTAAATATTGTATGAAATAAGCAAATTTATTTATTAATT
62132042 TAAAAGAAAA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 93 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.40
Consensus pattern (56 bp):
GTAAATATTGTATGAAATAAGCAAATTTATTTATTAATTAACCAAATTTATCTACG
Found at i:62137869 original size:18 final size:19
Alignment explanation
Indices: 62137846--62137883 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
62137836 GGAAGCAAGC
*
62137846 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
62137864 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
62137883 A
1 A
62137884 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:62157342 original size:17 final size:17
Alignment explanation
Indices: 62157302--62157348 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
62157292 CGTTTATCAA
62157302 TTTTTATAATCAAACTC
1 TTTTTATAATCAAACTC
* * *
62157319 -ATTTATAATTAAGCTC
1 TTTTTATAATCAAACTC
62157335 TTTTTATATATCAA
1 TTTTTATA-ATCAA
62157349 GGATAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
16 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTTTATAATCAAACTC
Found at i:62159150 original size:13 final size:13
Alignment explanation
Indices: 62159132--62159157 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62159122 TAACTATCAT
62159132 GAGAAGCAAAGGA
1 GAGAAGCAAAGGA
62159145 GAGAAGCAAAGGA
1 GAGAAGCAAAGGA
62159158 TAAATACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.38, T:0.00
Consensus pattern (13 bp):
GAGAAGCAAAGGA
Found at i:62161377 original size:21 final size:21
Alignment explanation
Indices: 62161348--62161388 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
62161338 TAATAGTAGT
* *
62161348 AAAATAACAACATAACAGCAA
1 AAAACAACAACATAAAAGCAA
*
62161369 AAAACAACAACGTAAAAGCA
1 AAAACAACAACATAAAAGCA
62161389 GTAAACAGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.20, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAACAACAACATAAAAGCAA
Found at i:62163344 original size:3 final size:3
Alignment explanation
Indices: 62163336--62163360 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
62163326 TTTTAATCTC
62163336 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
62163361 GTTACTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:62167501 original size:16 final size:17
Alignment explanation
Indices: 62167480--62167512 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62167470 ATAATTTTAC
*
62167480 TTTTATTAATT-TAAAA
1 TTTTATAAATTATAAAA
62167496 TTTTATAAATTATAAAA
1 TTTTATAAATTATAAAA
62167513 ATTATATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTATAAATTATAAAA
Found at i:62177742 original size:37 final size:37
Alignment explanation
Indices: 62177692--62177764 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
62177682 TTTCCTTTCG
62177692 TTCGAAGATTTTACAATTTGGATAGTTTTAGGCTTCC
1 TTCGAAGATTTTACAATTTGGATAGTTTTAGGCTTCC
*
62177729 TTCGAAGATTTTACAGTTTGGATAGTTTTAGGCTTC
1 TTCGAAGATTTTACAATTTGGATAGTTTTAGGCTTC
62177765 GTGATTTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (37 bp):
TTCGAAGATTTTACAATTTGGATAGTTTTAGGCTTCC
Found at i:62178816 original size:25 final size:23
Alignment explanation
Indices: 62178788--62178845 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
62178778 TTTTAAAGTT
* *
62178788 AAATACTAATGGACAATAAATAATA
1 AAATACTAATAGAAAAT-AA-AATA
*
62178813 AAATAATAATAGAAAATAAAATA
1 AAATACTAATAGAAAATAAAATA
*
62178836 AAAAACTAAT
1 AAATACTAAT
62178846 CTTCATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 12 0.43
24 2 0.07
25 14 0.50
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (23 bp):
AAATACTAATAGAAAATAAAATA
Found at i:62192225 original size:38 final size:38
Alignment explanation
Indices: 62192183--62192259 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
62192173 TGTTTTTGTT
62192183 AGCTATCATTTTGTCAAAAATAAATAAAATATATTTTA
1 AGCTATCATTTTGTCAAAAATAAATAAAATATATTTTA
62192221 AGCTATCATTTTGTCAAAAATAAATAAAATATATTTTA
1 AGCTATCATTTTGTCAAAAATAAATAAAATATATTTTA
62192259 A
1 A
62192260 TATAAGACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (38 bp):
AGCTATCATTTTGTCAAAAATAAATAAAATATATTTTA
Found at i:62198550 original size:21 final size:21
Alignment explanation
Indices: 62198526--62198567 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
62198516 ATATTTTCTT
62198526 ATACAACTTTTATTCCCATTA
1 ATACAACTTTTATTCCCATTA
62198547 ATACAACTTTTATTCCCATTA
1 ATACAACTTTTATTCCCATTA
62198568 TATTTTTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (21 bp):
ATACAACTTTTATTCCCATTA
Found at i:62205873 original size:4 final size:4
Alignment explanation
Indices: 62205864--62205893 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
62205854 CATGTGTTTT
62205864 TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TA
62205894 GTTAATTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:62207716 original size:47 final size:47
Alignment explanation
Indices: 62207625--62207717 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
62207615 TATGTAACTA
* *
62207625 TCATAAAATATAAAAAGTATATATATAGATACATATATATATATGAG
1 TCATAAAATATAAAAAGCATATATATAGATACATATATAAATATGAG
* *
62207672 TCATAGAATATAAATAA-CATATATA-AGATACATATTTAAAATATGA
1 TCATAAAATATAAA-AAGCATATATATAGATACATATAT-AAATATGA
62207718 AGAATGTAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
46 11 0.28
47 27 0.68
48 2 0.05
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (47 bp):
TCATAAAATATAAAAAGCATATATATAGATACATATATAAATATGAG
Found at i:62209441 original size:44 final size:43
Alignment explanation
Indices: 62209393--62209666 Score: 213
Period size: 44 Copynumber: 6.4 Consensus size: 43
62209383 TTCTTCGCAA
*
62209393 CAACTTCAGAGAGAGAAGATCGGTGGTTTTGATCCGCTCCACTG
1 CAACTTCAGAGAGATAAGATC-GTGGTTTTGATCCGCTCCACTG
* * ** * * *
62209437 CAACTTCATAGAGATAAGA-C-TGGATGCGGTCTGCTCTACTG
1 CAACTTCAGAGAGATAAGATCGTGGTTTTGATCCGCTCCACTG
* *
62209478 CAACTTTAGAGAGATAAGATCTGTGGTTTTGATCCGCTCCACTA
1 CAACTTCAGAGAGATAAGATC-GTGGTTTTGATCCGCTCCACTG
** * * * *
62209522 CTGCTTAAG-GAGGATAAGAT--TGATTTCTTCAATCTGCTCCACTG
1 CAACTTCAGAGA-GATAAGATCGTG-GTT-TT-GATCCGCTCCACTG
* * * * *
62209566 CAACCTCAGGGAGATAAGAT--TGGATGTGATCTGC-CCTACTG
1 CAACTTCAGAGAGATAAGATCGTGGTTTTGATCCGCTCC-ACTG
*
62209607 CAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTG
1 CAACTTCAGAGAGATAAGATC-GTGGTTTTGATCCGCTCCACTG
*
62209651 CAACTTCAGGGAGATA
1 CAACTTCAGAGAGATA
62209667 GGATTGGCTT
Statistics
Matches: 178, Mismatches: 39, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
40 2 0.01
41 62 0.35
42 4 0.02
43 6 0.03
44 100 0.56
45 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (43 bp):
CAACTTCAGAGAGATAAGATCGTGGTTTTGATCCGCTCCACTG
Found at i:62209596 original size:85 final size:84
Alignment explanation
Indices: 62209466--62209673 Score: 190
Period size: 85 Copynumber: 2.4 Consensus size: 84
62209456 CTGGATGCGG
* * * * * **
62209466 TCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTGATCCGCTCC-ACTACTGCTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGATGTGATCCGC-CCTACTACAACTTAA
62209530 G-GAGGATAAGAT-TGAT-TTCTTCAA
62 GAGA-GATAAGATCTG-TGTT-TT-AA
* * * *
62209554 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTGGATGTGATCTGCCCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGTGATCCGCCCTACTACAACTTAAGAGA
62209619 GATAAGATCTGTGGTTTTAA
66 GATAAGATCTGT-GTTTTAA
* *
62209639 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG
62209674 CTTCTTCAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
84 2 0.02
85 63 0.62
86 7 0.07
87 2 0.02
88 27 0.27
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (84 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGTGATCCGCCCTACTACAACTTAAGAGA
GATAAGATCTGTGTTTTAA
Found at i:62209672 original size:129 final size:129
Alignment explanation
Indices: 62209428--62209686 Score: 358
Period size: 129 Copynumber: 2.0 Consensus size: 129
62209418 GTTTTGATCC
* * * * *
62209428 GCTCCACTGCAACTTCATAGAGATAAGACTGGATGCGGTCTGCTCTACTGCAACTTTAGAGAGAT
1 GCTCCACTGCAACCTCAGAGAGATAAGACTGGATGCGATCTGCCCTACTGCAACTTCAGAGAGAT
* ** *
62209493 AAGATCTGTGGTTTTGATCCGCTCCACTACTGCTTAAGGAGGATAAGATTGATTTCTTCAATCT
66 AAGATCTGTGGTTTTAATCCGCTCCACTACAACTTAAGGAGGATAAGATTGACTTCTTCAATCT
* * *
62209557 GCTCCACTGCAACCTCAGGGAGATAAGATTGGATGTGATCTGCCCTACTGCAACTTCAGAGAGAT
1 GCTCCACTGCAACCTCAGAGAGATAAGACTGGATGCGATCTGCCCTACTGCAACTTCAGAGAGAT
* * * *
62209622 AAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGG-GAGATAGGATTGGCTTCTTCAATCT
66 AAGATCTGTGGTTTTAATCCGCTCCACTACAACTTAAGGAG-GATAAGATTGACTTCTTCAATCT
62209686 G
1 G
62209687 TTTAACTGCA
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 1 0.01
129 112 0.99
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (129 bp):
GCTCCACTGCAACCTCAGAGAGATAAGACTGGATGCGATCTGCCCTACTGCAACTTCAGAGAGAT
AAGATCTGTGGTTTTAATCCGCTCCACTACAACTTAAGGAGGATAAGATTGACTTCTTCAATCT
Found at i:62209980 original size:50 final size:49
Alignment explanation
Indices: 62209911--62210474 Score: 226
Period size: 50 Copynumber: 11.6 Consensus size: 49
62209901 CGGGGAAGCG
* * *
62209911 AGATTCGCTGTCGTAGCTTCAATCTGTTCCGCTGCATCACCTGGGAAGTA
1 AGATTCGCCGTTGTGGCTTCAATCT-TTCCGCTGCATCACCTGGGAAGTA
* * **** * ** * *
62209961 AGATTTGCCTTTGTGGCTTCAATCTTTTAATTGTAAT-GTCGGGGAAGCA
1 AGATTCGCCGTTGTGGCTTCAATCTTTCCGCTG-CATCACCTGGGAAGTA
** * *
62210010 AGATTCGCCGTTGCAGCTTCAATCTATTCCGCTGCATCCCCTGGAAAGTA
1 AGATTCGCCGTTGTGGCTTCAATCT-TTCCGCTGCATCACCTGGGAAGTA
* * * * *
62210060 AGATTCGCCGTTGTGGCTTCAATCTTT----T-TAACTGCCGGGGAAGCA
1 AGATTCGCCGTTGTGGCTTCAATCTTTCCGCTGCATC-ACCTGGGAAGTA
* * * * *
62210105 AGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCA--ACGCTAGGAAAGTA
1 AGATTCGCCGTTGTGGCTTCAATCT-TTCCGCTGCATCAC-CT-GGGAAGTA
* * * ** ** * *
62210155 AGATCCGCTGTTGTAGCTTCAATCTTT----TTAATTGCCGGGGAAGCA
1 AGATTCGCCGTTGTGGCTTCAATCTTTCCGCTGCATCACCTGGGAAGTA
* * * * *
62210200 AGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCA--ACGCTAGGAAAGTA
1 AGATTCGCCGTTGTGGCTTCAATCT-TTCCGCTGCATCAC-CT-GGGAAGTA
* * * **** ** * **
62210250 AGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCA--ATGTCAGGAAGCG
1 AGATTCGCCGTTGTGGCTTCAATCTT-TCCGCTGCATCACCT-GGGAAGTA
* * *
62210299 AGATTCGCTGTCGTAGCTTCAATCTGTTCCGCTGCATCACCTGGGAAGTA
1 AGATTCGCCGTTGTGGCTTCAATCT-TTCCGCTGCATCACCTGGGAAGTA
* * **** * ** * *
62210349 AGATTTGCCTTTGTGGCTTCAATCTTTTAATTGTAAT-GTCGGGGAAGCA
1 AGATTCGCCGTTGTGGCTTCAATCTTTCCGCTG-CATCACCTGGGAAGTA
* * * *
62210398 AGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAAGTA
1 AGATTCGCCGTTGTGGCTTCAATCT-TTCCGCTGCATCACCTGGGAAGTA
62210448 AGATTCGCCGTTGTGGCTTCAATCTTT
1 AGATTCGCCGTTGTGGCTTCAATCTTT
62210475 TTAACTACCG
Statistics
Matches: 380, Mismatches: 106, Indels: 57
0.70 0.20 0.10
Matches are distributed among these distances:
44 2 0.01
45 64 0.17
46 5 0.01
47 1 0.00
48 2 0.01
49 112 0.29
50 191 0.50
51 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (49 bp):
AGATTCGCCGTTGTGGCTTCAATCTTTCCGCTGCATCACCTGGGAAGTA
Found at i:62210533 original size:388 final size:388
Alignment explanation
Indices: 62209802--62211123 Score: 1812
Period size: 388 Copynumber: 3.4 Consensus size: 388
62209792 TTGCAATGTT
* * * * * *
62209802 GGGGAAGCAAGATTCGCCGTTGTAGCTTCAATGTATTCCACTACACCG-TCAGGAAAAGTAAGAT
1 GGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCT-AGG-AAAGTAAGAT
* * * * * *
62209866 TCGCCGTTGTGGCCTCAATATT-TTAATTGCAATGTCGGGGAAGCGAGATTCGCTGTCGTAGCTT
64 CCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGCGAGATTCGCTGTCGTAGCTT
62209930 CAATCTGTTCCGCTGCATCACCTGGGAAGTAAGATTTGCCTTTGTGGCTTCAATCTTTTAATTGT
129 CAATCTGTTCCGCTGCATCACCTGGGAAGTAAGATTTGCCTTTGTGGCTTCAATCTTTTAATTGT
* * *
62209995 AATGTCGGGGAAGCAAGATTCGCCGTTGCAGCTTCAATCTATTCCGCTGCATCCCCTGGAAAGTA
194 AATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCAT-CCCTGGAAAGTA
*
62210060 AGATTCGCCGTTGTGGCTTCAATCTTTTTAACTGCCGGGGAAGCAAGATCCGCTGTTGTAGCTTC
258 AGATTCGCCGTTGTGGCTTCAATCTTTTTAACTACCGGGGAAGCAAGATCCGCTGTTGTAGCTTC
62210125 AATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGC
323 AATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGC
62210190 C
388 C
62210191 GGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCC
1 GGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCC
62210256 GCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCA-GGAAGCGAGATTCGCTGTCGTAGCTTCA
66 GCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGCGAGATTCGCTGTCGTAGCTTCA
62210320 ATCTGTTCCGCTGCATCACCTGGGAAGTAAGATTTGCCTTTGTGGCTTCAATCTTTTAATTGTAA
131 ATCTGTTCCGCTGCATCACCTGGGAAGTAAGATTTGCCTTTGTGGCTTCAATCTTTTAATTGTAA
62210385 TGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAAGTAAG
196 TGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATC-CCTGGAAAGTAAG
*
62210450 ATTCGCCGTTGTGGCTTCAATCTTTTTAACTACCGGGGAAGCAAGATCCGCTGTTGTAACTTCAA
260 ATTCGCCGTTGTGGCTTCAATCTTTTTAACTACCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAA
* * * *
62210515 TCCGTTCCATTACAACGCTAGGAAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAATTGCC
325 TCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCC
*
62210579 GGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAAAGTAAGATCC
1 GGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCC
* * * * * *
62210644 GCTGTTGTAGCTTCAATCTTTTTAAATGCAATGTCAGGGAAG-TAAAATCTGCTGTTGTAGCTTC
66 GCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGCGAGATTC-GCTGTCGTAGCTTC
* * * * ** * **
62210708 AATCTATTCTGCTGCATC-GCTAGGAAAGTAAGATCCG-CTGTTGTAGCTTCAATCTTTTTAAAA
130 AATCTGTTCCGCTGCATCACCT-GGGAAGTAAGATTTGCCT-TTGTGGCTTCAATC-TTTTAATT
* * * * ** * * *
62210771 GCAATGTCAGGGAAGTAAGATCCACTATTGTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAG
192 GTAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCCCT-GGAAAG
* * * * * ** *
62210836 TAAGATCCGCTGTTATAGCTTCAATCTTTTTAATTGCAATGTCAAGGG-AGTAAGATCCGCTGTT
256 TAAGATTCGCCGTTGTGGCTTCAATCTTTTTAA---C--T-ACCGGGGAAGCAAGATCCGCTGTT
* *
62210900 GTAGCTTCAATTTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTC
315 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
62210965 TTAATTGCAATGTC
380 TTAATTGC-----C
** * * *
62210979 AAGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCT
1 GGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCC
* ** * *
62211044 GATGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCA
66 GCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGCGAGATTCGCTGTCGTAGCTTCA
*
62211109 ATCTGTTCCACTGCA
131 ATCTGTTCCGCTGCA
62211124 ATGCTAGGAA
Statistics
Matches: 835, Mismatches: 77, Indels: 31
0.89 0.08 0.03
Matches are distributed among these distances:
387 1 0.00
388 409 0.49
389 120 0.14
390 89 0.11
393 1 0.00
395 82 0.10
396 4 0.00
400 126 0.15
401 3 0.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (388 bp):
GGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCC
GCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGCGAGATTCGCTGTCGTAGCTTCA
ATCTGTTCCGCTGCATCACCTGGGAAGTAAGATTTGCCTTTGTGGCTTCAATCTTTTAATTGTAA
TGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCCCTGGAAAGTAAGA
TTCGCCGTTGTGGCTTCAATCTTTTTAACTACCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAAT
CTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCC
Found at i:62210753 original size:100 final size:100
Alignment explanation
Indices: 62209677--62211174 Score: 1616
Period size: 100 Copynumber: 15.2 Consensus size: 100
62209667 GGATTGGCTT
* * * * * * *
62209677 CTTCAATCTGTTTAACTGCAATGTCGGGGAAGTAAGA-CTCGCCGTCGTAGCTTCAATGTATTCC
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATC-CGCTGTTGTAGCTTCAATCTGTTCC
* * * * *
62209741 ACTACACCG-TCAGGGAAAGTAAGATTCG-TCATTGTGG
65 ACTGCATCGCT-A-GGAAAGTAAGATCCGCT-GTTGTAG
* * * * * *
62209778 CCTT-GATC-TTTTAATTGCAATGTTGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATGTATTCC
1 -CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCC
* * * * *
62209841 ACTACACCG-TCAGGAAAAGTAAGATTCGCCGTTGTGG
65 ACTGCATCGCT-AGG-AAAGTAAGATCCGCTGTTGTAG
* * * * * *
62209878 CCTCAAT-ATTTTAATTGCAATGTCGGGGAAGCGAGATTCGCTGTCGTAGCTTCAATCTGTTCCG
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
* * ** *
62209942 CTGCATCACCT-GGGAAGTAAGATTTGCCT-TTGTGG
66 CTGCATC-GCTAGGAAAGTAAGATCCG-CTGTTGTAG
* * * * * *
62209977 CTTCAATC-TTTTAATTGTAATGTCGGGGAAGCAAGATTCGCCGTTGCAGCTTCAATCTATTCCG
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
* * * *
62210041 CTGCATCCCCT-GGAAAGTAAGATTCGCCGTTGTGG
66 CTGCAT-CGCTAGGAAAGTAAGATCCGCTGTTGTAG
*
62210076 CTTCAATCTTTTTAA---C--TGCCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
*
62210136 CTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAG
66 CTGCATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
62210171 CTTCAATCTTTTTAATTGC-----CGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
*
62210231 CTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAG
66 CTGCATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
* * * * * *
62210266 CTTCAATCTTCTTAATTGCAATGTC-AGGAAGCGAGATTCGCTGTCGTAGCTTCAATCTGTTCCG
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
* * ** *
62210330 CTGCATCACCT-GGGAAGTAAGATTTGCCT-TTGTGG
66 CTGCATC-GCTAGGAAAGTAAGATCCG-CTGTTGTAG
* * * * *
62210365 CTTCAATC-TTTTAATTGTAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCG
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
* * *
62210429 CTGCATCGCCT-GGAAAGTAAGATTCGCCGTTGTGG
66 CTGCATCG-CTAGGAAAGTAAGATCCGCTGTTGTAG
** * *
62210464 CTTCAATCTTTTTAA---C--TACCGGGGAAGCAAGATCCGCTGTTGTAACTTCAATCCGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
* * * *
62210524 TTACAACGCTAGGAAAGTAAGATCCACTGTTGTAG
66 CTGCATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
62210559 CTTCAATCTTTTTAATTGC-----CGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
62210619 CTGCAAT-GCTAGGAAAGTAAGATCCGCTGTTGTAG
66 CTGC-ATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
* * * * * * **
62210654 CTTCAATCTTTTTAAATGCAATGTCAGGGAAGTAAAATCTGCTGTTGTAGCTTCAATCTATTCTG
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
62210719 CTGCATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
66 CTGCATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
** * * * *
62210754 CTTCAATCTTTTTAAAAGCAATGTCAGGGAAGTAAGATCCACTATTGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
* * *
62210819 CTGCAACACTAGGAAAGTAAGATCCGCTGTTATAG
66 CTGCATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
* * *
62210854 CTTCAATCTTTTTAATTGCAATGTCAAGGG-AGTAAGATCCGCTGTTGTAGCTTCAATTTGTTCC
1 CTTCAATCTTTTTAATTGCAATGTC-GGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCC
*
62210918 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAG
65 ACTGCATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
* ** * *
62210954 CTTCAATCTTCTTAATTGCAATGTCAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
* * *
62211019 CTGCAACGCTAGGAAAGTAAGATCTGATGTTGTAG
66 CTGCATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
* * *
62211054 CTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
*
62211119 CTGCAAT-GCTAGGAAAGTAAGATCCGCTATTGTAG
66 CTGC-ATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
62211154 CTTCAATCTTTTTAATTGCAA
1 CTTCAATCTTTTTAATTGCAA
62211175 ACTATGGTTT
Statistics
Matches: 1225, Mismatches: 130, Indels: 84
0.85 0.09 0.06
Matches are distributed among these distances:
94 5 0.00
95 335 0.27
96 1 0.00
98 18 0.01
99 252 0.21
100 602 0.49
101 8 0.01
102 4 0.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
CTGCATCGCTAGGAAAGTAAGATCCGCTGTTGTAG
Found at i:62211174 original size:50 final size:50
Alignment explanation
Indices: 62210052--62211174 Score: 880
Period size: 50 Copynumber: 22.9 Consensus size: 50
62210042 TGCATCCCCT
* * * *
62210052 GGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAACTGC----C-G
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
* * * ** *
62210097 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
**
62210147 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA-T----TGCCG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
* * * ** *
62210192 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
* *
62210242 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATG-TCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCT-A
** * * * *** *
62210292 GG-AAGCGAGATTCGCTGTCGTAGCTTCAATCTGTTCCGCTGC-ATCACCT-
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAAT--GCTA
* ** * * * *
62210341 GGGAAGTAAGATTTGCCT-TTGTGGCTTCAATC-TTTTAATTGTAATG-TCG
1 GGAAAGTAAGATCCG-CTGTTGTAGCTTCAATCTTTTTAACTGCAATGCT-A
* * * * * * ***
62210390 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCGCCT-
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAAT-G-CTA
* * * **
62210440 GGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAACT---A--CCG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
* * * ** ** * * *
62210485 GGGAAGCAAGATCCGCTGTTGTAACTTCAATCCGTTCCATTACAACGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
* **
62210535 GGAAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAA-T----TGCCG
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
* * * **
62210580 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
*
62210630 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAATGCAATG-TCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCT-A
* * * * *
62210680 GGGAAGTAAAATCTGCTGTTGTAGCTTCAATCTATTCT-GCTGC-ATCGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTTAACTGCAAT-GCTA
**
62210730 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAAAGCAATG-TCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCT-A
* * * * ** **
62210780 GGGAAGTAAGATCCACTATTGTAGCTTCAATCTGTTCCACTGCAACACTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
* * *
62210830 GGAAAGTAAGATCCGCTGTTATAGCTTCAATCTTTTTAATTGCAATGTCAA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATG-CTA
* ** *
62210881 GG-GAGTAAGATCCGCTGTTGTAGCTTCAAT-TTGTTCCACTGCAACGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTTAACTGCAATGCTA
* *
62210930 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATG-TCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCT-A
* * ** *
62210980 AGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
* * * *
62211030 GGAAAGTAAGATCTGATGTTGTAGCTTCAATCTTCTTAATTGCAATG-TCA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCT-A
* * **
62211080 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
* *
62211130 GGAAAGTAAGATCCGCTATTGTAGCTTCAATCTTTTTAATTGCAA
1 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAA
62211175 ACTATGGTTT
Statistics
Matches: 836, Mismatches: 191, Indels: 97
0.74 0.17 0.09
Matches are distributed among these distances:
44 1 0.00
45 136 0.16
46 2 0.00
47 1 0.00
48 5 0.01
49 82 0.10
50 590 0.71
51 18 0.02
52 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGCTA
Found at i:62212575 original size:7 final size:7
Alignment explanation
Indices: 62212563--62212678 Score: 193
Period size: 7 Copynumber: 17.0 Consensus size: 7
62212553 TTAGCCTCTC
62212563 CATTTTT
1 CATTTTT
62212570 CA-TTTT
1 CATTTTT
62212576 CATTTTT
1 CATTTTT
62212583 CATTTTT
1 CATTTTT
62212590 CATTTTT
1 CATTTTT
62212597 CATTTTT
1 CATTTTT
62212604 CATTTTT
1 CATTTTT
62212611 CATTTTT
1 CATTTTT
*
62212618 CA-TTCT
1 CATTTTT
62212624 CATTTTT
1 CATTTTT
62212631 CATTTTT
1 CATTTTT
62212638 CATTTTT
1 CATTTTT
62212645 CATTTTT
1 CATTTTT
*
62212652 CA-TTCT
1 CATTTTT
62212658 CATTTTT
1 CATTTTT
62212665 CATTTTT
1 CATTTTT
62212672 CATTTTT
1 CATTTTT
62212679 TTTACTTAGA
Statistics
Matches: 102, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
6 16 0.16
7 86 0.84
ACGTcount: A:0.15, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:62212601 original size:34 final size:34
Alignment explanation
Indices: 62212563--62212678 Score: 139
Period size: 34 Copynumber: 3.4 Consensus size: 34
62212553 TTAGCCTCTC
*
62212563 CATTTTTCA-TTTTCATTTTTCATTTTTCATTTTT
1 CATTTTTCATTTTTCATTTTTCATTTTTCA-TTCT
* *
62212597 CATTTTTCATTTTTCATTTTTCA-TTCTCATTTTT
1 CATTTTTCATTTTTCATTTTTCATTTTTCA-TTCT
* *
62212631 CATTTTTCATTTTTCATTTTTCA-TTCTCATTTTT
1 CATTTTTCATTTTTCATTTTTCATTTTTCA-TTCT
62212665 CATTTTTCATTTTT
1 CATTTTTCATTTTT
62212679 TTTACTTAGA
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
34 67 0.84
35 13 0.16
ACGTcount: A:0.15, C:0.16, G:0.00, T:0.69
Consensus pattern (34 bp):
CATTTTTCATTTTTCATTTTTCATTTTTCATTCT
Found at i:62213652 original size:6 final size:6
Alignment explanation
Indices: 62213643--62213670 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
62213633 TTTTTGATTT
62213643 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
62213671 GACTTTGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:62213658 original size:26 final size:26
Alignment explanation
Indices: 62213590--62213670 Score: 83
Period size: 26 Copynumber: 3.0 Consensus size: 26
62213580 CTTTTTCTCA
* *
62213590 TTTTCATTTTGATCTTGATTTTGATTT
1 TTTTCATTTTCAT-TTTATTTTGATTT
* *
62213617 TTTTCTTTCTTC-TTTTTTTTTGATTT
1 TTTTCATT-TTCATTTTATTTTGATTT
*
62213643 TTTTCATTTTCATTTTCATTTTCATTT
1 TTTTCATTTTCATTTT-ATTTTGATTT
62213670 T
1 T
62213671 GACTTTGACT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
25 3 0.07
26 22 0.50
27 17 0.39
28 2 0.05
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.73
Consensus pattern (26 bp):
TTTTCATTTTCATTTTATTTTGATTT
Found at i:62218421 original size:47 final size:47
Alignment explanation
Indices: 62218330--62218422 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
62218320 TATGTAACTA
* *
62218330 TCATAAAATATAAAAAGTATATATATAGATACATATATATATATGAG
1 TCATAAAATATAAAAAGCATATATATAGATACATATATAAATATGAG
* *
62218377 TCATAGAATATAAATAA-CATATATA-AGATACATATTTAAAATATGA
1 TCATAAAATATAAA-AAGCATATATATAGATACATATAT-AAATATGA
62218423 AGAATGTAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
46 11 0.28
47 27 0.68
48 2 0.05
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (47 bp):
TCATAAAATATAAAAAGCATATATATAGATACATATATAAATATGAG
Found at i:62221252 original size:51 final size:51
Alignment explanation
Indices: 62221197--62221312 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
62221187 CTCAAAGTTG
* * *
62221197 ACACATCCTATCAATTTG-TTATTGATTTAAC-TAATTTAACCCACAATATTT
1 ACACATTCTATCAATTTGATCA-TGATTTAACAT-ATTTAACCCACAATAATT
* * **
62221248 ACACATTTTGTCAATTTGATCATGATTTAACATATTTAACCCGTAATAATT
1 ACACATTCTATCAATTTGATCATGATTTAACATATTTAACCCACAATAATT
62221299 ACACATTCTATCAA
1 ACACATTCTATCAA
62221313 CATTTACACA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 51 0.94
52 3 0.06
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (51 bp):
ACACATTCTATCAATTTGATCATGATTTAACATATTTAACCCACAATAATT
Found at i:62222052 original size:15 final size:16
Alignment explanation
Indices: 62222032--62222074 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
62222022 TTACAGAGGT
62222032 AAATAAA-ATATTAAA
1 AAATAAATATATTAAA
*
62222047 AAATAAATATTTTAAA
1 AAATAAATATATTAAA
62222063 AAA-AAGATATAT
1 AAATAA-ATATAT
62222075 GTCAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AAATAAATATATTAAA
Found at i:62228493 original size:23 final size:23
Alignment explanation
Indices: 62228463--62228511 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
62228453 ATTGAAACAA
62228463 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
62228486 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
62228509 CAT
1 CAT
62228512 CTTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (23 bp):
CATAATGATAGCTAATATGCTTT
Found at i:62232987 original size:23 final size:23
Alignment explanation
Indices: 62232957--62233005 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
62232947 ATTGAAACAA
62232957 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
62232980 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
62233003 CAT
1 CAT
62233006 CTTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (23 bp):
CATAATGATAGCTAATATGCTTT
Found at i:62236692 original size:4 final size:4
Alignment explanation
Indices: 62236683--62236729 Score: 76
Period size: 4 Copynumber: 11.8 Consensus size: 4
62236673 CATGTGTTTT
* *
62236683 TACA TACA TACA TACA TGCA TACA TACA TACA TACA CACA TACA TAC
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC
62236730 TTAATTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (4 bp):
TACA
Found at i:62238257 original size:51 final size:51
Alignment explanation
Indices: 62238185--62238321 Score: 145
Period size: 51 Copynumber: 2.7 Consensus size: 51
62238175 GTATAATAAT
* * *
62238185 AAATTAAACCCTCAA-AGTTTACACATTCTATCAATTTG-TTATTGATTTAAC
1 AAATTTAACCCACAACA-TTTACACATTCTATCAATTTGATCA-TGATTTAAC
* *
62238236 AAATTTAACTCACAACATTTACACATT-TCGTCAATTTGATCATGATTTAAC
1 AAATTTAACCCACAACATTTACACATTCT-ATCAATTTGATCATGATTTAAC
* * * *
62238287 ATATTTAACCCATAATAATTACACATTCTATCAAT
1 AAATTTAACCCACAACATTTACACATTCTATCAAT
62238322 ATTTACGCGA
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
50 1 0.01
51 66 0.93
52 4 0.06
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.38
Consensus pattern (51 bp):
AAATTTAACCCACAACATTTACACATTCTATCAATTTGATCATGATTTAAC
Found at i:62239074 original size:20 final size:20
Alignment explanation
Indices: 62239049--62239087 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62239039 ATTTCATATT
62239049 ATTTTTTAAAAATTTTTATG
1 ATTTTTTAAAAATTTTTATG
**
62239069 ATTTTTTTGAAATTTTTAT
1 ATTTTTTAAAAATTTTTAT
62239088 TTTTGAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTTTTTAAAAATTTTTATG
Found at i:62243433 original size:20 final size:20
Alignment explanation
Indices: 62243408--62243457 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
62243398 TGGCTTAAAA
62243408 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
62243428 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
62243445 GTGGTAGTGGATT
1 TTGGTAGTGGATT
62243458 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:62248071 original size:20 final size:20
Alignment explanation
Indices: 62248046--62248095 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
62248036 TGGCTTAAAA
62248046 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
62248066 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
62248083 GTGGTAGTGGATT
1 TTGGTAGTGGATT
62248096 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:62251753 original size:30 final size:30
Alignment explanation
Indices: 62251717--62251777 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
62251707 TAGGAATCCC
62251717 AAGTCACCATAATTAGGTGATGAGGATGGT
1 AAGTCACCATAATTAGGTGATGAGGATGGT
62251747 AAGTCACCATAATTAGGTGATGAGGATGGT
1 AAGTCACCATAATTAGGTGATGAGGATGGT
62251777 A
1 A
62251778 CTTAACTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (30 bp):
AAGTCACCATAATTAGGTGATGAGGATGGT
Found at i:62253433 original size:18 final size:19
Alignment explanation
Indices: 62253408--62253446 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
62253398 ATAAATATTA
62253408 ATTTTTTTAATTTTAAAAT
1 ATTTTTTTAATTTTAAAAT
*
62253427 ATTTTTTTATTTTTAAAAT
1 ATTTTTTTAATTTTAAAAT
62253446 A
1 A
62253447 AATTTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTTTAATTTTAAAAT
Found at i:62253452 original size:19 final size:19
Alignment explanation
Indices: 62253411--62253453 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
62253401 AATATTAATT
**
62253411 TTTTTAATTTTAAAATATT
1 TTTTTAATTTTAAAATAAA
*
62253430 TTTTTATTTTTAAAATAAA
1 TTTTTAATTTTAAAATAAA
62253449 TTTTT
1 TTTTT
62253454 GGTGTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTAATTTTAAAATAAA
Found at i:62255968 original size:117 final size:117
Alignment explanation
Indices: 62255761--62255999 Score: 379
Period size: 117 Copynumber: 2.0 Consensus size: 117
62255751 AACAGGTGTC
* *
62255761 CGAAATGGAACATAAATATGACAAGACAACCACGGCTCTTCAAGAACTCGTTGATGGCCTTGTAG
1 CGAAATGGAACATAAATATGACAAGACAACCACAGCTCTTCAAGAACTCGTCGATGGCCTTGTAG
* *
62255826 CGAAAATTGACTCCAAGGACAGTAGTTTGCGGGATTGGGAGCTTCGATATAA
66 AGAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAA
* ** * * * *
62255878 GGAAATGGAACATAAATATGATGAGACGACCGCAGCTCTTCAAGGACTCGTCGATGGTCTTGTAG
1 CGAAATGGAACATAAATATGACAAGACAACCACAGCTCTTCAAGAACTCGTCGATGGCCTTGTAG
62255943 AGAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAA
66 AGAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAA
62255995 CGAAA
1 CGAAA
62256000 CCGTGAGACA
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (117 bp):
CGAAATGGAACATAAATATGACAAGACAACCACAGCTCTTCAAGAACTCGTCGATGGCCTTGTAG
AGAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAA
Found at i:62257854 original size:30 final size:30
Alignment explanation
Indices: 62257818--62257877 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
62257808 TGTTCATTCT
*
62257818 TCCATATTTCCAAACGGAAATTAAACTTAC
1 TCCATATTTACAAACGGAAATTAAACTTAC
62257848 TCCATATTTACAAACGGAAATTAAACTTAC
1 TCCATATTTACAAACGGAAATTAAACTTAC
62257878 CTTCAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.30
Consensus pattern (30 bp):
TCCATATTTACAAACGGAAATTAAACTTAC
Found at i:62257906 original size:21 final size:21
Alignment explanation
Indices: 62257882--62257922 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
62257872 ACTTACCTTC
62257882 AAAATGCATAAAAAAATATTG
1 AAAATGCATAAAAAAATATTG
62257903 AAAATGCATAAAAAAATATT
1 AAAATGCATAAAAAAATATT
62257923 ATCAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAATGCATAAAAAAATATTG
Found at i:62258447 original size:9 final size:9
Alignment explanation
Indices: 62258433--62258555 Score: 85
Period size: 9 Copynumber: 13.1 Consensus size: 9
62258423 TTTTGGTACA
62258433 ATAATTTTT
1 ATAATTTTT
62258442 ATAATTTTTTT
1 ATAA--TTTTT
62258453 ATGAA-TTTT
1 AT-AATTTTT
62258462 ATATATTTTT
1 ATA-ATTTTT
62258472 -TAATTTTT
1 ATAATTTTT
62258480 ATAATTTTCT
1 ATAATTTT-T
*
62258490 -TACTATTTT
1 ATAAT-TTTT
*
62258499 ATAAAATTTT
1 AT-AATTTTT
62258509 ATAATTTTT
1 ATAATTTTT
*
62258518 GCAT-TTTTTT
1 --ATAATTTTT
62258528 ATAATTTTT
1 ATAATTTTT
62258537 A-AATTTTT
1 ATAATTTTT
*
62258545 AATAAATTTT
1 -ATAATTTTT
62258555 A
1 A
62258556 ACTCTTTTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 30
0.71 0.05 0.23
Matches are distributed among these distances:
8 16 0.17
9 38 0.41
10 26 0.28
11 10 0.11
12 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:62258477 original size:38 final size:38
Alignment explanation
Indices: 62258434--62258544 Score: 124
Period size: 38 Copynumber: 3.0 Consensus size: 38
62258424 TTTGGTACAA
*
62258434 TAATTTTTATAATTTTTTTA-TGAATTTTATATATTTTT
1 TAATTTTTATAATTTTTTTACT-AATTTTATAAATTTTT
* *
62258472 TAATTTTTATAATTTTCTTACT-ATTTTATAAAATTTTA
1 TAATTTTTATAATTTTTTTACTAATTTTAT-AAATTTTT
**
62258510 TAATTTTT-GCATTTTTTTA-TAATTTT-TAAATTTTT
1 TAATTTTTATAATTTTTTTACTAATTTTATAAATTTTT
62258545 AATAAATTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
35 7 0.11
36 2 0.03
37 20 0.32
38 33 0.52
39 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (38 bp):
TAATTTTTATAATTTTTTTACTAATTTTATAAATTTTT
Found at i:62258566 original size:21 final size:20
Alignment explanation
Indices: 62258540--62258587 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
62258530 AATTTTTAAA
* *
62258540 TTTTTAATAAATTTTAACTCT
1 TTTTTAATAAAATTTAA-TAT
*
62258561 TTTTTATTAAAATTTAATAT
1 TTTTTAATAAAATTTAATAT
62258581 TTTTTAA
1 TTTTTAA
62258588 ATTTTATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTAATAAAATTTAATAT
Found at i:62258781 original size:23 final size:25
Alignment explanation
Indices: 62258746--62258791 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
62258736 CAATTGAATA
62258746 AAAAAATTATTATTTTAA-AAAATTT
1 AAAAAATTATTA-TTTAATAAAATTT
62258771 AAAAAA-T-TTATTTAATAAAAT
1 AAAAAATTATTATTTAATAAAAT
62258792 CGATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.25
23 8 0.40
24 1 0.05
25 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAAAATTATTATTTAATAAAATTT
Found at i:62261274 original size:42 final size:43
Alignment explanation
Indices: 62261210--62261295 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 43
62261200 ACTAGTTTAG
* *
62261210 AGAAAGTTACTAGATCAATTAACTC-GGAATTGATACAAATCA
1 AGAAAATTACTAGATCAATTAACTCGGGAATTAATACAAATCA
*
62261252 AGAAAATTACTAGA-CAAGTTAACTCGGGATTTAATACAAATCA
1 AGAAAATTACTAGATCAA-TTAACTCGGGAATTAATACAAATCA
62261295 A
1 A
62261296 TTGAACCGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 3 0.08
42 20 0.51
43 16 0.41
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (43 bp):
AGAAAATTACTAGATCAATTAACTCGGGAATTAATACAAATCA
Found at i:62261352 original size:11 final size:11
Alignment explanation
Indices: 62261336--62261374 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
62261326 GTAGAATTTT
62261336 TTATTTTTTAA
1 TTATTTTTTAA
62261347 TTA-TTTTTAA
1 TTATTTTTTAA
*
62261357 TTATTTATTAA
1 TTATTTTTTAA
62261368 TTTATTT
1 -TTATTT
62261375 AATCAAACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 10 0.40
11 9 0.36
12 6 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTTTTAA
Found at i:62261370 original size:18 final size:19
Alignment explanation
Indices: 62261330--62261370 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
62261320 AACTGAGTAG
* *
62261330 AATTTTTTATTTTTTAATT
1 AATTTTTAATTATTTAATT
62261349 -ATTTTTAATTATTT-ATT
1 AATTTTTAATTATTTAATT
62261366 AATTT
1 AATTT
62261371 ATTTAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTAATTATTTAATT
Found at i:62264452 original size:21 final size:22
Alignment explanation
Indices: 62264428--62264474 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
62264418 TTTATGAAAT
62264428 TTTTAAATTATTTTAA-AAG-TG
1 TTTT-AATTATTTTAAGAAGTTG
**
62264449 TTTTTTTTATTTTAAGAAGTTG
1 TTTTAATTATTTTAAGAAGTTG
62264471 TTTT
1 TTTT
62264475 TTCATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.62
Consensus pattern (22 bp):
TTTTAATTATTTTAAGAAGTTG
Found at i:62264460 original size:20 final size:22
Alignment explanation
Indices: 62264435--62264476 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
62264425 AATTTTTAAA
62264435 TTATTTTAA-AAG-TGTTTTTT
1 TTATTTTAAGAAGTTGTTTTTT
62264455 TTATTTTAAGAAGTTGTTTTTT
1 TTATTTTAAGAAGTTGTTTTTT
62264477 CATAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (22 bp):
TTATTTTAAGAAGTTGTTTTTT
Found at i:62267765 original size:16 final size:18
Alignment explanation
Indices: 62267739--62267772 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
62267729 GTCTATATTA
62267739 TTTATAAATTTTA-ATTT
1 TTTATAAATTTTAGATTT
62267756 TTTA-AAATTTTAGATTT
1 TTTATAAATTTTAGATTT
62267773 AAACTCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATAAATTTTAGATTT
Found at i:62272166 original size:28 final size:29
Alignment explanation
Indices: 62272135--62272199 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 29
62272125 ACATATATGT
62272135 ATATACATAT-ATAAG-CAAATATATAATA
1 ATATACATATAATAAGACAAATATATAA-A
* *
62272163 ATATTA-ATATAATAAGACACATATTTAAA
1 ATA-TACATATAATAAGACAAATATATAAA
62272192 AT-TACATA
1 ATATACATA
62272200 AGTAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
27 2 0.06
28 10 0.32
29 10 0.32
30 9 0.29
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATACATATAATAAGACAAATATATAAA
Found at i:62272251 original size:3 final size:3
Alignment explanation
Indices: 62272243--62272270 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
62272233 ACAAAGATAT
62272243 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
62272271 CAACATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:62279983 original size:43 final size:45
Alignment explanation
Indices: 62279936--62280031 Score: 133
Period size: 43 Copynumber: 2.2 Consensus size: 45
62279926 ATGCTGTATG
* * * *
62279936 TATAAATAATTAATAATAAATATTAT-TAA-TTAGTTAAAATTAA
1 TATAAATAACTAATAATAAATAGTATGCAACTTAGTCAAAATTAA
62279979 TATAAATAACTAATAATAAATAGTATGCAACTTAGTCAAAATTAA
1 TATAAATAACTAATAATAAATAGTATGCAACTTAGTCAAAATTAA
*
62280024 AATAAATA
1 TATAAATA
62280032 GTTTTTAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 24 0.52
44 2 0.04
45 20 0.43
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (45 bp):
TATAAATAACTAATAATAAATAGTATGCAACTTAGTCAAAATTAA
Found at i:62284930 original size:20 final size:20
Alignment explanation
Indices: 62284907--62284944 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62284897 TTTAATTAAT
62284907 TTTTTAA-ATTTTAAAAATA
1 TTTTTAATATTTTAAAAATA
*
62284926 TTTTTAATATTTTTAAAAT
1 TTTTTAATATTTTAAAAAT
62284945 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTAATATTTTAAAAATA
Found at i:62284960 original size:28 final size:28
Alignment explanation
Indices: 62284898--62284960 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
62284888 GCATCAACAT
*
62284898 TTAATTAATTTTTTAAATTTTAAAAATA
1 TTAATTAATTTTTTAAAATTTAAAAATA
*
62284926 TT-TTTAATATTTTTAAAATTTAAAAA-A
1 TTAATTAAT-TTTTTAAAATTTAAAAATA
62284953 TTAATTAA
1 TTAATTAA
62284961 ATGTTGATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTAATTAATTTTTTAAAATTTAAAAATA
Found at i:62299435 original size:13 final size:13
Alignment explanation
Indices: 62299417--62299441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62299407 TATTGAAGCA
62299417 CTTTTATCTTCCG
1 CTTTTATCTTCCG
62299430 CTTTTATCTTCC
1 CTTTTATCTTCC
62299442 TATTAAAGAA
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:0.32, G:0.04, T:0.56
Consensus pattern (13 bp):
CTTTTATCTTCCG
Found at i:62303160 original size:17 final size:17
Alignment explanation
Indices: 62303138--62303172 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
62303128 TCATATTCAA
62303138 ATGCAATGAAGTTTATT
1 ATGCAATGAAGTTTATT
62303155 ATGCAATGAAGTTTATT
1 ATGCAATGAAGTTTATT
62303172 A
1 A
62303173 ATGTATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (17 bp):
ATGCAATGAAGTTTATT
Found at i:62304068 original size:572 final size:578
Alignment explanation
Indices: 62302968--62304132 Score: 2171
Period size: 572 Copynumber: 2.0 Consensus size: 578
62302958 ACCAGAGAAT
62302968 AATATCGGTGGTAAGATGTATTAGATCGAAGCTAGCAGTTTAGGTGAACGTTAAGTAGGTCTGAC
1 AATATCGGTGGTAAGATGTATTAGATCGAAGCTAGCAGTTTAGGTGAACGTTAAGTAGGTCTGAC
*
62303033 CGTCTTGAGTTTCTTGTTGTATTGGCTATACGAGGTAATGTTAAGTATGTCTGACCATCTGAGTT
66 CGTCTTGAGTTTCTTGTTGTATTGGCTATACGAGGTAATGTTAAGTAGGTCTGACCATCTGAGTT
62303098 TCAAATCCCGACATTGTTATCCTCTTATTCTCATATTCAAATGCAATGAAGTTTATTATGCAATG
131 TCAAATCCCGACATTGTTATCCTCTTATTCTCATATT---ATGC----AA---TA-TATGCAATG
*
62303163 AAGTTTATTAATGTATTTTCTTTTAAAGCTACAAGTACTTACAAATATCAGAAAAATGAAAAAAC
185 AAGTTTATTAATGTATTTTCTTTTAAAGCTACAAGTACTTACAAATATCAAAAAAATGAAAAAAC
62303228 AAATCTCCATTGTTGCTTTCTGCAGAAGTGTCTTCATTTACAAAAAGAGAAAACTAATTCAAGTC
250 AAATCTCCATTGTTGCTTTCTGCAGAAGTGTCTTCATTTACAAAAAGAGAAAACTAATTCAAGTC
62303293 TCATCGTATATAGGTTCGGCCTAAAGACCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACA
315 TCATCGTATATAGGTTCGGCCTAAAGACCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACA
62303358 AGTGAAAGTATTGTAAGAATAGAAGCTTTTAGAATCTTATAGAACTGAACTGTGTGTTGTATTGT
380 AGTGAAAGTATTGTAAGAATAGAAGCTTTTAGAATCTTATAGAACTGAACTGTGTGTTGTATTGT
62303423 AATGATACTTACTGGTGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAG
445 AATGATACTTACTGGTGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAG
62303488 GTTCGGCCTAAAGACCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTATTG
510 GTTCGGCCTAAAGACCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTATTG
62303553 TAAG
575 TAAG
62303557 AATATCGGTGGTAAGATGTATTAGATCGAAGCTAGCAGTTTAGGTGAACGTTAAGTAGGTCTGAC
1 AATATCGGTGGTAAGATGTATTAGATCGAAGCTAGCAGTTTAGGTGAACGTTAAGTAGGTCTGAC
62303622 CGTCTTGAGTTTCTTGTTGTATTGGCTATACGAGGTAATGTTAAGTAGGTCTGACCATCTGAGTT
66 CGTCTTGAGTTTCTTGTTGTATTGGCTATACGAGGTAATGTTAAGTAGGTCTGACCATCTGAGTT
62303687 TCAAATCCCGACATTGTTATCCTCTTATTCTCATA-T-T-C-A-A-ATGCAATGAAGTTTATTAA
131 TCAAATCCCGACATTGTTATCCTCTTATTCTCATATTATGCAATATATGCAATGAAGTTTATTAA
62303746 TGTATTTTCTTTTAAAGCTACAAGTACTTACAAATATCAAAAAAATGAAAAAACAAATCTCCATT
196 TGTATTTTCTTTTAAAGCTACAAGTACTTACAAATATCAAAAAAATGAAAAAACAAATCTCCATT
62303811 GTTGCTTTCTGCAGAAGTGTCTTCATTTACAAAAAGAGAAAACTAATTCAAGTCTCATCGTATAT
261 GTTGCTTTCTGCAGAAGTGTCTTCATTTACAAAAAGAGAAAACTAATTCAAGTCTCATCGTATAT
62303876 AGGTTCGGCCTAAAGACCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTAT
326 AGGTTCGGCCTAAAGACCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTAT
62303941 TGTAAGAATAGAAGCTTTTAGAATCTTATAGAACTGAACTGTGTGTTGTATTGTAATGATACTTA
391 TGTAAGAATAGAAGCTTTTAGAATCTTATAGAACTGAACTGTGTGTTGTATTGTAATGATACTTA
62304006 CTGGTGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTAA
456 CTGGTGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTAA
62304071 AGACCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTATTGTAAG
521 AGACCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTATTGTAAG
62304129 AATA
1 AATA
62304133 GAAGCTTTTA
Statistics
Matches: 574, Mismatches: 2, Indels: 17
0.97 0.00 0.03
Matches are distributed among these distances:
572 405 0.71
574 1 0.00
578 1 0.00
583 1 0.00
584 1 0.00
588 1 0.00
589 164 0.29
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (578 bp):
AATATCGGTGGTAAGATGTATTAGATCGAAGCTAGCAGTTTAGGTGAACGTTAAGTAGGTCTGAC
CGTCTTGAGTTTCTTGTTGTATTGGCTATACGAGGTAATGTTAAGTAGGTCTGACCATCTGAGTT
TCAAATCCCGACATTGTTATCCTCTTATTCTCATATTATGCAATATATGCAATGAAGTTTATTAA
TGTATTTTCTTTTAAAGCTACAAGTACTTACAAATATCAAAAAAATGAAAAAACAAATCTCCATT
GTTGCTTTCTGCAGAAGTGTCTTCATTTACAAAAAGAGAAAACTAATTCAAGTCTCATCGTATAT
AGGTTCGGCCTAAAGACCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTAT
TGTAAGAATAGAAGCTTTTAGAATCTTATAGAACTGAACTGTGTGTTGTATTGTAATGATACTTA
CTGGTGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTAA
AGACCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTATTGTAAG
Found at i:62304134 original size:182 final size:182
Alignment explanation
Indices: 62303827--62304199 Score: 728
Period size: 182 Copynumber: 2.0 Consensus size: 182
62303817 TTCTGCAGAA
*
62303827 GTGTCTTCATTTACAAAAAGAGAAAACTAATTCAAGTCTCATCGTATATAGGTTCGGCCTAAAGA
1 GTGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTAAAGA
62303892 CCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTATTGTAAGAATAGAAGCT
66 CCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTATTGTAAGAATAGAAGCT
62303957 TTTAGAATCTTATAGAACTGAACTGTGTGTTGTATTGTAATGATACTTACTG
131 TTTAGAATCTTATAGAACTGAACTGTGTGTTGTATTGTAATGATACTTACTG
62304009 GTGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTAAAGA
1 GTGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTAAAGA
62304074 CCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTATTGTAAGAATAGAAGCT
66 CCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTATTGTAAGAATAGAAGCT
62304139 TTTAGAATCTTATAGAACTGAACTGTGTGTTGTATTGTAATGATACTTACTG
131 TTTAGAATCTTATAGAACTGAACTGTGTGTTGTATTGTAATGATACTTACTG
*
62304191 GTGTTTTCA
1 GTGTCTTCA
62304200 CAGATGGGAA
Statistics
Matches: 189, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 189 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (182 bp):
GTGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTAAAGA
CCAGAGTCCCGTATCTTTAACCGGTGTCTGAAAAAACAAGTGAAAGTATTGTAAGAATAGAAGCT
TTTAGAATCTTATAGAACTGAACTGTGTGTTGTATTGTAATGATACTTACTG
Found at i:62306302 original size:4 final size:4
Alignment explanation
Indices: 62306280--62306322 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
62306270 TCATGAATAT
* * *
62306280 ATAC ATGC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
62306323 TATATAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:62310584 original size:4 final size:4
Alignment explanation
Indices: 62310575--62310611 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
62310565 AAAATGATGG
62310575 TACA TACA TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA T
62310612 CAAATGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:62323222 original size:3 final size:3
Alignment explanation
Indices: 62323214--62323307 Score: 109
Period size: 3 Copynumber: 31.3 Consensus size: 3
62323204 CCCTTTTGTT
62323214 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * * * *
62323262 TTA TCA TCG TTA TTA CTA CTA GTA TTA TTA TT- TATA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
62323307 T
1 T
62323308 ACTAGTGTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
2 1 0.01
3 78 0.98
4 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:62328831 original size:16 final size:17
Alignment explanation
Indices: 62328810--62328859 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
62328800 GAATTGTAAC
*
62328810 TTCTAT-CTTTCAGTTT
1 TTCTATCCTTTCAATTT
62328826 TTCTATCCTTTCAA-TT
1 TTCTATCCTTTCAATTT
* *
62328842 TTCCATCTTTTCAATTT
1 TTCTATCCTTTCAATTT
62328859 T
1 T
62328860 CTTTCCATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 20 0.69
17 9 0.31
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.60
Consensus pattern (17 bp):
TTCTATCCTTTCAATTT
Found at i:62333302 original size:50 final size:50
Alignment explanation
Indices: 62333247--62333368 Score: 158
Period size: 50 Copynumber: 2.5 Consensus size: 50
62333237 CATTAAGATT
* * *
62333247 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATTGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
*** *
62333297 ATGAGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
*
62333347 ATGAGA--ACCCATGTAAGACCAT
1 ATGAGAGGTCCCATGTAAGACCAT
62333369 TTCTAGGATA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 12 0.20
50 49 0.80
ACGTcount: A:0.28, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:62345620 original size:17 final size:18
Alignment explanation
Indices: 62345592--62345625 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
62345582 GGATTAATAA
62345592 ATTTTAAATTTTCGGTTT
1 ATTTTAAATTTTCGGTTT
*
62345610 ATTTT-AATTTTGGGTT
1 ATTTTAAATTTTCGGTT
62345626 ATTATTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.03, G:0.15, T:0.62
Consensus pattern (18 bp):
ATTTTAAATTTTCGGTTT
Found at i:62345896 original size:30 final size:29
Alignment explanation
Indices: 62345855--62345937 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
62345845 AAGTTTAAAA
62345855 TTTAGGTAATAGTTATATACGTATTAATATT
1 TTTAGGTAATAGTTATATAC-TA-TAATATT
62345886 TTTA-GTAATAGTTATATACTATAATATTAT
1 TTTAGGTAATAGTTATATACTATAATA-T-T
* * *
62345916 TTTATGTATTAGTAATATACTA
1 TTTAGGTAATAGTTATATACTA
62345938 ATTTAATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 5 0.11
29 3 0.06
30 20 0.43
31 19 0.40
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (29 bp):
TTTAGGTAATAGTTATATACTATAATATT
Found at i:62345917 original size:31 final size:29
Alignment explanation
Indices: 62345855--62345937 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 29
62345845 AAGTTTAAAA
62345855 TTTAGGTAATAGTTATATACGTATTAATATT
1 TTTAGGTAATAGTTATATAC-TATTAATA-T
*
62345886 TTTA-GTAATAGTTATATACTATAATATTAT
1 TTTAGGTAATAGTTATATACTAT--TAATAT
* * *
62345916 TTTATGTATTAGTAATATACTA
1 TTTAGGTAATAGTTATATACTA
62345938 ATTTAATTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 3 0.07
30 20 0.43
31 23 0.50
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (29 bp):
TTTAGGTAATAGTTATATACTATTAATAT
Found at i:62347432 original size:24 final size:26
Alignment explanation
Indices: 62347405--62347466 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
62347395 TCAAATTCGT
*
62347405 CATCAT-TCATGATCAAAACCACC-C
1 CATCATATCATCATCAAAACCACCAC
* *
62347429 CATCATCATCATCATCAACATCACCAC
1 CATCAT-ATCATCATCAAAACCACCAC
62347456 CATCATCATCA
1 CATCAT-ATCA
62347467 AAAACAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
26 14 0.44
27 12 0.38
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.23
Consensus pattern (26 bp):
CATCATATCATCATCAAAACCACCAC
Found at i:62358081 original size:27 final size:26
Alignment explanation
Indices: 62358028--62358085 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
62358018 AGTACTGTTT
** *
62358028 TAACAAAGAAAAATATCAGAAGCAAC
1 TAACAAAGAAAAATAAAAGAAGAAAC
*
62358054 TAACCAAGAAAAATAAAAGAGAGAAAC
1 TAACAAAGAAAAATAAAAGA-AGAAAC
62358081 TAACA
1 TAACA
62358086 TGAACACAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.64, C:0.14, G:0.12, T:0.10
Consensus pattern (26 bp):
TAACAAAGAAAAATAAAAGAAGAAAC
Found at i:62382783 original size:47 final size:45
Alignment explanation
Indices: 62382724--62382836 Score: 111
Period size: 47 Copynumber: 2.4 Consensus size: 45
62382714 TAAGAAAAAG
** * *
62382724 CCTTTCTTCAAAGCCATTTCTTTTTTTTTTATCCTTTAAAAAGAAA-C
1 CCTTT-TTCAAAGCCATTTC-TTCCTCTTTACCCTTTAAAAA-AAACC
**
62382771 CCTTTTTCCAAAGTAATTTCTTCCTCTTTACCCTTTAAAAAAAATCC
1 CCTTTTT-CAAAGCCATTTCTTCCTCTTTACCCTTTAAAAAAAA-CC
62382818 CCTTTTTTCAAAGCCATTT
1 CC-TTTTTCAAAGCCATTT
62382837 TTTGCTTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
45 3 0.06
46 19 0.35
47 27 0.50
48 5 0.09
ACGTcount: A:0.27, C:0.25, G:0.04, T:0.44
Consensus pattern (45 bp):
CCTTTTTCAAAGCCATTTCTTCCTCTTTACCCTTTAAAAAAAACC
Found at i:62385308 original size:20 final size:21
Alignment explanation
Indices: 62385285--62385326 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
62385275 TTTTTTAGAC
*
62385285 AATTATGT-TTATTTTCTTTA
1 AATTAAGTGTTATTTTCTTTA
*
62385305 AATTAAGTGTTATTTTTTTTA
1 AATTAAGTGTTATTTTCTTTA
62385326 A
1 A
62385327 CTTCATGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (21 bp):
AATTAAGTGTTATTTTCTTTA
Found at i:62386601 original size:25 final size:25
Alignment explanation
Indices: 62386548--62386594 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
62386538 ATAATTGTAG
62386548 TGTATTTA-G-TATTATTTAT-ATGA
1 TGTATTTATGTTATTATTT-TCATGA
62386571 TGTATTTATGTTATTATTTTCATG
1 TGTATTTATGTTATTATTTTCATG
62386595 TGTTATTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 8 0.38
24 2 0.10
25 11 0.52
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.60
Consensus pattern (25 bp):
TGTATTTATGTTATTATTTTCATGA
Found at i:62394483 original size:28 final size:26
Alignment explanation
Indices: 62394452--62394505 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
62394442 CTCTTTTGAG
* *
62394452 TTAATAAATTCTCTCTGGGTTTTCTTTT
1 TTAAGAAATTCTCT-TGAG-TTTCTTTT
*
62394480 TTAAGAATTTCTCTTGAGTTTCTTTT
1 TTAAGAAATTCTCTTGAGTTTCTTTT
62394506 AGAAGAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.35
27 3 0.13
28 12 0.52
ACGTcount: A:0.19, C:0.13, G:0.11, T:0.57
Consensus pattern (26 bp):
TTAAGAAATTCTCTTGAGTTTCTTTT
Found at i:62394727 original size:14 final size:13
Alignment explanation
Indices: 62394704--62394745 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
62394694 TAATCTTTGA
62394704 TTTATTATTTTAT
1 TTTATTATTTTAT
62394717 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
62394730 TTTAATTTTTTTAT
1 TTT-ATTATTTTAT
62394744 TT
1 TT
62394746 GACTTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:62394743 original size:18 final size:18
Alignment explanation
Indices: 62394703--62394745 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
62394693 TTAATCTTTG
62394703 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
62394720 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
62394739 -TTTATTT
1 ATTTATTT
62394746 GACTTGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 13 0.59
19 5 0.23
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:62395270 original size:15 final size:15
Alignment explanation
Indices: 62395250--62395288 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
62395240 GAATTATTTA
62395250 AAAATATTAAAAGA-T
1 AAAATATTAAAA-ATT
*
62395265 AAAATACTAAAAATT
1 AAAATATTAAAAATT
62395280 AAAATATTA
1 AAAATATTA
62395289 TTTTTACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (15 bp):
AAAATATTAAAAATT
Found at i:62400770 original size:9 final size:9
Alignment explanation
Indices: 62400751--62400784 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
62400741 TTATTAATTA
62400751 TTAAGTTCGG
1 TTAA-TTCGG
62400761 TTAATTCGG
1 TTAATTCGG
62400770 TTAATTCGG
1 TTAATTCGG
62400779 TTAATT
1 TTAATT
62400785 ACCAGATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.47
Consensus pattern (9 bp):
TTAATTCGG
Found at i:62401414 original size:41 final size:40
Alignment explanation
Indices: 62401275--62401449 Score: 154
Period size: 41 Copynumber: 4.3 Consensus size: 40
62401265 ATCAACCGGT
* * *
62401275 GCTATAGACCGACGCATTACCGGCGCTTTTACACAAACGCC
1 GCTATAGACCGA-GCATTAGCGGCGCTTTTTCAAAAACGCC
* * * * *
62401316 GCTATAGACCTGAACATTAGCGGCACTTCTCCAAAAATGCC
1 GCTATAGACC-GAGCATTAGCGGCGCTTTTTCAAAAACGCC
* *
62401357 GCTATACATACC-AGCATTAGCGGCGCTTTTTCAAAAACGCT
1 GCTAT--AGACCGAGCATTAGCGGCGCTTTTTCAAAAACGCC
* * * * *
62401398 GCTTTAGACCAGAGCATCAGCGACGCTTTATAAAAAACGCC
1 GCTATAGACC-GAGCATTAGCGGCGCTTTTTCAAAAACGCC
*
62401439 GTTATAGACCG
1 GCTATAGACCG
62401450 CATCATTTGC
Statistics
Matches: 106, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
39 4 0.04
40 1 0.01
41 95 0.90
42 2 0.02
43 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
GCTATAGACCGAGCATTAGCGGCGCTTTTTCAAAAACGCC
Found at i:62401785 original size:39 final size:39
Alignment explanation
Indices: 62401709--62401825 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 39
62401699 GCGCTTTTTG
* * * *
62401709 TAAAACGCCGCTAATGCTTGGTTTTAGCGGCGTTTTTTA
1 TAAAACGCCGCTAATGCTCGATTTTAGTGGCGTTTTTCA
** * *
62401748 TTTAACGCCGCTAATGCTCGATATTTAATGGCGTTTTTCG
1 TAAAACGCCGCTAATGCTCGAT-TTTAGTGGCGTTTTTCA
*
62401788 TAAAATGCCGCTAATGCTCGATTTTTAGTGGCGTTTTT
1 TAAAACGCCGCTAATGCTCGA-TTTTAGTGGCGTTTTT
62401826 TGTCCAAACG
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 18 0.28
40 45 0.70
41 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (39 bp):
TAAAACGCCGCTAATGCTCGATTTTAGTGGCGTTTTTCA
Found at i:62405052 original size:8 final size:8
Alignment explanation
Indices: 62405039--62405072 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
62405029 AATGATAAGG
62405039 TTGAAATC
1 TTGAAATC
62405047 TTGAAATC
1 TTGAAATC
62405055 TTGAAATC
1 TTGAAATC
62405063 TTGAAATC
1 TTGAAATC
62405071 TT
1 TT
62405073 AAGTATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (8 bp):
TTGAAATC
Found at i:62407555 original size:12 final size:12
Alignment explanation
Indices: 62407534--62407566 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
62407524 AGTAAGTAAA
62407534 TAAATAAAATAT
1 TAAATAAAATAT
*
62407546 TAAATGAAATAT
1 TAAATAAAATAT
62407558 TAAATAAAA
1 TAAATAAAA
62407567 CCTTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:62409316 original size:187 final size:187
Alignment explanation
Indices: 62409033--62409383 Score: 510
Period size: 187 Copynumber: 1.9 Consensus size: 187
62409023 AGGCTGGTGG
* *
62409033 CTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAAATCTGCCATAACTTGTAGCTTTAATCTGT
* * * * *
62409098 TCCACTACAACACTAGGGAAATAAAATTCGCTGT-TTTCAATCTTCTTCGTTGCAACTTCAGGGA
66 TCCACTACAACACCAGGGAAATAAAATTCGCTATCTTT-AATCTGCTCCGCTGCAACTTCAGGGA
*
62409162 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAATGCCAAAAAATAAGATTTGCTAT
130 GATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAATGCCAAAAAATAAGATTTGCTAT
* * *
62409220 CTTCAATCTGTTCCGCTGCAACTTC-AGAAAGATAAAAT-TCGCCATAACTTGTAGTTTTAATCT
1 CTTCAATCTGCTCCACTGCAACTTCAAG-AAGATAAAATCT-GCCATAACTTGTAGCTTTAATCT
** * * *
62409283 GTTCCACTACAATGCCAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCGCTGCAAGTTCAGGG
64 GTTCCACTACAACACCAGGGAAATAAAATTCGCTATCTTTAATCTGCTCCGCTGCAACTTCAGGG
62409348 AGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAA
129 AGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAA
62409384 CTTCAGGAAG
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
186 3 0.02
187 139 0.96
188 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (187 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAAATCTGCCATAACTTGTAGCTTTAATCTGT
TCCACTACAACACCAGGGAAATAAAATTCGCTATCTTTAATCTGCTCCGCTGCAACTTCAGGGAG
ATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAATGCCAAAAAATAAGATTTGCTAT
Found at i:62409329 original size:143 final size:143
Alignment explanation
Indices: 62409182--62409464 Score: 363
Period size: 143 Copynumber: 2.0 Consensus size: 143
62409172 GTGGCTTCAA
* * * * *
62409182 TCTGCTCCACTGCAA-TGCCA-AAAAATAAGATTTGCTATCTTCAATCTGTTCCGCTGCAACTTC
1 TCTGCTCCACTGCAAGT-CCAGAAAAATAAGACTAG-TAGCTTCAATCTGCTCCACTGCAACTTC
**
62409245 AGAAAGATAAAATTCGCCATAACTTGTAGTTTTAATCTGTTCCACTACAATGCCAGGGAAATAAG
64 AGAAAGATAAAATTCGCCATAACTTGTAGTTTTAATCTGTTCCACTACAACACCAGGGAAATAAG
62409310 ATTCGCTATCTTTAG
129 ATTCGCTATCTTTAG
* * ** * * *
62409325 TCTGCTCCGCTGCAAGTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAAGTCCAGAAAAATAAGACTAGTAGCTTCAATCTGCTCCACTGCAACTTCAG
* * * * *
62409390 GAAGATAAGATTCGCTATAACTTTTAGTTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGAT
66 AAAGATAAAATTCGCCATAACTTGTAGTTTTAATCTGTTCCACTACAACACCAGGGAAATAAGAT
62409455 TCGCTATCTT
131 TCGCTATCTT
62409465 CAATCTACTC
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 110 0.92
144 9 0.08
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (143 bp):
TCTGCTCCACTGCAAGTCCAGAAAAATAAGACTAGTAGCTTCAATCTGCTCCACTGCAACTTCAG
AAAGATAAAATTCGCCATAACTTGTAGTTTTAATCTGTTCCACTACAACACCAGGGAAATAAGAT
TCGCTATCTTTAG
Found at i:62409476 original size:143 final size:143
Alignment explanation
Indices: 62409220--62409552 Score: 481
Period size: 143 Copynumber: 2.3 Consensus size: 143
62409210 GATTTGCTAT
* * * *
62409220 CTTCAATCTGTTCCGCTGCAACTTCAGAAAGATAAAATTCGCCATAACTTGTAGTTTTAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAACTTGTAGTTTTAATCTGT
** * * *
62409285 TCCACTACAATGCCAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCGCTGCAAG-TTCAGGGA
66 TCCACTACAACACCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCGCTGC-AGCTTCAGGGA
62409349 GATAAGGCTAGTGG
130 GATAAGGCTAGTGG
* *
62409363 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCTATAACTTTTAGTTTTAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAACTTGTAGTTTTAATCTGT
* *
62409428 TCCACTGCAACACCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCGCTGCAGCTTTAGGGAG
66 TCCACTACAACACCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCGCTGCAGCTTCAGGGAG
*
62409493 ATAAGGCTGGTGG
131 ATAAGGCTAGTGG
* * *
62409506 CTTCAATTTGCTTCACTACAACTTCAGGAAGATAAGA-TCTGCCATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTC-GCCATAA
62409553 TGACTTCAAT
Statistics
Matches: 170, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
142 4 0.02
143 166 0.98
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (143 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAACTTGTAGTTTTAATCTGT
TCCACTACAACACCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCGCTGCAGCTTCAGGGAG
ATAAGGCTAGTGG
Found at i:62410444 original size:5 final size:5
Alignment explanation
Indices: 62410423--62410457 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
62410413 CACATTGGCC
62410423 TTTCAT TTTCAT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTC-T TTTC-T TTTCT TTTCT TTTCT TTTCT TTT
62410458 TTTAAAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTCT
Found at i:62410566 original size:14 final size:15
Alignment explanation
Indices: 62410543--62410575 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
62410533 ATCGACGCTT
*
62410543 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
62410557 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
62410572 TTCC
1 TTCC
62410576 CAATTTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:62411493 original size:30 final size:30
Alignment explanation
Indices: 62411457--62411516 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
62411447 GAAGTAAGTA
*
62411457 AAAAAATATATTTTATTGAAATAAAAATGT
1 AAAAAATACATTTTATTGAAATAAAAATGT
62411487 AAAAAATACATTTTATTGAAATAAAAATGT
1 AAAAAATACATTTTATTGAAATAAAAATGT
62411517 TGGACATAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (30 bp):
AAAAAATACATTTTATTGAAATAAAAATGT
Found at i:62415605 original size:12 final size:12
Alignment explanation
Indices: 62415564--62415606 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
62415554 AAATGACAAT
*
62415564 ATAATAATAACA
1 ATAATAACAACA
*
62415576 ATAACAACAACA
1 ATAATAACAACA
* *
62415588 ACAATAACCACA
1 ATAATAACAACA
62415600 ATAATAA
1 ATAATAA
62415607 TAAGTCTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAATAACAACA
Found at i:62415608 original size:15 final size:15
Alignment explanation
Indices: 62415569--62415609 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
62415559 ACAATATAAT
62415569 AATAACAATAACAAC
1 AATAACAATAACAAC
* *
62415584 AACAACAATAACCAC
1 AATAACAATAACAAC
*
62415599 AATAATAATAA
1 AATAACAATAA
62415610 GTCTAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.66, C:0.20, G:0.00, T:0.15
Consensus pattern (15 bp):
AATAACAATAACAAC
Found at i:62417979 original size:11 final size:11
Alignment explanation
Indices: 62417963--62417993 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
62417953 GAAGATCATG
62417963 CAAAGTGAGTT
1 CAAAGTGAGTT
62417974 CAAAGTGAGTT
1 CAAAGTGAGTT
*
62417985 CAAAATGAG
1 CAAAGTGAG
62417994 CATGGTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.23
Consensus pattern (11 bp):
CAAAGTGAGTT
Found at i:62420621 original size:17 final size:17
Alignment explanation
Indices: 62420599--62420631 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
62420589 TATATTTTTA
62420599 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
62420616 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
62420632 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:62429788 original size:13 final size:13
Alignment explanation
Indices: 62429780--62429804 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62429770 TAATAATATA
62429780 ATAATATAATAAT
1 ATAATATAATAAT
62429793 ATAATATAATAA
1 ATAATATAATAA
62429805 AAATAAAAAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:62429790 original size:16 final size:15
Alignment explanation
Indices: 62429765--62429809 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
62429755 AATTAAAGTG
62429765 ATAAATAATAATATA
1 ATAAATAATAATATA
62429780 ATAATATAATAATATA
1 ATAA-ATAATAATATA
*
62429796 ATATAATAAAAATA
1 ATA-AATAATAATA
62429810 AAAATTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 4 0.15
16 22 0.81
17 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAATAATAATATA
Found at i:62429804 original size:8 final size:8
Alignment explanation
Indices: 62429765--62429798 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
62429755 AATTAAAGTG
62429765 ATAA-ATA
1 ATAATATA
62429772 ATAATATA
1 ATAATATA
62429780 ATAATATA
1 ATAATATA
62429788 ATAATATA
1 ATAATATA
62429796 ATA
1 ATA
62429799 TAATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.15
8 22 0.85
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATATA
Found at i:62432399 original size:23 final size:23
Alignment explanation
Indices: 62432372--62432424 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
62432362 AGTATTATTG
*
62432372 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGATAGCTTCGGCTACAT
*
62432395 TTCAGTGATAGCTTCGGCTACAT
1 ATCAGTGATAGCTTCGGCTACAT
62432418 ATCAGTG
1 ATCAGTG
62432425 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGATAGCTTCGGCTACAT
Found at i:62435332 original size:45 final size:45
Alignment explanation
Indices: 62435281--62435368 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
62435271 TTTCGCATAC
* **
62435281 TGGCCCATTTTTTCTTTAAATTCATGCTTTTTCCCCTAAATTTAT
1 TGGCCCATTTTATCTTTAAATTCACACTTTTTCCCCTAAATTTAT
*
62435326 TGGCCCATTTTATCTTTAAATTCACACTTTTTCCCTTAAATTT
1 TGGCCCATTTTATCTTTAAATTCACACTTTTTCCCCTAAATTT
62435369 CCTTTTACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.06, T:0.50
Consensus pattern (45 bp):
TGGCCCATTTTATCTTTAAATTCACACTTTTTCCCCTAAATTTAT
Found at i:62438851 original size:34 final size:35
Alignment explanation
Indices: 62438807--62438873 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
62438797 CAGTAAAATA
* *
62438807 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
62438841 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
62438874 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:62438860 original size:20 final size:20
Alignment explanation
Indices: 62438822--62438861 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62438812 CGTAAAATGA
**
62438822 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
62438842 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
62438862 GGAAAATATT
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:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:62440423 original size:13 final size:13
Alignment explanation
Indices: 62440405--62440429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62440395 CCAGAAACTG
62440405 ATTTGCAGAAAAT
1 ATTTGCAGAAAAT
62440418 ATTTGCAGAAAA
1 ATTTGCAGAAAA
62440430 CTACCCATTT
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:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (13 bp):
ATTTGCAGAAAAT
Found at i:62440962 original size:16 final size:17
Alignment explanation
Indices: 62440941--62440981 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
62440931 TAAAAGAATA
62440941 TTTTATTTA-T-ATAAAT
1 TTTTATTTATTAAT-AAT
*
62440957 TTTTATATATTAATAAT
1 TTTTATTTATTAATAAT
62440974 TTTTATTT
1 TTTTATTT
62440982 TCTAGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 8 0.38
17 11 0.52
18 2 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTTATTAATAAT
Found at i:62442133 original size:15 final size:15
Alignment explanation
Indices: 62442113--62442147 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
62442103 TTTATTATAA
62442113 GTTCTGATCATATTT
1 GTTCTGATCATATTT
62442128 GTTCTGATCATATTT
1 GTTCTGATCATATTT
62442143 GTTCT
1 GTTCT
62442148 TTTTGACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.54
Consensus pattern (15 bp):
GTTCTGATCATATTT
Found at i:62442441 original size:10 final size:9
Alignment explanation
Indices: 62442402--62442461 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
62442392 TTTTTTTTTC
62442402 AAAAATCAA
1 AAAAATCAA
*
62442411 AGAAAATC-T
1 A-AAAATCAA
* *
62442420 AAAAGTCGA
1 AAAAATCAA
62442429 AAAAATCATA
1 AAAAATCA-A
62442439 AAAAATCAA
1 AAAAATCAA
**
62442448 AAATGTCAA
1 AAAAATCAA
62442457 AAAAA
1 AAAAA
62442462 AACTTAAAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
8 5 0.13
9 19 0.49
10 15 0.38
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (9 bp):
AAAAATCAA
Found at i:62442443 original size:27 final size:28
Alignment explanation
Indices: 62442402--62442461 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
62442392 TTTTTTTTTC
* *
62442402 AAAAATCAAAGAAAATCTAAAA-GTCGA
1 AAAAATCAAAGAAAATCAAAAATGTCAA
62442429 AAAAATCATAA-AAAATCAAAAATGTCAA
1 AAAAATCA-AAGAAAATCAAAAATGTCAA
62442457 AAAAA
1 AAAAA
62442462 AACTTAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (28 bp):
AAAAATCAAAGAAAATCAAAAATGTCAA
Found at i:62442520 original size:20 final size:21
Alignment explanation
Indices: 62442497--62442541 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
62442487 TAATAATAAT
*
62442497 AATTTAAAAATA-TATTTTAA
1 AATTTAAAAATATTATTTAAA
*
62442517 AATTTAAAAGTATTATTTAAA
1 AATTTAAAAATATTATTTAAA
62442538 AATT
1 AATT
62442542 CAAAGAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTTAAAAATATTATTTAAA
Found at i:62442625 original size:13 final size:13
Alignment explanation
Indices: 62442592--62442622 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
62442582 AAAATAAAAA
62442592 TAAAAATTATCTT
1 TAAAAATTATCTT
62442605 TAAAAATTAT-TT
1 TAAAAATTATCTT
62442617 TAAAAA
1 TAAAAA
62442623 ATTCAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAAAATTATCTT
Found at i:62445830 original size:16 final size:16
Alignment explanation
Indices: 62445809--62445853 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
62445799 CCCAAACCCC
62445809 AAAATGATTTGATAT-T
1 AAAATGATTTGA-ATCT
*
62445825 AAAATGAATTGAATCT
1 AAAATGATTTGAATCT
*
62445841 AAAATAATTTGAA
1 AAAATGATTTGAA
62445854 CTCATAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (16 bp):
AAAATGATTTGAATCT
Found at i:62452403 original size:21 final size:22
Alignment explanation
Indices: 62452379--62452424 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
62452369 AAAACAATAT
*
62452379 AAAAATTTA-TTAAAAGTTTTA
1 AAAAATATATTTAAAAGTTTTA
* *
62452400 AAAAATATATTTAATATTTTTA
1 AAAAATATATTTAAAAGTTTTA
62452422 AAA
1 AAA
62452425 TTTTATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAAATATATTTAAAAGTTTTA
Found at i:62452688 original size:18 final size:18
Alignment explanation
Indices: 62452660--62452730 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
62452650 TTAAGTAATT
62452660 ATTTATATAATTTTTTGTA
1 ATTT-TATAATTTTTTGTA
62452679 ATTTTATAATTTTTT-TCA
1 ATTTTATAATTTTTTGT-A
*
62452697 ATTTT-TAATAATTTTGTA
1 ATTTTATAAT-TTTTTGTA
*
62452715 ACTTCTTTTAATTTTT
1 A-TT-TTATAATTTTT
62452731 GTACTTTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
17 5 0.11
18 23 0.52
19 7 0.16
20 5 0.11
21 4 0.09
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTATAATTTTTTGTA
Done.