Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold100
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: 1174989
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 153044 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:649181 original size:20 final size:20
Alignment explanation
Indices: 649156--649226 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
649146 GGCAAGTGTC
*
649156 ATCTCAGTCATATTGAGACT
1 ATCTCAGTCATATTGAGATT
* *
649176 ATCTCAGACAAAATGGTGAGAGTT
1 ATCTCAGTC-ATAT--TGAGA-TT
649200 ATCTCAGTCATATTGAGATT
1 ATCTCAGTCATATTGAGATT
649220 ATCTCAG
1 ATCTCAG
649227 ACAGAATGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 17 0.40
21 8 0.19
23 8 0.19
24 9 0.21
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (20 bp):
ATCTCAGTCATATTGAGATT
Found at i:654556 original size:18 final size:20
Alignment explanation
Indices: 654533--654569 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
654523 GAATGCTCTT
654533 TATATAT-ATTTT-TATTGA
1 TATATATGATTTTATATTGA
654551 TATATATGATTTTATATTG
1 TATATATGATTTTATATTG
654570 CATGACATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TATATATGATTTTATATTGA
Found at i:669675 original size:2 final size:2
Alignment explanation
Indices: 669670--669706 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
669660 TGTGTATCTA
669670 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 A
669707 TTTATTACAC
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:677935 original size:41 final size:41
Alignment explanation
Indices: 677882--678762 Score: 1611
Period size: 41 Copynumber: 21.5 Consensus size: 41
677872 GAGTTTGATC
*
677882 CTACATGTATGGGTGGGTCCTGGGTTTGATTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
677923 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
677964 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
678005 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
678046 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
678087 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
678128 CTACATGTATGGGTGGGTCCTGGGTTT-AGCTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGA-CTGTACACGTGT
* *
678169 CTACATGTATGGGTGGGTCCTGGGTTTGATTGTTCACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
*
678210 CTACATGTATGGGTGGGTCCTGGGTTTGATTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
678251 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
678292 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
678333 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
* *
678374 CTACATGTATGGGTGGGCCCTGGATTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
678415 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
*
678456 CTACATGTATGGGTGGGTCCTGGGTTTGATTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
678497 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
*
678538 CTACATGTATGGGTGGGTCCTGTGTTTGACTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
* *
678579 CTACATGTATGGGTGGGTCCTGTGTTTGATTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
* *
678620 CTACATGTATGGGTGGGCCCTGGGTTTGATTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
* *
678661 CTACATGTATGGGTGGGTCCTGTGTTTGATTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
*
678702 CTACATGTATGGGTGGGTCCTGGGTTTGATTGTACACGTGT
1 CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
678743 CTACATGTATGGGTGGGTCC
1 CTACATGTATGGGTGGGTCC
678763 GGACACTCAC
Statistics
Matches: 820, Mismatches: 18, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
40 1 0.00
41 818 1.00
42 1 0.00
ACGTcount: A:0.15, C:0.16, G:0.34, T:0.35
Consensus pattern (41 bp):
CTACATGTATGGGTGGGTCCTGGGTTTGACTGTACACGTGT
Found at i:679999 original size:2 final size:2
Alignment explanation
Indices: 679994--680059 Score: 78
Period size: 2 Copynumber: 32.5 Consensus size: 2
679984 AGCATATATT
* * *
679994 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA TA TA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
680036 GA AA TGA GA AA GA GA GA GA GA GA G
1 GA GA -GA GA GA GA GA GA GA GA GA G
680060 CAGTGCAAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
2 55 0.98
3 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.42, T:0.05
Consensus pattern (2 bp):
GA
Found at i:692450 original size:24 final size:24
Alignment explanation
Indices: 692394--692452 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
692384 CTAAAAAACA
* *
692394 CATTATCATCATCACTATCGTTTT
1 CATTATCATTATCACTATCATTTT
*
692418 CATCATCATTATCACTATCATTTT
1 CATTATCATTATCACTATCATTTT
*
692442 CATTGTCATTA
1 CATTATCATTA
692453 CCATAAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.46
Consensus pattern (24 bp):
CATTATCATTATCACTATCATTTT
Found at i:695957 original size:11 final size:11
Alignment explanation
Indices: 695941--695965 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
695931 GGAAATTCCT
695941 AGATTTAAGTA
1 AGATTTAAGTA
695952 AGATTTAAGTA
1 AGATTTAAGTA
695963 AGA
1 AGA
695966 AAAATTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (11 bp):
AGATTTAAGTA
Found at i:718170 original size:20 final size:20
Alignment explanation
Indices: 718141--718178 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
718131 TGTCCCTCAG
718141 TGATTGAGGTCATGACTTAC
1 TGATTGAGGTCATGACTTAC
*
718161 TGATTTAGGTCATGACTT
1 TGATTGAGGTCATGACTT
718179 CCTATTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (20 bp):
TGATTGAGGTCATGACTTAC
Found at i:718454 original size:90 final size:90
Alignment explanation
Indices: 718167--718697 Score: 712
Period size: 89 Copynumber: 5.9 Consensus size: 90
718157 TTACTGATTT
* * * *
718167 AGGTCATGACTTCCTATTGTTAGTAGAGGTGGAGTCTGCAGGGGGAGGAAGCTTTGGAACCCCCA
1 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCA-GGGGAGGAAGCGTTGGAGCCCCCC
* * *
718232 T-ACACTAGTTGTCCCTCGGTAATTG
65 TCCCACAAGTTGTCCCTCAGTAATTG
* * * * * * *
718257 AGTTCATGACTTACTATTGTAAGTAGAGGTGGAGTCTGCTGGGGATGAAGCTTTGGAACCCCCAT
1 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
* *
718322 -ACACTAGTTGTCCCTCAGTAATTG
66 CCCACAAGTTGTCCCTCAGTAATTG
* *
718346 AGGTCATGACTTACTATTGTTGGTAGAGGTAGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
1 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
*
718411 CCCATAAGTTGTCCCTCAGTAATTG
66 CCCACAAGTTGTCCCTCAGTAATTG
* * * *
718436 AGGTCATGACTTACTATTGTTGGTAGAGGTAGAGTCTGCTGGGGAGGAAGCATTGGAGCCCCCCT
1 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
718501 CCCACAAGTTGTCCC-CAGTAATTG
66 CCCACAAGTTGTCCCTCAGTAATTG
* ** **
718525 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAATCTGTGGGGGAGGAAATGTTGGAGCCCCCCT
1 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
* *
718590 CCCACAGGTTGTCCC-CAGTTACTT-
66 CCCACAAGTTGTCCCTCAG-TAATTG
* *
718614 AGGTCATGACTTACTATTGTTAGTTGAGGTGGAGTCTGCGGGGGAGGAAGCGTTGGAGCCCCCCT
1 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
*
718679 CCCACAGGTTGTCCCTCAG
66 CCCACAAGTTGTCCCTCAG
718698 GGACTGGCTG
Statistics
Matches: 402, Mismatches: 36, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
89 261 0.65
90 141 0.35
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (90 bp):
AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
CCCACAAGTTGTCCCTCAGTAATTG
Found at i:718473 original size:179 final size:179
Alignment explanation
Indices: 718167--718693 Score: 695
Period size: 179 Copynumber: 2.9 Consensus size: 179
718157 TTACTGATTT
* * * *
718167 AGGTCATGACTTCCTATTGTTAGTAGAGGTGGAGTCTGCAGGGGGAGGAAGCTTTGGAACCCCCA
1 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCA-GGGGAGGAAGCGTTGGAGCCCCCC
* * * *
718232 T-ACACT-AGTTGTCCCTCGGTAATTGAGTTCATGACTTACTATTGTAAGTAGAGGTGGAGTCTG
65 TCCCA-TAAGTTGTCCCTCAGTAATTGAGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTG
* * * *
718295 CTGGGGATGAAGCTTTGGAACCCCCAT-ACACTAGTTGTCCCTCAGTAATTG
129 CTGGGGAGGAAGCATTGGAGCCCCCATCACACAAGTTGTCCC-CAGTAATTG
* *
718346 AGGTCATGACTTACTATTGTTGGTAGAGGTAGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
1 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
* *
718411 CCCATAAGTTGTCCCTCAGTAATTGAGGTCATGACTTACTATTGTTGGTAGAGGTAGAGTCTGCT
66 CCCATAAGTTGTCCCTCAGTAATTGAGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCT
* *
718476 GGGGAGGAAGCATTGGAGCCCCCCTCCCACAAGTTGTCCCCAGTAATTG
131 GGGGAGGAAGCATTGGAGCCCCCATCACACAAGTTGTCCCCAGTAATTG
* ** **
718525 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAATCTGTGGGGGAGGAAATGTTGGAGCCCCCCT
1 AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
* * * *
718590 CCCACAGGTTGTCCC-CAGTTACTT-AGGTCATGACTTACTATTGTTAGTTGAGGTGGAGTCTGC
66 CCCATAAGTTGTCCCTCAG-TAATTGAGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGC
* * * * *
718653 GGGGGAGGAAGCGTTGGAGCCCCCCTCCCACAGGTTGTCCC
130 TGGGGAGGAAGCATTGGAGCCCCCATCACACAAGTTGTCCC
718694 TCAGGGACTG
Statistics
Matches: 310, Mismatches: 34, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
178 100 0.32
179 198 0.64
180 12 0.04
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (179 bp):
AGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCAGGGGAGGAAGCGTTGGAGCCCCCCT
CCCATAAGTTGTCCCTCAGTAATTGAGGTCATGACTTACTATTGTTAGTAGAGGTGGAGTCTGCT
GGGGAGGAAGCATTGGAGCCCCCATCACACAAGTTGTCCCCAGTAATTG
Found at i:724353 original size:1 final size:1
Alignment explanation
Indices: 724347--724376 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
724337 GGACTCCCGA
724347 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
724377 TTAGATCCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:735420 original size:42 final size:42
Alignment explanation
Indices: 735356--735462 Score: 153
Period size: 42 Copynumber: 2.5 Consensus size: 42
735346 TAAAACGAAC
* * * *
735356 CGTACCGTTCCGTGCA-AGAAGCGAACCGTTCCGTTCACAAAG
1 CGTACCGTACCGTTCACA-AAGCGAACCGTACCGTTCACAAAA
735398 CGTACCGTACCGTTCACAAAGCGAACCGTACCGTTCACAAAA
1 CGTACCGTACCGTTCACAAAGCGAACCGTACCGTTCACAAAA
*
735440 CGAACCGTACCGTTCACAAAGCG
1 CGTACCGTACCGTTCACAAAGCG
735463 TAACGAACCG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 58 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.33, G:0.21, T:0.17
Consensus pattern (42 bp):
CGTACCGTACCGTTCACAAAGCGAACCGTACCGTTCACAAAA
Found at i:735451 original size:26 final size:21
Alignment explanation
Indices: 735356--735464 Score: 139
Period size: 21 Copynumber: 5.2 Consensus size: 21
735346 TAAAACGAAC
* *
735356 CGTACCGTTCCGTGCA-AGAAG
1 CGTACCGTACCGTTCACA-AAG
* *
735377 CGAACCGTTCCGTTCACAAAG
1 CGTACCGTACCGTTCACAAAG
735398 CGTACCGTACCGTTCACAAAG
1 CGTACCGTACCGTTCACAAAG
* *
735419 CGAACCGTACCGTTCACAAAA
1 CGTACCGTACCGTTCACAAAG
*
735440 CGAACCGTACCGTTCACAAAG
1 CGTACCGTACCGTTCACAAAG
735461 CGTA
1 CGTA
735465 ACGAACCGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
21 78 0.99
22 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.17
Consensus pattern (21 bp):
CGTACCGTACCGTTCACAAAG
Found at i:735472 original size:26 final size:21
Alignment explanation
Indices: 735374--735462 Score: 151
Period size: 21 Copynumber: 4.2 Consensus size: 21
735364 TCCGTGCAAG
*
735374 AAGCGAACCGTTCCGTTCACA
1 AAGCGAACCGTACCGTTCACA
*
735395 AAGCGTACCGTACCGTTCACA
1 AAGCGAACCGTACCGTTCACA
735416 AAGCGAACCGTACCGTTCACA
1 AAGCGAACCGTACCGTTCACA
*
735437 AAACGAACCGTACCGTTCACA
1 AAGCGAACCGTACCGTTCACA
735458 AAGCG
1 AAGCG
735463 TAACGAACCG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.33, C:0.33, G:0.19, T:0.16
Consensus pattern (21 bp):
AAGCGAACCGTACCGTTCACA
Found at i:760566 original size:12 final size:12
Alignment explanation
Indices: 760549--760575 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
760539 TTCATTCCTT
760549 AAAAAAAAAAAC
1 AAAAAAAAAAAC
760561 AAAAAAAAAAAC
1 AAAAAAAAAAAC
760573 AAA
1 AAA
760576 CCAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:777595 original size:28 final size:27
Alignment explanation
Indices: 777519--777583 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 27
777509 TACTTTTCAC
777519 TACATGCTGATACT--TC--AACATTA
1 TACATGCTGATACTAGTCTTAACATTA
777542 TACATGCTGATACTAGTCTTCAACATTA
1 TACATGCTGATACTAGTCTT-AACATTA
777570 TACATGCTGATACT
1 TACATGCTGATACT
777584 TCAGCATTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
23 14 0.38
25 2 0.05
28 21 0.57
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (27 bp):
TACATGCTGATACTAGTCTTAACATTA
Found at i:777596 original size:21 final size:21
Alignment explanation
Indices: 777519--777668 Score: 156
Period size: 21 Copynumber: 6.7 Consensus size: 21
777509 TACTTTTCAC
777519 TACATGCTGATACTTCAACATT
1 TACATGCTGATACTTCAACA-T
777541 ATACATGCTGATACTAGTCTTCAACATT
1 -TACATGCTG--A-TA--CTTCAACA-T
*
777569 ATACATGCTGATACTTCAGCAT
1 -TACATGCTGATACTTCAACAT
* *
777591 TACATGCCGATACTTCAGCAT
1 TACATGCTGATACTTCAACAT
*
777612 TACATTCTGATACTTCAACAT
1 TACATGCTGATACTTCAACAT
*
777633 TACATACTGATACTTCAACAT
1 TACATGCTGATACTTCAACAT
* *
777654 TACACGATGATACTT
1 TACATGCTGATACTT
777669 TATAACATTA
Statistics
Matches: 113, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
21 70 0.62
22 1 0.01
23 16 0.14
25 3 0.03
26 3 0.03
28 20 0.18
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (21 bp):
TACATGCTGATACTTCAACAT
Found at i:782114 original size:21 final size:21
Alignment explanation
Indices: 782088--782143 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
782078 GTTAATCATT
*
782088 TCGTTATAACGAGAAAAAATC
1 TCGTTATTACGAGAAAAAATC
* *
782109 TCGTTATTACGGGAAAAGATC
1 TCGTTATTACGAGAAAAAATC
*
782130 TCGTAATTACGAGA
1 TCGTTATTACGAGA
782144 GAAGATCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (21 bp):
TCGTTATTACGAGAAAAAATC
Found at i:782148 original size:21 final size:21
Alignment explanation
Indices: 782096--782151 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
782086 TTTCGTTATA
* *
782096 ACGAGAAAAAATCTCGTTATT
1 ACGAGAAAAGATCTCGTAATT
*
782117 ACGGGAAAAGATCTCGTAATT
1 ACGAGAAAAGATCTCGTAATT
*
782138 ACGAGAGAAGATCT
1 ACGAGAAAAGATCT
782152 TTTCAGGAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.23
Consensus pattern (21 bp):
ACGAGAAAAGATCTCGTAATT
Found at i:782272 original size:43 final size:43
Alignment explanation
Indices: 782183--782715 Score: 443
Period size: 43 Copynumber: 12.5 Consensus size: 43
782173 TATAAGTCTG
* * * * *
782183 TTCTCATAATAACGAGAT-CTTTTCTCGTAATTACGAGATCTG
1 TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAGATCTT
* *
782225 TTCTCGTAATTACGAGATAATTTACTCGTTATAACGAGATCTT
1 TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAGATCTT
* * *
782268 TTCTCGTAATAACGAGA-AAATTATCTCGTAATAACAAAATCTT
1 TTCTCGTAATAACGAGATAATTTA-CTCGTAATAACGAGATCTT
* * ** * * * *
782311 TTCTCGTAATTACTAGATAATGGACTTGTTATTACGAGATATT
1 TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAGATCTT
* * *
782354 TTCTCGTAATAACGAGAT-CTTTTCTCGTAATTACGAGATCTT
1 TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAGATCTT
*
782396 TTCTCGTAATAACGAGATAATTTACTCGTCATAACGAGATCTT
1 TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAGATCTT
* * *
782439 TTCTCGTAATAACGAGA-AAATTATCTCGTAATAACAAAATCTT
1 TTCTCGTAATAACGAGATAATTTA-CTCGTAATAACGAGATCTT
* * ** ** * *
782482 TTCTCGTAATTACTAGATAATGGACTTATAATTACGAGATATT
1 TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAGATCTT
* * *
782525 TTCTCGTAATAACGAGAT-CTTTTCTCGTAATAACGAGATAATT
1 TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAGAT-CTT
** * * * **
782568 TAGTCGTTATAACGAGAT-CTTTTCTCGTAATAACGAGAAAATT
1 TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAG-ATCTT
* * * * * * * * *
782611 ATCTCGTAATAACAAAAT-CTTTTCTCGTAATTACTAGATAATG
1 TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAGAT-CTT
** * * *
782654 GACTCGTAATTACGAGAT-CTTTTCTCGTAATAACGAGATCTT
1 TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAGATCTT
*
782696 TTCTCGTAATTACGAGATAA
1 TTCTCGTAATAACGAGATAA
782716 ATATATTTTT
Statistics
Matches: 395, Mismatches: 86, Indels: 19
0.79 0.17 0.04
Matches are distributed among these distances:
42 93 0.24
43 295 0.75
44 7 0.02
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (43 bp):
TTCTCGTAATAACGAGATAATTTACTCGTAATAACGAGATCTT
Found at i:782381 original size:171 final size:171
Alignment explanation
Indices: 782183--782563 Score: 699
Period size: 171 Copynumber: 2.2 Consensus size: 171
782173 TATAAGTCTG
* *
782183 TTCTCATAATAACGAGATCTTTTCTCGTAATTACGAGATCTGTTCTCGTAATTACGAGATAATTT
1 TTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATCTGTTCTCGTAATAACGAGATAATTT
*
782248 ACTCGTTATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTT
66 ACTCGTCATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTT
* *
782313 CTCGTAATTACTAGATAATGGACTTGTTATTACGAGATATT
131 CTCGTAATTACTAGATAATGGACTTATAATTACGAGATATT
*
782354 TTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAATTT
1 TTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATCTGTTCTCGTAATAACGAGATAATTT
782419 ACTCGTCATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTT
66 ACTCGTCATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTT
782484 CTCGTAATTACTAGATAATGGACTTATAATTACGAGATATT
131 CTCGTAATTACTAGATAATGGACTTATAATTACGAGATATT
*
782525 TTCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGAT
1 TTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGAT
782564 AATTTAGTCG
Statistics
Matches: 203, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 203 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (171 bp):
TTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATCTGTTCTCGTAATAACGAGATAATTT
ACTCGTCATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTT
CTCGTAATTACTAGATAATGGACTTATAATTACGAGATATT
Found at i:782466 original size:150 final size:150
Alignment explanation
Indices: 782206--782715 Score: 641
Period size: 150 Copynumber: 3.4 Consensus size: 150
782196 GAGATCTTTT
* * * * * * *
782206 CTCGTAATTACGAGATCTGTTCTCGTAATTACGAGATAATTTACTCGTTATAACGAGAT-CTTTT
1 CTCGTAATTACGAGATCTTTTCTCGTAATAACGAGAT-CTTTTCTCGTAATAACGAGATAATTTA
** * * * * * * * *
782270 CTCGTAATAACGAGAAAATTATCTCGTAATAAC-A-AAATCTTTTCTCGTAATTACTAGATAATG
65 CTCGTAATAACGAG-ATCTTTTCTCGTAATAACGAGAAA-ATTATCTCGTAATAACAAAAT-CTT
** * * ***
782333 GACTTGTTATTACGAGAT-ATTTT
127 TTCTCGTAATTACGAGATAATGGA
* *
782356 CTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAATTTAC
1 CTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTTAC
*
782421 TCGTCATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTTCT
66 TCGTAATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTTCT
*
782486 CGTAATTACTAGATAATGGA
131 CGTAATTACGAGATAATGGA
** * *
782506 CTTATAATTACGAGATATTTTCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTTAG
1 CTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTTAC
*
782571 TCGTTATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTTCT
66 TCGTAATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTTCT
*
782636 CGTAATTACTAGATAATGGA
131 CGTAATTACGAGATAATGGA
*
782656 CTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATAA
1 CTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAA
782716 ATATATTTTT
Statistics
Matches: 319, Mismatches: 37, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
149 47 0.15
150 269 0.84
151 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (150 bp):
CTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTTAC
TCGTAATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTTCT
CGTAATTACGAGATAATGGA
Found at i:782641 original size:171 final size:170
Alignment explanation
Indices: 782183--782623 Score: 695
Period size: 171 Copynumber: 2.6 Consensus size: 170
782173 TATAAGTCTG
* *
782183 TTCTCATAATAACGAGATCTTTTCTCGTAATTACGAGATCTGTTCTCGTAATTACGAGATAATTT
1 TTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATCT-TTCTCGTAATAACGAGATAATTT
*
782248 ACTCGTTATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTT
65 ACTCGTAATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTT
* *
782313 CTCGTAATTACTAGATAATGGACTTGTTATTACGAGATATT
130 CTCGTAATTACTAGATAATGGACTTATAATTACGAGATATT
782354 TTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATAATTT
1 TTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATC-TTTCTCGTAATAACGAGATAATTT
*
782419 ACTCGTCATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTT
65 ACTCGTAATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTT
782484 CTCGTAATTACTAGATAATGGACTTATAATTACGAGATATT
130 CTCGTAATTACTAGATAATGGACTTATAATTACGAGATATT
* * * * *
782525 TTCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTTAGTCGTTATAACGAGAT-CTT
1 TTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGAT-CTTT-CTCGTAATAACGAGATAATT
* ** *
782589 TTCTCGTAATAACGAGAAAATTATCTCGTAATAAC
64 TACTCGTAATAACGAG-ATCTTTTCTCGTAATAAC
782624 AAAATCTTTT
Statistics
Matches: 251, Mismatches: 15, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
171 221 0.88
172 30 0.12
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (170 bp):
TTCTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATCTTTCTCGTAATAACGAGATAATTTA
CTCGTAATAACGAGATCTTTTCTCGTAATAACGAGAAAATTATCTCGTAATAACAAAATCTTTTC
TCGTAATTACTAGATAATGGACTTATAATTACGAGATATT
Found at i:790101 original size:20 final size:20
Alignment explanation
Indices: 790057--790102 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
790047 CAATATACTG
* *
790057 TTATGCAAATTTGATTTTAA
1 TTATACAAATTTGATATTAA
790077 TTATACAAATTTGA-ATTAA
1 TTATACAAATTTGATATTAA
790096 TATATAC
1 T-TATAC
790103 GATATAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (20 bp):
TTATACAAATTTGATATTAA
Found at i:798606 original size:2 final size:2
Alignment explanation
Indices: 798599--798651 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
798589 CGAACAAGTC
798599 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
798641 AG AG AG AG AG A
1 AG AG AG AG AG A
798652 CAAAAACCTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:801029 original size:21 final size:21
Alignment explanation
Indices: 800999--801108 Score: 71
Period size: 21 Copynumber: 5.2 Consensus size: 21
800989 AGTTAAGTTG
*
800999 ACATGTAACTTATTTATGTCT
1 ACATGCAACTTATTTATGTCT
* *
801020 ACATGCAACTTAATTGTGAT-T
1 ACATGCAACTTATTTATG-TCT
* ** **
801041 ACATGCGAGATAGATATGT-T
1 ACATGCAACTTATTTATGTCT
* *
801061 GACATGAAACTTATTTATGTCG
1 -ACATGCAACTTATTTATGTCT
* * *
801083 CCATGCAACTTATTAATGTCG
1 ACATGCAACTTATTTATGTCT
801104 ACATG
1 ACATG
801109 AAAATTAGTC
Statistics
Matches: 66, Mismatches: 20, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
20 2 0.03
21 63 0.95
22 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (21 bp):
ACATGCAACTTATTTATGTCT
Found at i:804286 original size:30 final size:30
Alignment explanation
Indices: 804252--804324 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
804242 CCCTCACCCG
* *
804252 TTGATTCTCATGGTCA-CGATCATGGTTCAC
1 TTGATTCTCATGGTCACCG-TCACGGTCCAC
804282 TTGATTCTCATGGTCACCGTCACGGTCCAC
1 TTGATTCTCATGGTCACCGTCACGGTCCAC
*
804312 TCGATTCTCATGG
1 TTGATTCTCATGG
804325 CCATGGTCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 37 0.95
31 2 0.05
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (30 bp):
TTGATTCTCATGGTCACCGTCACGGTCCAC
Found at i:809818 original size:57 final size:57
Alignment explanation
Indices: 809750--809865 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
809740 TTCTAATTTG
809750 AAGTAGGTTCAATTTATAACTCTTTTCATGCATATTTTAGGCTAAGAAGTGACCTCT
1 AAGTAGGTTCAATTTATAACTCTTTTCATGCATATTTTAGGCTAAGAAGTGACCTCT
809807 AAGTAGGTTCAATTTATAACTCTTTTCATGCATATTTTAGGCTAAGAAGTGACCTCT
1 AAGTAGGTTCAATTTATAACTCTTTTCATGCATATTTTAGGCTAAGAAGTGACCTCT
809864 AA
1 AA
809866 CTATACAGAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (57 bp):
AAGTAGGTTCAATTTATAACTCTTTTCATGCATATTTTAGGCTAAGAAGTGACCTCT
Found at i:812547 original size:20 final size:20
Alignment explanation
Indices: 812522--812571 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
812512 CTTGATGAAT
*
812522 TCAATAATTAGGTTAATAAG
1 TCAATAATAAGGTTAATAAG
* * *
812542 TCAATAGTAATGTTTATAAG
1 TCAATAATAAGGTTAATAAG
*
812562 TCAATGATAA
1 TCAATAATAA
812572 ATAATATTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (20 bp):
TCAATAATAAGGTTAATAAG
Found at i:813755 original size:18 final size:18
Alignment explanation
Indices: 813721--813755 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
813711 CAGGCCAAAA
*
813721 ATATCAAATGCGCATTAT
1 ATATCAAATGCACATTAT
*
813739 ATATCAAATGCATATTA
1 ATATCAAATGCACATTA
813756 ATTTTAATCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (18 bp):
ATATCAAATGCACATTAT
Found at i:815927 original size:2 final size:2
Alignment explanation
Indices: 815920--815954 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
815910 AATCAATAAA
*
815920 TC TC TC TC TC TC TC TC TC TC TT 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 T
815955 GACATTCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:820398 original size:4 final size:4
Alignment explanation
Indices: 820391--820415 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
820381 AATAAATAAA
820391 TTAC TTAC TTAC TTAC TTAC TTAC T
1 TTAC TTAC TTAC TTAC TTAC TTAC T
820416 ATAACCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAC
Found at i:822432 original size:16 final size:16
Alignment explanation
Indices: 822411--822448 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
822401 ATCTATTTTT
822411 TTTGTCCGTCCGTCTG
1 TTTGTCCGTCCGTCTG
*
822427 TTTGTCTGTCCGTCTG
1 TTTGTCCGTCCGTCTG
*
822443 TCTGTC
1 TTTGTC
822449 TAGATAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.29, G:0.24, T:0.47
Consensus pattern (16 bp):
TTTGTCCGTCCGTCTG
Found at i:828221 original size:19 final size:20
Alignment explanation
Indices: 828187--828226 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
828177 TGAAATTCAG
*
828187 TATAAACCTTCTATAATATTC
1 TATAAACC-TCTATAAAATTC
828208 TATAAACC-CTATAAAATTC
1 TATAAACCTCTATAAAATTC
828227 CTTACCTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAAACCTCTATAAAATTC
Found at i:833708 original size:35 final size:35
Alignment explanation
Indices: 833657--833729 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
833647 ACAACGTTCT
* * *
833657 ACATGCCATTCAATTACCTTTGAAAATTTATCAAA
1 ACATGCCAATCAATTACATATGAAAATTTATCAAA
*
833692 ACATGCCAATCCATTACATATGAAAATTTATCAAA
1 ACATGCCAATCAATTACATATGAAAATTTATCAAA
833727 ACA
1 ACA
833730 AAGACAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (35 bp):
ACATGCCAATCAATTACATATGAAAATTTATCAAA
Found at i:835551 original size:18 final size:18
Alignment explanation
Indices: 835530--835568 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
835520 GTACATGTTT
*
835530 ATTGAATGTTTTATGTAC
1 ATTGAATGTTGTATGTAC
*
835548 ATTGGATGTTGTATGTAC
1 ATTGAATGTTGTATGTAC
835566 ATT
1 ATT
835569 CTTCATGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (18 bp):
ATTGAATGTTGTATGTAC
Found at i:838847 original size:17 final size:17
Alignment explanation
Indices: 838825--838857 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
838815 CAGGCCAAAT
*
838825 CGTCCGGATATGTGAAG
1 CGTCCGGATATCTGAAG
838842 CGTCCGGATATCTGAA
1 CGTCCGGATATCTGAA
838858 TTGTGATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (17 bp):
CGTCCGGATATCTGAAG
Found at i:839737 original size:15 final size:15
Alignment explanation
Indices: 839717--839746 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
839707 GGAAAGTGAA
*
839717 GCGTCCGGTTATCTG
1 GCGTCCGGATATCTG
839732 GCGTCCGGATATCTG
1 GCGTCCGGATATCTG
839747 AGGCTCCACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (15 bp):
GCGTCCGGATATCTG
Found at i:840988 original size:63 final size:63
Alignment explanation
Indices: 840889--841009 Score: 242
Period size: 63 Copynumber: 1.9 Consensus size: 63
840879 AATTGATGAG
840889 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTGTTTCTTTTTCCCTA
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTGTTTCTTTTTCCCTA
840952 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTGTTTCTTTTT
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTGTTTCTTTTT
841010 AGGGTCTTCC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (63 bp):
TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTGTTTCTTTTTCCCTA
Found at i:841017 original size:53 final size:57
Alignment explanation
Indices: 840889--841036 Score: 196
Period size: 63 Copynumber: 2.6 Consensus size: 57
840879 AATTGATGAG
840889 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTGTTTCTTTTTCCCTA
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTG-----TTTT-CCTA
840952 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTG-TTT-CT-
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTGTTTTCCTA
* *
841006 TT-TTAGGGTCTTCCGTTTCCAACGAAAGACC
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACC
841037 CTCTTGGTTT
Statistics
Matches: 83, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
53 27 0.33
54 2 0.02
55 2 0.02
57 3 0.04
63 49 0.59
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (57 bp):
TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTGTTTTCCTA
Found at i:843199 original size:436 final size:436
Alignment explanation
Indices: 842320--843346 Score: 1553
Period size: 436 Copynumber: 2.4 Consensus size: 436
842310 ACCTTTCACT
*
842320 TGATATCAAGAAAAAGGGGCTGGCCCTTAAAATTAGGGGACCAAAGGGCTCTAAAGTCTTTCATC
1 TGATATCAAGAAAAAGGGGCTGGCCCCTAAAATTAGGGGACCAAAGGGCTCTAAAGT-TTTCATC
*
842385 TGTAGCCCTTTACTGAGGGATATTTTGTGAACAGTTATAGAAGCAAATATGTTTATTTTACAGTT
65 TGTAGCCCTTTACTGAGGGATATTTTGTGAACAGTTATAGAAGCAAATATGTTTATCTTACAGTT
* *
842450 ATGTATCCAAGCAATGTAATGATTATATCATGTGTTACGTAATTAGGGGTTTTTAGGGGCCAAAA
130 ATGTATCCAAGCAATGTAATGATTTTATCATGTGTTACATAATTAGGGGTTTTTAGGGGCCAAAA
* * * *
842515 GTGCAGAATTTTGATCAAATATATCTCAGAAAGGAAAACTATTTTGAAATGCAGTGAAGAAGAAA
195 GTACAGAATTTTGATCAAATATATCTCAGAAAGGAAAAATATTTTAAAATGCAGTAAAGAAGAAA
* * *
842580 AGATGCTCAGAATGATGTACTAAATTATATGCAATTTTCAAAATATCGTTAAACGGCCCCTAAAA
260 AGATACTCAGAATGATGTACTAAATAATATGCAATTTTCAAAATATCGTAAAACGGCCCCTAAAA
* * *
842645 GGGGTTAAGGGATCGGCCCCTAAAATGTTCTTTCCCATATATCTCAAGAACGGTAACGAATTTCT
325 GGAGTTAAGGGATCAGCCCCTAAAACGTTCTTTCCCATATATCTCAAGAACGGTAACGAATTTCT
*
842710 AAACAGTTGTTAAACAAAATGGGTTAAGATTTAAATGACCTTTTATT
390 AAACAGTTGTTAAACAAAATGGGTTAAGATTTAAATGACCTTTTATA
* * *
842757 TGATATCAAGAAAAAGGGGCTGGCCCCTATAATTAGGGGACCAAAGGACTCTAAAGTGTTTTATC
1 TGATATCAAGAAAAAGGGGCTGGCCCCTAAAATTAGGGGACCAAAGGGCTCTAAAGT-TTTCATC
*
842822 TGTAACCCTTTACTGAGGGATATTTTGTGAACAGTTATAGAAGCAAATATGTTTATCTTACAGTT
65 TGTAGCCCTTTACTGAGGGATATTTTGTGAACAGTTATAGAAGCAAATATGTTTATCTTACAGTT
*
842887 ATGTATCCAAGCAATGTAATGATTTTATCATGTGTTACATAATTAGGGGTTTTTAGGGGCCAGAA
130 ATGTATCCAAGCAATGTAATGATTTTATCATGTGTTACATAATTAGGGGTTTTTAGGGGCCAAAA
* *
842952 TTATAGAA-TTTGATCACCAAT-T-TCTCAGAAAGGAAAAATATTTTAAAATGCAGTAAAGAAGA
195 GTACAGAATTTTGATCA--AATATATCTCAGAAAGGAAAAATATTTTAAAATGCAGTAAAGAAGA
* *
843014 AAAGATACTCAGAATGATGTACTAAATAATATGCAATTTTCAAAATTTCGTAAAACGGCCCCTAT
258 AAAGATACTCAGAATGATGTACTAAATAATATGCAATTTTCAAAATATCGTAAAACGGCCCCTAA
*
843079 AAGGAGTTAAGGGATCAGCCCCTTAAACGTTCTTTCCCATATATCTCAAGAACGGTAACGAATTT
323 AAGGAGTTAAGGGATCAGCCCCTAAAACGTTCTTTCCCATATATCTCAAGAACGGTAACGAATTT
* * * *
843144 TTAAACAGTTGTTGAACAAAATGTGTTGAGATTTAAATGACCTTTTATA
388 CTAAACAGTTGTTAAACAAAATGGGTTAAGATTTAAATGACCTTTTATA
* * * ** * *
843193 TGATATC-A-AAAAAGGGGCTGCCCCCTAAAATTAAGGAACTTAAGGGCTTTTAAACTTTTCATC
1 TGATATCAAGAAAAAGGGGCTGGCCCCTAAAATTAGGGGACCAAAGGGC-TCTAAAGTTTTCATC
* * * ** * *
843256 TGTAGCTCTTTACAGAGGGAAATTTAATGAA-AGGCTATAGAAGCAGATATGTTTATCTTACAGT
65 TGTAGCCCTTTACTGAGGGATATTTTGTGAACA-GTTATAGAAGCAAATATGTTTATCTTACAGT
* *
843320 TCTGTATCCAAGTAATGTAATGATTTT
129 TATGTATCCAAGCAATGTAATGATTTT
843347 TTAGGGGTTA
Statistics
Matches: 536, Mismatches: 50, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
433 1 0.00
434 117 0.22
435 7 0.01
436 217 0.40
437 191 0.36
438 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (436 bp):
TGATATCAAGAAAAAGGGGCTGGCCCCTAAAATTAGGGGACCAAAGGGCTCTAAAGTTTTCATCT
GTAGCCCTTTACTGAGGGATATTTTGTGAACAGTTATAGAAGCAAATATGTTTATCTTACAGTTA
TGTATCCAAGCAATGTAATGATTTTATCATGTGTTACATAATTAGGGGTTTTTAGGGGCCAAAAG
TACAGAATTTTGATCAAATATATCTCAGAAAGGAAAAATATTTTAAAATGCAGTAAAGAAGAAAA
GATACTCAGAATGATGTACTAAATAATATGCAATTTTCAAAATATCGTAAAACGGCCCCTAAAAG
GAGTTAAGGGATCAGCCCCTAAAACGTTCTTTCCCATATATCTCAAGAACGGTAACGAATTTCTA
AACAGTTGTTAAACAAAATGGGTTAAGATTTAAATGACCTTTTATA
Found at i:848799 original size:11 final size:11
Alignment explanation
Indices: 848783--848813 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
848773 GACTGAAATG
848783 TCATTGGATTT
1 TCATTGGATTT
848794 TCATTGGA-TT
1 TCATTGGATTT
848804 TCATTGGATT
1 TCATTGGATT
848814 AAACATGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (11 bp):
TCATTGGATTT
Found at i:856219 original size:10 final size:9
Alignment explanation
Indices: 856185--856221 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
856175 AAACAAACAG
*
856185 AAAAGCTTA
1 AAAAGGTTA
856194 AAAAGGTTA
1 AAAAGGTTA
856203 AAAAGGTTA
1 AAAAGGTTA
856212 AAATAGGTTA
1 AAA-AGGTTA
856222 GACGGGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 20 0.77
10 6 0.23
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.24
Consensus pattern (9 bp):
AAAAGGTTA
Found at i:868534 original size:33 final size:33
Alignment explanation
Indices: 868492--868557 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
868482 TAACAGTAAC
868492 TCTGCCAATAGGAGTAAGAATTCTTCGTTTCCA
1 TCTGCCAATAGGAGTAAGAATTCTTCGTTTCCA
868525 TCTGCCAATAGGAGTAAGAATTCTTCGTTTCCA
1 TCTGCCAATAGGAGTAAGAATTCTTCGTTTCCA
868558 CTGTTCAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (33 bp):
TCTGCCAATAGGAGTAAGAATTCTTCGTTTCCA
Found at i:868703 original size:11 final size:11
Alignment explanation
Indices: 868687--868716 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
868677 TAAGCAAGTT
868687 CTTAAAGGTGG
1 CTTAAAGGTGG
868698 CTTAAAGGTGG
1 CTTAAAGGTGG
868709 CTTAAAGG
1 CTTAAAGG
868717 GTATACAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.27
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:868742 original size:11 final size:11
Alignment explanation
Indices: 868726--868755 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
868716 GGTATACAAT
868726 CTTTAAGCCAC
1 CTTTAAGCCAC
*
868737 CTTTAAGTCAC
1 CTTTAAGCCAC
868748 CTTTAAGC
1 CTTTAAGC
868756 TGAGCTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (11 bp):
CTTTAAGCCAC
Found at i:868831 original size:21 final size:22
Alignment explanation
Indices: 868794--868835 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
868784 TTCTTTATGT
868794 CACCTTTAAGCCATCTTTAAGC
1 CACCTTTAAGCCATCTTTAAGC
868816 CACCTTTAAG-CATCTTTAAG
1 CACCTTTAAGCCATCTTTAAG
868836 TGGCATTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (22 bp):
CACCTTTAAGCCATCTTTAAGC
Found at i:868834 original size:10 final size:11
Alignment explanation
Indices: 868797--868835 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
868787 TTTATGTCAC
868797 CTTTAAGCCAT
1 CTTTAAGCCAT
*
868808 CTTTAAGCCAC
1 CTTTAAGCCAT
868819 CTTTAAG-CAT
1 CTTTAAGCCAT
868829 CTTTAAG
1 CTTTAAG
868836 TGGCATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (11 bp):
CTTTAAGCCAT
Found at i:879210 original size:14 final size:14
Alignment explanation
Indices: 879191--879218 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
879181 ATCACATAGC
879191 CAGACACACGGACA
1 CAGACACACGGACA
879205 CAGACACACGGACA
1 CAGACACACGGACA
879219 GATGACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.36, G:0.21, T:0.00
Consensus pattern (14 bp):
CAGACACACGGACA
Found at i:879591 original size:22 final size:23
Alignment explanation
Indices: 879563--879605 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
879553 CTAACCAATT
*
879563 AAACATACATA-ACATTGAAAAA
1 AAACATACAAATACATTGAAAAA
879585 AAACATACAAATACATTGAAA
1 AAACATACAAATACATTGAAA
879606 TTGGTGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.63, C:0.14, G:0.05, T:0.19
Consensus pattern (23 bp):
AAACATACAAATACATTGAAAAA
Found at i:880820 original size:22 final size:23
Alignment explanation
Indices: 880792--880834 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
880782 CTAACCAATT
*
880792 AAACATACATA-ACATTGAAAAA
1 AAACATACAAATACATTGAAAAA
880814 AAACATACAAATACATTGAAA
1 AAACATACAAATACATTGAAA
880835 TTGGTGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.63, C:0.14, G:0.05, T:0.19
Consensus pattern (23 bp):
AAACATACAAATACATTGAAAAA
Found at i:890123 original size:6 final size:6
Alignment explanation
Indices: 890112--890155 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
890102 ATGCGACTGA
** *
890112 TAACCC TAACCC TAACTA TGACCC -AACCC TAACCC TAACCC TAA
1 TAACCC TAACCC TAACCC TAACCC TAACCC TAACCC TAACCC TAA
890156 GGGTTTAGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.36, C:0.43, G:0.02, T:0.18
Consensus pattern (6 bp):
TAACCC
Found at i:894700 original size:31 final size:31
Alignment explanation
Indices: 894625--894774 Score: 153
Period size: 31 Copynumber: 4.9 Consensus size: 31
894615 GCGCTTTGTG
* **
894625 GGGTCGCTTTGAAGTGACTTATAAAAGCGAC
1 GGGTCGCTTTGAAGCGACCGATAAAAGCGAC
* * *
894656 GGGTTG-TTTGAAGCGACCGGTAAAAGCAAC
1 GGGTCGCTTTGAAGCGACCGATAAAAGCGAC
*
894686 GGGTCGCTTTGAAGCGACCGATAAAAGTGAC
1 GGGTCGCTTTGAAGCGACCGATAAAAGCGAC
* *
894717 GGGTCGCTTTGAAGTGACTGATAGAAA-CGAC
1 GGGTCGCTTTGAAGCGACCGATA-AAAGCGAC
* * * *
894748 GGATTG-TTTGAAACGACCGATAGAAGC
1 GGGTCGCTTTGAAGCGACCGATAAAAGC
894775 ATAGAGTTCG
Statistics
Matches: 97, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
29 2 0.02
30 38 0.39
31 54 0.56
32 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (31 bp):
GGGTCGCTTTGAAGCGACCGATAAAAGCGAC
Found at i:896004 original size:8 final size:8
Alignment explanation
Indices: 895978--896021 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
895968 AACTGAAGTG
895978 GGACAGAC
1 GGACAGAC
* *
895986 AGACGGAC
1 GGACAGAC
895994 GGACAGAC
1 GGACAGAC
896002 GGACAGAC
1 GGACAGAC
896010 GGACAGAC
1 GGACAGAC
896018 GGAC
1 GGAC
896022 TGAAGGACGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.39, T:0.00
Consensus pattern (8 bp):
GGACAGAC
Found at i:899233 original size:15 final size:15
Alignment explanation
Indices: 899215--899248 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
899205 TGAAATTGGT
899215 AATACTAAAGAACTA
1 AATACTAAAGAACTA
*
899230 AATACTAAAGAACTG
1 AATACTAAAGAACTA
899245 AATA
1 AATA
899249 TTTTGTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.09, T:0.21
Consensus pattern (15 bp):
AATACTAAAGAACTA
Found at i:909937 original size:8 final size:7
Alignment explanation
Indices: 909912--909944 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
909902 TTTAATGTGG
909912 GACC-TT
1 GACCTTT
909918 GACCTTT
1 GACCTTT
909925 GACCTTGT
1 GACCTT-T
909933 GACCTTT
1 GACCTTT
909940 GACCT
1 GACCT
909945 CCTGAAACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 4 0.16
7 14 0.56
8 7 0.28
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.36
Consensus pattern (7 bp):
GACCTTT
Found at i:913201 original size:67 final size:68
Alignment explanation
Indices: 913074--913237 Score: 181
Period size: 67 Copynumber: 2.4 Consensus size: 68
913064 AAATTTAACA
* * * * * *
913074 TCCATATTCAACGTCGATATCGACGATATCGTATCGATATCGATTTTCTTTGTCCTCAACTGAAT
1 TCCATATTCAACGTCGATATCGACGATATCGTATCGATATAGAGTTGCTATGTACACAACTGAAT
913139 TTG
66 TTG
*
913142 TCCATATTC-ATGTCGATATCGACGATATCGTATCGAT-TAGAGTTGCATATGTACACAACT-AC
1 TCCATATTCAACGTCGATATCGACGATATCGTATCGATATAGAGTTGC-TATGTACACAACTGA-
**
913204 AGCTG
64 ATTTG
* * *
913209 TCCATATTTAACGTTGATATCGTCGATAT
1 TCCATATTCAACGTCGATATCGACGATAT
913238 TGACACTATT
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
66 7 0.09
67 48 0.60
68 25 0.31
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (68 bp):
TCCATATTCAACGTCGATATCGACGATATCGTATCGATATAGAGTTGCTATGTACACAACTGAAT
TTG
Found at i:914798 original size:7 final size:7
Alignment explanation
Indices: 914786--914845 Score: 75
Period size: 7 Copynumber: 8.6 Consensus size: 7
914776 GAGAAGGATC
914786 ATTCGAG
1 ATTCGAG
914793 ATTCGAG
1 ATTCGAG
*
914800 ATTCGAA
1 ATTCGAG
*
914807 ATACGAG
1 ATTCGAG
*
914814 ATTCGAA
1 ATTCGAG
*
914821 ATACGAG
1 ATTCGAG
*
914828 ATTCGAA
1 ATTCGAG
914835 ATTCGAG
1 ATTCGAG
914842 ATTC
1 ATTC
914846 AATATCTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (7 bp):
ATTCGAG
Found at i:914803 original size:14 final size:14
Alignment explanation
Indices: 914786--914845 Score: 93
Period size: 14 Copynumber: 4.3 Consensus size: 14
914776 GAGAAGGATC
* *
914786 ATTCGAGATTCGAG
1 ATTCGAAATACGAG
914800 ATTCGAAATACGAG
1 ATTCGAAATACGAG
914814 ATTCGAAATACGAG
1 ATTCGAAATACGAG
*
914828 ATTCGAAATTCGAG
1 ATTCGAAATACGAG
914842 ATTC
1 ATTC
914846 AATATCTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (14 bp):
ATTCGAAATACGAG
Found at i:917045 original size:21 final size:21
Alignment explanation
Indices: 917020--917195 Score: 273
Period size: 21 Copynumber: 8.4 Consensus size: 21
917010 CATAATATGA
*
917020 TGATACTTCAACATTACATGC
1 TGATACTTTAACATTACATGC
*
917041 TGATACTTTAACATTACATGA
1 TGATACTTTAACATTACATGC
* *
917062 TGGTACTTTAACATTACGTGC
1 TGATACTTTAACATTACATGC
*
917083 TGATACTTCAACATTACATGC
1 TGATACTTTAACATTACATGC
*
917104 TGATACTTTAACATTACATGAT
1 TGATACTTTAACATTACATG-C
917126 TG-TACTTTAACATTACATGC
1 TGATACTTTAACATTACATGC
*
917146 TGATACTTCAACATTACATGC
1 TGATACTTTAACATTACATGC
917167 TGATACTTTAACATTACATGC
1 TGATACTTTAACATTACATGC
917188 TGATACTT
1 TGATACTT
917196 CATTATATGA
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
20 2 0.01
21 136 0.97
22 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (21 bp):
TGATACTTTAACATTACATGC
Found at i:917119 original size:63 final size:63
Alignment explanation
Indices: 917020--917195 Score: 316
Period size: 63 Copynumber: 2.8 Consensus size: 63
917010 CATAATATGA
*
917020 TGATACTTCAACATTACATGCTGATACTTTAACATTACATGATGGTACTTTAACATTACGTGC
1 TGATACTTCAACATTACATGCTGATACTTTAACATTACATGATGGTACTTTAACATTACATGC
*
917083 TGATACTTCAACATTACATGCTGATACTTTAACATTACATGATTGTACTTTAACATTACATGC
1 TGATACTTCAACATTACATGCTGATACTTTAACATTACATGATGGTACTTTAACATTACATGC
* *
917146 TGATACTTCAACATTACATGCTGATACTTTAACATTACATGCTGATACTT
1 TGATACTTCAACATTACATGCTGATACTTTAACATTACATGATGGTACTT
917196 CATTATATGA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 108 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (63 bp):
TGATACTTCAACATTACATGCTGATACTTTAACATTACATGATGGTACTTTAACATTACATGC
Found at i:918490 original size:18 final size:18
Alignment explanation
Indices: 918467--918518 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
918457 CACTGCATAG
*
918467 TGAAGTATCATCATATAA
1 TGAAGTATCAGCATATAA
*
918485 TGAAGTATCAGCATGTAA
1 TGAAGTATCAGCATATAA
918503 TGTTAAGGTATCAGCA
1 TG--AA-GTATCAGCA
918519 CGTAATGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 18 0.62
20 2 0.07
21 9 0.31
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (18 bp):
TGAAGTATCAGCATATAA
Found at i:918514 original size:21 final size:21
Alignment explanation
Indices: 918487--918773 Score: 349
Period size: 21 Copynumber: 13.7 Consensus size: 21
918477 TCATATAATG
918487 AAGTATCAGCATGTAATGTTA
1 AAGTATCAGCATGTAATGTTA
* *
918508 AGGTATCAGCACGTAATGTTA
1 AAGTATCAGCATGTAATGTTA
* *
918529 AAGTACCATCATGTAATGTTA
1 AAGTATCAGCATGTAATGTTA
918550 AAGTATCAGCATGTAATGTTA
1 AAGTATCAGCATGTAATGTTA
* *
918571 AGGTATCAGCACGTAATGTTA
1 AAGTATCAGCATGTAATGTTA
* * *
918592 AAGTACCATCACGTAATGTTA
1 AAGTATCAGCATGTAATGTTA
* * * *
918613 AAGTACCATCACGTAATGTTG
1 AAGTATCAGCATGTAATGTTA
*
918634 AAGTATCAGCATATAATGTTA
1 AAGTATCAGCATGTAATGTTA
* * *
918655 AAGTACCATCATGTAATGTTG
1 AAGTATCAGCATGTAATGTTA
*
918676 AAGTATCAGCATATAATGTTA
1 AAGTATCAGCATGTAATGTTA
* * *
918697 AAGTACCATCATGTAATGTTG
1 AAGTATCAGCATGTAATGTTA
*
918718 AAGTATCAGCACGTAATGTTA
1 AAGTATCAGCATGTAATGTTA
* *
918739 AAGTATCATCATGTAATGTTG
1 AAGTATCAGCATGTAATGTTA
*
918760 AAGTATCATCATGT
1 AAGTATCAGCATGT
918774 TATGAAGATT
Statistics
Matches: 228, Mismatches: 38, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 228 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (21 bp):
AAGTATCAGCATGTAATGTTA
Found at i:918543 original size:42 final size:42
Alignment explanation
Indices: 918496--918767 Score: 393
Period size: 42 Copynumber: 6.5 Consensus size: 42
918486 GAAGTATCAG
918496 CATGTAATGTT-AAGGTATCAGCACGTAATGTTAAAGTACCAT
1 CATGTAATGTTGAA-GTATCAGCACGTAATGTTAAAGTACCAT
* * * * *
918538 CATGTAATGTTAAAGTATCAGCATGTAATGTTAAGGTATCAG
1 CATGTAATGTTGAAGTATCAGCACGTAATGTTAAAGTACCAT
* * * *
918580 CACGTAATGTTAAAGTACCATCACGTAATGTTAAAGTACCAT
1 CATGTAATGTTGAAGTATCAGCACGTAATGTTAAAGTACCAT
* **
918622 CACGTAATGTTGAAGTATCAGCATATAATGTTAAAGTACCAT
1 CATGTAATGTTGAAGTATCAGCACGTAATGTTAAAGTACCAT
**
918664 CATGTAATGTTGAAGTATCAGCATATAATGTTAAAGTACCAT
1 CATGTAATGTTGAAGTATCAGCACGTAATGTTAAAGTACCAT
*
918706 CATGTAATGTTGAAGTATCAGCACGTAATGTTAAAGTATCAT
1 CATGTAATGTTGAAGTATCAGCACGTAATGTTAAAGTACCAT
918748 CATGTAATGTTGAAGTATCA
1 CATGTAATGTTGAAGTATCA
918768 TCATGTTATG
Statistics
Matches: 209, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 207 0.99
43 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (42 bp):
CATGTAATGTTGAAGTATCAGCACGTAATGTTAAAGTACCAT
Found at i:919169 original size:2 final size:2
Alignment explanation
Indices: 919162--919195 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
919152 GTGATAAGAA
919162 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
919196 TCGATGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:919390 original size:4 final size:4
Alignment explanation
Indices: 919383--919411 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
919373 ACTCTCTCTG
919383 TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
919412 CTCTCTCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTC
Found at i:919931 original size:7 final size:7
Alignment explanation
Indices: 919916--919982 Score: 80
Period size: 7 Copynumber: 9.6 Consensus size: 7
919906 TTTAGATATT
919916 GAATCTC
1 GAATCTC
*
919923 GAATTTC
1 GAATCTC
919930 GAATCTC
1 GAATCTC
919937 GAATCTC
1 GAATCTC
* *
919944 GTATTTC
1 GAATCTC
919951 GAATCTC
1 GAATCTC
* *
919958 GTATTTC
1 GAATCTC
*
919965 GAATCTT
1 GAATCTC
919972 GAATCTC
1 GAATCTC
919979 GAAT
1 GAAT
919983 GATCCTTCTC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (7 bp):
GAATCTC
Found at i:919941 original size:21 final size:21
Alignment explanation
Indices: 919916--919982 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
919906 TTTAGATATT
919916 GAATCTCGAATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
*
919937 GAATCTCGTATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
* *
919958 GTATTTCGAATCTT-GAATCTC
1 GAATCTCGAAT-TTCGAATCTC
919979 GAAT
1 GAAT
919983 GATCCTTCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 38 0.95
22 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (21 bp):
GAATCTCGAATTTCGAATCTC
Found at i:924564 original size:110 final size:109
Alignment explanation
Indices: 924428--924646 Score: 411
Period size: 110 Copynumber: 2.0 Consensus size: 109
924418 AAATATACTG
924428 GTCCATCAAATATCCTGAAATTTTAATGAGATTGGCAGATTAATAACTGCCAATCTTTGTTTTGC
1 GTCCATCAAATATCCTGAAATTTTAATGAGATTGGCAGATTAATAACTGCCAATCTTTGTTTTGC
* *
924493 CCATACCAAGTCTTGCCTACCCATTTTACCGGATGGCGGGTTAC
66 CCATACCAAGTCTTGCCTACCCATTTTACCGGATGCCGGATTAC
924537 NGTCCATCAAATATCCTGAAATTTTAATGAGATTGGCAGATTAATAACTGCCAATCTTTGTTTTG
1 -GTCCATCAAATATCCTGAAATTTTAATGAGATTGGCAGATTAATAACTGCCAATCTTTGTTTTG
924602 CCCATACCAAGTCTTGCCTACCCATTTTACCGGATGCCGGATTAC
65 CCCATACCAAGTCTTGCCTACCCATTTTACCGGATGCCGGATTAC
924647 CGGATGCCGA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (109 bp):
GTCCATCAAATATCCTGAAATTTTAATGAGATTGGCAGATTAATAACTGCCAATCTTTGTTTTGC
CCATACCAAGTCTTGCCTACCCATTTTACCGGATGCCGGATTAC
Found at i:925015 original size:8 final size:8
Alignment explanation
Indices: 925004--925057 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
924994 TAAAAAGTTT
925004 ACAGACGG
1 ACAGACGG
*
925012 ACAGACAG
1 ACAGACGG
925020 ACAGACGG
1 ACAGACGG
925028 AC--A--G
1 ACAGACGG
925032 ACAGACGG
1 ACAGACGG
925040 ACAGACGG
1 ACAGACGG
925048 AC-GACGG
1 ACAGACGG
925055 ACA
1 ACA
925058 AAATGTGATC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 3 0.08
6 2 0.05
7 7 0.18
8 27 0.69
ACGTcount: A:0.41, C:0.26, G:0.33, T:0.00
Consensus pattern (8 bp):
ACAGACGG
Found at i:925021 original size:12 final size:12
Alignment explanation
Indices: 925004--925050 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
924994 TAAAAAGTTT
* *
925004 ACAGACGGACAG
1 ACAGACAGACGG
925016 ACAGACAGACGG
1 ACAGACAGACGG
925028 ACAGACAGACGG
1 ACAGACAGACGG
*
925040 ACAGACGGACG
1 ACAGACAGACG
925051 ACGGACAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.40, C:0.26, G:0.34, T:0.00
Consensus pattern (12 bp):
ACAGACAGACGG
Found at i:925050 original size:4 final size:4
Alignment explanation
Indices: 925004--925045 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
924994 TAAAAAGTTT
* * *
925004 ACAG ACGG ACAG ACAG ACAG ACGG ACAG ACAG ACGG ACAG AC
1 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG AC
925046 GGACGACGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.43, C:0.26, G:0.31, T:0.00
Consensus pattern (4 bp):
ACAG
Found at i:934524 original size:32 final size:32
Alignment explanation
Indices: 934467--934560 Score: 143
Period size: 32 Copynumber: 2.9 Consensus size: 32
934457 AATGACCGGG
* * *
934467 GGTCATTTTTCGACGTAGAATAATGACCCCAC
1 GGTCATTATTCTACGTAGAAAAATGACCCCAC
* *
934499 GGTCATTATTCTACGCAGAAAAATGACCCCCC
1 GGTCATTATTCTACGTAGAAAAATGACCCCAC
934531 GGTCATTATTCTACGTAGAAAAATGACCCC
1 GGTCATTATTCTACGTAGAAAAATGACCCC
934561 TTTGCCTCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (32 bp):
GGTCATTATTCTACGTAGAAAAATGACCCCAC
Found at i:936152 original size:16 final size:16
Alignment explanation
Indices: 936133--936177 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
936123 TCACCGAGAC
936133 GAGGCATCACCTTTAA
1 GAGGCATCACCTTTAA
*
936149 GAGGCATCACCTTTAT
1 GAGGCATCACCTTTAA
936165 GAGGCATCACCTT
1 GAGGCATCACCTT
936178 AATGAGACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (16 bp):
GAGGCATCACCTTTAA
Found at i:936182 original size:16 final size:16
Alignment explanation
Indices: 936133--936183 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
936123 TCACCGAGAC
936133 GAGGCATCACCTTTAA-
1 GAGGCATCACC-TTAAT
*
936149 GAGGCATCACCTTTAT
1 GAGGCATCACCTTAAT
936165 GAGGCATCACCTTAAT
1 GAGGCATCACCTTAAT
936181 GAG
1 GAG
936184 ACCACCTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 3 0.09
16 29 0.91
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (16 bp):
GAGGCATCACCTTAAT
Found at i:936586 original size:25 final size:25
Alignment explanation
Indices: 936552--936606 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
936542 GAAACATATG
936552 ATATTATATTGTATAATACAGTATA
1 ATATTATATTGTATAATACAGTATA
* * *
936577 ATATTGTATTGTATAATACTGTATC
1 ATATTATATTGTATAATACAGTATA
936602 ATATT
1 ATATT
936607 TGATACAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.47
Consensus pattern (25 bp):
ATATTATATTGTATAATACAGTATA
Found at i:936637 original size:27 final size:28
Alignment explanation
Indices: 936596--936651 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
936586 TGTATAATAC
* *
936596 TGTATCATATTTGATACAGTATATGATTT
1 TGTATCATA-TTGATACAATATATAATTT
936625 TGTATCATA-TGATACAATATATAATTT
1 TGTATCATATTGATACAATATATAATTT
936652 GATACAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.64
29 9 0.36
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (28 bp):
TGTATCATATTGATACAATATATAATTT
Found at i:937591 original size:19 final size:19
Alignment explanation
Indices: 937567--937608 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
937557 ATCAAAGGAC
937567 ACCTGCTACAAAAA-CTTTA
1 ACCTGCTACAAAAATC-TTA
*
937586 ACCTGCTCCAAAAATCTTA
1 ACCTGCTACAAAAATCTTA
937605 ACCT
1 ACCT
937609 CTTCCAGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.38, C:0.31, G:0.05, T:0.26
Consensus pattern (19 bp):
ACCTGCTACAAAAATCTTA
Found at i:937920 original size:21 final size:21
Alignment explanation
Indices: 937868--937928 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
937858 AGTATCACTT
* *
937868 CTTCGCCTTCGCAACTTAGCA
1 CTTCGCCTTCGCATCTTCGCA
* *
937889 CTTTCGTCTTCGCATCTTCGCG
1 C-TTCGCCTTCGCATCTTCGCA
937911 CTTCGCCTTCGCATCTTC
1 CTTCGCCTTCGCATCTTC
937929 TATATTCTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.10, C:0.39, G:0.15, T:0.36
Consensus pattern (21 bp):
CTTCGCCTTCGCATCTTCGCA
Found at i:941959 original size:19 final size:19
Alignment explanation
Indices: 941935--942000 Score: 123
Period size: 19 Copynumber: 3.5 Consensus size: 19
941925 ATTAGTTGTT
*
941935 TGAAAACATAGAAAAGATG
1 TGAAAACATCGAAAAGATG
941954 TGAAAACATCGAAAAGATG
1 TGAAAACATCGAAAAGATG
941973 TGAAAACATCGAAAAGATG
1 TGAAAACATCGAAAAGATG
941992 TGAAAACAT
1 TGAAAACAT
942001 TAGTATCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.55, C:0.09, G:0.20, T:0.17
Consensus pattern (19 bp):
TGAAAACATCGAAAAGATG
Found at i:941977 original size:10 final size:10
Alignment explanation
Indices: 941945--941997 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
941935 TGAAAACATA
941945 GAAAAGATGT
1 GAAAAGATGT
* *
941955 GAAAACAT-C
1 GAAAAGATGT
941964 GAAAAGATGT
1 GAAAAGATGT
* *
941974 GAAAACAT-C
1 GAAAAGATGT
941983 GAAAAGATGT
1 GAAAAGATGT
941993 GAAAA
1 GAAAA
941998 CATTAGTATC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
9 14 0.42
10 19 0.58
ACGTcount: A:0.55, C:0.08, G:0.23, T:0.15
Consensus pattern (10 bp):
GAAAAGATGT
Found at i:949309 original size:172 final size:172
Alignment explanation
Indices: 949009--949462 Score: 655
Period size: 172 Copynumber: 2.7 Consensus size: 172
948999 TCACACTTTT
* * * *
949009 TTGTATGCGCTC-TCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACGAAATGTTTAA
1 TTGTAAGCGCTCTTCATGCCTACAAATTTTGACGGATTTTCAATAAATTTATACCAAATGTTTAT
* * * * *
949073 ATTACTATTACCTTGGTCAAGTCCGAAAATCAGCATTTGTCGATACTTTTTGTTGGAGTTATGGG
66 ATCACTAATACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGAATTATGGG
*
949138 ACTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
131 ACTTTGACCACAATAATGACTCCGTTTTATCCAAAAA-TCACC
* *
949181 TTGTAAGCG-TTTTCATGCCTACAAATTTTGACAGATTTTCAATAAATTTATACCAAATGTTTAT
1 TTGTAAGCGCTCTTCATGCCTACAAATTTTGACGGATTTTCAATAAATTTATACCAAATGTTTAT
* * *
949245 ACCACTAATACTTTGGTCAAGTTCGAAAATTAGCATTGGTCGATACTTTTTGTTGGAATTATGGG
66 ATCACTAATACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGAATTATGGG
*
949310 ACTTTGACCACAATAATGACTCCGTTTTATCCCAAAATCACC
131 ACTTTGACCACAATAATGACTCCGTTTTATCCAAAAATCACC
* * *
949352 TTGTTAGCGCTCTT-ATGCCTACAAATTTTGACGGATTTAC-GTGAAATTTATACCAAATGTTTA
1 TTGTAAGCGCTCTTCATGCCTACAAATTTTGACGGATTTTCAAT-AAATTTATACCAAATGTTTA
* ** *
949415 TATCGCTAATACCTTGGTCAAGTTCCTAAATCAGCCTTGGTCGATACT
65 TATCACTAATACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACT
949463 AGTATAGATC
Statistics
Matches: 251, Mismatches: 28, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
170 1 0.00
171 98 0.39
172 152 0.61
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (172 bp):
TTGTAAGCGCTCTTCATGCCTACAAATTTTGACGGATTTTCAATAAATTTATACCAAATGTTTAT
ATCACTAATACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGAATTATGGG
ACTTTGACCACAATAATGACTCCGTTTTATCCAAAAATCACC
Found at i:952858 original size:18 final size:18
Alignment explanation
Indices: 952835--952872 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
952825 ATCAGATAAT
952835 TTCCTCTGTGTTTGGGTA
1 TTCCTCTGTGTTTGGGTA
952853 TTCCTCTGTGTTTGGGTA
1 TTCCTCTGTGTTTGGGTA
952871 TT
1 TT
952873 AGATAAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.16, G:0.26, T:0.53
Consensus pattern (18 bp):
TTCCTCTGTGTTTGGGTA
Found at i:959496 original size:22 final size:24
Alignment explanation
Indices: 959468--959513 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
959458 TGGGTTTACT
959468 AGAGTGGAC-C-CAGAGTAAACCC
1 AGAGTGGACACACAGAGTAAACCC
*
959490 AGAGTGGACACAGAGAGTAAACCC
1 AGAGTGGACACACAGAGTAAACCC
959514 CGATCAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 1 0.05
24 11 0.52
ACGTcount: A:0.39, C:0.24, G:0.28, T:0.09
Consensus pattern (24 bp):
AGAGTGGACACACAGAGTAAACCC
Found at i:959674 original size:11 final size:11
Alignment explanation
Indices: 959658--959695 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
959648 AAGCAATTCT
959658 CGAGTAAACCC
1 CGAGTAAACCC
959669 CGAGTAAACCC
1 CGAGTAAACCC
**
959680 AAAGTAAACCC
1 CGAGTAAACCC
959691 CGAGT
1 CGAGT
959696 GGACCCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.39, C:0.32, G:0.18, T:0.11
Consensus pattern (11 bp):
CGAGTAAACCC
Found at i:959688 original size:22 final size:22
Alignment explanation
Indices: 959660--959704 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
959650 GCAATTCTCG
959660 AGTAAACCCCGAGTAAACCCAA
1 AGTAAACCCCGAGTAAACCCAA
**
959682 AGTAAACCCCGAGTGGACCCAA
1 AGTAAACCCCGAGTAAACCCAA
959704 A
1 A
959705 TTTTCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.31, G:0.18, T:0.09
Consensus pattern (22 bp):
AGTAAACCCCGAGTAAACCCAA
Found at i:966771 original size:15 final size:16
Alignment explanation
Indices: 966732--966774 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
966722 GGATCACAAT
*
966732 TTGTCCGTTGTCTGTCG
1 TTGT-CGTTGTCTGGCG
*
966749 TCGTCGTTGT-TGGCG
1 TTGTCGTTGTCTGGCG
966764 TTGTCGTTGTC
1 TTGTCGTTGTC
966775 GTCGTCGTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 13 0.59
16 6 0.27
17 3 0.14
ACGTcount: A:0.00, C:0.21, G:0.33, T:0.47
Consensus pattern (16 bp):
TTGTCGTTGTCTGGCG
Found at i:966784 original size:15 final size:15
Alignment explanation
Indices: 966737--966785 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
966727 ACAATTTGTC
966737 CGTTGTCTGTCGTCGT
1 CGTTGTC-GTCGTCGT
* * *
966753 CGTTGTTGGCGTTGT
1 CGTTGTCGTCGTCGT
966768 CGTTGTCGTCGTCGT
1 CGTTGTCGTCGTCGT
966783 CGT
1 CGT
966786 CGTAGTTGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.00, C:0.22, G:0.35, T:0.43
Consensus pattern (15 bp):
CGTTGTCGTCGTCGT
Found at i:967774 original size:165 final size:165
Alignment explanation
Indices: 967067--968652 Score: 1884
Period size: 166 Copynumber: 9.6 Consensus size: 165
967057 ATGGTCCCCA
*
967067 GGGGCCACAATAGGGGGATCAAGTTTAACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCT
1 GGGGCCACAAT-GGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCT
* * * * * **
967132 TCTAAAAAACTATTAGCCCAGAAAAGCTAAAATTTGAGTTGGAAGCATCCTCAGGTAG-GTTAGA
65 TCTCAAAAACTATCAGGCCAGAAAAGCTCAAA-TTAAAATGGAAGCATCCTCAGGTAGTG-TAGA
* * * * * ** * *
967196 TTGAAGTTTATTCAAACCATAGTCTCTAGTGGTATGGT
128 TTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
** *
967234 TTGGCCACAAT--GGGAT-AATGGATTTATACTTAGGAATATATATAGAGAAAATCTTTAAAAAT
1 GGGGCCACAATGGGGGATCAA--G-TTT-TACATAGG-A-ATATATAGAGAAAATCTTTAAAAAT
* *
967296 CTTCTTCTAAAAAACTATCTGGCCAGAAAAGCTCAAATTAAAATGGAAGCAAT-CTCAGGTAGTG
60 CTTCTTCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGC-ATCCTCAGGTAGTG
*** *
967360 TAGATTCAAGTTTGTTCAAATCATGGTCCAATGGGGAAGGGT
124 TAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
* *
967402 GGGGCCACAATGGGGGGGATCAAGTTTAACATAGGAATATATAGAGAAAAACTTTAAAAA---TC
1 GGGGCCACAAT--GGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTC
* * *
967464 TTCTCAAAAACTATCA-GCCAAAAAAGATCAAATTAAAATGGAAACATCCTCAGGTAGTGTAGAT
64 TTCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGAT
*
967528 TCAAGTTTGTTCAAATCATGGTCTCCGGGGGTAGGGT
129 TCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
* * *
967565 GGGGCCACAATAGGGGGATCATGTTTTACATAAGAATATATAGAGATAATCTTTAAAAATCTTCT
1 GGGGCCACAAT-GGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCT
* * * * *
967630 ACTCAAAACCTATCAGGCCAGAAAAGCTCAAATTAACATGGAAGCAT-CTGCAGATAGCGGT-GA
65 TCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCT-CAGGTAG-TGTAGA
* * *
967693 TTCAAGTTTGTTCAAATCATTGTCCCCGGGTGTAAGGT
128 TTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
* **
967731 GGGGCCACAATCGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAAAATTCTT
1 GGGGCCACAATGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTT
* * *
967796 CTCAAAAACTATTA-GCCAAAAAAGCTCAAATTAAAATGGAAACATCCTCAGGTAGTGTAGATTC
66 CTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTC
* * *
967860 ACGTTTGTTCAAATCATGGTCTCTGGGGGTAGGGT
131 AAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
* * ** * *
967895 GGGGCCACAATGAGAGAATGGA-TTTATACTTAGGTATATATAGAGAAAATCTTTAAAAATCTTC
1 GGGGCCACAATG-GGGGATCAAGTTT-TACATAGGAATATATAGAGAAAATCTTTAAAAATCTTC
* *
967959 TTCTAAAAAACTATCTGGCCAGAAAAGCTCAAATTAAAAT-GATAGCAAT-CTCAGGTAGTGTAG
64 TTCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGA-AGC-ATCCTCAGGTAGTGTAG
**
968022 ATTCAAGTTTGTTCAAATCATGGTCCCATGGGGTAGGGT
127 ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
968061 GGGGCCACAATGGGGGATCAAGTTTTACA-AGGGTACGA-ATATAGAGAAAATCTTT-AAAATCT
1 GGGGCCACAATGGGGGATCAAGTTTTACATA-GG-A--ATATATAGAGAAAATCTTTAAAAATCT
* * *
968123 TCTTCTCAAAAACTATTA-GCCAAAAAAGCTCAAATTAAAATGGAAACATCCTCAGGTAGTGTAG
62 TCTTCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAG
*
968187 ATTCAAGTTTGTTCAAATCATGGTCTCCGGGGGTAGGGT
127 ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
* * *
968226 GGGGCCACAATTGGGGGATCATGTTTTAGATAGGAATATATAGAGAAAGTCTTTAAAAATCTTCT
1 GGGGCCACAA-TGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCT
* ** * * * * * *
968291 TCTCAAAAACGT-TAAAACTAGGAAAGCTCAAATTAGAGTGGAAGCATCCTCAGATAGTGAAGAT
65 TCTCAAAAAC-TATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGAT
968355 TCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
129 TCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
* *
968392 GGGGCCACAATAAGGGGATCATGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCT
1 GGGGCCACAAT-GGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCT
* * * * *
968457 TCT-AAAAACTATCAGGCCAGAAAAGCTCGAATTAACATCGAAGCATTCTCAGGTAGTGAAGATT
65 TCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATT
* * * **
968521 TAAGTTTGTTCAAATCATTGTCCCTGGGGGTAGCAT
130 CAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
* *
968557 GGGGCCACAATTGGGGATCAAGTTTTACATAGGAATATATAGAGAGAAATCTTTTTAAAAAT-GT
1 GGGGCCACAATGGGGGATCAAGTTTTACATAGGAATATATAGAGA-AAATC--TTTAAAAATCTT
* * ** *
968621 CTTTTCAAAACCTATTTGCCCAGAAAAGCTCA
63 CTTCTCAAAAACTATCAGGCCAGAAAAGCTCA
968653 TAGAGAAAAT
Statistics
Matches: 1223, Mismatches: 150, Indels: 92
0.83 0.10 0.06
Matches are distributed among these distances:
162 44 0.04
163 90 0.07
164 155 0.13
165 346 0.28
166 358 0.29
167 90 0.07
168 62 0.05
169 67 0.05
170 3 0.00
171 1 0.00
172 5 0.00
173 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (165 bp):
GGGGCCACAATGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTT
CTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTC
AAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGT
Found at i:968235 original size:331 final size:327
Alignment explanation
Indices: 967014--968610 Score: 1959
Period size: 331 Copynumber: 4.9 Consensus size: 327
967004 TCAACTTGTG
* *
967014 TGGAGGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCC-----CA----GGG
1 TGGAAGCAT-CTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGTAGGGTGGG
*
967070 GCCACAATAGGGGGATCAAGTTTAACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCT
65 GCCACAATAGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCT
* * * * ** * *
967135 AAAAAACTATTAGCCCAGAAAAGCTAAAATTTGAGTTGGAAGCATCCTCAGGTAG-GTTAGATTG
130 CAAAAACTATTAG-CCAAAAAAGCTCAAA-TTAAAATGGAAACATCCTCAGGTAGTG-TAGATTC
* * * ** * * ** *
967199 AAGTTTATTCAAACCATAGTCTCTAGTGGTATGGTTTGGCCACAATGGGATA-ATGGATTTATAC
192 AAGTTTGTTCAAATCATGGTCTCCGGGGGTAGGGTGGGGCCACAATGGGAGACAT-G-TTT-TAC
* *
967263 TTAGGAATATATATAGAGAAAATCTTTAAAAATCTTCTTCTAAAAAACTATCTGGCCAGAAAAGC
254 ATAGG-A-ATATATAGAGAAAATCTTTAAAAATCTTCTTCTAAAAAACTATCAGGCCAGAAAAGC
967328 TCAAATTAAAA
317 TCAAATTAAAA
* *
967339 TGGAAGCAATCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCAATGGGGAAGGGTGG
1 TGGAAGC-ATCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCC-CTGGGGTAGGGTGG
* * *
967404 GGCCACAATGGGGGGGATCAAGTTTAACATAGGAATATATAGAGAAAAACTTTAAAAA---TCTT
64 GGCCACAAT-AGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTT
* *
967466 CTCAAAAACTATCAGCCAAAAAAGATCAAATTAAAATGGAAACATCCTCAGGTAGTGTAGATTCA
128 CTCAAAAACTATTAGCCAAAAAAGCTCAAATTAAAATGGAAACATCCTCAGGTAGTGTAGATTCA
*
967531 AGTTTGTTCAAATCATGGTCTCCGGGGGTAGGGTGGGGCCACAATAGGGGGATCATGTTTTACAT
193 AGTTTGTTCAAATCATGGTCTCCGGGGGTAGGGTGGGGCCACAAT-GGGAGA-CATGTTTTACAT
* * * * *
967596 AAGAATATATAGAGATAATCTTTAAAAATCTTCTACTCAAAACCTATCAGGCCAGAAAAGCTCAA
256 AGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTAAAAAACTATCAGGCCAGAAAAGCTCAA
*
967661 ATTAACA
321 ATTAAAA
* * * * *
967668 TGGAAGCATCTGCAGATAGCGGT-GATTCAAGTTTGTTCAAATCATTGTCCCCGGGTGTAAGGTG
1 TGGAAGCATCT-CAGGTAG-TGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGG-GTAGGGTG
* **
967732 GGGCCACAAT-CGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAAAATTCTT
63 GGGCCACAATAGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTT
967796 CTCAAAAACTATTAGCCAAAAAAGCTCAAATTAAAATGGAAACATCCTCAGGTAGTGTAGATTCA
128 CTCAAAAACTATTAGCCAAAAAAGCTCAAATTAAAATGGAAACATCCTCAGGTAGTGTAGATTCA
* * * *
967861 CGTTTGTTCAAATCATGGTCTCTGGGGGTAGGGTGGGGCCACAATGAGAGA-ATGGATTTATACT
193 AGTTTGTTCAAATCATGGTCTCCGGGGGTAGGGTGGGGCCACAATGGGAGACAT-G-TTT-TACA
* *
967925 TAGGTATATATAGAGAAAATCTTTAAAAATCTTCTTCTAAAAAACTATCTGGCCAGAAAAGCTCA
255 TAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTAAAAAACTATCAGGCCAGAAAAGCTCA
967990 AATTAAAA
320 AATTAAAA
967998 T-GATAGCAATCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCATGGGGTAGGGTG
1 TGGA-AGC-ATCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCC-TGGGGTAGGGTG
968062 GGGCCACAAT-GGGGGATCAAGTTTTACA-AGGGTACGA-ATATAGAGAAAATCTTT-AAAATCT
63 GGGCCACAATAGGGGGATCAAGTTTTACATA-GG-A--ATATATAGAGAAAATCTTTAAAAATCT
968123 TCTTCTCAAAAACTATTAGCCAAAAAAGCTCAAATTAAAATGGAAACATCCTCAGGTAGTGTAGA
124 TCTTCTCAAAAACTATTAGCCAAAAAAGCTCAAATTAAAATGGAAACATCCTCAGGTAGTGTAGA
*
968188 TTCAAGTTTGTTCAAATCATGGTCTCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCATGTTTT
189 TTCAAGTTTGTTCAAATCATGGTCTCCGGGGGTAGGGTGGGGCCACAA-TGGGAGA-CATGTTTT
* * * * ** * *
968253 AGATAGGAATATATAGAGAAAGTCTTTAAAAATCTTCTTCTCAAAAACGT-TAAAACTAGGAAAG
252 ACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTAAAAAAC-TATCAGGCCAGAAAAG
* *
968317 CTCAAATTAGAG
316 CTCAAATTAAAA
* * *
968329 TGGAAGCATCCTCAGATAGTGAAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGG
1 TGGAAGCAT-CTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGT-CCCTGGGGTAGGGTGG
* *
968394 GGCCACAATAAGGGGATCATGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTC
64 GGCCACAATAGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTC
* * * * * * * * *
968459 T-AAAAACTATCAGGCCAGAAAAGCTCGAATTAACATCGAAGCATTCTCAGGTAGTGAAGATTTA
129 TCAAAAACTATTA-GCCAAAAAAGCTCAAATTAAAATGGAAACATCCTCAGGTAGTGTAGATTCA
* ** *
968523 AGTTTGTTCAAATCATTGTC-CCTGGGGGTAGCATGGGGCCACAATTGGG-GATCAAGTTTTACA
193 AGTTTGTTCAAATCATGGTCTCC-GGGGGTAGGGTGGGGCCACAA-TGGGAGA-CATGTTTTACA
968586 TAGGAATATATAGAGAGAAATCTTT
255 TAGGAATATATAGAGA-AAATCTTT
968611 TTAAAAATGT
Statistics
Matches: 1121, Mismatches: 104, Indels: 88
0.85 0.08 0.07
Matches are distributed among these distances:
325 46 0.04
326 2 0.00
327 46 0.04
328 8 0.01
329 130 0.12
330 313 0.28
331 425 0.38
332 69 0.06
333 21 0.02
334 4 0.00
335 11 0.01
336 46 0.04
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (327 bp):
TGGAAGCATCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGTAGGGTGGGG
CCACAATAGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTC
AAAAACTATTAGCCAAAAAAGCTCAAATTAAAATGGAAACATCCTCAGGTAGTGTAGATTCAAGT
TTGTTCAAATCATGGTCTCCGGGGGTAGGGTGGGGCCACAATGGGAGACATGTTTTACATAGGAA
TATATAGAGAAAATCTTTAAAAATCTTCTTCTAAAAAACTATCAGGCCAGAAAAGCTCAAATTAA
AA
Found at i:968831 original size:222 final size:221
Alignment explanation
Indices: 968431--968841 Score: 553
Period size: 222 Copynumber: 1.9 Consensus size: 221
968421 ATAGGAATAT
*
968431 ATAGAGAAAATCTTTAAAAATCTTCTTCTAAAAACTATCAGGCCAGAAAAGCTCGAATTAACATC
1 ATAGAGAAAATCTTTAAAAATCTTCTTCTAAAAACTATCAGGCCAGAAAAGCTCAAATT-ACATC
** * * * * * **
968496 GAAGCATTCTCAGGTAGTGAAGATTTAAGTTTGTTCAAATCATTGTCCCTGGGGGTAGCATGGGG
65 GAAGCACCCTCAGATAATGAAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGAATAGCATGGGG
* *
968561 CCACAATTGGGGATCAAGTTTTACATAGGAATATATAGAGAGAAATC-TTTTTAAAAATGTCTTT
130 CCACAATTGGGGATCAAATTTTACACAGGAATATATAGAGAGAAATCTTTTTTAAAAATGTCTTT
968625 TCAAAACCTATTTGCCCAGAAAAGCTC
195 TCAAAACCTATTTGCCCAGAAAAGCTC
* * *
968652 ATAGAGAAAATCTTTAAACATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATT-CGAG
1 ATAGAGAAAATCTTTAAAAATCTTCTTCT-AAAAACTATCAGGCCAGAAAAGCTCAAATTAC-A-
* * *
968716 TGGAAGCACCCTCAGATAATGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGAATAAG-GTG
63 TCGAAGCACCCTCAGATAATGAAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGAAT-AGCATG
*
968780 GGGCCACAATTGGGGGAT-AAATTTTGATACAGGAATATATAGAGA-AAATCTTTTTTAAAAAT
127 GGGCCACAATT-GGGGATCAAATTTT-ACACAGGAATATATAGAGAGAAATCTTTTTTAAAAAT
968842 ATATTTTAAA
Statistics
Matches: 164, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
220 1 0.01
221 29 0.18
222 98 0.60
223 36 0.22
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (221 bp):
ATAGAGAAAATCTTTAAAAATCTTCTTCTAAAAACTATCAGGCCAGAAAAGCTCAAATTACATCG
AAGCACCCTCAGATAATGAAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGAATAGCATGGGGC
CACAATTGGGGATCAAATTTTACACAGGAATATATAGAGAGAAATCTTTTTTAAAAATGTCTTTT
CAAAACCTATTTGCCCAGAAAAGCTC
Found at i:974595 original size:2 final size:2
Alignment explanation
Indices: 974588--974615 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
974578 CTTCTCTGTC
974588 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
974616 GCTCTCTCTT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:974622 original size:2 final size:2
Alignment explanation
Indices: 974617--974663 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
974607 GTGTGTGTGG
*
974617 CT CT CT CT TT 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
974659 CT CT C
1 CT CT C
974664 AATATGTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:983572 original size:22 final size:22
Alignment explanation
Indices: 983515--983575 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
983505 CCTTTAAGCA
* *
983515 TCTTTAAGTGGCATTTACGCTC
1 TCTTTAAGTGGCCTTTACACTC
* *
983537 TCTTTACACT-GCCTTTACACTG
1 TCTTTA-AGTGGCCTTTACACTC
983559 TCTTTAAGTGGCCTTTA
1 TCTTTAAGTGGCCTTTA
983576 AGTCAATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 28 0.88
23 2 0.06
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.43
Consensus pattern (22 bp):
TCTTTAAGTGGCCTTTACACTC
Found at i:983906 original size:2 final size:2
Alignment explanation
Indices: 983899--983940 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
983889 TCGGTGAAAA
983899 TC 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 TC
983941 AGTTCATCCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:985293 original size:11 final size:11
Alignment explanation
Indices: 985277--985319 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
985267 ATTTTTTTAA
985277 TGGCTTAAAGG
1 TGGCTTAAAGG
985288 TGGCTTAAAGG
1 TGGCTTAAAGG
**
985299 TAACTTAAAGG
1 TGGCTTAAAGG
985310 TGGCTTAAAG
1 TGGCTTAAAG
985320 AAGTTTGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (11 bp):
TGGCTTAAAGG
Found at i:985367 original size:11 final size:11
Alignment explanation
Indices: 985351--985379 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
985341 ATAAGTTGTC
985351 CTTAAAGGTGG
1 CTTAAAGGTGG
985362 CTTAAAGGTGG
1 CTTAAAGGTGG
985373 CTTAAAG
1 CTTAAAG
985380 ATAGTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:986995 original size:2 final size:2
Alignment explanation
Indices: 986988--987046 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
986978 CTTTTGGATA
*
986988 CT CT CT CT CT CT CT CT CT TT 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
987030 CT CT CT CT CT CT C- CT CT
1 CT CT CT CT CT CT CT CT CT
987047 TGTGTGTGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:990855 original size:52 final size:57
Alignment explanation
Indices: 990761--990921 Score: 170
Period size: 63 Copynumber: 2.8 Consensus size: 57
990751 TTGATTAAGA
* * * * *
990761 TTATTATTAAGGTTTTCCGTTTCCAACAGAAGACCTTATTGTTATT-G-CTTTGT-T
1 TTATTATTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTGGTCTTTGTCT
*
990815 TT-TT-TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTCTATGGTTTCTTTTTCT
1 TTATTATTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTA---T-TGG--TCTTTGTCT
*
990876 TTATTATTAGGGTCTTACGTTTCCAACGGAAGACCCTCTTGTTATT
1 TTATTATTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATT
990922 CTACGGTTTC
Statistics
Matches: 89, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
52 33 0.37
53 2 0.02
54 2 0.02
55 1 0.01
56 1 0.01
57 1 0.01
59 1 0.01
60 6 0.07
61 3 0.03
62 2 0.02
63 37 0.42
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (57 bp):
TTATTATTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTGGTCTTTGTCT
Found at i:990898 original size:63 final size:63
Alignment explanation
Indices: 990819--990946 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
990809 TTTGTTTTTT
* *
990819 TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTCTATGGTTTCTTTTTCTTTATTA
1 TTAGGGTCTTACGTTTCCAACGGAAGACCCTCTTGTTATTCTACGGTTTCTTTTTCTTTATTA
990882 TTAGGGTCTTACGTTTCCAACGGAAGACCCTCTTGTTATTCTACGGTTTCTTTTTCTTTATTA
1 TTAGGGTCTTACGTTTCCAACGGAAGACCCTCTTGTTATTCTACGGTTTCTTTTTCTTTATTA
990945 TT
1 TT
990947 CTTTTTTTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (63 bp):
TTAGGGTCTTACGTTTCCAACGGAAGACCCTCTTGTTATTCTACGGTTTCTTTTTCTTTATTA
Found at i:1005778 original size:17 final size:16
Alignment explanation
Indices: 1005756--1005790 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1005746 ATTTTGCTAA
1005756 AATAATATAATTATATT
1 AATAATATAATTA-ATT
*
1005773 AATAATATTATTAATT
1 AATAATATAATTAATT
1005789 AA
1 AA
1005791 AACAAACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATAATATAATTAATT
Found at i:1007439 original size:4 final size:4
Alignment explanation
Indices: 1007424--1007461 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
1007414 ATCACCCGTT
* *
1007424 GTCC GT-C GTCC GTCC GTCC GTCT GTCT GTCC GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
1007462 TGTAAACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.00, C:0.42, G:0.26, T:0.32
Consensus pattern (4 bp):
GTCC
Found at i:1007456 original size:16 final size:16
Alignment explanation
Indices: 1007424--1007464 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
1007414 ATCACCCGTT
1007424 GTCCGTC-GTCCGTCC
1 GTCCGTCTGTCCGTCC
*
1007439 GTCCGTCTGTCTGTCC
1 GTCCGTCTGTCCGTCC
1007455 GTCCGTCTGT
1 GTCCGTCTGT
1007465 AAACTTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.00, C:0.39, G:0.27, T:0.34
Consensus pattern (16 bp):
GTCCGTCTGTCCGTCC
Found at i:1007913 original size:165 final size:164
Alignment explanation
Indices: 1007635--1007962 Score: 460
Period size: 165 Copynumber: 2.0 Consensus size: 164
1007625 CATGTCTTTA
* * * * ** *
1007635 AAAATTTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATCTTTACACAAAGGCTTGTATATAT
1 AAAATCTTCTTCTCAAAAACCACTGCACCACAAATGCCAATATCAACACAAAAGCTTGTATATAT
* * * * * *
1007700 AGTGAAAATTTTAAATTGTAAAATTCGTGACCCTCGGATCAAAACTGGGGCCCAAGCCGTGGTTC
66 AGTGAAAATTCTAAATTGTAAAAATCGTGACCCCCAGATCAAAACTGGGGCCCAAGCCGGGGGTC
*
1007765 AAAGTTTAACATAGAAATACATAGGAAAATGTTTT
131 AAACTTTAACATAGAAATACAT-GGAAAATGTTTT
1007800 AAAATCTTCTTCTCAAAAACCACTGCACCACAAATGCCAATATCAACACAAAAGCTTGTATATAT
1 AAAATCTTCTTCTCAAAAACCACTGCACCACAAATGCCAATATCAACACAAAAGCTTGTATATAT
* * *
1007865 AGTGAAGATTCTAAATTGTAAAAATCGTGACCCCCAG-TCCAAAACTGGGGCCCCAGGCGGGGGT
66 AGTGAAAATTCTAAATTGTAAAAATCGTGACCCCCAGAT-CAAAACTGGGGCCCAAGCCGGGGGT
* *
1007929 CAAACTTTAACATAGAAATTCATGTAAAATGTTT
130 CAAACTTTAACATAGAAATACATGGAAAATGTTT
1007963 ACATTTCTTT
Statistics
Matches: 143, Mismatches: 19, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
164 11 0.08
165 132 0.92
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (164 bp):
AAAATCTTCTTCTCAAAAACCACTGCACCACAAATGCCAATATCAACACAAAAGCTTGTATATAT
AGTGAAAATTCTAAATTGTAAAAATCGTGACCCCCAGATCAAAACTGGGGCCCAAGCCGGGGGTC
AAACTTTAACATAGAAATACATGGAAAATGTTTT
Found at i:1012526 original size:16 final size:16
Alignment explanation
Indices: 1012505--1012536 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1012495 TTTCATGTCA
*
1012505 TTCAGGTCTTTGGTAT
1 TTCAGGTCTTTAGTAT
1012521 TTCAGGTCTTTAGTAT
1 TTCAGGTCTTTAGTAT
1012537 GTCCCATATA
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:0.16, C:0.12, G:0.22, T:0.50
Consensus pattern (16 bp):
TTCAGGTCTTTAGTAT
Found at i:1015458 original size:21 final size:22
Alignment explanation
Indices: 1015434--1015487 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
1015424 AATTGAGTTG
1015434 CATGTCAACATATTC-ATCTCA
1 CATGTCAACATATTCTATCTCA
* *
1015455 CATGTTAATAT-TTCTATCTCA
1 CATGTCAACATATTCTATCTCA
1015476 CATGTCAACATA
1 CATGTCAACATA
1015488 AGTTGGATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (22 bp):
CATGTCAACATATTCTATCTCA
Found at i:1018738 original size:162 final size:165
Alignment explanation
Indices: 1018344--1018760 Score: 481
Period size: 167 Copynumber: 2.5 Consensus size: 165
1018334 CAAAAAACAT
* * * * *
1018344 CTCAAAAACCATTTGGCCAGAAAAGCTGAAACTTGTGTGGAAGCATCCTCAGATAGTGTAGATTC
1 CTCAAAAACAATTAGGCCAGAAAAGCTGAAACTTGTGTGAAAGCATCCTCAAATATTGTAGATTC
* * *
1018409 AAGTTTGTTCAAATCATGGTCCCCTTGGGAAATGTGGGGCCACAATGGAGGGGCAGACGTTTTAC
66 AAGTTTGTTCAAAACATGGTCCCC-TGGG-AATGTGGGGCAACAATGGAGGGGCAGAAGTTTTAC
*
1018474 ATACGAATATATAGAATTAATCTTTAAAAATCTTCTT
129 ATACGAATATATAGAATTAATCTTTAAAAATCTTCTC
* * * *
1018511 GTCAAATACAGTTCGGCCAGAAAAGCTGAAACTTGTGTGAAAGCATCCTCAAA-ATGTGTAGATT
1 CTCAAAAACAATTAGGCCAGAAAAGCTGAAACTTGTGTGAAAGCATCCTCAAATAT-TGTAGATT
* *
1018575 CAAGTTTGTTCAAAACATTGTCCCC-GGG-AT-T-GGGCAACAATGGAGGGTTC-GAAAG-TTTA
65 CAAGTTTGTTCAAAACATGGTCCCCTGGGAATGTGGGGCAACAATGGAGGG-GCAG-AAGTTTTA
* * * *
1018634 CATA-GAAATTTATAGAGTTCATTTTTAAAAATCTTCTC
128 CATACG-AATATATAGAATTAATCTTTAAAAATCTTCTC
* * * *
1018672 CTCAAAAAACAATTAGGCCAGAAAAGCTCAAACTTGTGCGAAAGCATTCTCAAATATTGCAGATT
1 CTC-AAAAACAATTAGGCCAGAAAAGCTGAAACTTGTGTGAAAGCATCCTCAAATATTGTAGATT
* * *
1018737 CAATTTTGTTCAAATCGTGGTCCC
65 CAAGTTTGTTCAAAACATGGTCCC
1018761 TGGAGGTAAG
Statistics
Matches: 214, Mismatches: 30, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
160 1 0.00
161 53 0.25
162 75 0.35
163 4 0.02
165 3 0.01
166 1 0.00
167 77 0.36
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (165 bp):
CTCAAAAACAATTAGGCCAGAAAAGCTGAAACTTGTGTGAAAGCATCCTCAAATATTGTAGATTC
AAGTTTGTTCAAAACATGGTCCCCTGGGAATGTGGGGCAACAATGGAGGGGCAGAAGTTTTACAT
ACGAATATATAGAATTAATCTTTAAAAATCTTCTC
Found at i:1019209 original size:16 final size:16
Alignment explanation
Indices: 1019188--1019220 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1019178 TTTTGAAATA
1019188 TTGTTGATTCTTTGTT
1 TTGTTGATTCTTTGTT
1019204 TTGTTGATTCTTTGTT
1 TTGTTGATTCTTTGTT
1019220 T
1 T
1019221 AGACTTTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.06, G:0.18, T:0.70
Consensus pattern (16 bp):
TTGTTGATTCTTTGTT
Found at i:1022733 original size:12 final size:12
Alignment explanation
Indices: 1022716--1022745 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1022706 AGTATATGAC
1022716 ACATGCTTCACA
1 ACATGCTTCACA
1022728 ACATGCTTCACA
1 ACATGCTTCACA
1022740 ACATGC
1 ACATGC
1022746 ACAGTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.23
Consensus pattern (12 bp):
ACATGCTTCACA
Found at i:1026689 original size:238 final size:237
Alignment explanation
Indices: 1026270--1026745 Score: 934
Period size: 238 Copynumber: 2.0 Consensus size: 237
1026260 TTTTTTGCAT
1026270 GTGCATTTTATTTTGAGAAACTTATCGAATCATCATAATTGACTCAATATACACAGAATATGGAC
1 GTGCATTTTATTTTGAGAAACTTATCGAATCATCATAATTGACTCAATATACACAGAATATGGAC
1026335 GACGATTATAATCACACAGTGGGTATGCCCGGTATGAACGTAAAAAGACCAAACATTTTACTCGC
66 GACGATTATAATCACACAGTGGGTATGCCCGGTATGAACGTAAAAAGACCAAACATTTTACTCGC
1026400 ATTTTTTATCGAAAGCAAGGGCCAATGAATCTTTTAGAATATATGCGGAGATCCTGGAAATTTTA
131 ATTTTTTATCGAAAGCAAGGGCCAATGAATCTTTTAGAATATATGCGGAGATCCTGGAAATTTTA
*
1026465 CAGGGGGTTCTGAAGAATAATTTTGTTTTTTGGGGGGGGGGG
196 CAGGGGGTTCTGAAGAATAATTTTGTTTTTTGAGGGGGGGGG
1026507 GNTGCATTTTATTTTGAGAAACTTATCGAATCATCATAATTGACTCAATATACACAGAATATGGA
1 G-TGCATTTTATTTTGAGAAACTTATCGAATCATCATAATTGACTCAATATACACAGAATATGGA
1026572 CGACGATTATAATCACACAGTGGGTATGCCCGGTATGAACGTAAAAAGACCAAACATTTTACTCG
65 CGACGATTATAATCACACAGTGGGTATGCCCGGTATGAACGTAAAAAGACCAAACATTTTACTCG
1026637 CATTTTTTATCGAAAGCAAGGGCCAATGAATCTTTTAGAATATATGCGGAGATCCTGGAAATTTT
130 CATTTTTTATCGAAAGCAAGGGCCAATGAATCTTTTAGAATATATGCGGAGATCCTGGAAATTTT
1026702 ACAGGGGGTTCTGAAGAATAATTTTGTTTTTTGAGGGGGGGGG
195 ACAGGGGGTTCTGAAGAATAATTTTGTTTTTTGAGGGGGGGGG
1026745 G
1 G
1026746 NNNNNNNNNN
Statistics
Matches: 237, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
237 1 0.00
238 236 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (237 bp):
GTGCATTTTATTTTGAGAAACTTATCGAATCATCATAATTGACTCAATATACACAGAATATGGAC
GACGATTATAATCACACAGTGGGTATGCCCGGTATGAACGTAAAAAGACCAAACATTTTACTCGC
ATTTTTTATCGAAAGCAAGGGCCAATGAATCTTTTAGAATATATGCGGAGATCCTGGAAATTTTA
CAGGGGGTTCTGAAGAATAATTTTGTTTTTTGAGGGGGGGGG
Found at i:1056429 original size:31 final size:31
Alignment explanation
Indices: 1056388--1056494 Score: 149
Period size: 31 Copynumber: 3.7 Consensus size: 31
1056378 CGCGCTAACA
1056388 CACAACACGCCGTCGCGCTAACGCAACTTTG
1 CACAACACGCCGTCGCGCTAACGCAACTTTG
*
1056419 CATAACACGCCGTCGCGCTAA--C-A-----
1 CACAACACGCCGTCGCGCTAACGCAACTTTG
1056442 CACAACACGCCGTCGCGCTAACGCAACTTTG
1 CACAACACGCCGTCGCGCTAACGCAACTTTG
1056473 CACAACACGCCGTCGCGCTAAC
1 CACAACACGCCGTCGCGCTAAC
1056495 NNNNNNNNNN
Statistics
Matches: 66, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
23 20 0.30
25 1 0.02
26 1 0.02
28 1 0.02
29 1 0.02
31 42 0.64
ACGTcount: A:0.27, C:0.40, G:0.19, T:0.14
Consensus pattern (31 bp):
CACAACACGCCGTCGCGCTAACGCAACTTTG
Found at i:1056459 original size:54 final size:54
Alignment explanation
Indices: 1056377--1056494 Score: 227
Period size: 54 Copynumber: 2.2 Consensus size: 54
1056367 AAACGAGACA
*
1056377 TCGCGCTAACACACAACACGCCGTCGCGCTAACGCAACTTTGCATAACACGCCG
1 TCGCGCTAACACACAACACGCCGTCGCGCTAACGCAACTTTGCACAACACGCCG
1056431 TCGCGCTAACACACAACACGCCGTCGCGCTAACGCAACTTTGCACAACACGCCG
1 TCGCGCTAACACACAACACGCCGTCGCGCTAACGCAACTTTGCACAACACGCCG
1056485 TCGCGCTAAC
1 TCGCGCTAAC
1056495 NNNNNNNNNN
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.27, C:0.40, G:0.19, T:0.14
Consensus pattern (54 bp):
TCGCGCTAACACACAACACGCCGTCGCGCTAACGCAACTTTGCACAACACGCCG
Found at i:1057694 original size:2 final size:2
Alignment explanation
Indices: 1057687--1057721 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1057677 TGACTTGAAT
1057687 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 G
1057722 TTGAGTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1059099 original size:16 final size:16
Alignment explanation
Indices: 1059075--1059107 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1059065 TAAATATTGA
*
1059075 TCTTTGACTCCGACTC
1 TCTTAGACTCCGACTC
1059091 TCTTAGACTCCGACTC
1 TCTTAGACTCCGACTC
1059107 T
1 T
1059108 AACAGATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.36, G:0.12, T:0.36
Consensus pattern (16 bp):
TCTTAGACTCCGACTC
Found at i:1061082 original size:2 final size:2
Alignment explanation
Indices: 1061075--1061121 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1061065 CGACATTTAG
1061075 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
1061117 GA GA G
1 GA GA G
1061122 CTTATGGGTC
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:1066992 original size:155 final size:156
Alignment explanation
Indices: 1066760--1067402 Score: 598
Period size: 155 Copynumber: 4.1 Consensus size: 156
1066750 GTATTTTTCA
* * *** *
1066760 AAAATCTTCTTCTCAAAAACTATTC-GGCCAGAAAAGCTGAAACTT-GTGTGGAGGCATCCTCAG
1 AAAATCTTCCTCTCAAAAACTA-TCAGGCCAGAAAAGCTCAAA-TTAAAATGGAAGCATCCTCAG
* * * *
1066823 GTAGTTTAAATTCAAGTTTATTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAACAGGGGT
64 GTAGTGTAGATTCAAGTTTATTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGG
1066888 ATCAAGTTTTACA-AGGAATATATAGAG
129 ATCAAGTTTTACATAGGAATATATAGAG
*
1066915 AAAATCTTCCCCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGT
1 AAAATCTTCCTCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGT
* ** * *
1066980 AGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTAAGACTACAATAGGGGGAT
66 AGTGTAGATTCAAGTTTATTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGAT
*
1067045 CAAGTTTCTGCATAGGAATATATAGAG
131 CAAGTTT-TACATAGGAATATATAGAG
** * * *
1067072 AAAATCTTTAAAAAAATCTTCTTCTCATTAACTTTTAGGCCAGAAAAGTTCAAATTAAAATGGAA
1 AAAATC--T-------TC--C-TCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAA
* * * * * ** * * * *
1067137 GCATCCTCAGGTGGTGTGGATTCAATTTTATTCAAAACATAGT-CCCTAGGGTATGATTGGGCCG
54 GCATCCTCAGGTAGTGTAGATTCAAGTTTATTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCA
* * * * *
1067201 CAGT-GGGGGAAT-AGATTTTTATATAGGAATATATGGCG
119 CAATAGGGGG-ATCA-AGTTTTACATAGGAATATATAGAG
* * * ** * *
1067239 AAAATCTTCTTCTCAAAAACGATTAGGCCAGAAAAGCTCAAATTTGAGTGGAAGCATCCTCAGAT
1 AAAATCTTCCTCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGT
* * *
1067304 AGTGAAGATTCAAGTTTGTT-ACAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGA
66 AGTGTAGATTCAAGTTTATTCA-AATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGA
* * * * *
1067368 TAAATTTTTATACAGGAATATATAGAA
130 TCAAGTTTTACATAGGAATATATAGAG
1067395 AAAATCTT
1 AAAATCTT
1067403 TAAAAAAATC
Statistics
Matches: 394, Mismatches: 72, Indels: 43
0.77 0.14 0.08
Matches are distributed among these distances:
154 5 0.01
155 183 0.46
156 51 0.13
157 26 0.07
158 2 0.01
159 1 0.00
165 1 0.00
166 2 0.01
167 27 0.07
168 22 0.06
169 74 0.19
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (156 bp):
AAAATCTTCCTCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGT
AGTGTAGATTCAAGTTTATTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGAT
CAAGTTTTACATAGGAATATATAGAG
Found at i:1080680 original size:23 final size:23
Alignment explanation
Indices: 1080654--1080698 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1080644 GCAAAGTTGC
1080654 GTTAGCGCGACGGCGTGTTGTGT
1 GTTAGCGCGACGGCGTGTTGTGT
*
1080677 GTTAGTGCGACGGCGTGTTGTG
1 GTTAGCGCGACGGCGTGTTGTG
1080699 CAAAGTTGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.16, G:0.44, T:0.31
Consensus pattern (23 bp):
GTTAGCGCGACGGCGTGTTGTGT
Found at i:1080708 original size:23 final size:23
Alignment explanation
Indices: 1080660--1080704 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1080650 TTGCGTTAGC
***
1080660 GCGACGGCGTGTTGTGTGTTAGT
1 GCGACGGCGTGTTGTGTCAAAGT
1080683 GCGACGGCGTGTTGTG-CAAAGT
1 GCGACGGCGTGTTGTGTCAAAGT
1080705 TGCGTTAGCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.13, C:0.16, G:0.42, T:0.29
Consensus pattern (23 bp):
GCGACGGCGTGTTGTGTCAAAGT
Found at i:1080718 original size:31 final size:31
Alignment explanation
Indices: 1080677--1080791 Score: 212
Period size: 31 Copynumber: 3.7 Consensus size: 31
1080667 CGTGTTGTGT
*
1080677 GTTAGTGCGACGGCGTGTTGTGCAAAGTTGC
1 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
1080708 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
1 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
*
1080739 GTTAGCGCGACGGCGTGTTATGCAAAGTTGC
1 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
1080770 GTTAGCGCGACGGCGTGTTGTG
1 GTTAGCGCGACGGCGTGTTGTG
1080792 TGTTAGCGCG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.16, C:0.18, G:0.39, T:0.27
Consensus pattern (31 bp):
GTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
Found at i:1080725 original size:54 final size:54
Alignment explanation
Indices: 1080643--1080802 Score: 230
Period size: 62 Copynumber: 2.8 Consensus size: 54
1080633 NNNNNNNNNN
* *
1080643 TGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGTGTTAGTGCGACGGCGTGTTG
1 TGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTA
1080697 TGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTA
1 TGCAAAGTTGCGTTAGCGCGACGGCGTGTTGT-----G-T--GTTAGCGCGACGGCGTGTTA
1080759 TGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGTGTTAGCGCGA
1 TGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGTGTTAGCGCGA
1080803 TGTCTTGTTT
Statistics
Matches: 96, Mismatches: 2, Indels: 16
0.84 0.02 0.14
Matches are distributed among these distances:
54 42 0.44
56 1 0.01
57 1 0.01
59 1 0.01
60 1 0.01
62 50 0.52
ACGTcount: A:0.16, C:0.18, G:0.39, T:0.28
Consensus pattern (54 bp):
TGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTA
Done.