Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold53
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1214666
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.30
Warning! 104343 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:375269 original size:20 final size:20
Alignment explanation
Indices: 375244--375307 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
375234 AGGGGCATGC
*
375244 ACAGGGGTAT-ACAGTGGCTT
1 ACAGGGG-ATGACAGTGGCGT
375264 ACAGGGGATGACAGTGGCGT
1 ACAGGGGATGACAGTGGCGT
* * *
375284 ACAGGGGGTGACAGGGGCTT
1 ACAGGGGATGACAGTGGCGT
375304 ACAG
1 ACAG
375308 TGGCACACAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 2 0.05
20 37 0.95
ACGTcount: A:0.25, C:0.16, G:0.42, T:0.17
Consensus pattern (20 bp):
ACAGGGGATGACAGTGGCGT
Found at i:375298 original size:30 final size:30
Alignment explanation
Indices: 375264--375320 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
375254 ACAGTGGCTT
**
375264 ACAGGGGATGACAGTGGCGTACAGGGGGTG
1 ACAGGGGATGACAGTGGCACACAGGGGGTG
* *
375294 ACAGGGGCTTACAGTGGCACACAGGGG
1 ACAGGGGATGACAGTGGCACACAGGGG
375321 TTGTGTACAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.46, T:0.12
Consensus pattern (30 bp):
ACAGGGGATGACAGTGGCACACAGGGGGTG
Found at i:375863 original size:10 final size:10
Alignment explanation
Indices: 375839--375926 Score: 54
Period size: 10 Copynumber: 8.6 Consensus size: 10
375829 CAGGGGATGT
375839 CAGGGGCATGCA
1 CAGGGGCAT--A
*
375851 CAGGGGTATA
1 CAGGGGCATA
* *
375861 CAGTGGCCTA
1 CAGGGGCATA
375871 CAGGGG-ATGA
1 CAGGGGCAT-A
*
375881 CAGGGGCGTA
1 CAGGGGCATA
*
375891 CAGGGG-GTGA
1 CAGGGGCAT-A
*
375901 CAGGGGCTTA
1 CAGGGGCATA
* *
375911 CAGTGGCACA
1 CAGGGGCATA
375921 CAGGGG
1 CAGGGG
375927 TTGTGTACAG
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
9 3 0.05
10 47 0.78
11 2 0.03
12 8 0.13
ACGTcount: A:0.24, C:0.19, G:0.44, T:0.12
Consensus pattern (10 bp):
CAGGGGCATA
Found at i:375875 original size:20 final size:20
Alignment explanation
Indices: 375827--375913 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
375817 TTAAAGACCG
* *
375827 TACAGGGGATGTCAGGGGCA
1 TACAGGGGATGACAGGGGCC
*
375847 TGCACAGGGGTAT-ACAGTGGCC
1 T--ACAGGGG-ATGACAGGGGCC
*
375869 TACAGGGGATGACAGGGGCG
1 TACAGGGGATGACAGGGGCC
* *
375889 TACAGGGGGTGACAGGGGCT
1 TACAGGGGATGACAGGGGCC
375909 TACAG
1 TACAG
375914 TGGCACACAG
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
19 2 0.04
20 38 0.68
22 14 0.25
23 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.44, T:0.15
Consensus pattern (20 bp):
TACAGGGGATGACAGGGGCC
Found at i:376020 original size:21 final size:20
Alignment explanation
Indices: 375996--376045 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
375986 CAGGGGATGT
375996 ACAGGGGATGACAGTGAAAAC
1 ACAGGGGATGACAGTG-AAAC
* * *
376017 ACAGGGGGTGACAGTGGAAG
1 ACAGGGGATGACAGTGAAAC
376037 ACAGGGGAT
1 ACAGGGGAT
376046 TTTCATACGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.36, C:0.12, G:0.42, T:0.10
Consensus pattern (20 bp):
ACAGGGGATGACAGTGAAAC
Found at i:380042 original size:17 final size:17
Alignment explanation
Indices: 380001--380040 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
379991 GCTTCTTGTA
*
380001 TTTTTTTAATTATTATT
1 TTTTTTTAACTATTATT
380018 TTTTTTTAACT-TTATT
1 TTTTTTTAACTATTATT
380034 TTTTTTT
1 TTTTTTT
380041 TATACTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTTAACTATTATT
Found at i:380050 original size:16 final size:16
Alignment explanation
Indices: 380001--380042 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
379991 GCTTCTTGTA
380001 TTTTTTTAA-TTATTATT
1 TTTTTTTAACTTA-T-TT
380018 TTTTTTTAACTTTATTT
1 TTTTTTTAAC-TTATTT
380035 TTTTTTTA
1 TTTTTTTA
380043 TACTATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 19 0.83
18 1 0.04
19 3 0.13
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTAACTTATTT
Found at i:384440 original size:13 final size:13
Alignment explanation
Indices: 384422--384448 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
384412 TCCAATAATC
384422 ATGGAGAAGGCTT
1 ATGGAGAAGGCTT
384435 ATGGAGAAGGCTT
1 ATGGAGAAGGCTT
384448 A
1 A
384449 CATAGGCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.22
Consensus pattern (13 bp):
ATGGAGAAGGCTT
Found at i:385431 original size:31 final size:31
Alignment explanation
Indices: 385367--385432 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
385357 TGAAAATTCC
* **
385367 CTGTCTTCCCCTGTCACCCCCTGTGTTTTCA
1 CTGTCATCCCCTGTCACCCCCTGTGTTGCCA
*
385398 CTGTCATCCCCTGTACATCCCCTGTG-TGCCA
1 CTGTCATCCCCTGT-CACCCCCTGTGTTGCCA
385429 CTGT
1 CTGT
385433 ACAGAGCCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 20 0.67
32 10 0.33
ACGTcount: A:0.09, C:0.41, G:0.15, T:0.35
Consensus pattern (31 bp):
CTGTCATCCCCTGTCACCCCCTGTGTTGCCA
Found at i:385445 original size:23 final size:22
Alignment explanation
Indices: 385416--385498 Score: 82
Period size: 23 Copynumber: 3.8 Consensus size: 22
385406 CCCTGTACAT
*
385416 CCCCTGTGTGCCACTGTACAGAG
1 CCCCTGTGTGCCACTGTACA-AA
* * *
385439 CCCCTGTATACC-CTGT-C-AT
1 CCCCTGTGTGCCACTGTACAAA
*
385458 CCCCTGTGCGCCACTGTACACAA
1 CCCCTGTGTGCCACTGTACA-AA
385481 CCCCTGTGTGCCACTGTA
1 CCCCTGTGTGCCACTGTA
385499 AGCCCCTGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 10 0.21
20 4 0.08
21 2 0.04
22 4 0.08
23 28 0.58
ACGTcount: A:0.17, C:0.40, G:0.19, T:0.24
Consensus pattern (22 bp):
CCCCTGTGTGCCACTGTACAAA
Found at i:385459 original size:42 final size:43
Alignment explanation
Indices: 385406--385487 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
385396 CACTGTCATC
* * *
385406 CCCTGTACATCCCCTGTGTGCCACTGTACAGAGCCCCTGTATA
1 CCCTGTACATCCCCTGTGCGCCACTGTACACAACCCCTGTATA
385449 CCCTGT-CATCCCCTGTGCGCCACTGTACACAACCCCTGT
1 CCCTGTACATCCCCTGTGCGCCACTGTACACAACCCCTGT
385488 GTGCCACTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 30 0.83
43 6 0.17
ACGTcount: A:0.17, C:0.41, G:0.17, T:0.24
Consensus pattern (43 bp):
CCCTGTACATCCCCTGTGCGCCACTGTACACAACCCCTGTATA
Found at i:385537 original size:20 final size:21
Alignment explanation
Indices: 385398--385584 Score: 95
Period size: 20 Copynumber: 8.9 Consensus size: 21
385388 TGTGTTTTCA
*
385398 CTGTCATCCCCTGTACATCCC
1 CTGTCATCCCCTGTACAGCCC
* *
385419 CTGT-GTGCCACTGTACAGAGCCC
1 CTGTCAT-CCCCTGTAC--AGCCC
* *
385442 CTGT-ATACCCTGT-CATCCC
1 CTGTCATCCCCTGTACAGCCC
* * *
385461 CTGTGC-GCCACTGTACACAACCC
1 CTGT-CATCCCCTGT--ACAGCCC
* *
385484 CTGT-GTGCCACTGTA-AGCCC
1 CTGTCAT-CCCCTGTACAGCCC
*
385504 CTGTCCACCCCCTGTACA-CCC
1 CTGT-CATCCCCTGTACAGCCC
*
385525 CTGTCATCCCCTGTA-AGCCA
1 CTGTCATCCCCTGTACAGCCC
*
385545 CTGT-ATACCCCTGTGCATGCCC
1 CTGTCAT-CCCCTGTACA-GCCC
*
385567 CTGACATCCCCTGTACAG
1 CTGTCATCCCCTGTACAG
385585 TCTTTAACTG
Statistics
Matches: 126, Mismatches: 22, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
19 11 0.09
20 37 0.29
21 30 0.24
22 21 0.17
23 27 0.21
ACGTcount: A:0.17, C:0.42, G:0.17, T:0.24
Consensus pattern (21 bp):
CTGTCATCCCCTGTACAGCCC
Found at i:385539 original size:41 final size:41
Alignment explanation
Indices: 385494--385581 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 41
385484 CTGTGTGCCA
* * *
385494 CTGTAAGCCCCTGTCCACCCCCTGTACA-CCCCTGTCATCCC
1 CTGTAAGCCACTGTACA-CCCCTGTACAGCCCCTGACATCCC
* *
385535 CTGTAAGCCACTGTATACCCCTGTGCATGCCCCTGACATCCC
1 CTGTAAGCCACTGTACACCCCTGTACA-GCCCCTGACATCCC
385577 CTGTA
1 CTGTA
385582 CAGTCTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 9 0.22
41 14 0.35
42 17 0.43
ACGTcount: A:0.17, C:0.44, G:0.15, T:0.24
Consensus pattern (41 bp):
CTGTAAGCCACTGTACACCCCTGTACAGCCCCTGACATCCC
Found at i:388332 original size:20 final size:20
Alignment explanation
Indices: 388282--388370 Score: 90
Period size: 20 Copynumber: 4.3 Consensus size: 20
388272 AGTCAAAAGC
*
388282 CGTACAGGGGATGTCAGGGG
1 CGTACAGGGGATGACAGGGG
* *
388302 CATGCACAGGGGTAT-ACAGTGG
1 C--GTACAGGGG-ATGACAGGGG
*
388324 CTTACAGGGGATGACAGGGG
1 CGTACAGGGGATGACAGGGG
*
388344 CGTACAGGGGGTGACAGGGG
1 CGTACAGGGGATGACAGGGG
*
388364 CTTACAG
1 CGTACAG
388371 TGGCACACAG
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
19 2 0.04
20 38 0.68
22 14 0.25
23 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.44, T:0.16
Consensus pattern (20 bp):
CGTACAGGGGATGACAGGGG
Found at i:388370 original size:10 final size:10
Alignment explanation
Indices: 388307--388370 Score: 58
Period size: 10 Copynumber: 6.4 Consensus size: 10
388297 AGGGGCATGC
388307 ACAGGGG-TAT
1 ACAGGGGCT-T
*
388317 ACAGTGGCTT
1 ACAGGGGCTT
* *
388327 ACAGGGGATG
1 ACAGGGGCTT
*
388337 ACAGGGGCGT
1 ACAGGGGCTT
* *
388347 ACAGGGGGTG
1 ACAGGGGCTT
388357 ACAGGGGCTT
1 ACAGGGGCTT
388367 ACAG
1 ACAG
388371 TGGCACACAG
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
10 40 0.98
11 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.44, T:0.16
Consensus pattern (10 bp):
ACAGGGGCTT
Found at i:388459 original size:11 final size:10
Alignment explanation
Indices: 388443--388503 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
388433 ACAGTGGCAC
388443 ACAGGGGATG
1 ACAGGGGATG
388453 TACAGGGGATG
1 -ACAGGGGATG
** **
388464 ACAGTGAAAAC
1 ACAG-GGGATG
*
388475 ACAGGGGGTG
1 ACAGGGGATG
*
388485 ACAGGGGAAG
1 ACAGGGGATG
388495 ACAGGGGAT
1 ACAGGGGAT
388504 TTTCATACGG
Statistics
Matches: 37, Mismatches: 12, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
10 21 0.57
11 16 0.43
ACGTcount: A:0.34, C:0.11, G:0.44, T:0.10
Consensus pattern (10 bp):
ACAGGGGATG
Found at i:389666 original size:2 final size:2
Alignment explanation
Indices: 389659--389684 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
389649 AGACTGTATG
389659 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
389685 ATGGTCAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:395220 original size:31 final size:30
Alignment explanation
Indices: 395180--395244 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
395170 AAAGATGAAA
*
395180 AAAATCGAATTATTCCTAGTACGACTTAAC
1 AAAATCGAATGATTCCTAGTACGACTTAAC
** *
395210 AAAATACGAATGATTTTTCGTACGACTTAAC
1 AAAAT-CGAATGATTCCTAGTACGACTTAAC
395241 AAAA
1 AAAA
395245 ACCTTTCTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (30 bp):
AAAATCGAATGATTCCTAGTACGACTTAAC
Found at i:401718 original size:10 final size:10
Alignment explanation
Indices: 401675--401760 Score: 79
Period size: 10 Copynumber: 8.7 Consensus size: 10
401665 TTACTGACTT
401675 CCACTGTAC-
1 CCACTGTACG
* *
401684 CCAATGTACA
1 CCACTGTACG
401694 CCACTG-AC-
1 CCACTGTACG
* *
401702 CAGCACTGCACC
1 C--CACTGTACG
401714 CCACTGTACG
1 CCACTGTACG
* *
401724 CCACTGCACC
1 CCACTGTACG
401734 CCACTGTACG
1 CCACTGTACG
401744 CCACTGTACG
1 CCACTGTACG
401754 CCACTGT
1 CCACTGT
401761 TCCATTAATC
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
8 1 0.02
9 10 0.16
10 50 0.78
11 2 0.03
12 1 0.02
ACGTcount: A:0.23, C:0.44, G:0.15, T:0.17
Consensus pattern (10 bp):
CCACTGTACG
Found at i:401719 original size:20 final size:20
Alignment explanation
Indices: 401705--401760 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
401695 CACTGACCAG
401705 CACTGCACCCCACTGTACGC
1 CACTGCACCCCACTGTACGC
401725 CACTGCACCCCACTGTACGC
1 CACTGCACCCCACTGTACGC
* *
401745 CACTGTACGCCACTGT
1 CACTGCACCCCACTGT
401761 TCCATTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.46, G:0.16, T:0.18
Consensus pattern (20 bp):
CACTGCACCCCACTGTACGC
Found at i:401728 original size:30 final size:30
Alignment explanation
Indices: 401683--401759 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
401673 TTCCACTGTA
* * *
401683 CCCAATGTACACCACTG-ACCAGCACTGCAC
1 CCCACTGTACGCCACTGCACC-CCACTGCAC
*
401713 CCCACTGTACGCCACTGCACCCCACTGTAC
1 CCCACTGTACGCCACTGCACCCCACTGCAC
*
401743 GCCACTGTACGCCACTG
1 CCCACTGTACGCCACTG
401760 TTCCATTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 38 0.93
31 3 0.07
ACGTcount: A:0.23, C:0.45, G:0.16, T:0.16
Consensus pattern (30 bp):
CCCACTGTACGCCACTGCACCCCACTGCAC
Found at i:412271 original size:17 final size:17
Alignment explanation
Indices: 412217--412262 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
412207 TGATTGTTGA
412217 GTCACGTTATGTCCGCT
1 GTCACGTTATGTCCGCT
412234 GTCACGTTATGTCCGCT
1 GTCACGTTATGTCCGCT
*
412251 GTCAAGTTATGT
1 GTCACGTTATGT
412263 TCGCCGTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (17 bp):
GTCACGTTATGTCCGCT
Found at i:421986 original size:21 final size:21
Alignment explanation
Indices: 421949--422086 Score: 129
Period size: 21 Copynumber: 6.5 Consensus size: 21
421939 ATAAGTCGAA
421949 ATTACGAGATCCTTTTCTCGTT
1 ATTACGAGAT-CTTTTCTCGTT
* * *
421971 ATTATGGGATCTTTTCTCGTA
1 ATTACGAGATCTTTTCTCGTT
421992 ATTACGAGATCTTTTCTCGTT
1 ATTACGAGATCTTTTCTCGTT
* *
422013 ATTACGAGATCTTATCT-TTT
1 ATTACGAGATCTTTTCTCGTT
** *
422033 AATTACGAGA-CAATTAACTCGTA
1 -ATTACGAGATC--TTTTCTCGTT
*
422056 ATAACGAGATCTTTTCTCG-T
1 ATTACGAGATCTTTTCTCGTT
422076 AGTTACGAGAT
1 A-TTACGAGAT
422087 AAAAATATTT
Statistics
Matches: 94, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
20 4 0.04
21 67 0.71
22 21 0.22
23 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (21 bp):
ATTACGAGATCTTTTCTCGTT
Found at i:422082 original size:43 final size:42
Alignment explanation
Indices: 421978--422086 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
421968 GTTATTATGG
** * *
421978 GATCTTTTCTCGTAATTACGAGATCTTTTCTCGTTATTACGA
1 GATCTTTTCTCGTAATTACGAGATCTTAACTCGTAATAACGA
* **
422020 GATCTTATCTTTTAATTACGAGA-CAATTAACTCGTAATAACGA
1 GATCTTTTCTCGTAATTACGAGATC--TTAACTCGTAATAACGA
*
422063 GATCTTTTCTCGTAGTTACGAGAT
1 GATCTTTTCTCGTAATTACGAGAT
422087 AAAAATATTT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.02
42 20 0.38
43 32 0.60
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (42 bp):
GATCTTTTCTCGTAATTACGAGATCTTAACTCGTAATAACGA
Found at i:427762 original size:21 final size:21
Alignment explanation
Indices: 427725--427862 Score: 129
Period size: 21 Copynumber: 6.5 Consensus size: 21
427715 ATAAGTCGAA
427725 ATTACGAGATCCTTTTCTCGTT
1 ATTACGAGAT-CTTTTCTCGTT
* * *
427747 ATTATGGGATCTTTTCTCGTA
1 ATTACGAGATCTTTTCTCGTT
427768 ATTACGAGATCTTTTCTCGTT
1 ATTACGAGATCTTTTCTCGTT
* *
427789 ATTACGAGATCTTATCT-TTT
1 ATTACGAGATCTTTTCTCGTT
** *
427809 AATTACGAGA-CAATTAACTCGTA
1 -ATTACGAGATC--TTTTCTCGTT
*
427832 ATAACGAGATCTTTTCTCG-T
1 ATTACGAGATCTTTTCTCGTT
427852 AGTTACGAGAT
1 A-TTACGAGAT
427863 AAAAATATTT
Statistics
Matches: 94, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
20 4 0.04
21 67 0.71
22 21 0.22
23 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (21 bp):
ATTACGAGATCTTTTCTCGTT
Found at i:427858 original size:43 final size:42
Alignment explanation
Indices: 427754--427862 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
427744 GTTATTATGG
** * *
427754 GATCTTTTCTCGTAATTACGAGATCTTTTCTCGTTATTACGA
1 GATCTTTTCTCGTAATTACGAGATCTTAACTCGTAATAACGA
* **
427796 GATCTTATCTTTTAATTACGAGA-CAATTAACTCGTAATAACGA
1 GATCTTTTCTCGTAATTACGAGATC--TTAACTCGTAATAACGA
*
427839 GATCTTTTCTCGTAGTTACGAGAT
1 GATCTTTTCTCGTAATTACGAGAT
427863 AAAAATATTT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.02
42 20 0.38
43 32 0.60
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (42 bp):
GATCTTTTCTCGTAATTACGAGATCTTAACTCGTAATAACGA
Found at i:437482 original size:1 final size:1
Alignment explanation
Indices: 437478--437504 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
437468 CTTCCACCCN
437478 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
437505 AAATATGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:444919 original size:15 final size:15
Alignment explanation
Indices: 444899--444947 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
444889 AGTGAAGTCC
*
444899 GACACGAGACTCTAA
1 GACACGAGACTCTCA
444914 GACACGAGACTCTCA
1 GACACGAGACTCTCA
* *
444929 GACAGGTGACTCTCA
1 GACACGAGACTCTCA
444944 GACA
1 GACA
444948 GGTGCATGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.14
Consensus pattern (15 bp):
GACACGAGACTCTCA
Found at i:448465 original size:46 final size:47
Alignment explanation
Indices: 448397--448497 Score: 154
Period size: 46 Copynumber: 2.2 Consensus size: 47
448387 TAATATTTTT
448397 TCATGTTGATCAGTATGGGAGTTCTTTATGTCAACATACCA-GATT-A
1 TCATGTTGATCAGTATGGGAGTTCTTTATGTCAACAT-CCAGGATTAA
* *
448443 TCATGTTGATCAGTATGTGAGTTTTTTATGTCAACATCCAGGATTAA
1 TCATGTTGATCAGTATGGGAGTTCTTTATGTCAACATCCAGGATTAA
448490 TC-TGTTGA
1 TCATGTTGA
448498 AGTGTTATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
45 3 0.06
46 45 0.88
47 3 0.06
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.40
Consensus pattern (47 bp):
TCATGTTGATCAGTATGGGAGTTCTTTATGTCAACATCCAGGATTAA
Found at i:449008 original size:16 final size:16
Alignment explanation
Indices: 448977--449018 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
448967 GAATTACAGT
448977 AGACTCGTAACCAAAC
1 AGACTCGTAACCAAAC
*
448993 TGACTCGT-ACCTAAAC
1 AGACTCGTAACC-AAAC
*
449009 AGACTTGTAA
1 AGACTCGTAA
449019 TGAAATAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 3 0.14
16 17 0.81
17 1 0.05
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.21
Consensus pattern (16 bp):
AGACTCGTAACCAAAC
Found at i:457960 original size:13 final size:13
Alignment explanation
Indices: 457942--457968 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
457932 AGATTGGTTG
457942 TAAACCTTAGATA
1 TAAACCTTAGATA
457955 TAAACCTTAGATA
1 TAAACCTTAGATA
457968 T
1 T
457969 GCCATGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (13 bp):
TAAACCTTAGATA
Found at i:458169 original size:2 final size:2
Alignment explanation
Indices: 458162--458197 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
458152 AACCAAATTT
458162 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
458198 TAAATACCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:471539 original size:21 final size:21
Alignment explanation
Indices: 471513--471554 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
471503 CTCGTGCTCT
*
471513 GGAATGGGAGATAACTGTGAC
1 GGAATGGGAGATAACTCTGAC
471534 GGAATGGGAGATAACTCTGAC
1 GGAATGGGAGATAACTCTGAC
471555 TAGGGATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.36, T:0.19
Consensus pattern (21 bp):
GGAATGGGAGATAACTCTGAC
Found at i:471925 original size:2 final size:2
Alignment explanation
Indices: 471918--471954 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
471908 TAAAGCTTAT
471918 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
471955 TTTTTAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:484779 original size:20 final size:19
Alignment explanation
Indices: 484713--484780 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
484703 CTGTACTCAG
484713 ATTGCTGATTTTTCTACGT
1 ATTGCTGATTTTTCTACGT
*
484732 ATTTCTGA-----CTACGT
1 ATTGCTGATTTTTCTACGT
484746 ATTGCTGATTTTTCTACGT
1 ATTGCTGATTTTTCTACGT
*
484765 ATTTCTGACTTTTTCT
1 ATTGCTGA-TTTTTCT
484781 GGAATCAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
14 13 0.32
19 20 0.50
20 7 0.17
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (19 bp):
ATTGCTGATTTTTCTACGT
Found at i:494788 original size:2 final size:2
Alignment explanation
Indices: 494781--494861 Score: 144
Period size: 2 Copynumber: 40.5 Consensus size: 2
494771 GACATAAATA
* *
494781 AG AG AG AG AA AT AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
494823 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
494862 TGTCCATATG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.52, C:0.00, G:0.47, T:0.01
Consensus pattern (2 bp):
AG
Found at i:499495 original size:112 final size:110
Alignment explanation
Indices: 499298--499519 Score: 426
Period size: 112 Copynumber: 2.0 Consensus size: 110
499288 CTGGTTAACT
499298 GGCCGGATGGATACACGGACTAGTGTCATATCTCTCTGATGTACATCATTAGCAGCTTTTTATTT
1 GGCCGGATGGATACACGGACTAGTGTCATATCTCTCTGATGTACATCATTAGCAGCTTTTTATTT
499363 ATTGGACTTTATATCTTTATTTTGATACCTTTTTATAATAGTATCC
66 ATTGGACTTTATATCTTTATTTTGATACCTTTTTAT-ATAGTATCC
499409 NGGCCGGATGGATACACGGACTAGTGTCATATCTCTCTGATGTACATCATTAGCAGCTTTTTATT
1 -GGCCGGATGGATACACGGACTAGTGTCATATCTCTCTGATGTACATCATTAGCAGCTTTTTATT
499474 TATTGGACTTTATATCTTTATTTTGATACCTTTTTATATAGTATCC
65 TATTGGACTTTATATCTTTATTTTGATACCTTTTTATATAGTATCC
499520 TTAATAAATC
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
111 9 0.08
112 101 0.92
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.42
Consensus pattern (110 bp):
GGCCGGATGGATACACGGACTAGTGTCATATCTCTCTGATGTACATCATTAGCAGCTTTTTATTT
ATTGGACTTTATATCTTTATTTTGATACCTTTTTATATAGTATCC
Found at i:499752 original size:15 final size:15
Alignment explanation
Indices: 499720--499752 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
499710 GCACTGCATA
499720 TGTGCTGACTTTGAC
1 TGTGCTGACTTTGAC
499735 TGTGCCTGACTTTG-C
1 TGTG-CTGACTTTGAC
499750 TGT
1 TGT
499753 TTGTCAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.09, C:0.21, G:0.27, T:0.42
Consensus pattern (15 bp):
TGTGCTGACTTTGAC
Found at i:499761 original size:77 final size:77
Alignment explanation
Indices: 499674--499852 Score: 304
Period size: 77 Copynumber: 2.3 Consensus size: 77
499664 ACAGTATGCC
** *
499674 GTTTGTCAGTGTGCTGTCTGACTGTGTGCTCTTTGTGCACTGCATATGTGCTGACTTTGACTGTG
1 GTTTGTCAGTGTGCTGTCTGACTGTGCACTCTCTGTGCACTGCATATGTGCTGACTTTGACTGTG
499739 CCTGACTTTGCT
66 CCTGACTTTGCT
* * *
499751 GTTTGTCAGTGTGCTATCTGTCTGTGCACTCTCTGTGCATTGCATATGTGCTGACTTTGACTGTG
1 GTTTGTCAGTGTGCTGTCTGACTGTGCACTCTCTGTGCACTGCATATGTGCTGACTTTGACTGTG
499816 CCTGACTTTGCT
66 CCTGACTTTGCT
499828 GTTTGTCAGTGTGCTGTCTGACTGT
1 GTTTGTCAGTGTGCTGTCTGACTGT
499853 ATACTGTCTG
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 94 1.00
ACGTcount: A:0.11, C:0.21, G:0.27, T:0.42
Consensus pattern (77 bp):
GTTTGTCAGTGTGCTGTCTGACTGTGCACTCTCTGTGCACTGCATATGTGCTGACTTTGACTGTG
CCTGACTTTGCT
Found at i:499829 original size:15 final size:15
Alignment explanation
Indices: 499797--499829 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
499787 GCATTGCATA
499797 TGTGCTGACTTTGAC
1 TGTGCTGACTTTGAC
499812 TGTGCCTGACTTTG-C
1 TGTG-CTGACTTTGAC
499827 TGT
1 TGT
499830 TTGTCAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.09, C:0.21, G:0.27, T:0.42
Consensus pattern (15 bp):
TGTGCTGACTTTGAC
Found at i:500049 original size:18 final size:19
Alignment explanation
Indices: 500026--500065 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
500016 CCTGGTGTCC
500026 GTTTGCTCTG-TGTGTGTT
1 GTTTGCTCTGATGTGTGTT
*
500044 GTTTGCTGTGTATGTGTGTT
1 GTTTGCTCTG-ATGTGTGTT
500064 GT
1 GT
500066 CCTTCTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.03, C:0.07, G:0.35, T:0.55
Consensus pattern (19 bp):
GTTTGCTCTGATGTGTGTT
Found at i:500078 original size:21 final size:20
Alignment explanation
Indices: 500036--500079 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
500026 GTTTGCTCTG
*
500036 TGTGTGTTGTTTGCTGTGTA
1 TGTGTGTTGTTTGCTGTATA
500056 TGTGTGTTGTCCTT-CTGTATA
1 TGTGTGTTGT--TTGCTGTATA
500077 TGT
1 TGT
500080 TGGCTGTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 9 0.43
22 2 0.10
ACGTcount: A:0.07, C:0.09, G:0.30, T:0.55
Consensus pattern (20 bp):
TGTGTGTTGTTTGCTGTATA
Found at i:501903 original size:18 final size:18
Alignment explanation
Indices: 501880--501915 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
501870 GGGAACTAAT
501880 TATGGAACGCCTCAACTG
1 TATGGAACGCCTCAACTG
501898 TATGGAACGCCTCAACTG
1 TATGGAACGCCTCAACTG
501916 CCTTATGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (18 bp):
TATGGAACGCCTCAACTG
Found at i:501995 original size:21 final size:21
Alignment explanation
Indices: 501969--502156 Score: 214
Period size: 21 Copynumber: 9.0 Consensus size: 21
501959 ACATGTGATA
* *
501969 TTAAAGTATCAGCACGTAATG
1 TTAAAGTACCAGCATGTAATG
*
501990 TTAAAGTACCATCATGTAATG
1 TTAAAGTACCAGCATGTAATG
* * *
502011 TTGAAGTACCAGTACGTAATG
1 TTAAAGTACCAGCATGTAATG
*
502032 TTAAAGTACCATCATGTAATG
1 TTAAAGTACCAGCATGTAATG
*
502053 TTAAAGTATCAGCATGTAATG
1 TTAAAGTACCAGCATGTAATG
* * *
502074 TTGAAGTACCATCATGCAATG
1 TTAAAGTACCAGCATGTAATG
* *
502095 TTGAAGTATCAGCATGTAATG
1 TTAAAGTACCAGCATGTAATG
* * *
502116 TTGAAGTACCATCATTTAATG
1 TTAAAGTACCAGCATGTAATG
* *
502137 TTGAAGTACCATCATGTAAT
1 TTAAAGTACCAGCATGTAAT
502157 ATGGAACGCC
Statistics
Matches: 143, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 143 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (21 bp):
TTAAAGTACCAGCATGTAATG
Found at i:502028 original size:42 final size:42
Alignment explanation
Indices: 501972--502144 Score: 265
Period size: 42 Copynumber: 4.1 Consensus size: 42
501962 TGTGATATTA
501972 AAGTATCAGCACGTAATGTTAAAGTACCATCATGTAATGTTG
1 AAGTATCAGCACGTAATGTTAAAGTACCATCATGTAATGTTG
* * *
502014 AAGTACCAGTACGTAATGTTAAAGTACCATCATGTAATGTTA
1 AAGTATCAGCACGTAATGTTAAAGTACCATCATGTAATGTTG
* * *
502056 AAGTATCAGCATGTAATGTTGAAGTACCATCATGCAATGTTG
1 AAGTATCAGCACGTAATGTTAAAGTACCATCATGTAATGTTG
* * *
502098 AAGTATCAGCATGTAATGTTGAAGTACCATCATTTAATGTTG
1 AAGTATCAGCACGTAATGTTAAAGTACCATCATGTAATGTTG
502140 AAGTA
1 AAGTA
502145 CCATCATGTA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 120 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (42 bp):
AAGTATCAGCACGTAATGTTAAAGTACCATCATGTAATGTTG
Found at i:502151 original size:63 final size:63
Alignment explanation
Indices: 501969--502152 Score: 262
Period size: 63 Copynumber: 2.9 Consensus size: 63
501959 ACATGTGATA
* * *
501969 TTAAAGTATCAGCACGTAATGTTAAAGTACCATCATGTAATGTTGAAGTACCAGT-ACGTAATG
1 TTAAAGTATCAGCATGTAATGTTAAAGTACCATCATGTAATGTTGAAGTACCA-TCATGCAATG
* * * *
502032 TTAAAGTACCATCATGTAATGTTAAAGTATCAGCATGTAATGTTGAAGTACCATCATGCAATG
1 TTAAAGTATCAGCATGTAATGTTAAAGTACCATCATGTAATGTTGAAGTACCATCATGCAATG
* * *
502095 TTGAAGTATCAGCATGTAATGTTGAAGTACCATCATTTAATGTTGAAGTACCATCATG
1 TTAAAGTATCAGCATGTAATGTTAAAGTACCATCATGTAATGTTGAAGTACCATCATG
502153 TAATATGGAA
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 1 0.01
63 105 0.99
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (63 bp):
TTAAAGTATCAGCATGTAATGTTAAAGTACCATCATGTAATGTTGAAGTACCATCATGCAATG
Found at i:502232 original size:21 final size:21
Alignment explanation
Indices: 502207--502339 Score: 122
Period size: 21 Copynumber: 6.3 Consensus size: 21
502197 TATGATCAGA
*
502207 TACTTCAACATTGCATGATGG
1 TACTTCAACATTACATGATGG
* * * *
502228 TACTTTAACATTACGTGCTGA
1 TACTTCAACATTACATGATGG
502249 TACTTCAACATTACATGATGG
1 TACTTCAACATTACATGATGG
* * * *
502270 TACTTTAACATTACGTGCTGA
1 TACTTCAACATTACATGATGG
* * * * *
502291 TACTTTAATATTATATGGTGA
1 TACTTCAACATTACATGATGG
**
502312 TACTTCTTCATTACATGATGG
1 TACTTCAACATTACATGATGG
502333 TACTTCA
1 TACTTCA
502340 CTATGCGGTG
Statistics
Matches: 87, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 87 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (21 bp):
TACTTCAACATTACATGATGG
Found at i:502252 original size:42 final size:42
Alignment explanation
Indices: 502205--502295 Score: 173
Period size: 42 Copynumber: 2.2 Consensus size: 42
502195 AATATGATCA
*
502205 GATACTTCAACATTGCATGATGGTACTTTAACATTACGTGCT
1 GATACTTCAACATTACATGATGGTACTTTAACATTACGTGCT
502247 GATACTTCAACATTACATGATGGTACTTTAACATTACGTGCT
1 GATACTTCAACATTACATGATGGTACTTTAACATTACGTGCT
502289 GATACTT
1 GATACTT
502296 TAATATTATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (42 bp):
GATACTTCAACATTACATGATGGTACTTTAACATTACGTGCT
Found at i:502325 original size:42 final size:42
Alignment explanation
Indices: 502205--502316 Score: 161
Period size: 42 Copynumber: 2.7 Consensus size: 42
502195 AATATGATCA
* *
502205 GATACTTCAACATTGCATGATGGTACTTTAACATTACGTGCT
1 GATACTTCAACATTACATGATGATACTTTAACATTACGTGCT
*
502247 GATACTTCAACATTACATGATGGTACTTTAACATTACGTGCT
1 GATACTTCAACATTACATGATGATACTTTAACATTACGTGCT
* * * *
502289 GATACTTTAATATTATATGGTGATACTT
1 GATACTTCAACATTACATGATGATACTT
502317 CTTCATTACA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (42 bp):
GATACTTCAACATTACATGATGATACTTTAACATTACGTGCT
Found at i:504931 original size:21 final size:21
Alignment explanation
Indices: 504905--505165 Score: 317
Period size: 21 Copynumber: 12.2 Consensus size: 21
504895 CATTTTATAT
504905 AGATCTTTTCTCGTAATAACG
1 AGATCTTTTCTCGTAATAACG
504926 AGATCTTTTCTCGTAATAACG
1 AGATCTTTTCTCGTAATAACG
** **
504947 AGAAAATTAACTCGTAATAACG
1 AG-ATCTTTTCTCGTAATAACG
** *
504969 AGAAAATTATCTCGTAATAACG
1 AG-ATCTTTTCTCGTAATAACG
504991 AGATCTTTTCTCGTAATAACG
1 AGATCTTTTCTCGTAATAACG
* *
505012 AGAACATTATCTCGTAATAACG
1 AGATC-TTTTCTCGTAATAACG
*
505034 AGATCTTTTCTCGTAATTACG
1 AGATCTTTTCTCGTAATAACG
505055 AGATCTTTTCTCGTAATAACG
1 AGATCTTTTCTCGTAATAACG
**
505076 AGATAAC-TAACTCGTAATAACG
1 AGAT--CTTTTCTCGTAATAACG
505098 AGATCTTTTCTCGTAATAACG
1 AGATCTTTTCTCGTAATAACG
* **
505119 AGATAATTAACTCGTAATAACG
1 AGAT-CTTTTCTCGTAATAACG
*
505141 AGATCTTTTCTCGTAATTACG
1 AGATCTTTTCTCGTAATAACG
505162 AGAT
1 AGAT
505166 AAAAATATTT
Statistics
Matches: 209, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
20 1 0.00
21 115 0.55
22 92 0.44
23 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (21 bp):
AGATCTTTTCTCGTAATAACG
Found at i:504963 original size:22 final size:22
Alignment explanation
Indices: 504913--505143 Score: 220
Period size: 22 Copynumber: 10.7 Consensus size: 22
504903 ATAGATCTTT
** *
504913 TCTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
504934 TCTCGTAATAACGAGAAAATTA
1 TCTCGTAATAACGAGAAAATTA
*
504956 ACTCGTAATAACGAGAAAATTA
1 TCTCGTAATAACGAGAAAATTA
** *
504978 TCTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
*
504999 TCTCGTAATAACGAGAACATTA
1 TCTCGTAATAACGAGAAAATTA
** *
505021 TCTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
* ** *
505042 TCTCGTAATTACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
* *
505063 TCTCGTAATAACGAGATAACTA
1 TCTCGTAATAACGAGAAAATTA
* ** *
505085 ACTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
*
505106 TCTCGTAATAACGAGATAATTA
1 TCTCGTAATAACGAGAAAATTA
*
505128 ACTCGTAATAACGAGA
1 TCTCGTAATAACGAGA
505144 TCTTTTCTCG
Statistics
Matches: 173, Mismatches: 33, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
21 85 0.49
22 88 0.51
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (22 bp):
TCTCGTAATAACGAGAAAATTA
Found at i:505106 original size:107 final size:107
Alignment explanation
Indices: 504913--505166 Score: 402
Period size: 107 Copynumber: 2.4 Consensus size: 107
504903 ATAGATCTTT
* * *
504913 TCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGAAAATTAACTCGTAATAACGAGAAAATTA
1 TCTCGTAATAACGAGATCTTTTCTCGTAATTACGAG-ATATTAACTCGTAATAACGAGAAAACTA
*
504978 TCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGA-ACATTA
65 ACTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATA-ATTA
* ** *
505021 TCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAACTAA
1 TCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATATTAACTCGTAATAACGAGAAAACTAA
505086 CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTA
66 CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTA
*
505128 ACTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATA
1 TCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATA
505167 AAAATATTTT
Statistics
Matches: 135, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
107 99 0.73
108 36 0.27
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (107 bp):
TCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATATTAACTCGTAATAACGAGAAAACTAA
CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTA
Found at i:505166 original size:43 final size:43
Alignment explanation
Indices: 504914--505167 Score: 341
Period size: 43 Copynumber: 5.9 Consensus size: 43
504904 TAGATCTTTT
*
504914 CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGAAAATTAA
1 CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTAA
** * * **
504957 CTCGTAATAACGAGAAAATTATCTCGTAATAACGAGAT-CTTTT
1 CTCGTAATAACGAG-ATCTTTTCTCGTAATAACGAGATAATTAA
* * * **
505000 CTCGTAATAACGAGAACATTATCTCGTAATAACGAGAT-CTTTT
1 CTCGTAATAACGAGATC-TTTTCTCGTAATAACGAGATAATTAA
* *
505043 CTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAACTAA
1 CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTAA
505086 CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTAA
1 CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTAA
*
505129 CTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATAA
1 CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAA
505168 AAATATTTTT
Statistics
Matches: 190, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
42 21 0.11
43 150 0.79
44 19 0.10
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (43 bp):
CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTAA
Found at i:515075 original size:2 final size:2
Alignment explanation
Indices: 515068--515107 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
515058 NNNNNNNNNN
515068 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
515108 ACGCAAGCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:521205 original size:4 final size:4
Alignment explanation
Indices: 521198--521235 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
521188 TCTATTATAT
521198 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
521236 GTGAATGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:542386 original size:153 final size:153
Alignment explanation
Indices: 542205--542543 Score: 651
Period size: 153 Copynumber: 2.2 Consensus size: 153
542195 ACCTCCGGTA
*
542205 GAAAAAGGACCAGAACCACCATTTAAACCGGAACCTCCTCCATTTCCGGCTGTGTTAAAGGGTCC
1 GAAAAAGGACCGGAACCACCATTTAAACCGGAACCTCCTCCATTTCCGGCTGTGTTAAAGGGTCC
*
542270 CTTGCCCATACCCCCTCCAATACCATTATTGCTCAAGGAACCTGCACCTCCTCCCGAATTCATTC
66 CTTGCCCATACCCCCTCCAATACCATTATTGCTAAAGGAACCTGCACCTCCTCCCGAATTCATTC
542335 CCCCGTCCACACCATTTCCAGCC
131 CCCCGTCCACACCATTTCCAGCC
*
542358 GAAAAAGGACTGGAACCACCATTTAAACCGGAACCTCCTCCATTTCCGGCTGTGTTAAAGGGTCC
1 GAAAAAGGACCGGAACCACCATTTAAACCGGAACCTCCTCCATTTCCGGCTGTGTTAAAGGGTCC
542423 CTTGCCCATACCCCCTCCAATACCATTATTGCTAAAGGAACCTGCACCTCCTCCCGAATTCATTC
66 CTTGCCCATACCCCCTCCAATACCATTATTGCTAAAGGAACCTGCACCTCCTCCCGAATTCATTC
542488 CCCCGTCCACACCATTTCCAGCC
131 CCCCGTCCACACCATTTCCAGCC
542511 GAAAAAGGACCGGAACCACCATTTAAACCGGAA
1 GAAAAAGGACCGGAACCACCATTTAAACCGGAA
542544 AGACCAGATC
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 182 1.00
ACGTcount: A:0.27, C:0.37, G:0.15, T:0.21
Consensus pattern (153 bp):
GAAAAAGGACCGGAACCACCATTTAAACCGGAACCTCCTCCATTTCCGGCTGTGTTAAAGGGTCC
CTTGCCCATACCCCCTCCAATACCATTATTGCTAAAGGAACCTGCACCTCCTCCCGAATTCATTC
CCCCGTCCACACCATTTCCAGCC
Found at i:545970 original size:7 final size:7
Alignment explanation
Indices: 545958--545988 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
545948 TGATTTGTTT
545958 AGCTATA
1 AGCTATA
545965 AGCTATA
1 AGCTATA
545972 AGCTATA
1 AGCTATA
545979 AGCTATA
1 AGCTATA
545986 AGC
1 AGC
545989 AAGGGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (7 bp):
AGCTATA
Found at i:548174 original size:20 final size:19
Alignment explanation
Indices: 548146--548184 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
548136 ACAATAGTTT
*
548146 TTTTTTATAAAGAAATATGG
1 TTTTCTATAAAG-AATATGG
*
548166 TTTTCTATATAGAATATGG
1 TTTTCTATAAAGAATATGG
548185 ATTTGTATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (19 bp):
TTTTCTATAAAGAATATGG
Found at i:549995 original size:21 final size:21
Alignment explanation
Indices: 549971--550035 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
549961 AGATGCTACC
*
549971 TATTTATGTCAACATGCAATT
1 TATTTATGTCAACATGCAACT
* *
549992 TATTTATGTTC-ATATGCTACT
1 TATTTATG-TCAACATGCAACT
550013 TATTTATGTCAACATGCAACT
1 TATTTATGTCAACATGCAACT
550034 TA
1 TA
550036 GTTGACATGC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.05
21 33 0.89
22 2 0.05
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (21 bp):
TATTTATGTCAACATGCAACT
Found at i:552867 original size:16 final size:16
Alignment explanation
Indices: 552828--552873 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
552818 GTACATAAGA
*
552828 ATATATATTCTTTTAG
1 ATATAGATTCTTTTAG
*
552844 A-A-AGATTCTTTTTG
1 ATATAGATTCTTTTAG
552858 ATATAGATTCTATTTA
1 ATATAGATTCT-TTTA
552874 AATCAATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 8 0.33
17 3 0.12
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.52
Consensus pattern (16 bp):
ATATAGATTCTTTTAG
Found at i:560581 original size:11 final size:12
Alignment explanation
Indices: 560567--560606 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
560557 TACTAAAATA
560567 TGACTGAAATG-
1 TGACTGAAATGC
*
560578 TGACTG-AATGT
1 TGACTGAAATGC
560589 TGACTGAAA-GC
1 TGACTGAAATGC
560600 TGACTGA
1 TGACTGA
560607 TGTGTTAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 4 0.15
11 20 0.77
12 2 0.08
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (12 bp):
TGACTGAAATGC
Found at i:569172 original size:196 final size:195
Alignment explanation
Indices: 568838--569228 Score: 773
Period size: 196 Copynumber: 2.0 Consensus size: 195
568828 CCCCCCCCCC
568838 CCCCCCCGAAAAACAAAAACACTCGCCAAAACAACAACAAATAAATTATTAGGCAAGTTAATTAG
1 CCCCCCCGAAAAACAAAAACACTCGCCAAAACAACAACAAATAAATTATTAGGCAAGTTAATTAG
568903 TGTTACGATACAGACATTATGTCATTAAACAAAACATGTCATCGTAAATTTTCTTTCCAGACCAA
66 TGTTACGATACAGACATTATGTCATTAAACAAAACATGTCATCGTAAATTTTCTTTCCAGACCAA
568968 GAGAAACCAACAAATTTCAAATACAAGTCAACGTTGCTGCCACAGAAAAAGTGACGTTCGAACTG
131 GAGAAACCAACAAATTTCAAATACAAGTCAACGTTGCTGCCACAGAAAAAGTGACGTTCGAACTG
569033 NCCCCCCCGAAAAACAAAAACACTCGCCAAAACAACAACAAATAAATTATTAGGCAAGTTAATTA
1 -CCCCCCCGAAAAACAAAAACACTCGCCAAAACAACAACAAATAAATTATTAGGCAAGTTAATTA
569098 GTGTTACGATACAGACATTATGTCATTAAACAAAACATGTCATCGTAAATTTTCTTTCCAGACCA
65 GTGTTACGATACAGACATTATGTCATTAAACAAAACATGTCATCGTAAATTTTCTTTCCAGACCA
569163 AGAGAAACCAACAAATTTCAAATACAAGTCAACGTTGCTGCCACAGAAAAAGTGACGTTCGAACT
130 AGAGAAACCAACAAATTTCAAATACAAGTCAACGTTGCTGCCACAGAAAAAGTGACGTTCGAACT
569228 G
195 G
569229 ACATACCGGG
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
196 195 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.22
Consensus pattern (195 bp):
CCCCCCCGAAAAACAAAAACACTCGCCAAAACAACAACAAATAAATTATTAGGCAAGTTAATTAG
TGTTACGATACAGACATTATGTCATTAAACAAAACATGTCATCGTAAATTTTCTTTCCAGACCAA
GAGAAACCAACAAATTTCAAATACAAGTCAACGTTGCTGCCACAGAAAAAGTGACGTTCGAACTG
Found at i:575333 original size:263 final size:263
Alignment explanation
Indices: 574859--575343 Score: 729
Period size: 263 Copynumber: 1.8 Consensus size: 263
574849 AATAGTGTAG
* *
574859 ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCAATTTT
1 ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGATAGGGTGGGGCCACAATTGGGGGATAAATTTT
* * *
574924 TACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATAAGGCCAGGGAAG
66 TACACAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATAAGGCCAAGAAAG
* * *
574989 CTCAAATTAAAGTGGAAGCATCCTCAGGTAGTGTAGATGCAAGTTTGTTCAAATCATAGTCCCTG
131 CTCAAATTAAAGTGGAACCATCCTCAGATAATGTAGATGCAAGTTTGTTCAAATCATAGTCCCTG
* *
575054 CAGGTATGGTGGGGCCACAATGGGGGAATGGATTTTTACATAGGAATATATAATAGGAATAGGAA
196 CAGGTAGGGCGGGGCCACAATGGGGGAATGGATTTTTACATAGGAATATATAATAGGAATAGGAA
575119 TAT
261 TAT
*
575122 ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGATAGGGTGGGGCCACAATTTGGGGATAAATTTT
1 ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGATAGGGTGGGGCCACAATTGGGGGATAAATTTT
* * * * **
575187 TATACAGGAATATATCGAGAAAATCTTTAAAATATTTTCTT-TTAAAAACTATTTGGCCAAGAAA
66 TACACAGGAATATATAGAGAAAATCTTTAAAA-ATCTTCTTCTCAAAAACTATAAGGCCAAGAAA
*** * * *
575251 GCTCAAATTGGCGTGTAACCATCCTCAGATAATGTAGATTCAAGTTTGTTCAAATCATGGTCCCT
130 GCTCAAATTAAAGTGGAACCATCCTCAGATAATGTAGATGCAAGTTTGTTCAAATCATAGTCCCT
**
575316 GGGGGTAGGGCGGGGCCACAATGGGGGA
195 GCAGGTAGGGCGGGGCCACAATGGGGGA
575344 TAAATTTTTA
Statistics
Matches: 196, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
263 189 0.96
264 7 0.04
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (263 bp):
ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGATAGGGTGGGGCCACAATTGGGGGATAAATTTT
TACACAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATAAGGCCAAGAAAG
CTCAAATTAAAGTGGAACCATCCTCAGATAATGTAGATGCAAGTTTGTTCAAATCATAGTCCCTG
CAGGTAGGGCGGGGCCACAATGGGGGAATGGATTTTTACATAGGAATATATAATAGGAATAGGAA
TAT
Found at i:575430 original size:156 final size:158
Alignment explanation
Indices: 575122--575568 Score: 435
Period size: 156 Copynumber: 2.8 Consensus size: 158
575112 ATAGGAATAT
* *
575122 ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGATAGGGTGGGGCCACAATTTGGGGATAAATTTT
1 ATTCAAGTTTGTTCAAATCATGGT-CCCGGGGGTAGGGTGGGGCCACAA-TGGGGGATAAATTTT
*
575187 TATACAGGAATATATCGAGAAAATCTTTAAAATATTTTCTTTTAAAAACTATTTGGCCAAGAAAG
64 TAT-----AATATA-CGAGAAAATCTTTAAAATATTTTCTTCTAAAAACTATTTGGCCAAGAAAG
* * * * *
575252 CTCAAATTGGCGTGTAACCATCCTCAGATAATGTAG
123 CCCAAATTGGAGTGGAACCATCCCCAGATAATATAG
*
575288 ATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGCGGGGCCACAATGGGGGATAAATTTTT
1 ATTCAAGTTTGTTCAAATCATGGTCCC-GGGGGTAGGGTGGGGCCACAATGGGGGATAAATTTTT
* * *
575353 AT-ATATA-GAGAAAATCTTTAAAA-ATCTTT-TTCTCAAAACT-TTTAGGCCAGGAAAGCCCCA
65 ATAATATACGAGAAAATCTTTAAAATAT-TTTCTTCTAAAAACTATTT-GGCCAAGAAAGCCCAA
* * **
575413 ATTTGAGTGGAAGCATCCCCAGATCGTATAG
128 ATTGGAGTGGAACCATCCCCAGATAATATAG
* * * * *
575444 ATTCAAGTTTGTTTAAAT-AGTAGT-CCAGGGGTAGGGTGAGGCCACAATGGGGGATGAATTTTT
1 ATTCAAGTTTGTTCAAATCA-TGGTCCCGGGGGTAGGGTGGGGCCACAATGGGGGATAAATTTTT
* * * *
575507 ACATAGGAATATATAGAGAAAATCTTTAAAA-ATCTTCTTTTTAAAGACTATTTGGCC-AGAAA
65 --AT---AATATA-CGAGAAAATCTTTAAAATATTTTC-TTCTAAAAACTATTTGGCCAAGAAA
575569 AGCTTAAATT
Statistics
Matches: 239, Mismatches: 27, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
154 33 0.14
155 6 0.03
156 69 0.29
157 19 0.08
159 5 0.02
160 5 0.02
161 2 0.01
162 22 0.09
163 12 0.05
164 3 0.01
165 20 0.08
166 43 0.18
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (158 bp):
ATTCAAGTTTGTTCAAATCATGGTCCCGGGGGTAGGGTGGGGCCACAATGGGGGATAAATTTTTA
TAATATACGAGAAAATCTTTAAAATATTTTCTTCTAAAAACTATTTGGCCAAGAAAGCCCAAATT
GGAGTGGAACCATCCCCAGATAATATAG
Found at i:579696 original size:166 final size:166
Alignment explanation
Indices: 579420--580415 Score: 1019
Period size: 165 Copynumber: 6.0 Consensus size: 166
579410 TTTTCAAAAA
* * * * ** * * *
579420 TCTTCTCAAAAACTGTTCGGCCTGAAAAGCTTAAACTT-GTATGGAGGTAACCTCAGGTAGTGTA
1 TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAAATGGAAGCATCCTCAGGTAGTGTA
* * * * *
579484 GATTCAAGTTTGTTCAAATCATGGTCCCCGTAGGTAAGGAGGGGCCACAATAGGGGGATCAAATA
65 CATTCAAGTTTGTTCAAATCATGGTCCCCGTGGGTAGGGTGGGGCCACAATAGGGGGATCAAATT
579549 TTACATAGGAATATATTGAGAAAATCTTTAAAAATCT
130 TTACATAGGAATATATTGAGAAAATCTTTAAAAATCT
* * *
579586 TTTTCTCAAAAACTATTAGGCAAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAA
1 TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAC
* * ** * *
579651 ATTCAAGTTTGTTCAAATCATGGTCCCCGTAGGTAAGAAGGGGCCACAAGAGGGGGATCAAATAT
66 ATTCAAGTTTGTTCAAATCATGGTCCCCGTGGGTAGGGTGGGGCCACAATAGGGGGATCAAATTT
*
579716 TACATAGGAATATATAGAGAAAATCTTTAAAAATCT
131 TACATAGGAATATATTGAGAAAATCTTTAAAAATCT
* *
579752 TTTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAG
1 TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAC
* * * * * * *
579817 ATT-ATAGTTTGTTCAAGTCATAGT-CAC-TGGGATAGGGTGGGGCCAAAATTGAGGGATCAAGT
66 ATTCA-AGTTTGTTCAAATCATGGTCCCCGTGGG-TAGGGTGGGGCCACAATAGGGGGATCAAAT
*
579879 TTTACATAGGAATATATAGAGAAAATCTTTAAAAATAC-
129 TTTACATAGGAATATATTGAGAAAATCTTTAAAAAT-CT
* * ** * ** * *
579917 TCTTCACTAAAACTATTAGGCCAGGGAAGCTCAGATTTCAGTGGAAGCATCCTCAGATAGTGTAC
1 TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAC
* * *
579982 ATTCAGGTTTGTTCAAATCATGG-CCCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAATTT
66 ATTCAAGTTTGTTCAAATCATGGTCCCCGTGGGTAGGGTGGGGCCACAATAGGGGGATCAAATTT
*
580046 TACATAGGAATTTATTGAGAAAATCTTTAAAAATCT
131 TACATAGGAATATATTGAGAAAATCTTTAAAAATCT
* ** ** * *
580082 TCTTCTCAAAAACTATTAGGCTAGGGAAGCTCAAATTTGAGTGGAAGCATCCTCAGATAGTGTAC
1 TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAC
* *
580147 ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAT-TGGGGAT-AAATTT
66 ATTCAAGTTTGTTCAAATCATGGTCCCCGTGGGTAGGGTGGGGCCACAATAGGGGGATCAAA-TT
* * *
580210 TTATACAGGAATATATTGAGAAATTAAAATCTTTTTAAAAA-AT
130 TTACATAGGAATATATTGAG-----AAAATC--TTTAAAAATCT
** * * * **** * * *
580253 TCTT-TTTAAAACTGTTTGGCTA-AGAAAGCTCAAATTGGCGTGTAA-CTATCCTCAGATAATGT
1 TCTTCTCAAAAACTATTAGGCCAGA-AAAGCTCAAATTAAAATGGAAGC-ATCCTCAGGTAGTGT
* * * * *
580315 AGATTCAAGTTTATTCAAATCATGGTCCCTGGGGGTAGGGTGGGGCCACAATTGGGGGAT-AAAT
64 ACATTCAAGTTTGTTCAAATCATGGTCCCCGTGGGTAGGGTGGGGCCACAATAGGGGGATCAAAT
*** * * *
580379 TATTATGCAGGAGTATATAGAGAAAACTTTTTAAAAA
129 T-TTACATAGGAATATATTGAGAAAA-TCTTTAAAAA
580416 AGTGGGGGAT
Statistics
Matches: 728, Mismatches: 80, Indels: 45
0.85 0.09 0.05
Matches are distributed among these distances:
164 7 0.01
165 312 0.43
166 266 0.37
167 1 0.00
169 1 0.00
170 102 0.14
171 31 0.04
172 8 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (166 bp):
TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAC
ATTCAAGTTTGTTCAAATCATGGTCCCCGTGGGTAGGGTGGGGCCACAATAGGGGGATCAAATTT
TACATAGGAATATATTGAGAAAATCTTTAAAAATCT
Found at i:585219 original size:3 final size:3
Alignment explanation
Indices: 585211--585236 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
585201 TGGAACCACT
585211 ACA ACA ACA ACA ACA ACA ACA ACA AC
1 ACA ACA ACA ACA ACA ACA ACA ACA AC
585237 TCCTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:606474 original size:37 final size:37
Alignment explanation
Indices: 606419--606493 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
606409 TTTCCGATAT
*
606419 ATTTCATTTTATCAAATAAAATTTACAACATGACTAA
1 ATTTCATTTTATCAAATAAAATATACAACATGACTAA
*
606456 ATTTCATTTTATCGAATAAAATATACAACATGACTAA
1 ATTTCATTTTATCAAATAAAATATACAACATGACTAA
606493 A
1 A
606494 AGTAGTCATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (37 bp):
ATTTCATTTTATCAAATAAAATATACAACATGACTAA
Found at i:606836 original size:2 final size:2
Alignment explanation
Indices: 606831--606856 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
606821 AGTAGTTAAG
606831 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
606857 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:608701 original size:4 final size:4
Alignment explanation
Indices: 608694--608725 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
608684 TCTGTCGATA
*
608694 GGTC GGTC GGTC GGTC GGTC TGTC GGTC GGTC
1 GGTC GGTC GGTC GGTC GGTC GGTC GGTC GGTC
608726 CACCAACAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.25, G:0.47, T:0.28
Consensus pattern (4 bp):
GGTC
Found at i:609016 original size:161 final size:162
Alignment explanation
Indices: 608732--609061 Score: 446
Period size: 161 Copynumber: 2.0 Consensus size: 162
608722 GGTCCACCAA
* * *
608732 CAGTTTCCGTTCATTTTTTTTCGCAGAGGATGAACATACTGAAATGAAATTTAGTAAACAGGTTT
1 CAGTTTTCGCTCA-TTTTCTTCGCAGAGGATGAACATACTGAAATGAAATTTAGTAAACAGGTTT
* * * * *
608797 ATCATGATAATATCTAGGTCTAGTTCGATATTGGGTACGATCGGGCAATTTTCGACAGAGTTATG
65 ATCATGATAATATCTAGGACAAGTTCGATATTGGGTACGATAGAGCAATTTTCGACAGAGTTATA
* * * *
608862 GCCCTTGGACGT-AGACAAATTCCATTTATTTG
130 CCCCTTGGACGTAAAAAAAATTCCAGTTATTTG
* * * * *
608894 CTGTTTTCGCTCATTTTCTTCGCAGAGGATGAACATATTGGAATGAAATTTGGTATACAGGTTTA
1 CAGTTTTCGCTCATTTTCTTCGCAGAGGATGAACATACTGAAATGAAATTTAGTAAACAGGTTTA
* * * *
608959 TTATGATATTATCTAGGACAAGTTTGATATTGGGTATGATAGAGCAATTTTCGACAGAGTTATAC
66 TCATGATAATATCTAGGACAAGTTCGATATTGGGTACGATAGAGCAATTTTCGACAGAGTTATAC
*
609024 CCCTTGGACTTAAAAAAAATTCCAGTTATTTG
131 CCCTTGGACGTAAAAAAAATTCCAGTTATTTG
609056 CAGTTT
1 CAGTTT
609062 ACGTTTATTT
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
161 112 0.78
162 32 0.22
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (162 bp):
CAGTTTTCGCTCATTTTCTTCGCAGAGGATGAACATACTGAAATGAAATTTAGTAAACAGGTTTA
TCATGATAATATCTAGGACAAGTTCGATATTGGGTACGATAGAGCAATTTTCGACAGAGTTATAC
CCCTTGGACGTAAAAAAAATTCCAGTTATTTG
Found at i:609388 original size:17 final size:17
Alignment explanation
Indices: 609366--609400 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
609356 GTTGTGTTGC
609366 AACCACTATTGAAATAA
1 AACCACTATTGAAATAA
609383 AACCACTATTGAAATAA
1 AACCACTATTGAAATAA
609400 A
1 A
609401 TTATTTCAAT
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:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (17 bp):
AACCACTATTGAAATAA
Found at i:609472 original size:17 final size:17
Alignment explanation
Indices: 609450--609482 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
609440 ATCACATTGC
609450 AACCACTATTGAAATAA
1 AACCACTATTGAAATAA
609467 AACCACTATTGAAATA
1 AACCACTATTGAAATA
609483 CATTGTAAAA
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:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
AACCACTATTGAAATAA
Found at i:609570 original size:91 final size:91
Alignment explanation
Indices: 609397--609570 Score: 240
Period size: 91 Copynumber: 1.9 Consensus size: 91
609387 ACTATTGAAA
* * * *
609397 TAAATTATTTCAATAGTGGTTGGGAATGTATTTCATTACAAAAATCACATTGCAACCACTATTGA
1 TAAAATATTTCAATAGTCGTTGGGAACGTATTTCATTACAAAAATCACATTGCAACCACTATTAA
609462 AATAAAACCACTATTGAAATACATTG
66 AATAAAACCACTATTGAAATACATTG
* * * * *
609488 TAAAATATTTTAATAGTCGTTGGGGACGTATTTCATTAGAAGAATCACTTTGCAACCACTATTAA
1 TAAAATATTTCAATAGTCGTTGGGAACGTATTTCATTACAAAAATCACATTGCAACCACTATTAA
* * *
609553 AATACAACTACTGTTGAA
66 AATAAAACCACTATTGAA
609571 GTAATGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
91 71 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (91 bp):
TAAAATATTTCAATAGTCGTTGGGAACGTATTTCATTACAAAAATCACATTGCAACCACTATTAA
AATAAAACCACTATTGAAATACATTG
Found at i:618624 original size:12 final size:12
Alignment explanation
Indices: 618602--618631 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
618592 TGTGAAATAA
618602 GTATACATATATT
1 GTAT-CATATATT
618615 GTATCATATATT
1 GTATCATATATT
618627 GTATC
1 GTATC
618632 GGTAATGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (12 bp):
GTATCATATATT
Found at i:620710 original size:2 final size:2
Alignment explanation
Indices: 620703--620785 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
620693 TAGTCTTAAC
620703 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
620745 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
620786 CGCTCTGTTG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:624109 original size:2 final size:2
Alignment explanation
Indices: 624102--624129 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
624092 ACTTGTTTAT
624102 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
624130 CATGTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:628594 original size:53 final size:53
Alignment explanation
Indices: 628510--628615 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
628500 GTCATTTTAG
628510 CTCACCTGAGCCCGGGGTACAAATGAAGCCTGATCTCAATGTCCCCGGAAGGT
1 CTCACCTGAGCCCGGGGTACAAATGAAGCCTGATCTCAATGTCCCCGGAAGGT
* *
628563 CTCACCTGAGTCCGGGGTACAAATGACGCCTGATCTCAATGTCCCCGGAAGGT
1 CTCACCTGAGCCCGGGGTACAAATGAAGCCTGATCTCAATGTCCCCGGAAGGT
628616 GTCGTCTATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (53 bp):
CTCACCTGAGCCCGGGGTACAAATGAAGCCTGATCTCAATGTCCCCGGAAGGT
Found at i:629467 original size:15 final size:16
Alignment explanation
Indices: 629437--629469 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
629427 AGACCAATAA
629437 TTTAAAAACTTATTTTT
1 TTTAAAAAC-TATTTTT
629454 TTTAAAAA-TATTTTT
1 TTTAAAAACTATTTTT
629469 T
1 T
629470 GAGTGAGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAAACTATTTTT
Found at i:638603 original size:26 final size:21
Alignment explanation
Indices: 638550--638595 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
638540 GAATATTTTA
*
638550 TCATCAATAAATTAGTAAATC
1 TCATGAATAAATTAGTAAATC
638571 TCATGAATAAATTAGTAAATC
1 TCATGAATAAATTAGTAAATC
638592 TCAT
1 TCAT
638596 TTTATGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.35
Consensus pattern (21 bp):
TCATGAATAAATTAGTAAATC
Found at i:639444 original size:2 final size:2
Alignment explanation
Indices: 639437--639496 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
639427 TATGTATCTC
639437 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
639479 AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG
639497 TACTTTGGCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:641864 original size:2 final size:2
Alignment explanation
Indices: 641857--641904 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
641847 TTGTAACGTG
641857 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
641899 GA GA GA
1 GA GA GA
641905 ACAATCCTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:642394 original size:17 final size:17
Alignment explanation
Indices: 642343--642394 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
642333 TTGGAACTAA
642343 TCGTTAGTAATAGTTAC
1 TCGTTAGTAATAGTTAC
* * *
642360 CCGTTGGTAAAAGTTAC
1 TCGTTAGTAATAGTTAC
642377 TCGTTAGTAATAGTTAC
1 TCGTTAGTAATAGTTAC
642394 T
1 T
642395 TAGTAATACA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (17 bp):
TCGTTAGTAATAGTTAC
Found at i:644036 original size:50 final size:50
Alignment explanation
Indices: 643982--644079 Score: 169
Period size: 50 Copynumber: 2.0 Consensus size: 50
643972 ATCGGCAAAC
*
643982 CAAAAATATTGTAAATATAGTATCATTAAATCGTATCTGCCCCACCCCTT
1 CAAAAATATTGTAAATATAGTATCATTAAATCGTATCCGCCCCACCCCTT
* *
644032 CAAAAATATTGTAAATATAGTATCATTTAATCGTATCCGCCCCCCCCC
1 CAAAAATATTGTAAATATAGTATCATTAAATCGTATCCGCCCCACCCC
644080 CCCATTCTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (50 bp):
CAAAAATATTGTAAATATAGTATCATTAAATCGTATCCGCCCCACCCCTT
Found at i:649501 original size:2 final size:2
Alignment explanation
Indices: 649474--649521 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
649464 CATAAAAGTC
* * * *
649474 AG AG AA AG AG AG AA AG AG AA AA AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
649516 AG AG AG
1 AG AG AG
649522 CTTTGTTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (2 bp):
AG
Found at i:655645 original size:21 final size:21
Alignment explanation
Indices: 655619--655788 Score: 243
Period size: 21 Copynumber: 8.1 Consensus size: 21
655609 AAAATATTTT
655619 TTTCGCGAATAAACGCGAAAC
1 TTTCGCGAATAAACGCGAAAC
* *
655640 TTTCGCAAATAAACGCGAAAT
1 TTTCGCGAATAAACGCGAAAC
655661 TTTCGCGAATAAACGCGAAAC
1 TTTCGCGAATAAACGCGAAAC
* ** *
655682 TCTCGCG-ATATAACGCGTTAG
1 TTTCGCGAATA-AACGCGAAAC
*
655703 TTTCGCGAATAAACGCGAAAT
1 TTTCGCGAATAAACGCGAAAC
*
655724 TTTCGCGAATAAACGCGAAAT
1 TTTCGCGAATAAACGCGAAAC
*
655745 TTTCGCGAATAAACGCGTAAC
1 TTTCGCGAATAAACGCGAAAC
655766 TTTCGCGAATAAACGCGAAAC
1 TTTCGCGAATAAACGCGAAAC
655787 TT
1 TT
655789 CAATATTGTT
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
20 3 0.02
21 126 0.95
22 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (21 bp):
TTTCGCGAATAAACGCGAAAC
Found at i:656666 original size:21 final size:21
Alignment explanation
Indices: 656637--656868 Score: 270
Period size: 21 Copynumber: 11.0 Consensus size: 21
656627 TTTATATAAT
*
656637 AGTTTCGCGTTTATTTGCGAA
1 AGTTTCGCGTTTATTCGCGAA
* *
656658 AGTTACGCGTTAATTCGCGAA
1 AGTTTCGCGTTTATTCGCGAA
*
656679 AGTTACGCGTTTATTCGCGAA
1 AGTTTCGCGTTTATTCGCGAA
* **
656700 ACTAACGCGTTTATTCGCGAA
1 AGTTTCGCGTTTATTCGCGAA
* * *
656721 ACTTACGCG-TTATATCCCGAA
1 AGTTTCGCGTTTAT-TCGCGAA
656742 AGTTTCGCGTTTATTCGCGAA
1 AGTTTCGCGTTTATTCGCGAA
*
656763 AGTTTCGCGTTAATTCGCGAA
1 AGTTTCGCGTTTATTCGCGAA
*
656784 AGTTTCGCGTTTATTCGTGAA
1 AGTTTCGCGTTTATTCGCGAA
* *
656805 AGTTTCGCGTTTATTTGCGTA
1 AGTTTCGCGTTTATTCGCGAA
** **
656826 TCTAACGCG-TTATATCGCGAA
1 AGTTTCGCGTTTAT-TCGCGAA
656847 AGTTTCGCGTTTATTCGCGAA
1 AGTTTCGCGTTTATTCGCGAA
656868 A
1 A
656869 AGAATATTTT
Statistics
Matches: 180, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
20 8 0.04
21 164 0.91
22 8 0.04
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (21 bp):
AGTTTCGCGTTTATTCGCGAA
Found at i:662871 original size:40 final size:44
Alignment explanation
Indices: 662826--662914 Score: 100
Period size: 43 Copynumber: 2.1 Consensus size: 44
662816 AAAACAAACA
*
662826 CAATAAAACT-AAAAT-AGTTGA-GTTT-TTGTTGGGATTAAAT
1 CAATAAAACTAAAAATAAGTTAATGTTTGTTGTTGGGATTAAAT
* *
662866 CAAT--AAGTAAAAATAAGTTAATTTTTTGTTGTTGGGATTAAAT
1 CAATAAAACTAAAAATAAGTTAA-TGTTTGTTGTTGGGATTAAAT
662909 CAATAA
1 CAATAA
662915 GTAATAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
38 3 0.08
39 5 0.13
40 9 0.23
42 3 0.08
43 19 0.49
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (44 bp):
CAATAAAACTAAAAATAAGTTAATGTTTGTTGTTGGGATTAAAT
Found at i:679244 original size:7 final size:7
Alignment explanation
Indices: 679232--679282 Score: 75
Period size: 7 Copynumber: 7.3 Consensus size: 7
679222 GAGAAGGATC
679232 ATTCGAG
1 ATTCGAG
679239 ATTCGAG
1 ATTCGAG
*
679246 ATTCGAA
1 ATTCGAG
*
679253 ATACGAG
1 ATTCGAG
679260 ATTCGAG
1 ATTCGAG
*
679267 ATTCGAA
1 ATTCGAG
679274 ATTCGAG
1 ATTCGAG
679281 AT
1 AT
679283 CCAATATCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (7 bp):
ATTCGAG
Found at i:679259 original size:21 final size:21
Alignment explanation
Indices: 679235--679282 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
679225 AAGGATCATT
679235 CGAGATTCGAGATTCGAAATA
1 CGAGATTCGAGATTCGAAATA
*
679256 CGAGATTCGAGATTCGAAATT
1 CGAGATTCGAGATTCGAAATA
679277 CGAGAT
1 CGAGAT
679283 CCAATATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (21 bp):
CGAGATTCGAGATTCGAAATA
Found at i:679739 original size:2 final size:2
Alignment explanation
Indices: 679732--679793 Score: 90
Period size: 2 Copynumber: 31.5 Consensus size: 2
679722 ACAAAAATCC
679732 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
679773 AG AG AC AA AC AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG A
679794 CAGACAGACA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.52, C:0.03, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:680006 original size:2 final size:2
Alignment explanation
Indices: 679999--680043 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
679989 TTTACATCGA
679999 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
680041 CT C
1 CT C
680044 ATCACCAAGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:682455 original size:7 final size:7
Alignment explanation
Indices: 682440--682506 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
682430 TTTAGATATT
682440 GAATCTC
1 GAATCTC
*
682447 GAATTTC
1 GAATCTC
682454 GAATCTC
1 GAATCTC
682461 GAATCTC
1 GAATCTC
* *
682468 GTATTTC
1 GAATCTC
682475 GAATCTC
1 GAATCTC
* *
682482 GTATTTC
1 GAATCTC
682489 GAATCTC
1 GAATCTC
682496 GAATCTC
1 GAATCTC
682503 GAAT
1 GAAT
682507 GATCCTTCTC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (7 bp):
GAATCTC
Found at i:682465 original size:21 final size:21
Alignment explanation
Indices: 682440--682506 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
682430 TTTAGATATT
682440 GAATCTCGAATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
*
682461 GAATCTCGTATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
* * *
682482 GTATTTCGAATCTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
682503 GAAT
1 GAAT
682507 GATCCTTCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (21 bp):
GAATCTCGAATTTCGAATCTC
Found at i:692252 original size:16 final size:16
Alignment explanation
Indices: 692231--692261 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
692221 TCGTATAACA
692231 AATTAACGTTAAAATG
1 AATTAACGTTAAAATG
*
692247 AATTAACTTTAAAAT
1 AATTAACGTTAAAAT
692262 TCTAAGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (16 bp):
AATTAACGTTAAAATG
Found at i:694009 original size:16 final size:17
Alignment explanation
Indices: 693988--694019 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
693978 GATATTATAT
693988 ATGTGAAAA-AAAAAAC
1 ATGTGAAAAGAAAAAAC
694004 ATGTGAAAAGAAAAAA
1 ATGTGAAAAGAAAAAA
694020 AAGCTTGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.69, C:0.03, G:0.16, T:0.12
Consensus pattern (17 bp):
ATGTGAAAAGAAAAAAC
Found at i:694620 original size:64 final size:65
Alignment explanation
Indices: 694539--694886 Score: 515
Period size: 64 Copynumber: 5.4 Consensus size: 65
694529 AAAAATATTT
*
694539 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTTATTACGAG-AAA
1 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTTATTACGAGTTAA
** * *
694603 AGATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTTATTATGAG-AAA
1 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTTATTACGAGTTAA
** *
694667 AGATCTCGTAATTACGAGAAAAGATCTCGTTATAACGAGTTAATTATCTCGTTATTACGAGTTAA
1 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTTATTACGAGTTAA
* * * ** *
694732 TTATCTCGTAATTACGAGAAAAGATCTCCTAATTACGAG-AAAAGATCTCGTTATTATGAGTTAA
1 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTTATTACGAGTTAA
* **
694796 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAG-AAAAGATCTCGTTATTACGAGTTAA
1 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTTATTACGAGTTAA
694860 TTATCTCGTAATTACGAGAAAAGATCT
1 TTATCTCGTAATTACGAGAAAAGATCT
694887 ATTTTTGAAA
Statistics
Matches: 265, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
64 229 0.86
65 36 0.14
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (65 bp):
TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTTATTACGAGTTAA
Found at i:694833 original size:150 final size:150
Alignment explanation
Indices: 694562--694877 Score: 560
Period size: 150 Copynumber: 2.1 Consensus size: 150
694552 ACGAGAAAAG
* *
694562 ATCTCGTTATTACGAGTTAATTATCTCGTTATTACGAGAAAAGATCTCGTAATTACGAGAAAAGA
1 ATCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAGATCTCCTAATTACGAGAAAAGA
* *
694627 TCTCGTTATTACGAGTTAATTATCTCGTTATTATGAGAAAAGATCTCGTAATTACGAGAAAAGAT
66 TCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAGATCTCGTAATTACGAGAAAAGAT
694692 CTCGTTATAACGAGTTAATT
131 CTCGTTATAACGAGTTAATT
694712 ATCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAGATCTCCTAATTACGAGAAAAGA
1 ATCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAGATCTCCTAATTACGAGAAAAGA
* *
694777 TCTCGTTATTATGAGTTAATTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGAAAAGAT
66 TCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAGATCTCGTAATTACGAGAAAAGAT
*
694842 CTCGTTATTACGAGTTAATT
131 CTCGTTATAACGAGTTAATT
*
694862 ATCTCGTAATTACGAG
1 ATCTCGTTATTACGAG
694878 AAAAGATCTA
Statistics
Matches: 158, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 158 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (150 bp):
ATCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAGATCTCCTAATTACGAGAAAAGA
TCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAGATCTCGTAATTACGAGAAAAGAT
CTCGTTATAACGAGTTAATT
Found at i:695581 original size:22 final size:22
Alignment explanation
Indices: 695552--695761 Score: 221
Period size: 22 Copynumber: 9.7 Consensus size: 22
695542 ATAGATCTTT
695552 TCTCGTAATAACGAGAAAATTA
1 TCTCGTAATAACGAGAAAATTA
*
695574 ACTCGTAATAACGAGAAAATTA
1 TCTCGTAATAACGAGAAAATTA
** *
695596 TCTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
695617 TCTCGTAATAACGAGAAAATTA
1 TCTCGTAATAACGAGAAAATTA
** *
695639 TCTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
* ** *
695660 TCTCGTAATTACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
* *
695681 TCTCGTAATAACGAGATAACTA
1 TCTCGTAATAACGAGAAAATTA
* ** *
695703 ACTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
*
695724 TCTCGTAATAACGAGATAATTA
1 TCTCGTAATAACGAGAAAATTA
*
695746 ACTCGTAATAACGAGA
1 TCTCGTAATAACGAGA
695762 TCTTTTCTCG
Statistics
Matches: 155, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
21 70 0.45
22 85 0.55
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (22 bp):
TCTCGTAATAACGAGAAAATTA
Found at i:695731 original size:107 final size:107
Alignment explanation
Indices: 695544--695784 Score: 383
Period size: 107 Copynumber: 2.2 Consensus size: 107
695534 CATTTTATAT
* * * *
695544 AGATCTTTTCTCGTAATAACGAGAAAATTAACTCGTAATAACGAGAAAATTATCTCGTAATAACG
1 AGATCTTTTCTCGTAATTACGAG-ATATTAACTCGTAATAACGAGAAAACTAACTCGTAATAACG
*
695609 AGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACG
65 AGATCTTTTCTCGTAATAACGAGAAAATTAACTCGTAATAACG
* ** *
695652 AGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAACTAACTCGTAATAACGA
1 AGATCTTTTCTCGTAATTACGAGATATTAACTCGTAATAACGAGAAAACTAACTCGTAATAACGA
*
695717 GATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
66 GATCTTTTCTCGTAATAACGAGAAAATTAACTCGTAATAACG
695759 AGATCTTTTCTCGTAATTACGAGATA
1 AGATCTTTTCTCGTAATTACGAGATA
695785 AAAATATTTT
Statistics
Matches: 122, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
107 100 0.82
108 22 0.18
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (107 bp):
AGATCTTTTCTCGTAATTACGAGATATTAACTCGTAATAACGAGAAAACTAACTCGTAATAACGA
GATCTTTTCTCGTAATAACGAGAAAATTAACTCGTAATAACG
Found at i:695772 original size:64 final size:63
Alignment explanation
Indices: 695544--695783 Score: 284
Period size: 64 Copynumber: 3.7 Consensus size: 63
695534 CATTTTATAT
** * ** *
695544 AGATCTTTTCTCGTAATAACGAGAAAATTAACTCGTAATAACGAGAAAATTATCTCGTAATAACG
1 AGATCTTTTCTCGTAATAACGAG-ATCTTATCTCGTAATAACGAG-ATCTTTTCTCGTAATAACG
** *
695609 AGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACGAGATCTTTTCTCGTAATTACG
1 AGATCTTTTCTCGTAATAACGAG-ATCTTATCTCGTAATAACGAGATCTTTTCTCGTAATAACG
*
695673 AGATCTTTTCTCGTAATAACGAGATAAC-TAACTCGTAATAACGAGATCTTTTCTCGTAATAACG
1 AGATCTTTTCTCGTAATAACGAGAT--CTTATCTCGTAATAACGAGATCTTTTCTCGTAATAACG
* ** * *
695737 AGATAATTAACTCGTAATAACGAGATCTTTTCTCGTAATTACGAGAT
1 AGAT-CTTTTCTCGTAATAACGAGATCTTATCTCGTAATAACGAGAT
695784 AAAAATATTT
Statistics
Matches: 156, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
63 2 0.01
64 92 0.59
65 62 0.40
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (63 bp):
AGATCTTTTCTCGTAATAACGAGATCTTATCTCGTAATAACGAGATCTTTTCTCGTAATAACG
Found at i:695784 original size:43 final size:43
Alignment explanation
Indices: 695544--695785 Score: 308
Period size: 43 Copynumber: 5.6 Consensus size: 43
695534 CATTTTATAT
*
695544 AGATCTTTTCTCGTAATAACGAGAAAATTAACTCGTAATAACG
1 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
** * * **
695587 AGAAAATTATCTCGTAATAACGAGAT-CTTTTCTCGTAATAACG
1 AG-ATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
** * * ** *
695630 AGAAAATTATCTCGTAATAACGAGAT-CTTTTCTCGTAATTACG
1 AG-ATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
*
695673 AGATCTTTTCTCGTAATAACGAGATAACTAACTCGTAATAACG
1 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
695716 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
1 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
*
695759 AGATCTTTTCTCGTAATTACGAGATAA
1 AGATCTTTTCTCGTAATAACGAGATAA
695786 AAATATTTTT
Statistics
Matches: 179, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
42 20 0.11
43 140 0.78
44 19 0.11
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (43 bp):
AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACG
Found at i:696648 original size:2 final size:2
Alignment explanation
Indices: 696641--696687 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
696631 CCCCTCTCCC
696641 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
696683 GA GA G
1 GA GA G
696688 TCCGGTTCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:697906 original size:57 final size:57
Alignment explanation
Indices: 697818--697933 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
697808 TTCCATCACT
697818 TTATGCTTGTAATTTCTGAATACCTTTGCATCCAAACTACATGGGTTTACTTGAATG
1 TTATGCTTGTAATTTCTGAATACCTTTGCATCCAAACTACATGGGTTTACTTGAATG
*
697875 TTATGCTTGTAATTTCTGAATACCTTTGCATCCAAATTACATGGGTTTACTTGAATG
1 TTATGCTTGTAATTTCTGAATACCTTTGCATCCAAACTACATGGGTTTACTTGAATG
697932 TT
1 TT
697934 TTAAGAAAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (57 bp):
TTATGCTTGTAATTTCTGAATACCTTTGCATCCAAACTACATGGGTTTACTTGAATG
Found at i:710195 original size:181 final size:180
Alignment explanation
Indices: 709885--710227 Score: 623
Period size: 181 Copynumber: 1.9 Consensus size: 180
709875 ATAAGGTGAA
709885 AGGGTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTCAT
1 AGGGTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTCAT
709950 AAATAATCAGAAATCTAAATCCTAGCAATATGCACACCTCTAATATATGTACAATTGATCTGCAA
66 AAATAATCAGAAATCTAAATCCTAGCAATATGCACACCTCTAATATATGTACAATTGATCTGCAA
*
710015 AAGAACAACTTCTTATCTTGAAAACTGTAGGAGGAGTTGTCCGTACAATG
131 AAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTGTCCGTACAATG
710065 AGGGTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAGAAGCTGGTATTTTTTTCA
1 AGGGTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAA-AAGCTGGTATTTTTTTCA
* * * * *
710130 TTAATGATCGGAAATCTAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGGTCTGCA
65 TAAATAATCAGAAATCTAAATCCTAGCAATATGCACACCTCTAATATATGTACAATTGATCTGCA
710195 AAAGAACAACTTCCTATCTTGAAAACTGTAGGA
130 AAAGAACAACTTCCTATCTTGAAAACTGTAGGA
710228 ACCATTTTAA
Statistics
Matches: 156, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
180 46 0.29
181 110 0.71
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (180 bp):
AGGGTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTCAT
AAATAATCAGAAATCTAAATCCTAGCAATATGCACACCTCTAATATATGTACAATTGATCTGCAA
AAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTGTCCGTACAATG
Found at i:711425 original size:228 final size:228
Alignment explanation
Indices: 711028--712159 Score: 1967
Period size: 228 Copynumber: 5.0 Consensus size: 228
711018 ATGTTAATTT
*
711028 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGTGT
1 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
711093 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
66 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
*
711158 TGTCCTGGATCTTGGCTTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
131 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
711223 TTGCCAGTCAGTGTTTTGACAAAGATTTGCATA
196 TTGCCAGTCAGTGTTTTGACAAAGATTTGCATA
* *
711256 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCTTTCTGAATGTTGTAGTCGGAGAGAGT
1 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
711321 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
66 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
*
711386 TGTCCTGGATCTTGGCCTTGACGTTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
131 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
*
711451 TTGCCAGTCAGCGTTTTGACAAAGATTTGCATA
196 TTGCCAGTCAGTGTTTTGACAAAGATTTGCATA
*
711484 CCTCCTCTCAGACGCAAGACCAAATGAAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
1 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
711549 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
66 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
711614 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
131 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
* *
711679 TTGCCAGTCA-T-TTGGTTGAC----A---NCATT
196 TTGCCAGTCAGTGTT--TTGACAAAGATTTGCATA
711705 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
1 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
* *
711770 GCGGCCATCTTCTAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
66 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
*
711835 TGTCCTGGATCTTGGCCTTGACGTTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
131 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
711900 TTGCCAGTCAGTGTTTTGACAAAGATTTGCATA
196 TTGCCAGTCAGTGTTTTGACAAAGATTTGCATA
711933 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
1 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
* * *
711998 GCGGCCATCTTCCAACTGTTTCCCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
66 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
* * * * *
712063 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCCGAGGGCTCTACTTCAAGTGTAATGGTC
131 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
* * * *
712128 TTGCCAGTGAGGGTCTTGACAAAGATCTGCAT
196 TTGCCAGTCAGTGTTTTGACAAAGATTTGCAT
712160 GATTCTGAAA
Statistics
Matches: 861, Mismatches: 32, Indels: 22
0.94 0.03 0.02
Matches are distributed among these distances:
221 209 0.24
222 1 0.00
223 2 0.00
224 1 0.00
225 1 0.00
226 2 0.00
228 645 0.75
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.32
Consensus pattern (228 bp):
CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
TTGCCAGTCAGTGTTTTGACAAAGATTTGCATA
Found at i:711910 original size:449 final size:451
Alignment explanation
Indices: 711028--712149 Score: 1964
Period size: 449 Copynumber: 2.5 Consensus size: 451
711018 ATGTTAATTT
*
711028 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGTGT
1 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
711093 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
66 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
*
711158 TGTCCTGGATCTTGGCTTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
131 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
711223 TTGCCAGTCAGTGTTTTGACAAAGATTTGCATACCTCCTCTCAGACGCAAGACCAAATGGAGGGT
196 TTGCCAGTCAGTGTTTTGAC--A-A--TGCATACCTCCTCTCAGACGCAAGACCAAATGGAGGGT
* *
711288 GGATTCTTTCTGAATGTTGTAGTCGGAGAGAGTGCGACCATCTTCCAGCTGTTTACCGGCGAAGA
256 GGATTCCTTCTGAATGTTGTAGTCAGAGAGAGTGCGACCATCTTCCAGCTGTTTACCGGCGAAGA
711353 TCAATCTCTGCTGATCTGGGGGAATTCCTTCTTTGTCCTGGATCTTGGCCTTGACGTTTTCAATG
321 TCAATCTCTGCTGATCTGGGGGAATTCCTTCTTTGTCCTGGATCTTGGCCTTGACGTTTTCAATG
711418 GTGTCTGAGGGCTCCACTTCCAGTGTGATGGTTTTGCCAGTCAGCGTTTTGACAAAGATTTGCAT
386 GTGTCTGAGGGCTCCACTTCCAGTGTGATGGTTTTGCCAGTCAGCGTTTTGACAAAGATTTGCAT
711483 A
451 A
*
711484 CCTCCTCTCAGACGCAAGACCAAATGAAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
1 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
711549 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
66 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
711614 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
131 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
* *
711679 TTGCCAGTCA-T-TTGGTTGAC-A-NCATTCCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGA
196 TTGCCAGTCAGTGTT--TTGACAATGCATACCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGA
* *
711740 TTCCTTCTGAATGTTGTAGTCAGAGAGAGTGCGGCCATCTTCTAGCTGTTTACCGGCGAAGATCA
259 TTCCTTCTGAATGTTGTAGTCAGAGAGAGTGCGACCATCTTCCAGCTGTTTACCGGCGAAGATCA
711805 ATCTCTGCTGATCTGGGGGAATTCCTTCTTTGTCCTGGATCTTGGCCTTGACGTTTTCAATGGTG
324 ATCTCTGCTGATCTGGGGGAATTCCTTCTTTGTCCTGGATCTTGGCCTTGACGTTTTCAATGGTG
*
711870 TCTGAGGGCTCCACTTCCAGTGTGATGGTTTTGCCAGTCAGTGTTTTGACAAAGATTTGCATA
389 TCTGAGGGCTCCACTTCCAGTGTGATGGTTTTGCCAGTCAGCGTTTTGACAAAGATTTGCATA
711933 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
1 CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
* * *
711998 GCGGCCATCTTCCAACTGTTTCCCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
66 GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
* * * * *
712063 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCCGAGGGCTCTACTTCAAGTGTAATGGTC
131 TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
* * *
712128 TTGCCAGTGAGGGTCTTGACAA
196 TTGCCAGTCAGTGTTTTGACAA
712150 AGATCTGCAT
Statistics
Matches: 639, Mismatches: 22, Indels: 16
0.94 0.03 0.02
Matches are distributed among these distances:
449 426 0.67
450 1 0.00
451 1 0.00
452 1 0.00
454 2 0.00
455 1 0.00
456 207 0.32
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.32
Consensus pattern (451 bp):
CCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGAGAGAGT
GCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGGGGAATTCCTTCTT
TGTCCTGGATCTTGGCCTTGACATTTTCAATGGTGTCTGAGGGCTCCACTTCCAGTGTGATGGTT
TTGCCAGTCAGTGTTTTGACAATGCATACCTCCTCTCAGACGCAAGACCAAATGGAGGGTGGATT
CCTTCTGAATGTTGTAGTCAGAGAGAGTGCGACCATCTTCCAGCTGTTTACCGGCGAAGATCAAT
CTCTGCTGATCTGGGGGAATTCCTTCTTTGTCCTGGATCTTGGCCTTGACGTTTTCAATGGTGTC
TGAGGGCTCCACTTCCAGTGTGATGGTTTTGCCAGTCAGCGTTTTGACAAAGATTTGCATA
Found at i:713701 original size:25 final size:25
Alignment explanation
Indices: 713667--713717 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
713657 ATTCCAACAA
713667 GCAATGATAATCACAATGTATACAT
1 GCAATGATAATCACAATGTATACAT
713692 GCAATGATAATCACAATGTATACAT
1 GCAATGATAATCACAATGTATACAT
713717 G
1 G
713718 TATCCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (25 bp):
GCAATGATAATCACAATGTATACAT
Found at i:719883 original size:15 final size:15
Alignment explanation
Indices: 719863--719914 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
719853 AGATAATTTT
719863 TTAACATTATATGCA
1 TTAACATTATATGCA
* ***
719878 TTAACATCA-ATTTT
1 TTAACATTATATGCA
*
719892 TTAACGTTATATGCA
1 TTAACATTATATGCA
719907 TTAACATT
1 TTAACATT
719915 TATACATCCA
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (15 bp):
TTAACATTATATGCA
Found at i:719901 original size:29 final size:29
Alignment explanation
Indices: 719857--719913 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
719847 TAAAGAAGAT
719857 AATTTTTTAACATTATATGCATTAACATC
1 AATTTTTTAACATTATATGCATTAACATC
*
719886 AATTTTTTAACGTTATATGCATTAACAT
1 AATTTTTTAACATTATATGCATTAACAT
719914 TTATACATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (29 bp):
AATTTTTTAACATTATATGCATTAACATC
Found at i:720454 original size:167 final size:168
Alignment explanation
Indices: 720112--720731 Score: 823
Period size: 168 Copynumber: 3.7 Consensus size: 168
720102 CCCCCCATGT
* * * *
720112 CCTGAACCCCTGACCCAGGGGCCATGAATTTCACAATTTAGGTAAAGGAGATT-GTGGATAAT-A
1 CCTGAACCCCTGACCCAGGGGCCATGAATTTCACAATTTAGGTAGAGG-GCTTCATGGA-CATCA
* ** ** * *
720175 TAACCATGTATTCAGTTTTTTGCCCACATGTGTGGGAGTACAGAAGAAGATTTTCTAAGATTTAA
64 TAACCATGCATTCAGTTTTTAACAAACATGTATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAA
720240 TACATTTTTACTATTTGGCCATATTGGCCCCACCCTAGAG
129 TACATTTTTACTATTTGGCCATATTGGCCCCACCCTAGAG
* ** * *
720280 TCTGAACCCCTGACTTAGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCATGGACATCATA
1 CCTGAACCCCTGACCCAGGGGCCATGAATTTCACAATTTAGGTAGAGGGCTTCATGGACATCATA
* * *
720345 ACAATGCATTTAGTTTTTAACAAATATGTATGGGAGTAGAGAAGAAGATTTT-TAAGATTTAATA
66 ACCATGCATTCAGTTTTTAACAAACATGTATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATA
720409 CATTTTTACTATTTGGCCATATTGGCCCCACCCTAGAG
131 CATTTTTACTATTTGGCCATATTGGCCCCACCCTAGAG
** * * ** *
720447 CCTGAACCCCTGACTTAGGGGTCATGAATTTCACAATTTTGACAGAGGGCCTCATGGACATCATA
1 CCTGAACCCCTGACCCAGGGGCCATGAATTTCACAATTTAGGTAGAGGGCTTCATGGACATCATA
* * * * *
720512 ATCATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTATGATTTAATA
66 ACCATGCATTCAGTTTTTAACAAACATGTATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATA
*
720577 CATTTTTACTATTTGGCCATATTGGCCCCGCCCTAGAG
131 CATTTTTACTATTTGGCCATATTGGCCCCACCCTAGAG
* *
720615 CCTGAACCCCTGACCCAGGGGCCATAAATTTCACAATTTTGGTAGAGGGCTTCATGGACATCATA
1 CCTGAACCCCTGACCCAGGGGCCATGAATTTCACAATTTAGGTAGAGGGCTTCATGGACATCATA
** ** ** **
720680 ACCATGCAACCAGTTTTTTCCTCACATGCGTGGGAGTAGAGAAGAAGATTTT
66 ACCATGCATTCAGTTTTTAACAAACATGTATGGGAGTAGAGAAGAAGATTTT
720732 TGAAAATTTG
Statistics
Matches: 400, Mismatches: 49, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
167 163 0.41
168 237 0.59
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (168 bp):
CCTGAACCCCTGACCCAGGGGCCATGAATTTCACAATTTAGGTAGAGGGCTTCATGGACATCATA
ACCATGCATTCAGTTTTTAACAAACATGTATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATA
CATTTTTACTATTTGGCCATATTGGCCCCACCCTAGAG
Found at i:724710 original size:11 final size:10
Alignment explanation
Indices: 724684--724733 Score: 82
Period size: 10 Copynumber: 4.8 Consensus size: 10
724674 CACGTCTTTT
724684 AACCCCAAGG
1 AACCCCAAGG
724694 AACCCCAAGG
1 AACCCCAAGG
724704 AAACCCCAAGG
1 -AACCCCAAGG
724715 AACCCCAAGG
1 AACCCCAAGG
724725 ATACCCCAA
1 A-ACCCCAA
724734 TGACAGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
10 21 0.55
11 17 0.45
ACGTcount: A:0.42, C:0.40, G:0.16, T:0.02
Consensus pattern (10 bp):
AACCCCAAGG
Found at i:724710 original size:21 final size:21
Alignment explanation
Indices: 724684--724733 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
724674 CACGTCTTTT
724684 AACCCCAAGGAACCCCAAGGA
1 AACCCCAAGGAACCCCAAGGA
724705 AACCCCAAGGAACCCCAAGGA
1 AACCCCAAGGAACCCCAAGGA
*
724726 TACCCCAA
1 AACCCCAA
724734 TGACAGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.40, G:0.16, T:0.02
Consensus pattern (21 bp):
AACCCCAAGGAACCCCAAGGA
Found at i:727041 original size:17 final size:17
Alignment explanation
Indices: 727021--727053 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
727011 AACTCTCAGT
727021 TTAGCCGATAACTGGTC
1 TTAGCCGATAACTGGTC
727038 TTAGCCGATAACTGGT
1 TTAGCCGATAACTGGT
727054 ACAGTACCAG
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:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (17 bp):
TTAGCCGATAACTGGTC
Found at i:731171 original size:21 final size:20
Alignment explanation
Indices: 731122--731180 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
731112 ATTTCTATTA
731122 TTGGGGT-TACTTGGGGTTC
1 TTGGGGTATACTTGGGGTTC
*
731141 TAAT-GAGTATACTTGGGGTTCC
1 T--TGGGGTATACTTGGGGTT-C
*
731163 TTGGGGTATCCTTGGGGT
1 TTGGGGTATACTTGGGGT
731181 ACTACGAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 1 0.03
20 4 0.12
21 25 0.78
22 2 0.06
ACGTcount: A:0.12, C:0.12, G:0.37, T:0.39
Consensus pattern (20 bp):
TTGGGGTATACTTGGGGTTC
Found at i:731176 original size:11 final size:11
Alignment explanation
Indices: 731147--731181 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
731137 GTTCTAATGA
*
731147 GTATACTTGGG
1 GTATCCTTGGG
731158 GT-TCCTTGGG
1 GTATCCTTGGG
731168 GTATCCTTGGG
1 GTATCCTTGGG
731179 GTA
1 GTA
731182 CTACGAGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.11, C:0.14, G:0.37, T:0.37
Consensus pattern (11 bp):
GTATCCTTGGG
Found at i:731445 original size:10 final size:10
Alignment explanation
Indices: 731430--731478 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
731420 ATTTTTGTCA
*
731430 TTGGGGTTCT
1 TTGGGGTTCC
731440 TTGGGGTATCC
1 TTGGGGT-TCC
*
731451 TTGAGGTTCC
1 TTGGGGTTCC
731461 TTGGGGTTCC
1 TTGGGGTTCC
731471 TTGGGGTT
1 TTGGGGTT
731479 AAAAGACGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
10 27 0.77
11 8 0.23
ACGTcount: A:0.04, C:0.14, G:0.39, T:0.43
Consensus pattern (10 bp):
TTGGGGTTCC
Found at i:731464 original size:21 final size:20
Alignment explanation
Indices: 731434--731478 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
731424 TTGTCATTGG
*
731434 GGTTCTTTGGGGTATCCTTGA
1 GGTTCCTTGGGGT-TCCTTGA
*
731455 GGTTCCTTGGGGTTCCTTGG
1 GGTTCCTTGGGGTTCCTTGA
731475 GGTT
1 GGTT
731479 AAAAGACGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.04, C:0.16, G:0.38, T:0.42
Consensus pattern (20 bp):
GGTTCCTTGGGGTTCCTTGA
Found at i:735670 original size:15 final size:16
Alignment explanation
Indices: 735650--735679 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
735640 TTGATCATAC
735650 CAATTCAA-TTCAATA
1 CAATTCAATTTCAATA
735665 CAATTCAATTTCAAT
1 CAATTCAATTTCAAT
735680 TCTTTATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (16 bp):
CAATTCAATTTCAATA
Found at i:736074 original size:16 final size:16
Alignment explanation
Indices: 736053--736084 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
736043 ACAAAGTGAT
*
736053 TTATAACTACATATTG
1 TTATAACGACATATTG
736069 TTATAACGACATATTG
1 TTATAACGACATATTG
736085 GTTGGTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (16 bp):
TTATAACGACATATTG
Found at i:737931 original size:37 final size:37
Alignment explanation
Indices: 737881--738694 Score: 1303
Period size: 37 Copynumber: 22.1 Consensus size: 37
737871 CTGATCTGTT
737881 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
* * *
737918 GCATTACAAGTTACAGGAGTGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
* * *
737955 GCATAACTAGTTTCAT-AATGTATCCTTCTTTCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
*
737991 GCATTTCTAGTTACATGAATGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
* * *
738028 GCATTACAAGTTACACGAGTGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
* * *
738065 GCATAACTAGTTTCAT-AATGTATCCTTCTTTCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
*
738101 GCATTTCTAGTTACATGAATGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
738138 GCATTACTAGTTACA-GAAGTGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAA-TGTATCCTTCTTCCACAG
738175 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
738212 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
*
738249 GCATTGCTAGTTACATGAATGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
738286 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
* * *
738323 GCATTACTATTTACATGAGTGTATCCTTCTTCCACAT
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
* * *
738360 GCATTACTAGTTACAGGAGTGTATCCTTTTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
* *
738397 GCATTACTAGTTACATGAATATATCCTTCTTTCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
738434 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
738471 GCATTACTAG-TACATGAATGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
* *
738507 GCATTACTATTTACATGAAAGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
* * *
738544 GCAGTACTAGTTGCATGAATGTATCCTTCTTTCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
* * *
738581 GCATTGCTAGTTACATGAATATATCCTTCTTTCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
738618 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
*
738655 GCATTACTAGTTACATGAATGTATCCTTCTTCTACAG
1 GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
738692 GCA
1 GCA
738695 CCTGGTGTTA
Statistics
Matches: 713, Mismatches: 59, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
36 100 0.14
37 610 0.86
38 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (37 bp):
GCATTACTAGTTACATGAATGTATCCTTCTTCCACAG
Done.