Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 54 of 56
Found at i:9211600 original size:13 final size:13
Alignment explanation
Indices: 9211582--9211607 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9211572 TACACCAAGT
9211582 ATGTATCGATACA
1 ATGTATCGATACA
9211595 ATGTATCGATACA
1 ATGTATCGATACA
9211608 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:9211605 original size:32 final size:33
Alignment explanation
Indices: 9211564--9211627 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
9211554 TAGCCAAACT
* **
9211564 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
9211596 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
9211628 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:9216188 original size:33 final size:33
Alignment explanation
Indices: 9216151--9216217 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
9216141 AGTAGCTTAA
9216151 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
9216184 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
9216217 A
1 A
9216218 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:9216191 original size:13 final size:13
Alignment explanation
Indices: 9216173--9216197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9216163 CAAAAAAATA
9216173 TGTATCGATACAT
1 TGTATCGATACAT
9216186 TGTATCGATACA
1 TGTATCGATACA
9216198 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:9216894 original size:21 final size:22
Alignment explanation
Indices: 9216848--9216892 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
9216838 TTGCAAGATG
9216848 AAATAAAGAAGTTAGCTAATGA
1 AAATAAAGAAGTTAGCTAATGA
*
9216870 AAATAATG-AGTTAGCTAA-GA
1 AAATAAAGAAGTTAGCTAATGA
9216890 AAA
1 AAA
9216893 ATGAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAATGA
Found at i:9218716 original size:15 final size:15
Alignment explanation
Indices: 9218696--9218727 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9218686 ATAAAAATGT
*
9218696 TCAAAATGAGGAAGC
1 TCAAAATGAAGAAGC
9218711 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
9218726 TC
1 TC
9218728 CACAAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:9220790 original size:13 final size:13
Alignment explanation
Indices: 9220772--9220809 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
9220762 GGAAATTCTA
9220772 TGTATCGATACAT
1 TGTATCGATACAT
9220785 TGTATCGATACAT
1 TGTATCGATACAT
9220798 TGTATCGATACA
1 TGTATCGATACA
9220810 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:9220971 original size:20 final size:20
Alignment explanation
Indices: 9220930--9220975 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
9220920 AAATCTTTTG
9220930 CAAAATACTTGTTTTTCACAT
1 CAAAATACTTGTTTTT-ACAT
*
9220951 CAAATTACTTCGTTTTT-CAT
1 CAAAATACTT-GTTTTTACAT
9220971 CAAAA
1 CAAAA
9220976 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 7 0.32
21 9 0.41
22 6 0.27
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (20 bp):
CAAAATACTTGTTTTTACAT
Found at i:9222632 original size:36 final size:36
Alignment explanation
Indices: 9222583--9222655 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
9222573 ATGTGCAAAT
*
9222583 AAATTTTTTATATGAATTACTTGATTAAGGGGGAGA
1 AAATTTTTGATATGAATTACTTGATTAAGGGGGAGA
9222619 AAATTTTTGATATGAATTACTTGATTAAGGGGGAGA
1 AAATTTTTGATATGAATTACTTGATTAAGGGGGAGA
9222655 A
1 A
9222656 TTATTAACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (36 bp):
AAATTTTTGATATGAATTACTTGATTAAGGGGGAGA
Found at i:9226430 original size:13 final size:13
Alignment explanation
Indices: 9226412--9226476 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
9226402 ATAATCACCC
*
9226412 TGTATCGATACAG
1 TGTATCGATACAA
9226425 TGTATCGATACAA
1 TGTATCGATACAA
*
9226438 TGTATCGATACAG
1 TGTATCGATACAA
9226451 TGTATCGATACAA
1 TGTATCGATACAA
9226464 TGTATCGATACAA
1 TGTATCGATACAA
9226477 AGAAAAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:9226441 original size:26 final size:26
Alignment explanation
Indices: 9226412--9226475 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
9226402 ATAATCACCC
9226412 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
9226438 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
9226464 TGTATCGATACA
1 TGTATCGATACA
9226476 AAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:9226487 original size:20 final size:20
Alignment explanation
Indices: 9226462--9226540 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
9226452 GTATCGATAC
9226462 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
9226482 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
9226507 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
9226527 CATGTATCGATACA
1 AATGTATCGATACA
9226541 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:9230412 original size:21 final size:21
Alignment explanation
Indices: 9230383--9230427 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9230373 AAGTTTTCAT
*
9230383 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
9230403 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
9230425 TTT
1 TTT
9230428 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:9232647 original size:20 final size:20
Alignment explanation
Indices: 9232622--9232673 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
9232612 TACAAGCCAA
*
9232622 TGTATCGATACAATTTTTTG-
1 TGTATCGATACAA-TATTTGC
9232642 TGTATCGATAC-ATATTTGC
1 TGTATCGATACAATATTTGC
9232661 TGTATCGATACAA
1 TGTATCGATACAA
9232674 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 5 0.17
19 12 0.41
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATATTTGC
Found at i:9233563 original size:13 final size:13
Alignment explanation
Indices: 9233545--9233570 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9233535 TACACCAAGT
9233545 ATGTATCGATACA
1 ATGTATCGATACA
9233558 ATGTATCGATACA
1 ATGTATCGATACA
9233571 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:9233568 original size:32 final size:33
Alignment explanation
Indices: 9233527--9233590 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
9233517 TAGCCAAACT
* **
9233527 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
9233559 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
9233591 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:9234369 original size:18 final size:17
Alignment explanation
Indices: 9234346--9234410 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 17
9234336 AAATTATTTA
9234346 AAAAATTAATTTTATAT
1 AAAAATTAATTTTATAT
9234363 AACAAATTAATTTTATAT
1 AA-AAATTAATTTTATAT
*
9234381 ATAAATATAAATTTTA-AT
1 A-AAA-ATTAATTTTATAT
9234399 AAATAATTAATT
1 AAA-AATTAATT
9234411 AAATATATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.24
18 22 0.52
19 10 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAAATTAATTTTATAT
Found at i:9234470 original size:40 final size:40
Alignment explanation
Indices: 9234395--9234468 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
9234385 ATATAAATTT
9234395 TAATAAATAATTAATTAAATATATTAAAAATATAATAGTA
1 TAATAAATAATTAATTAAATATATTAAAAATATAATAGTA
* * *
9234435 TAATAAATATTTACTTAAA-A-ATTAATAAT-TAATA
1 TAATAAATAATTAATTAAATATATTAAAAATATAATA
9234469 ATTTATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 5 0.16
38 8 0.26
39 1 0.03
40 17 0.55
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (40 bp):
TAATAAATAATTAATTAAATATATTAAAAATATAATAGTA
Found at i:9234476 original size:30 final size:31
Alignment explanation
Indices: 9234396--9234469 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 31
9234386 TATAAATTTT
9234396 AATA-AATAAT-TAATTAAATA--TA-TTAAA
1 AATATAATAATATAA-TAAATATTTACTTAAA
*
9234423 AATATAATAGTATAATAAATATTTACTTAAA
1 AATATAATAATATAATAAATATTTACTTAAA
9234454 AAT-TAATAAT-TAATAA
1 AATATAATAATATAATAA
9234470 TTTATTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 4 0.10
28 11 0.28
29 9 0.22
30 8 0.20
31 8 0.20
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (31 bp):
AATATAATAATATAATAAATATTTACTTAAA
Found at i:9234613 original size:16 final size:16
Alignment explanation
Indices: 9234574--9234640 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
9234564 TCTAAACTCG
* *
9234574 AACCCGAATAAATTTA
1 AACCTGAATAAATTCA
*
9234590 AACCTGAATAAATTCG
1 AACCTGAATAAATTCA
* *
9234606 AACTTGAA-AAATACA
1 AACCTGAATAAATTCA
** *
9234621 AATATGAATAAACTCA
1 AACCTGAATAAATTCA
9234637 AACC
1 AACC
9234641 CAAACCTAAA
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
15 11 0.29
16 27 0.71
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.22
Consensus pattern (16 bp):
AACCTGAATAAATTCA
Found at i:9234683 original size:16 final size:17
Alignment explanation
Indices: 9234642--9234694 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
9234632 ACTCAAACCC
*
9234642 AAAC-CTAAATAAACTT
1 AAACTCTAAATAAATTT
9234658 AAA-TCTAAATAAATTT
1 AAACTCTAAATAAATTT
**
9234674 AAACTC-AAATTTATTT
1 AAACTCTAAATAAATTT
9234690 AAACT
1 AAACT
9234695 TATTCAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 30 0.94
17 2 0.06
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (17 bp):
AAACTCTAAATAAATTT
Found at i:9236638 original size:29 final size:30
Alignment explanation
Indices: 9236575--9236638 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
9236565 ATATAATTAT
*
9236575 ATAATACGAATATAATATAAAAAACAAATA
1 ATAATACGAATATAATATAAAAAACAAAAA
9236605 A-AATACG-ATATAATATAAAAAA-ATAAAA
1 ATAATACGAATATAATATAAAAAACA-AAAA
9236633 ATAATA
1 ATAATA
9236639 TAAATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 1 0.03
28 19 0.61
29 10 0.32
30 1 0.03
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (30 bp):
ATAATACGAATATAATATAAAAAACAAAAA
Found at i:9236646 original size:30 final size:28
Alignment explanation
Indices: 9236583--9236646 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
9236573 ATATAATACG
* *
9236583 AATATAATATAAAAAACAAATAAAATAC
1 AATATAATATAAAAAACAAAAAAAATAA
*
9236611 GATATAATATAAAAAA-ATAAAAATAATATA
1 AATATAATATAAAAAACA-AAAAA-AATA-A
9236641 AATATA
1 AATATA
9236647 TACATATCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.03
28 19 0.66
29 4 0.14
30 5 0.17
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (28 bp):
AATATAATATAAAAAACAAAAAAAATAA
Found at i:9236670 original size:36 final size:32
Alignment explanation
Indices: 9236630--9236700 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 32
9236620 TAAAAAAATA
9236630 AAAATAATATAAATATATACATATCAAAATTTATAT
1 AAAATAA-AT-AAT-TA-ACATATCAAAATTTATAT
* * *
9236666 AAAATAAATTATTAATATATTAAAATTTATAT
1 AAAATAAATAATTAACATATCAAAATTTATAT
9236698 AAA
1 AAA
9236701 TATTTAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 19 0.59
33 2 0.06
34 2 0.06
35 2 0.06
36 7 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (32 bp):
AAAATAAATAATTAACATATCAAAATTTATAT
Found at i:9236747 original size:15 final size:17
Alignment explanation
Indices: 9236727--9236772 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
9236717 TATAATTATA
9236727 ATATAAAAATA-ATA-C
1 ATATAAAAATATATATC
*
9236742 ATATAATAAAAATATATC
1 ATATAA-AAATATATATC
*
9236760 AAATAAAAATATA
1 ATATAAAAATATA
9236773 AAACATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 6 0.24
16 4 0.16
17 9 0.36
18 6 0.24
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (17 bp):
ATATAAAAATATATATC
Found at i:9236771 original size:26 final size:26
Alignment explanation
Indices: 9236713--9236773 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
9236703 TTTAATAATT
* *
9236713 TAAATATAATTATAATATAAAAATAA
1 TAAATATAATAAAAATATAAAAATAA
* *
9236739 TACATATAATAAAAATATATCAAATAA
1 TAAATATAATAAAAATATA-AAAATAA
9236766 -AAATATAA
1 TAAATATAA
9236774 AACATGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATATAATAAAAATATAAAAATAA
Found at i:9240219 original size:22 final size:22
Alignment explanation
Indices: 9240194--9240254 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
9240184 TTTTATTTTA
9240194 TAATTATATTTAA-AATATTATT
1 TAATTATATTTAATAA-ATTATT
*
9240216 TAATTAATATATTAATAAATTTTT
1 TAATT-ATAT-TTAATAAATTATT
*
9240240 TAATTTAAATTTAAT
1 TAA-TTATATTTAAT
9240255 GTTTAAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 5 0.15
23 9 0.27
24 15 0.45
25 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATTATATTTAATAAATTATT
Found at i:9241787 original size:6 final size:7
Alignment explanation
Indices: 9241770--9241802 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
9241760 CATTTAGACT
9241770 TTTTTTA
1 TTTTTTA
9241777 TTTTTTA
1 TTTTTTA
9241784 TTTTTTA
1 TTTTTTA
9241791 -TTTTTA
1 TTTTTTA
9241797 TTTTTT
1 TTTTTT
9241803 TTGAGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:9241794 original size:13 final size:14
Alignment explanation
Indices: 9241770--9241802 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
9241760 CATTTAGACT
9241770 TTTTTTATTTTTTA
1 TTTTTTATTTTTTA
9241784 TTTTTTA-TTTTTA
1 TTTTTTATTTTTTA
9241797 TTTTTT
1 TTTTTT
9241803 TTGAGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTATTTTTTA
Found at i:9242124 original size:29 final size:31
Alignment explanation
Indices: 9242069--9242130 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
9242059 ATGGGTATAA
*
9242069 ATTTTTTATTTTATATTTAATTAATAAAAAT
1 ATTTTTTATTTTAAATTTAATTAATAAAAAT
9242100 ATTTTTTA-TTTAAATTTAATT-ATAAAAAT
1 ATTTTTTATTTTAAATTTAATTAATAAAAAT
9242129 AT
1 AT
9242131 ATAAATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 10 0.33
30 12 0.40
31 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTTTTTATTTTAAATTTAATTAATAAAAAT
Found at i:9242171 original size:11 final size:11
Alignment explanation
Indices: 9242146--9242183 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
9242136 TATCAATATA
9242146 AAATAATTTTT
1 AAATAATTTTT
9242157 -AATAATTTTT
1 AAATAATTTTT
*
9242167 AAATAATAATTT
1 AAATAAT-TTTT
9242179 AAATA
1 AAATA
9242184 TATAAATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 10 0.42
11 6 0.25
12 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATAATTTTT
Found at i:9242493 original size:32 final size:33
Alignment explanation
Indices: 9242447--9242512 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
9242437 TTGAAAGTAA
* *
9242447 TTTTTGACAGAAAATTCCGTTACAAA-AATATT
1 TTTTTAACAAAAAATTCCGTTACAAATAATATT
* *
9242479 TTTTTAACAAAAAATTCTGTTAGAAATAATATT
1 TTTTTAACAAAAAATTCCGTTACAAATAATATT
9242512 T
1 T
9242513 ATGATTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 22 0.76
33 7 0.24
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (33 bp):
TTTTTAACAAAAAATTCCGTTACAAATAATATT
Found at i:9245339 original size:36 final size:36
Alignment explanation
Indices: 9245292--9245361 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
9245282 CACTAGCATT
* *
9245292 TCAAGATCTTATGCTTGTAGAATCTAATATTATTTG
1 TCAAGATCTTATCCTTGTAGAATCTAAGATTATTTG
9245328 TCAAGATCTTATCCTTGTAGAATCTAAGATTATT
1 TCAAGATCTTATCCTTGTAGAATCTAAGATTATT
9245362 CGTTTTGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (36 bp):
TCAAGATCTTATCCTTGTAGAATCTAAGATTATTTG
Found at i:9246787 original size:23 final size:23
Alignment explanation
Indices: 9246761--9247069 Score: 96
Period size: 23 Copynumber: 13.5 Consensus size: 23
9246751 TTTGTGTTTG
* *
9246761 TTTGTTTGCTGTTTGCTGCTGCT
1 TTTGCTTGCTGTTTGCTGCAGCT
* *
9246784 TTTGCTTGCTGTTTGCTACAGCC
1 TTTGCTTGCTGTTTGCTGCAGCT
* *
9246807 CTTGCTTGCTGTTTGCTGCGGCTT
1 TTTGCTTGCTGTTTGCTGCAGC-T
* * *
9246831 TTTACTTGCTGTTTTCTTGC--TT
1 TTTGCTTGCTGTTTGC-TGCAGCT
9246853 GTTTGCTTGCTGTCTTGCTGTTC-G-T
1 -TTTGCTTGCTGT-TTGCTG--CAGCT
* * *
9246878 TCGTGCTTGTTGTTT--TGCTTGCT
1 T-TTGCTTGCTGTTTGCTGC-AGCT
* *
9246901 GTTTGC-TGCTGTTTTGCTTTCTG-T
1 -TTTGCTTGCTG-TTTGC-TGCAGCT
* *
9246925 GTTGC-TGCTGTCTT--TGCTG-T
1 TTTGCTTGCTGT-TTGCTGCAGCT
* * *
9246945 TCGTGCTTGCTGCTCGTGCTGCTG-T
1 T-TTGCTTGCTG-T-TTGCTGCAGCT
**
9246970 TTTGCTTGCTG--TGCTGTTGCT
1 TTTGCTTGCTGTTTGCTGCAGCT
*
9246991 ATTTGCTTGCTGTTTGCTGCTG-T
1 -TTTGCTTGCTGTTTGCTGCAGCT
* * *
9247014 TTTGCTTTCTGTGTTGCTGCTGTT
1 TTTGCTTGCTGT-TTGCTGCAGCT
* *
9247038 TTTGC-TGCTGTTTGCTACTG-T
1 TTTGCTTGCTGTTTGCTGCAGCT
9247059 TTTGCTTGCTG
1 TTTGCTTGCTG
9247070 CTGTTTCTGC
Statistics
Matches: 227, Mismatches: 30, Indels: 59
0.72 0.09 0.19
Matches are distributed among these distances:
20 13 0.06
21 10 0.04
22 49 0.22
23 87 0.38
24 43 0.19
25 23 0.10
26 2 0.01
ACGTcount: A:0.02, C:0.20, G:0.26, T:0.52
Consensus pattern (23 bp):
TTTGCTTGCTGTTTGCTGCAGCT
Found at i:9246870 original size:12 final size:11
Alignment explanation
Indices: 9246759--9247162 Score: 157
Period size: 11 Copynumber: 35.5 Consensus size: 11
9246749 TTTTTGTGTT
*
9246759 TGTTTGTTTGC
1 TGTTTGCTTGC
9246770 TGTTTGC-TGC
1 TGTTTGCTTGC
9246780 TGCTTTTGCTTGC
1 TG--TTTGCTTGC
*
9246793 TGTTTGCTACAGC
1 TGTTTGCT--TGC
**
9246806 -CCTTGCTTGC
1 TGTTTGCTTGC
*
9246816 TGTTTGCTGCGGC
1 TGTTTGCT--TGC
* *
9246829 TTTTTACTTGC
1 TGTTTGCTTGC
*
9246840 TGTTTTCTTGC
1 TGTTTGCTTGC
9246851 TTGTTTGCTTGC
1 -TGTTTGCTTGC
*
9246863 TGTCTTGC-TGT
1 TGT-TTGCTTGC
*
9246874 TCGTTCGTGCTTGT
1 T-GTT--TGCTTGC
9246888 TGTTTTGCTTGC
1 TG-TTTGCTTGC
9246900 TGTTTGC-TGC
1 TGTTTGCTTGC
*
9246910 TGTTTTGCTTTC
1 TG-TTTGCTTGC
9246922 TGTGTTGC-TGC
1 TGT-TTGCTTGC
*
9246933 TGTCT--TTGC
1 TGTTTGCTTGC
9246942 TGTTCGTGCTTGC
1 TGTT--TGCTTGC
*
9246955 TGCTCGTGC-TGC
1 TG-T-TTGCTTGC
9246967 TGTTTTGCTTGC
1 TG-TTTGCTTGC
*
9246979 TGTGCTG-TTGC
1 TGT-TTGCTTGC
*
9246990 TATTTGCTTGC
1 TGTTTGCTTGC
9247001 TGTTTGC-TGC
1 TGTTTGCTTGC
*
9247011 TGTTTTGCTTTC
1 TG-TTTGCTTGC
9247023 TGTGTTGC-TGC
1 TGT-TTGCTTGC
9247034 TGTTTTTGC-TGC
1 TG--TTTGCTTGC
*
9247046 TGTTTGC-TAC
1 TGTTTGCTTGC
9247056 TGTTTTGCTTGC
1 TG-TTTGCTTGC
*
9247068 TGCTGTTTC-TGC
1 TG-T-TTGCTTGC
9247080 TGTTT-C-TGC
1 TGTTTGCTTGC
9247089 TGTTTTTGCTTGC
1 TG--TTTGCTTGC
*
9247102 TATGTTGC-TGC
1 TGT-TTGCTTGC
*
9247113 TATTT--TTGC
1 TGTTTGCTTGC
*
9247122 TG-CTGTCTTTGC
1 TGTTTG-C-TTGC
9247134 TGTTCGTGCTTGC
1 TGTT--TGCTTGC
9247147 TGTGTTG-TTGC
1 TGT-TTGCTTGC
9247158 TGTTT
1 TGTTT
9247163 TTACTACTGC
Statistics
Matches: 306, Mismatches: 37, Indels: 101
0.69 0.08 0.23
Matches are distributed among these distances:
8 1 0.00
9 16 0.05
10 35 0.11
11 105 0.34
12 95 0.31
13 43 0.14
14 9 0.03
15 2 0.01
ACGTcount: A:0.02, C:0.20, G:0.26, T:0.53
Consensus pattern (11 bp):
TGTTTGCTTGC
Found at i:9246975 original size:45 final size:44
Alignment explanation
Indices: 9246921--9247163 Score: 145
Period size: 45 Copynumber: 5.2 Consensus size: 44
9246911 GTTTTGCTTT
*
9246921 CTGTGTTGC-TGCTGTCTTTGCTGTTCGTGCTTGCTGCTCGTGCTG
1 CTGTTTTGCTTGCTGTCTTTGCTGTTCGTGCTTGCTG-T-GTGCTG
* *
9246966 CTGTTTTGCTTGCTGTGCTGTTGCTATT--TGCTTGCTGTTTGCTG
1 CTGTTTTGCTTGCTGT-CT-TTGCTGTTCGTGCTTGCTGTGTGCTG
* * ** * *
9247010 CTGTTTTGCTTTCTGTGTTGCTGCTGTTTTTGC-TGCTGTTTGCTA
1 CTGTTTTGCTTGCTGTCTT--TGCTGTTCGTGCTTGCTGTGTGCTG
* *
9247055 CTGTTTTGCTTGCTGCTGTTTCTGCTGTTTCTGCTGTTTTTGCTTGCTATGTTGCTG
1 CTGTTTTGCTTGCTG-T-CTT-TGCTG--T-T-C-G----TGCTTGCTGTG-TGCTG
* *
9247112 CTATTTTTGC-TGCTGTCTTTGCTGTTCGTGCTTGCTGTGTTGTTG
1 CT-GTTTTGCTTGCTGTCTTTGCTGTTCGTGCTTGCTGTG-TGCTG
9247157 CTGTTTT
1 CTGTTTT
9247164 TACTACTGCT
Statistics
Matches: 158, Mismatches: 19, Indels: 43
0.72 0.09 0.20
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 30 0.19
45 51 0.32
46 25 0.16
47 4 0.03
48 8 0.05
49 2 0.01
50 1 0.01
51 1 0.01
52 1 0.01
54 5 0.03
55 5 0.03
56 6 0.04
57 11 0.07
58 6 0.04
ACGTcount: A:0.02, C:0.19, G:0.26, T:0.53
Consensus pattern (44 bp):
CTGTTTTGCTTGCTGTCTTTGCTGTTCGTGCTTGCTGTGTGCTG
Found at i:9246979 original size:79 final size:75
Alignment explanation
Indices: 9246878--9247163 Score: 247
Period size: 79 Copynumber: 3.8 Consensus size: 75
9246868 TGCTGTTCGT
* *
9246878 TCGTGCTTGTTGTTTTGCTTGCTGTTTGCTGCTGTTTTGCTTTCTGTGTTGCTGCTGTCTTTGCT
1 TCGTGC-TGCTGTTTTGC-TGCTGTTTGCTGCTGTTTTGCTTGCTGTGTTGCTGCTGT-TTTGCT
9246943 GTTCGTGCTTGCTG
63 GTTC-TGCTTGCTG
*
9246957 CTCGTGCTGCTGTTTTGCTTGCTG--TGCTGTTGCTATTTGCTTGCTGT-TTGCTGCTGTTTTGC
1 -TCGTGCTGCTGTTTTGC-TGCTGTTTGCTGCTG-T-TTTGCTTGCTGTGTTGCTGCTGTTTTGC
*
9247019 T-TTCTG--TGTTG
62 TGTTCTGCTTGCTG
* *
9247030 -C-TGCTG-T-TTTTGCTGCTGTTTGCTACTGTTTTGCTTGCTGCTGTTTCTGCTGTTTCTGCTG
1 TCGTGCTGCTGTTTTGCTGCTGTTTGCTGCTGTTTTGCTTGCTG-TGTTGCTGCTGTTT-TGCTG
* *
9247091 TTTTTGCTTGCTA
64 -TTCTGCTTGCTG
* * *
9247104 T-GTTGCTGCTATTTTTGCTGCTGTCTT--TGCTGTTCGTGCTTGCTGTGTTGTTGCTGTTTT
1 TCG-TGCTGCT-GTTTTGCTGCTGT-TTGCTGCTGTT-TTGCTTGCTGTGTTGCTGCTGTTTT
9247164 TACTACTGCT
Statistics
Matches: 173, Mismatches: 14, Indels: 41
0.76 0.06 0.18
Matches are distributed among these distances:
67 16 0.09
68 8 0.05
69 18 0.10
70 9 0.05
71 1 0.01
72 4 0.02
73 4 0.02
74 3 0.02
75 2 0.01
76 8 0.05
77 15 0.09
78 29 0.17
79 48 0.28
80 8 0.05
ACGTcount: A:0.01, C:0.19, G:0.26, T:0.53
Consensus pattern (75 bp):
TCGTGCTGCTGTTTTGCTGCTGTTTGCTGCTGTTTTGCTTGCTGTGTTGCTGCTGTTTTGCTGTT
CTGCTTGCTG
Found at i:9247073 original size:15 final size:15
Alignment explanation
Indices: 9247049--9247102 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
9247039 TTGCTGCTGT
*
9247049 TTGCTACTGTTTTGC
1 TTGCTGCTGTTTTGC
9247064 TTGCTGCTGTTTCTGC
1 TTGCTGCTGTTT-TGC
*
9247080 TGTTTCTGCTGTTTTTGC
1 --TTGCTGCTG-TTTTGC
9247098 TTGCT
1 TTGCT
9247103 ATGTTGCTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 11 0.34
16 7 0.22
18 11 0.34
19 3 0.09
ACGTcount: A:0.02, C:0.20, G:0.22, T:0.56
Consensus pattern (15 bp):
TTGCTGCTGTTTTGC
Found at i:9247081 original size:9 final size:9
Alignment explanation
Indices: 9246998--9247098 Score: 72
Period size: 9 Copynumber: 11.4 Consensus size: 9
9246988 GCTATTTGCT
9246998 TGCTGTTTGC
1 TGCTGTTT-C
9247008 TGCTGTTT-
1 TGCTGTTTC
9247016 TGC--TTTC
1 TGCTGTTTC
*
9247023 TG-TGTTGC
1 TGCTGTTTC
9247031 TGCTGTTTTTGC
1 TGCTG--TTT-C
9247043 TGCTGTTTGC
1 TGCTGTTT-C
*
9247053 TACTGTTT-
1 TGCTGTTTC
*
9247061 TGC--TTGC
1 TGCTGTTTC
9247068 TGCTGTTTC
1 TGCTGTTTC
9247077 TGCTGTTTC
1 TGCTGTTTC
*
9247086 TGCTGTTTT
1 TGCTGTTTC
9247095 TGCT
1 TGCT
9247099 TGCTATGTTG
Statistics
Matches: 74, Mismatches: 7, Indels: 21
0.73 0.07 0.21
Matches are distributed among these distances:
6 5 0.07
7 5 0.07
8 10 0.14
9 26 0.35
10 20 0.27
11 2 0.03
12 6 0.08
ACGTcount: A:0.01, C:0.19, G:0.25, T:0.55
Consensus pattern (9 bp):
TGCTGTTTC
Found at i:9247107 original size:24 final size:22
Alignment explanation
Indices: 9247080--9247164 Score: 66
Period size: 24 Copynumber: 3.7 Consensus size: 22
9247070 CTGTTTCTGC
9247080 TGTTTCTGCTGTTTTTGCTTGCT
1 TGTTT-TGCTGTTTTTGCTTGCT
* *
9247103 ATGTTGCTGCTATTTTTGC-TGC-
1 -TGTT-TTGCTGTTTTTGCTTGCT
**
9247125 TGTCTTTGCTGTTCGTGCTTGCT
1 TGT-TTTGCTGTTTTTGCTTGCT
9247148 GTGTTGTTGCTGTTTTT
1 -TGTT-TTGCTGTTTTT
9247165 ACTACTGCTG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
21 12 0.26
22 4 0.09
23 4 0.09
24 27 0.57
ACGTcount: A:0.02, C:0.16, G:0.25, T:0.56
Consensus pattern (22 bp):
TGTTTTGCTGTTTTTGCTTGCT
Found at i:9247606 original size:17 final size:17
Alignment explanation
Indices: 9247584--9247631 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 17
9247574 TGAAGAAAAG
9247584 AATAAAA-TAATAATAAT
1 AATAAAATTAAT-ATAAT
9247601 AATAAAATTAATATAAT
1 AATAAAATTAATATAAT
9247618 ATATTAAAATTAAT
1 A-A-TAAAATTAAT
9247632 CTTTAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.46
18 5 0.18
19 10 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATAAAATTAATATAAT
Found at i:9251952 original size:21 final size:21
Alignment explanation
Indices: 9251918--9251957 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9251908 TATTTTTATT
* *
9251918 TAAATTTTATTATAAAATATA
1 TAAATATTAATATAAAATATA
9251939 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
9251958 ATTTTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:9256349 original size:23 final size:23
Alignment explanation
Indices: 9256294--9256349 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
9256284 ATACATCATT
* *
9256294 TAAAATTAAAATAAAAAAATTTA
1 TAAAATAAAAATAAAAAAATTAA
**
9256317 T-ATCTAAAAAATAAAAAAATTAA
1 TAAAAT-AAAAATAAAAAAATTAA
9256340 TAAAATAAAA
1 TAAAATAAAA
9256350 TTTTCTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
22 2 0.08
23 21 0.84
24 2 0.08
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAATAAAAATAAAAAAATTAA
Found at i:9256451 original size:13 final size:14
Alignment explanation
Indices: 9256426--9256467 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
9256416 TGTCGACCTC
9256426 TTTAAATATAAAAT
1 TTTAAATATAAAAT
9256440 TTTAAA-ATAAAAT
1 TTTAAATATAAAAT
**
9256453 TAAAAATATAAAAT
1 TTTAAATATAAAAT
9256467 T
1 T
9256468 AATTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTTAAATATAAAAT
Found at i:9256456 original size:19 final size:18
Alignment explanation
Indices: 9256428--9256476 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
9256418 TCGACCTCTT
* *
9256428 TAAATATAAAATTTTAAAA
1 TAAAT-TAAAAATATAAAA
9256447 TAAAATTAAAAATATAAAA
1 T-AAATTAAAAATATAAAA
*
9256466 TTAATTAAAAA
1 TAAATTAAAAA
9256477 ATATTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 9 0.35
19 13 0.50
20 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATTAAAAATATAAAA
Found at i:9256578 original size:17 final size:17
Alignment explanation
Indices: 9256556--9256605 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
9256546 ACTAATTCCT
9256556 TTAAAATAATAAAAAAA
1 TTAAAATAATAAAAAAA
* *
9256573 TTAAAACAA-AAAACTAA
1 TTAAAATAATAAAA-AAA
*
9256590 -TGAAATAATAAAAAAA
1 TTAAAATAATAAAAAAA
9256606 AGCCTGCCGC
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (17 bp):
TTAAAATAATAAAAAAA
Found at i:9256733 original size:2 final size:2
Alignment explanation
Indices: 9256728--9256800 Score: 58
Period size: 2 Copynumber: 35.5 Consensus size: 2
9256718 ATTTAAAATC
* * * *
9256728 AT AT AT AT AT AT AT AT AT AT AT A- AC AT GGT AT AT CT GAT CGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT -AT
* *
9256770 GT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9256801 ACACTTATGT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
1 1 0.02
2 54 0.93
3 3 0.05
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (2 bp):
AT
Found at i:9259073 original size:15 final size:15
Alignment explanation
Indices: 9259053--9259083 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9259043 CATTGGGCTA
*
9259053 AGTTTTTTTTTTTTT
1 AGTTTTTTATTTTTT
9259068 AGTTTTTTATTTTTT
1 AGTTTTTTATTTTTT
9259083 A
1 A
9259084 AAACAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (15 bp):
AGTTTTTTATTTTTT
Found at i:9260065 original size:21 final size:22
Alignment explanation
Indices: 9260041--9260082 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9260031 AATATATAAA
9260041 TATTAATATAAA-AATAATTTT
1 TATTAATATAAATAATAATTTT
**
9260062 TATTTTTATAAATAATAATTT
1 TATTAATATAAATAATAATTT
9260083 GAATTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTAATATAAATAATAATTTT
Found at i:9260088 original size:22 final size:21
Alignment explanation
Indices: 9260047--9260088 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
9260037 TAAATATTAA
**
9260047 TATAAAAATAATTTTTATTTT
1 TATAAAAATAATTTGAATTTT
9260068 TATAAATAATAATTTGAATTT
1 TATAAA-AATAATTTGAATTT
9260089 ATAATCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TATAAAAATAATTTGAATTTT
Found at i:9260160 original size:137 final size:138
Alignment explanation
Indices: 9260000--9260263 Score: 424
Period size: 137 Copynumber: 1.9 Consensus size: 138
9259990 TTTATAGAAT
* * *
9260000 AAAAATAATTTTTATTTATATTTAATTATAAAATATATAAATATTAATATAAAAAT-AATTTTTA
1 AAAAAAAATTTTTAGTTAAATTTAATTA-AAAATATATAAATATTAATATAAAAATAAATTTTTA
* * *
9260064 TTTTTATAAATAATAATTTGAATTTA-TAATCAGATTAAACAAAATTTTAATCTAAACAAAAACT
65 TTTTTATAAATAATAATTTAAATTTACTAATCAAAGTAAACAAAATTTTAATCTAAACAAAAACT
9260128 TTAAAATAA
130 TTAAAATAA
9260137 AAAAAAAATTTTTAGTTAAATTTAATTAAAAATATATAAATATTAATATAAAAATAAATTTTTAT
1 AAAAAAAATTTTTAGTTAAATTTAATTAAAAATATATAAATATTAATATAAAAATAAATTTTTAT
* * *
9260202 TTTTATAAATAATAATTTAAATTTACTAATTAAAGTAAATAAAATTTTAATTTAAACAAAAA
66 TTTTATAAATAATAATTTAAATTTACTAATCAAAGTAAACAAAATTTTAATCTAAACAAAAA
9260264 AAGATTTAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
136 27 0.23
137 58 0.50
138 31 0.27
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (138 bp):
AAAAAAAATTTTTAGTTAAATTTAATTAAAAATATATAAATATTAATATAAAAATAAATTTTTAT
TTTTATAAATAATAATTTAAATTTACTAATCAAAGTAAACAAAATTTTAATCTAAACAAAAACTT
TAAAATAA
Found at i:9260191 original size:22 final size:20
Alignment explanation
Indices: 9260153--9260192 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
9260143 AATTTTTAGT
9260153 TAAATTTAATTAAAAATATA
1 TAAATTTAATTAAAAATATA
9260173 TAAATATTAATATAAAAATA
1 TAAAT-TTAAT-TAAAAATA
9260193 AATTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATTTAATTAAAAATATA
Found at i:9260225 original size:22 final size:22
Alignment explanation
Indices: 9260183--9260225 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9260173 TAAATATTAA
**
9260183 TATAAAAATAAATTTTTATTTT
1 TATAAAAATAAATTTAAATTTT
9260205 TATAAATAAT-AATTTAAATTT
1 TATAAA-AATAAATTTAAATTT
9260226 ACTAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAAAAATAAATTTAAATTTT
Found at i:9260504 original size:2 final size:2
Alignment explanation
Indices: 9260497--9260535 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9260487 ATTATTTTAG
9260497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9260536 GCATGTATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9268121 original size:22 final size:24
Alignment explanation
Indices: 9268075--9268122 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
9268065 TTATAAAAAA
9268075 ATATT-ATATCTTATAAATTAATT
1 ATATTGATATCTTATAAATTAATT
9268098 ATATTGATAT-TTA-AAA-TAATT
1 ATATTGATATCTTATAAATTAATT
9268119 -TATT
1 ATATT
9268123 TTGATGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.17
21 5 0.21
22 3 0.12
23 8 0.33
24 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
ATATTGATATCTTATAAATTAATT
Found at i:9268979 original size:16 final size:16
Alignment explanation
Indices: 9268958--9268998 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9268948 ATCAATTATG
*
9268958 AATTTAGATTTTTGTT-
1 AATTTAAATTTTT-TTA
9268974 AATTTAAATTTTTTTA
1 AATTTAAATTTTTTTA
9268990 AATTTAAAT
1 AATTTAAAT
9268999 CAATTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
AATTTAAATTTTTTTA
Found at i:9269339 original size:26 final size:27
Alignment explanation
Indices: 9269288--9269344 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
9269278 ATTATTTTTA
*
9269288 TTTT-AATAATTATTTTTATATAAAAT
1 TTTTAAATAATTATTTTTACATAAAAT
9269314 TTTTAAATAATT-TATTTTACAT-AAAT
1 TTTTAAATAATTAT-TTTTACATAAAAT
9269340 TTTTA
1 TTTTA
9269345 TTTTTGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTAAATAATTATTTTTACATAAAAT
Found at i:9269929 original size:16 final size:15
Alignment explanation
Indices: 9269902--9269931 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9269892 ATCAGATATC
9269902 AAAATAATATTTAAA
1 AAAATAATATTTAAA
9269917 AAAATATATATTTAA
1 AAAATA-ATATTTAA
9269932 TTTTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATAATATTTAAA
Found at i:9269974 original size:24 final size:24
Alignment explanation
Indices: 9269906--9269975 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 24
9269896 GATATCAAAA
*
9269906 TAATATTTA-AAAAAATATATATT
1 TAATATTTATAAAATATATATATT
* *
9269929 TAATTTTTTTAAAATATTTATATATT
1 TAATATTTATAAAATA--TATATATT
*
9269955 TTATATTTATAAAATATATAT
1 TAATATTTATAAAATATATAT
9269976 TAAATATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 7 0.18
24 10 0.26
26 21 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATATTTATAAAATATATATATT
Found at i:9270457 original size:2 final size:2
Alignment explanation
Indices: 9270450--9270480 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9270440 TTTGCACATG
*
9270450 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9270481 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9271740 original size:17 final size:19
Alignment explanation
Indices: 9271707--9271742 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
9271697 CAACCACCTG
9271707 CAACAATATACATTTCCAC
1 CAACAATATACATTTCCAC
9271726 CAACAAT-TA-ATTTCCAC
1 CAACAATATACATTTCCAC
9271743 AGCTATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.28
Consensus pattern (19 bp):
CAACAATATACATTTCCAC
Found at i:9272733 original size:13 final size:15
Alignment explanation
Indices: 9272707--9272739 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
9272697 ATGTTTGGAT
9272707 AAATAATAATAATAA
1 AAATAATAATAATAA
9272722 AAATAA-AA-AATAA
1 AAATAATAATAATAA
9272735 AAATA
1 AAATA
9272740 TTAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 2 0.11
15 6 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAATAATAATAA
Found at i:9273144 original size:2 final size:2
Alignment explanation
Indices: 9273137--9273172 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9273127 TGTCAATTTA
9273137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9273173 GAAGTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9275220 original size:22 final size:21
Alignment explanation
Indices: 9275174--9275220 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
9275164 TTGTTACATT
9275174 AAATAAATAATTAAAAATATTA
1 AAATAAATAATTAAAAATA-TA
*
9275196 AAATAAATTTAATTTAAAATA-A
1 AAATAAA--TAATTAAAAATATA
9275218 AAA
1 AAA
9275221 GAACGGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 11 0.50
24 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATAAATAATTAAAAATATA
Found at i:9276558 original size:30 final size:31
Alignment explanation
Indices: 9276522--9276594 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
9276512 GGCAACTCTT
9276522 AGTGGCATCCCTTTTTCAAAGTCCAC-ACTC
1 AGTGGCATCCCTTTTTCAAAGTCCACGACTC
* *
9276552 AGTGGCAT-CATTTTTCAAAGTTCACGACTC
1 AGTGGCATCCCTTTTTCAAAGTCCACGACTC
*
9276582 AGTGACATCCCTT
1 AGTGGCATCCCTT
9276595 CTAAAGTCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 15 0.41
30 19 0.51
31 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.32
Consensus pattern (31 bp):
AGTGGCATCCCTTTTTCAAAGTCCACGACTC
Found at i:9276789 original size:67 final size:67
Alignment explanation
Indices: 9276718--9276914 Score: 358
Period size: 67 Copynumber: 2.9 Consensus size: 67
9276708 AAGCAGGACA
*
9276718 CACTTTTTTTCTTTTGTCCTTTATCCTTAAGGAGCATGACCCATTTCATTCTTCTTTTTCCTTGA
1 CACTTTTTTTCTTTTGTCCTTTATCCTTAAGGAGCATGACCCATTTCATTCTCCTTTTTCCTTGA
9276783 CG
66 CG
*
9276785 CACTTTTTTTCTTTTGTCCTTTATCCTTAAAGAGCATGACCCATTTCATTCTCCTTTTTCCTTGA
1 CACTTTTTTTCTTTTGTCCTTTATCCTTAAGGAGCATGACCCATTTCATTCTCCTTTTTCCTTGA
9276850 CG
66 CG
* *
9276852 CAATTTTTTTCTTTTGTCCTTTATCCTCAAGGAGCATGACCCATTTCATTCTCCTTTTTCCTT
1 CACTTTTTTTCTTTTGTCCTTTATCCTTAAGGAGCATGACCCATTTCATTCTCCTTTTTCCTT
9276915 TGTCCTCAAA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 125 1.00
ACGTcount: A:0.16, C:0.26, G:0.09, T:0.49
Consensus pattern (67 bp):
CACTTTTTTTCTTTTGTCCTTTATCCTTAAGGAGCATGACCCATTTCATTCTCCTTTTTCCTTGA
CG
Found at i:9276840 original size:35 final size:34
Alignment explanation
Indices: 9276734--9276914 Score: 83
Period size: 35 Copynumber: 5.4 Consensus size: 34
9276724 TTTTCTTTTG
9276734 TCCTTTATCCTTAAGGAGCATGACCCATTTCATTC
1 TCCTTTATCCTTAA-GAGCATGACCCATTTCATTC
* * *** * *
9276769 TTCTTTTTCCTT--GA-C--GCACTTTTTTTCTTTTG
1 TCCTTTATCCTTAAGAGCATG-AC-CCATTTC-ATTC
9276801 TCCTTTATCCTTAAAGAGCATGACCCATTTCATTC
1 TCCTTTATCCTT-AAGAGCATGACCCATTTCATTC
* **** * *
9276836 TCCTTTTTCCTT--GACGCA--ATTTTTTTCTTTTG
1 TCCTTTATCCTTAAGA-GCATGACCCATTTC-ATTC
*
9276868 TCCTTTATCCTCAAGGAGCATGACCCATTTCATTC
1 TCCTTTATCCTTAA-GAGCATGACCCATTTCATTC
*
9276903 TCCTTTTTCCTT
1 TCCTTTATCCTT
9276915 TGTCCTCAAA
Statistics
Matches: 99, Mismatches: 31, Indels: 32
0.61 0.19 0.20
Matches are distributed among these distances:
29 1 0.01
30 2 0.02
31 10 0.10
32 28 0.28
33 3 0.03
34 3 0.03
35 39 0.39
36 10 0.10
37 2 0.02
38 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.09, T:0.47
Consensus pattern (34 bp):
TCCTTTATCCTTAAGAGCATGACCCATTTCATTC
Found at i:9276952 original size:37 final size:40
Alignment explanation
Indices: 9276862--9277295 Score: 228
Period size: 41 Copynumber: 10.5 Consensus size: 40
9276852 CAATTTTTTT
* * ** *
9276862 CTTTTGTCCTTTATCCTCAAGGAGCATGACCCATTTCATTCTC
1 CTTTT-TCCTTTGTCCTCAAGGAGCAGGA-CCACCT-AATCTC
*
9276905 CTTTTTCCTTTGTCCTCAAAGAGCAGGA-CACCT-A-CTC
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGACCACCTAATCTC
* * *
9276942 CTTTTTCCTTTGTCCTCAAGGAGCATGACGCACTTAATCCC
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGAC-CACCTAATCTC
* * * * ** *
9276983 CTTTTCCCTTTGTCCTCAAGGAGCATGATGCATTCTTTTTTTC
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGA-CCA--CCTAATCTC
* * * * *
9277026 CTTTTGCTTTTGTCCTCAAGGAGTAGGTCGCACTTAATCTC
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGAC-CACCTAATCTC
* * *
9277067 CTTTTCCCTTTGTCCTCAAGGAGTAGGACACACTTAATC-C
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGAC-CACCTAATCTC
* * * * ** *
9277107 CATTTTCCCTTTGTCCTTAAGGAGCATGACGCATTCTTTTTTTC
1 C-TTTTTCCTTTGTCCTCAAGGAGCAGGAC-CA--CCTAATCTC
* * * * *
9277151 CTTTTTCCTATGTCCTCAAGGAGCAAGATGCACTTAATCCC
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGA-CCACCTAATCTC
* * * * ** * *
9277192 CTTTTCCCTTTGTCCTCAAGGAGCATGATGCATTCTTTTTTTT
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGA-CCA--CCTAATCTC
* * * * *
9277235 CTTTCTCCTTTGTCCTCAAAGAGCATGACACACTTTATCTC
1 CTTTTTCCTTTGTCCTCAAGGAGCAGGAC-CACCTAATCTC
*
9277276 CTTTTTCCTTCGTCCTCAAG
1 CTTTTTCCTTTGTCCTCAAG
9277296 AACTAAGATG
Statistics
Matches: 312, Mismatches: 63, Indels: 34
0.76 0.15 0.08
Matches are distributed among these distances:
37 29 0.09
39 4 0.01
40 6 0.02
41 156 0.50
42 20 0.06
43 95 0.30
44 2 0.01
ACGTcount: A:0.18, C:0.29, G:0.14, T:0.39
Consensus pattern (40 bp):
CTTTTTCCTTTGTCCTCAAGGAGCAGGACCACCTAATCTC
Found at i:9277101 original size:125 final size:125
Alignment explanation
Indices: 9276869--9277216 Score: 438
Period size: 125 Copynumber: 2.8 Consensus size: 125
9276859 TTTCTTTTGT
* * ** * * * * *
9276869 CCTTTATCCTCAAGGAGCATGACCCATT-TCATTCTCCTTTTTCCTTTGTCCTCAAAGAGCAGGA
1 CCTTTGTCCTCAAGGAGCATGACGCATTCTTTTTTTCCTTTTGCCTATGTCCTCAAGGAGCAAGA
* * * * *
9276933 --CACCT-A-CTCCTTTTTCCTTTGTCCTCAAGGAGCATGACGCACTTAATCCCCTTTTC
66 TGCACTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGCAGGACACACTTAATCCCATTTTC
* * * * *
9276989 CCTTTGTCCTCAAGGAGCATGATGCATTCTTTTTTTCCTTTTGCTTTTGTCCTCAAGGAG-TAGG
1 CCTTTGTCCTCAAGGAGCATGACGCATTCTTTTTTTCCTTTTGCCTATGTCCTCAAGGAGCAAGA
*
9277053 TCGCACTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGTAGGACACACTTAATCCCATTTTC
66 T-GCACTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGCAGGACACACTTAATCCCATTTTC
* *
9277114 CCTTTGTCCTTAAGGAGCATGACGCATTCTTTTTTTCCTTTTTCCTATGTCCTCAAGGAGCAAGA
1 CCTTTGTCCTCAAGGAGCATGACGCATTCTTTTTTTCCTTTTGCCTATGTCCTCAAGGAGCAAGA
*
9277179 TGCACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCA
66 TGCACTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGCA
9277217 TGATGCATTC
Statistics
Matches: 194, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
120 26 0.13
121 25 0.13
123 4 0.02
124 1 0.01
125 135 0.70
126 3 0.02
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (125 bp):
CCTTTGTCCTCAAGGAGCATGACGCATTCTTTTTTTCCTTTTGCCTATGTCCTCAAGGAGCAAGA
TGCACTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGCAGGACACACTTAATCCCATTTTC
Found at i:9277153 original size:84 final size:83
Alignment explanation
Indices: 9276869--9277378 Score: 387
Period size: 84 Copynumber: 6.2 Consensus size: 83
9276859 TTTCTTTTGT
* * * * *
9276869 CCTTTATCCTCAAGGAGCATGACCCATT-TCATTCTCCTTTTTCCTTTGTCCTCAAAGAGCAGGA
1 CCTTTGTCCTCAAGGAGCATGACGCATTCTTATTCTCCTTTTCCCTTTGTCCTCAAGGAGCAGGA
* *
9276933 CAC-C-TACT-CCTTTTT
66 CACACTTAATCCCTTTTC
* * *
9276948 CCTTTGTCCTCAAGGAGCATGACGCA--CTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCATGA
1 CCTTTGTCCTCAAGGAGCATGACGCATTCTTATTCTCCTTTTCCCTTTGTCCTCAAGGAGCAGGA
** ** * *
9277011 TGCATTCTTTTTTTCCTTTTG
66 --CACAC-TTAATCCCTTTTC
* * * * * *
9277032 CTTTTGTCCTCAAGGAGTAGGTCGCA--CTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGTAGGA
1 CCTTTGTCCTCAAGGAGCATGACGCATTCTTATTCTCCTTTTCCCTTTGTCCTCAAGGAGCAGGA
9277095 CACACTTAATCCCATTTTC
66 CACACTTAATCCC-TTTTC
* * * * * *
9277114 CCTTTGTCCTTAAGGAGCATGACGCATTCTTTTTTTCCTTTTTCCTATGTCCTCAAGGAGCAAGA
1 CCTTTGTCCTCAAGGAGCATGACGCATTCTTATTCTCCTTTTCCCTTTGTCCTCAAGGAGCAGGA
**
9277179 TGCACTTAATCCCCTTTTC
66 CACACTTAAT-CCCTTTTC
* * * * * *
9277198 CCTTTGTCCTCAAGGAGCATGATGCATTCTTTTTTTTC-TTTCTCCTTTGTCCTCAAAGAGCATG
1 CCTTTGTCCTCAAGGAGCATGACGCATTCTTATTCTCCTTTTC-CCTTTGTCCTCAAGGAGCAGG
* *
9277262 ACACACTTTATCTCCTTTTT
65 ACACACTTAATC-CCTTTTC
* * * * * * * *
9277282 CCTTCGTCCTCAA-GAACTAAGATGCATTCTT-TT-TTCTTTTCTTCTTTGTCTTCAAGGAGCAT
1 CCTTTGTCCTCAAGGAGC-ATGACGCATTCTTATTCTCCTTTTC-CCTTTGTCCTCAAGGAGCAG
* * * *
9277344 GACCCATTTCAATCTTCTTTCC
64 GACACACTT-AATC-CCTTTTC
9277366 CCTTTGTCCTCAA
1 CCTTTGTCCTCAA
9277379 AAAGTAGGAT
Statistics
Matches: 352, Mismatches: 63, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
78 30 0.09
79 24 0.07
80 2 0.01
81 6 0.02
82 31 0.09
83 40 0.11
84 216 0.61
85 3 0.01
ACGTcount: A:0.19, C:0.28, G:0.13, T:0.40
Consensus pattern (83 bp):
CCTTTGTCCTCAAGGAGCATGACGCATTCTTATTCTCCTTTTCCCTTTGTCCTCAAGGAGCAGGA
CACACTTAATCCCTTTTC
Found at i:9277278 original size:125 final size:123
Alignment explanation
Indices: 9276869--9277295 Score: 388
Period size: 125 Copynumber: 3.4 Consensus size: 123
9276859 TTTCTTTTGT
* * * *
9276869 CCTTTATCCTCAAGGAGCATGACCCA-TTTCATTCTCCTTTTTCCTTTGTCCTCAAAGAGCAGGA
1 CCTTTGTCCTCAAGGAGCATGACACACTTT-A-TCTCCTTTTTCCTTTGTCCTCAAGGAGCAAGA
* * * *
9276933 --CACCT-A-CTCCTTTTTCCTTTGTCCTCAAGGAGCATGACGCAC-TTAATCCCCTTTTC
64 TGCACTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGCATGA-GCACTTTATTCCCATTTTC
** * * * * * *
9276989 CCTTTGTCCTCAAGGAGCATGATGCATTCTTTTTTTCCTTTTGCTTTTGTCCTCAAGGAG-TAGG
1 CCTTTGTCCTCAAGGAGCATGA--CACACTTTATCTCCTTTTTCCTTTGTCCTCAAGGAGCAAGA
* * * *
9277053 TCGCACTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGTAGGA-CACACTTAATCCCATTTTC
64 T-GCACTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGCATGAGCAC-TTTATTCCCATTTTC
* * * * *
9277114 CCTTTGTCCTTAAGGAGCATGACGCATTCTTTTTTTCCTTTTTCCTATGTCCTCAAGGAGCAAGA
1 CCTTTGTCCTCAAGGAGCATGACACA--CTTTATCTCCTTTTTCCTTTGTCCTCAAGGAGCAAGA
* * **
9277179 TGCACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCATGATGCATTCTTTTTTTTC--TTTC
64 TGCACTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGCATGA-GCA--CTTTATTCCCATTTTC
* *
9277240 TCCTTTGTCCTCAAAGAGCATGACACACTTTATCTCCTTTTTCCTTCGTCCTCAAG
1 -CCTTTGTCCTCAAGGAGCATGACACACTTTATCTCCTTTTTCCTTTGTCCTCAAG
9277296 AACTAAGATG
Statistics
Matches: 248, Mismatches: 41, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
120 22 0.09
121 23 0.09
122 1 0.00
123 11 0.04
124 1 0.00
125 153 0.62
126 7 0.03
127 25 0.10
128 4 0.02
129 1 0.00
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.39
Consensus pattern (123 bp):
CCTTTGTCCTCAAGGAGCATGACACACTTTATCTCCTTTTTCCTTTGTCCTCAAGGAGCAAGATG
CACTTAATCTCCTTTTCCCTTTGTCCTCAAGGAGCATGAGCACTTTATTCCCATTTTC
Found at i:9277376 original size:209 final size:209
Alignment explanation
Indices: 9276948--9277378 Score: 514
Period size: 209 Copynumber: 2.1 Consensus size: 209
9276938 ACTCCTTTTT
*
9276948 CCTTTGTCCTCAAGGAGCATGACGCACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCATGATG
1 CCTTTGTCCTCAAGGAGCAAGACGCACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCATGATG
* * * * * *
9277013 CATTCTTTTTTTCCTTTTGCTTTTGTCCTCAAGGAGTAGGTCGCACTTAATCTCCTTTTCCCTTT
66 CATTCTTTTTTTCCTTTTGCCTTTGTCCTCAAAGAGCAGGACACACTTAATCTCCTTTTCCCTTC
* * * *
9277078 GTCCTCAAGGAGTAGGACACACTTAATCCCATTTTCCCTTTGTCCTTAAGGAGCATGACGCATTC
131 GTCCTCAAGAACTAAGACACACTTAATCCCATTTTCCCTTTGTCCTTAAGGAGCATGACCCATTC
** * **
9277143 TTTTTTTCCTTTTT
196 TAATCTTCCTTTCC
* *
9277157 CCTATGTCCTCAAGGAGCAAGATGCACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCATGATG
1 CCTTTGTCCTCAAGGAGCAAGACGCACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCATGATG
* * * *
9277222 CATTCTTTTTTTTCTTTCT-CCTTTGTCCTCAAAGAGCATGACACACTTTATCTCCTTTTTCCTT
66 CATTCTTTTTTTCCTTT-TGCCTTTGTCCTCAAAGAGCAGGACACACTTAATCTCCTTTTCCCTT
** * ** *
9277286 CGTCCTCAAGAACTAAGATGCATTCTT-TTTTC-TTTTCTTCTTTGT-CTTCAAGGAGCATGACC
130 CGTCCTCAAGAACTAAGA--CACACTTAATCCCATTTTC-CCTTTGTCCTT-AAGGAGCATGACC
9277348 CATT-TCAATCTT-CTTTCC
191 CATTCT-AATCTTCCTTTCC
9277366 CCTTTGTCCTCAA
1 CCTTTGTCCTCAA
9277379 AAAGTAGGAT
Statistics
Matches: 187, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
209 154 0.82
210 28 0.15
211 5 0.03
ACGTcount: A:0.19, C:0.28, G:0.13, T:0.40
Consensus pattern (209 bp):
CCTTTGTCCTCAAGGAGCAAGACGCACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCATGATG
CATTCTTTTTTTCCTTTTGCCTTTGTCCTCAAAGAGCAGGACACACTTAATCTCCTTTTCCCTTC
GTCCTCAAGAACTAAGACACACTTAATCCCATTTTCCCTTTGTCCTTAAGGAGCATGACCCATTC
TAATCTTCCTTTCC
Found at i:9277400 original size:83 final size:82
Alignment explanation
Indices: 9277231--9277409 Score: 182
Period size: 83 Copynumber: 2.2 Consensus size: 82
9277221 GCATTCTTTT
* ** *
9277231 TTTTCTTTCTCCTTTGTCCTCAAAGAGCATGACACACTTTATCTCCTTTTTCCTTCGTCCTCAAG
1 TTTTCTTTCTTCTTTGTCCTCAAAGAGCATGACACACTTTATCTCCTTTCCCCTTCGTCCTCAAA
*
9277296 AACTAAGATGCATTCTT
66 AACTAAGATGCATTCTC
* * * * *
9277313 TTTTCTTTTCTTCTTTGTCTTCAAGGAGCATGACCCA-TTTCAATCTTCTTTCCCCTTTGTCCTC
1 TTTTC-TTTCTTCTTTGTCCTCAAAGAGCATGACACACTTT--ATCTCCTTTCCCCTTCGTCCTC
* * *
9277377 AAAAAGTAGGATGTATTC-C
63 AAAAACTAAGATGCATTCTC
*
9277396 TTTTCCTTTGTTCT
1 TTTT-CTTTCTTCT
9277410 CAAAAAGTAA
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
82 8 0.10
83 38 0.48
84 33 0.42
ACGTcount: A:0.18, C:0.26, G:0.11, T:0.45
Consensus pattern (82 bp):
TTTTCTTTCTTCTTTGTCCTCAAAGAGCATGACACACTTTATCTCCTTTCCCCTTCGTCCTCAAA
AACTAAGATGCATTCTC
Found at i:9277614 original size:31 final size:31
Alignment explanation
Indices: 9277538--9278084 Score: 498
Period size: 31 Copynumber: 17.7 Consensus size: 31
9277528 AGAATGTCAG
* * *
9277538 AGCCCACATGAGTTGGTGGTACCCTAGTCGA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
* * * * *
9277569 AGTCCGCACAAGTTGGCGGCACCCAAGTCTA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
* *
9277600 AGACCACACGAGTTGGTGGCACCTTAGT-TAA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCT-A
* * *
9277631 AGCCCGCATGAGTTGGTGGCACCCTAGTCAA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
* * * *
9277662 AGCCCGCACGAGTTAGAGGCACCCGAGTCTA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
9277693 AGCCCACACGAGTTGGTGGCACCCTAGT-TAA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCT-A
** * * *
9277724 AGCCTGCACAAGTTGGCGGCACCTTAGTCTA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
*
9277755 AGCCCACACGAGTTGGTGGCACCCTAGTCAA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
* *
9277786 AGCCCACACGAGTTAGTGGCACCCTAGTCAA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
* * * * *
9277817 AGCTCACACAAGTTGGTGACACTCGAGTCTA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
* *
9277848 AGCCCATACGAGTTGGTGGCACCCTAGTCAA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
* * * * * * *
9277879 AACCCGCTCAAGGTT-GCGACA-CCTGAGTCAA
1 AGCCCACACGA-GTTGGTGGCACCCT-AGTCTA
*
9277910 AGCTCACACGAGTTGGTGGCACCCTAGT-TAA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCT-A
*
9277941 AGCCCACACGAGTTGGTGGCACCCTAGTCAA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
** * ** *
9277972 AGCCTGCACAAGTTGACGGCA-GCTGAGTCTA
1 AGCCCACACGAGTTGGTGGCACCCT-AGTCTA
* * *
9278003 AGCCCACACGAGTTGGTAGCACCTTAGTCAA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
* * *
9278034 AGCCCGCACGAGTTGGTGGTACCCTAGTCAA
1 AGCCCACACGAGTTGGTGGCACCCTAGTCTA
*
9278065 AGCTCA-A-GAGTTGGTGGCAC
1 AGCCCACACGAGTTGGTGGCAC
9278085 TTTAGTCAAA
Statistics
Matches: 410, Mismatches: 94, Indels: 26
0.77 0.18 0.05
Matches are distributed among these distances:
29 12 0.03
30 11 0.03
31 379 0.92
32 8 0.02
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (31 bp):
AGCCCACACGAGTTGGTGGCACCCTAGTCTA
Found at i:9277700 original size:93 final size:93
Alignment explanation
Indices: 9277533--9278096 Score: 567
Period size: 93 Copynumber: 6.1 Consensus size: 93
9277523 GCCTTAGAAT
* * * * * * * * *
9277533 GTCAGAGCCCACATGAGTTGGTGGTACCCTAGTCGAAGTCCGCACAAGTTGGCGGCACCCAAGTC
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTC
* *
9277598 TAAGACCACACGAGTTGGTGGCACCTTA
66 AAAGCCCACACGAGTTGGTGGCACCTTA
* * * * * * *
9277626 GTTAAAGCCCGCATGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTAGAGGCACCCGAGTC
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTC
* *
9277691 TAAGCCCACACGAGTTGGTGGCACCCTA
66 AAAGCCCACACGAGTTGGTGGCACCTTA
* ** * * * *
9277719 GTTAAAGCCTGCACAAGTTGGCGGCACCTTAGTCTAAGCCCACACGAGTTGGTGGCACCCTAGTC
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTC
* *
9277784 AAAGCCCACACGAGTTAGTGGCACCCTA
66 AAAGCCCACACGAGTTGGTGGCACCTTA
* * * * * * *
9277812 GTCAAAGCTCACACAAGTTGGTGACACTCGAGTCTAAGCCCATACGAGTTGGTGGCACCCTAGTC
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTC
* * * * * * *
9277877 AAAACCCGCTCAAGGTT-GCGACACCTGA
66 AAAGCCCACACGA-GTTGGTGGCACCTTA
* *
9277905 GTCAAAGCTCACACGAGTTGGTGGCACCCTAGTTAAAGCCCACACGAGTTGGTGGCACCCTAGTC
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTC
** * ** * *
9277970 AAAGCCTGCACAAGTTGACGGCAGCTGA
66 AAAGCCCACACGAGTTGGTGGCACCTTA
* * * * *
9277998 GTCTAAGCCCACACGAGTTGGTAGCACCTTAGTCAAAGCCCGCACGAGTTGGTGGTACCCTAGTC
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTC
* *
9278063 AAAGCTCA-A-GAGTTGGTGGCACTTTA
66 AAAGCCCACACGAGTTGGTGGCACCTTA
9278089 GTCAAAGC
1 GTCAAAGC
9278097 TTGCACAAGT
Statistics
Matches: 397, Mismatches: 72, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
91 18 0.05
92 4 0.01
93 372 0.94
94 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (93 bp):
GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACGAGTTGGTGGCACCCTAGTC
AAAGCCCACACGAGTTGGTGGCACCTTA
Found at i:9278841 original size:20 final size:20
Alignment explanation
Indices: 9278816--9278867 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
9278806 TCAAAAAAAT
**
9278816 TGTATCGATACATAAGTAAA
1 TGTATCGATACATAACCAAA
**
9278836 TGTATCGATACATTTCCAAA
1 TGTATCGATACATAACCAAA
9278856 TGTATCGATACA
1 TGTATCGATACA
9278868 ATTTGCTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAACCAAA
Found at i:9282667 original size:20 final size:21
Alignment explanation
Indices: 9282620--9282670 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9282610 GCCAATCACC
*
9282620 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
9282641 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
9282661 TGTATCGATA
1 TGTATCGATA
9282671 TAATGTATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 13 0.50
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:9283276 original size:21 final size:23
Alignment explanation
Indices: 9283240--9283282 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
9283230 TCCTTTTCTT
9283240 TCCCCCTTAATCAAAA-AATTTC
1 TCCCCCTTAATCAAAACAATTTC
9283262 TCCCCCTTAAT-AAAACAATTT
1 TCCCCCTTAATCAAAACAATTT
9283283 TCTTTAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (23 bp):
TCCCCCTTAATCAAAACAATTTC
Found at i:9285157 original size:13 final size:13
Alignment explanation
Indices: 9285139--9285176 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
9285129 ATAAACCCTT
* *
9285139 TGTATCGATATAC
1 TGTATCGATACAA
9285152 TGTATCGATACAA
1 TGTATCGATACAA
9285165 TGTATCGATACA
1 TGTATCGATACA
9285177 GAGAATGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:9287819 original size:15 final size:16
Alignment explanation
Indices: 9287790--9287819 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9287780 GTTTTCATTA
9287790 CAAAATTTATCAAATC
1 CAAAATTTATCAAATC
9287806 CAAAATTT-TCAAAT
1 CAAAATTTATCAAAT
9287820 TCTCTTCCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (16 bp):
CAAAATTTATCAAATC
Found at i:9291455 original size:20 final size:21
Alignment explanation
Indices: 9291404--9291456 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
9291394 GCCAATCACT
*
9291404 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
* *
9291425 AGTATCAATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
9291445 TGTATCGATACA
1 TGTATCGATACA
9291457 ATGTATCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 12 0.46
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:9293597 original size:13 final size:13
Alignment explanation
Indices: 9293579--9293604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9293569 TACAGCAAGT
9293579 ATGTATCGATACA
1 ATGTATCGATACA
9293592 ATGTATCGATACA
1 ATGTATCGATACA
9293605 CAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:9295856 original size:21 final size:21
Alignment explanation
Indices: 9295823--9295867 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9295813 TTGCAAGTTG
*
9295823 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
9295845 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
9295865 AAA
1 AAA
9295868 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:9297691 original size:15 final size:15
Alignment explanation
Indices: 9297671--9297701 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9297661 TAAAAATGTC
*
9297671 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
9297686 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
9297701 C
1 C
9297702 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:9299797 original size:13 final size:13
Alignment explanation
Indices: 9299779--9299815 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
9299769 ACATTTTTCT
9299779 TTGTATCGATACA
1 TTGTATCGATACA
*
9299792 TTGTATTGATACA
1 TTGTATCGATACA
9299805 TTGTATCGATA
1 TTGTATCGATA
9299816 TAGGGTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:9302385 original size:13 final size:13
Alignment explanation
Indices: 9302367--9302392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9302357 TACAGCAAGT
9302367 ATGTATCGATACA
1 ATGTATCGATACA
9302380 ATGTATCGATACA
1 ATGTATCGATACA
9302393 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:9307409 original size:30 final size:29
Alignment explanation
Indices: 9307341--9307424 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
9307331 CGACAACCCC
9307341 TAGTGGCATCCCTTTTTCAAAGTCCATACT
1 TAGTGGCAT-CCTTTTTCAAAGTCCATACT
* * * *
9307371 CAGAGGCATCTTTTTTCGAAGTCCATGACT
1 TAGTGGCATCCTTTTTCAAAGTCCAT-ACT
* *
9307401 TAGTGGCATCCCTTCT-AAAGTCCA
1 TAGTGGCATCCTTTTTCAAAGTCCA
9307425 CAACTACATG
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 22 0.51
30 21 0.49
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (29 bp):
TAGTGGCATCCTTTTTCAAAGTCCATACT
Found at i:9307536 original size:41 final size:42
Alignment explanation
Indices: 9307489--9307587 Score: 116
Period size: 41 Copynumber: 2.4 Consensus size: 42
9307479 CACCTTTCAA
9307489 TCCTCAAAGAGTAGGATACACTTTT-TTCCTC-TTTTCCTTTG
1 TCCTCAAAGAGTAGGAT-CACTTTTCTTCCTCTTTTTCCTTTG
* * * *
9307530 TTCTC-AAGTAGTATG-TCCCTTTTCTTTCTCTTTTTCCTTTG
1 TCCTCAAAG-AGTAGGATCACTTTTCTTCCTCTTTTTCCTTTG
9307571 TCCTCAAAGAGTAGGAT
1 TCCTCAAAGAGTAGGAT
9307588 TCCTACTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
39 6 0.13
40 9 0.19
41 28 0.60
42 4 0.09
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.45
Consensus pattern (42 bp):
TCCTCAAAGAGTAGGATCACTTTTCTTCCTCTTTTTCCTTTG
Found at i:9307788 original size:41 final size:41
Alignment explanation
Indices: 9307595--9308001 Score: 183
Period size: 41 Copynumber: 9.8 Consensus size: 41
9307585 GATTCCTACT
* * * ** **
9307595 CCTTTACCCTTTGTCCTCAAAGAGCAAGATGCATTCTTTTTTT
1 CCTTTTCCCTTTGTCCTTAAGGAGCAAGATGCA--CTTAATCC
* * * * *
9307638 CCTTTTTCCTCTATCCTCAAGGAGCAAGACGCACTTAATCC
1 CCTTTTCCCTTTGTCCTTAAGGAGCAAGATGCACTTAATCC
* * * * * ** **
9307679 CCTTTTCCCCTTGT-TTTCAAAGAGTAGGATGCATTCTTTTTTT
1 CCTTTTCCCTTTGTCCTT-AAGGAGCAAGATGCA--CTTAATCC
* * *
9307722 CTTTTTTCCTTTGT-CTTGAAGGAGCAAGATGCACTTCATCC
1 CCTTTTCCCTTTGTCCTT-AAGGAGCAAGATGCACTTAATCC
* * ** **
9307763 CCTTTTCCCTTTGTCCTTAAAGAGCATGATGCATTACTTTTTTT
1 CCTTTTCCCTTTGTCCTTAAGGAGCAAGATGC---ACTTAATCC
* * * * *
9307807 CTTTTTCCCTTTGTCCTTAAGGAGTAGGACGCATTTAATCC
1 CCTTTTCCCTTTGTCCTTAAGGAGCAAGATGCACTTAATCC
* * **
9307848 CCTTTTCTCTTTGTCCTTAAGGAGCAGGACACACTTAATCC
1 CCTTTTCCCTTTGTCCTTAAGGAGCAAGATGCACTTAATCC
* * * * * * ** **
9307889 CTTTTTCCCTTTGTCCTCAATGAGCATGACGCATTTTTTTT
1 CCTTTTCCCTTTGTCCTTAAGGAGCAAGATGCACTTAATCC
* ** *
9307930 TCTTTTTTCTTTGT-CTTCAAGGAAG-AGGATGCACTTAATCC
1 CCTTTTCCCTTTGTCCTT-AAGG-AGCAAGATGCACTTAATCC
* * *
9307971 CTTTTTCCCTTTGTCATTTAGGAGCAAGATG
1 CCTTTTCCCTTTGTCCTTAAGGAGCAAGATG
9308002 TATTCTTTTT
Statistics
Matches: 263, Mismatches: 90, Indels: 24
0.70 0.24 0.06
Matches are distributed among these distances:
40 5 0.02
41 163 0.62
42 7 0.03
43 56 0.21
44 32 0.12
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (41 bp):
CCTTTTCCCTTTGTCCTTAAGGAGCAAGATGCACTTAATCC
Found at i:9307860 original size:85 final size:83
Alignment explanation
Indices: 9307595--9307873 Score: 337
Period size: 84 Copynumber: 3.3 Consensus size: 83
9307585 GATTCCTACT
* * * * *
9307595 CCTTTACCCTTTGTCCTCAAAGAGCAAGATGCATTCTTTTTTTCCTTTTTCCTCTATCCTCAAGG
1 CCTTTTCCCTTTGTCCTTAAAGAGCAAGATGCATTCTTTTTTT-CTTTTTCCTTTGTCCTTAAGG
9307660 AGCAAGACGCACTTAATCC
65 AGCAAGACGCACTTAATCC
* * * *
9307679 CCTTTTCCCCTTGT-TTTCAAAGAGTAGGATGCATTCTTTTTTTCTTTTTTCCTTTGT-CTTGAA
1 CCTTTTCCCTTTGTCCTT-AAAGAGCAAGATGCATTCTTTTTTTC-TTTTTCCTTTGTCCTT-AA
* *
9307742 GGAGCAAGATGCACTTCATCC
63 GGAGCAAGACGCACTTAATCC
*
9307763 CCTTTTCCCTTTGTCCTTAAAGAGCATGATGCATTACTTTTTTTCTTTTTCCCTTTGTCCTTAAG
1 CCTTTTCCCTTTGTCCTTAAAGAGCAAGATGCATT-CTTTTTTTCTTTTT-CCTTTGTCCTTAAG
* * *
9307828 GAGTAGGACGCATTTAATCC
64 GAGCAAGACGCACTTAATCC
* *
9307848 CCTTTTCTCTTTGTCCTTAAGGAGCA
1 CCTTTTCCCTTTGTCCTTAAAGAGCA
9307874 GGACACACTT
Statistics
Matches: 166, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
83 4 0.02
84 99 0.60
85 60 0.36
86 3 0.02
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.41
Consensus pattern (83 bp):
CCTTTTCCCTTTGTCCTTAAAGAGCAAGATGCATTCTTTTTTTCTTTTTCCTTTGTCCTTAAGGA
GCAAGACGCACTTAATCC
Found at i:9307883 original size:126 final size:122
Alignment explanation
Indices: 9307725--9307999 Score: 331
Period size: 126 Copynumber: 2.2 Consensus size: 122
9307715 TTTTTTTCTT
** * *
9307725 TTTTCCTTTGT-CTTGAAGGAGCAAGATGCACTTCATCCCCTTTTCCCTTTGTCCTTAAAGAGCA
1 TTTTCCTTTGTCCTT-AAGGAGCAAGACACACTTAATCCCCTTTTCCCTTTGTCCTCAAAGAGCA
* *
9307789 TGATGCATTACTTTTTTTCTTTTTCCCTTTGTCCTT-AAGG-AGTAGGACGCATTTAATCCCC
65 TGACGCATT--TTTTTTTCTTTTT-CCTTTGT-CTTCAAGGAAG-AGGACGCACTTAATCCCC
* * *
9307850 TTTTCTCTTTGTCCTTAAGGAGCAGGACACACTTAATCCCTTTTTCCCTTTGTCCTCAATGAGCA
1 TTTTC-CTTTGTCCTTAAGGAGCAAGACACACTTAATCCCCTTTTCCCTTTGTCCTCAAAGAGCA
* * *
9307915 TGACGCATTTTTTTTTCTTTTTTCTTTGTCTTCAAGGAAGAGGATGCACTTAATCCCT
65 TGACGCATTTTTTTTTCTTTTTCCTTTGTCTTCAAGGAAGAGGACGCACTTAATCCCC
* *
9307973 TTTTCCCTTTGTCATTTAGGAGCAAGA
1 TTTT-CCTTTGTCCTTAAGGAGCAAGA
9308000 TGTATTCTTT
Statistics
Matches: 130, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
122 3 0.02
123 47 0.36
124 16 0.12
125 5 0.04
126 56 0.43
127 3 0.02
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (122 bp):
TTTTCCTTTGTCCTTAAGGAGCAAGACACACTTAATCCCCTTTTCCCTTTGTCCTCAAAGAGCAT
GACGCATTTTTTTTTCTTTTTCCTTTGTCTTCAAGGAAGAGGACGCACTTAATCCCC
Found at i:9307935 original size:82 final size:84
Alignment explanation
Indices: 9307807--9308116 Score: 274
Period size: 82 Copynumber: 3.7 Consensus size: 84
9307797 TACTTTTTTT
* * * ** ***
9307807 CTTTTTCCCTTTGTCCTTAAGGAGTAGGACGCA-TTTAATCCCCTTTTCT-CTTTGTCCTTAAGG
1 CTTTTTCCCTTTGTCCTCAAGGAGCAAGACGCATTTTTTTTTTCTTTTCTCCTTTGTCCTTAAGG
9307870 AGCAGGACACACTTAATCC
66 AGCAGGACACACTTAATCC
* * *
9307889 CTTTTTCCCTTTGTCCTCAATGAGCATGACGCA-TTTTTTTTTCTTTT-TTCTTTGT-CTTCAAG
1 CTTTTTCCCTTTGTCCTCAAGGAGCAAGACGCATTTTTTTTTTCTTTTCTCCTTTGTCCTT-AAG
**
9307951 GAAG-AGGATGCACTTAATCC
65 G-AGCAGGACACACTTAATCC
* ** * * * *
9307971 CTTTTTCCCTTTGTCATTTAGGAGCAAGATGTATTCTTTTTTTTTCTTTT-TCCTTTGTCCTCAC
1 CTTTTTCCCTTTGTCCTCAAGGAGCAAGACGCA-T-TTTTTTTTTCTTTTCTCCTTTGTCCTTAA
* * *
9308035 GGAGCAGGTCACACTTTATCT
64 GGAGCAGGACACACTTAATCC
* * * *
9308056 CTTTTTCCTTTTATCCTCAAGGAGTAAGACGCATTCTTTTTTTTTCCTTTCTCCTTTGTCC
1 CTTTTTCCCTTTGTCCTCAAGGAGCAAGACGCA-T-TTTTTTTTTCTTTTCTCCTTTGTCC
9308117 GCAAAGAGTA
Statistics
Matches: 184, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
81 4 0.02
82 88 0.48
83 2 0.01
84 2 0.01
85 76 0.41
86 12 0.07
ACGTcount: A:0.17, C:0.24, G:0.14, T:0.45
Consensus pattern (84 bp):
CTTTTTCCCTTTGTCCTCAAGGAGCAAGACGCATTTTTTTTTTCTTTTCTCCTTTGTCCTTAAGG
AGCAGGACACACTTAATCC
Found at i:9308079 original size:85 final size:85
Alignment explanation
Indices: 9307850--9308116 Score: 292
Period size: 85 Copynumber: 3.2 Consensus size: 85
9307840 TTTAATCCCC
* * *
9307850 TTTTCTCTTTGTCCTTAAGGAGCAGGACACACTTAATCCCTTTTTCCCTTTGTCCTCAATGAGCA
1 TTTTC-CTTTGTCCTCAAGGAGCAGGTCACACTTAATCCCTTTTTCCCTTTGTCCTCAAGGAGCA
*
9307915 TGACGCA---TTTTTTTTTCT
65 AGACGCATTCTTTTTTTTTCT
* * * * **
9307933 TTTTTCTTTGTCTTCAAGGAAG-AGGAT-GCACTTAATCCCTTTTTCCCTTTGTCATTTAGGAGC
1 TTTTCCTTTGTCCTCAAGG-AGCAGG-TCACACTTAATCCCTTTTTCCCTTTGTCCTCAAGGAGC
* *
9307996 AAGATGTATTCTTTTTTTTTCT
64 AAGACGCATTCTTTTTTTTTCT
* * * * * *
9308018 TTTTCCTTTGTCCTCACGGAGCAGGTCACACTTTATCTCTTTTTCCTTTTATCCTCAAGGAGTAA
1 TTTTCCTTTGTCCTCAAGGAGCAGGTCACACTTAATCCCTTTTTCCCTTTGTCCTCAAGGAGCAA
9308083 GACGCATTCTTTTTTTTTCCT
66 GACGCATTCTTTTTTTTT-CT
*
9308104 TTCTCCTTTGTCC
1 TTTTCCTTTGTCC
9308117 GCAAAGAGTA
Statistics
Matches: 149, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
82 51 0.34
83 6 0.04
84 3 0.02
85 75 0.50
86 14 0.09
ACGTcount: A:0.17, C:0.24, G:0.13, T:0.46
Consensus pattern (85 bp):
TTTTCCTTTGTCCTCAAGGAGCAGGTCACACTTAATCCCTTTTTCCCTTTGTCCTCAAGGAGCAA
GACGCATTCTTTTTTTTTCT
Found at i:9308186 original size:37 final size:37
Alignment explanation
Indices: 9308144--9308225 Score: 121
Period size: 36 Copynumber: 2.2 Consensus size: 37
9308134 TTTCATTCTT
* * *
9308144 CTTTTCCTTTTGTCCTTAAAAAGCAGGATGCCTACTC
1 CTTTTCCTTTTGTCCTCAAAAAGCAAGATGCCCACTC
*
9308181 CTTTTCC-TTTGTCCTCAAAGAGCAAGATGCCCACTC
1 CTTTTCCTTTTGTCCTCAAAAAGCAAGATGCCCACTC
9308217 CTTTTCCTT
1 CTTTTCCTT
9308226 CCCCTTTTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 32 0.80
37 8 0.20
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (37 bp):
CTTTTCCTTTTGTCCTCAAAAAGCAAGATGCCCACTC
Found at i:9308357 original size:31 final size:31
Alignment explanation
Indices: 9308319--9309521 Score: 876
Period size: 31 Copynumber: 38.8 Consensus size: 31
9308309 GCCTTAGAAT
*
9308319 GTCAAAGCCCACACGAGTTGGTGGCACCCAA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
** * **
9308350 GTCAAAGCCTGCACAAGTTGACGGCA-CCTAAA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCT--A
***** * * *
9308382 TGTCAAAGCTTGTTCAAGTCGGTGGCACCTTA
1 -GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * *
9308414 GTCAAAGCCCGCACAAGTTGGTAGCACCCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* *
9308445 GTCTAAGCCAACACGAGTTGGTGGCA-CCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* **
9308475 GTCAAAGCCCGCATAAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * *
9308506 GTCAAAGCCCGCACAAGTTGGTGACACCCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* ** *
9308537 GTCTAAA-CCTACATAAGTTGGTGGCAGCCTA
1 GTC-AAAGCCCACACGAGTTGGTGGCACCCTA
* * * ** *
9308568 GTCAAAGCTCTCACAAGTTGGCAGCA-CTTAA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCT-A
*
9308599 GTCTAAGCCCACACGAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* ** *
9308630 ATTTAAGCCCACAGGAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * ** * *
9308661 GTCAAAGGCCACACAAGTTGGCAGCATCCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * * *
9308692 GTCTAAGGCTACCCAAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * *
9308723 GTCAAAGGCCACACGAGTTGGCGGCACTCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
*
9308754 GTCAAAGCCCATACGAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * * * * *
9308785 GTTAAAGCTCGCACAAGTTGGCGGCACTCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
*
9308816 GTCTAAGCCCACACGAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
*** * * *
9308847 GTCAAAGCTTGCACAAGTTAGTAGCA-CCTGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCT-A
* *
9308878 GTCTAAGCCCACACGAGTTGGTGGCACCCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * *
9308909 GTCTAAGCCCACACAAGTTGGGGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * *
9308940 GTCAAAGCTCGCACAAGTTGGCGGCA-CCTAA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCT-A
* * *
9308971 GTCTAAGCCAACACGAGTTAGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* *
9309002 GTCAAAGGCCACACGAGTTGGTGGCACCTTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* ** * * *
9309033 GTCAAAGCCCGCATAAGTTGGCGACACCCCA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * *
9309064 ATTAAAGCCCACATGAGTTGGTGGCACCATA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * ** * * *
9309095 GTCAAAGCCCGCACAAGGTGACGACATCCAA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * *
9309126 GTTAAAGCCTACACGAGTTGGTGGTACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
*** * * * **
9309157 GTCAAAGCTTGCACAAGTTAGTAGCACCGGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * *
9309188 GTCTAAGCCCACACGAGTTGGTAGCACCCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
*
9309219 GTCTAAGCCCACACGAGTTGAG-GGCACCCTA
1 GTCAAAGCCCACACGAGTTG-GTGGCACCCTA
* **
9309250 GTCAAAGCTCGA-ATAAGTTGGTGGCA-CCTAA
1 GTCAAAGC-CCACACGAGTTGGTGGCACCCT-A
* ** *
9309281 GTCTAAGCTAACACGAGTTAGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* *
9309312 GTCAAAGGCCACACGAGTTGGTGGCACCTTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * *** *
9309343 GTCAAAGCTCGCACAAGTTGGCAACACCCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * * *
9309374 GTTAAAGCCCACATGAGTTGGTGACATCATA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* * * * *
9309405 GTCAAAGCCCGCACGAGGTGGTGACATCCAA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* *
9309436 GTCAAAGCCCACACGAGTTGGTGGTACTCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
* ** * * * *
9309467 GTCAAAGTCCGTACAAGTTGGTAGCAACCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTA
9309498 GTCAAAGCCCACACGAGTTGGTGG
1 GTCAAAGCCCACACGAGTTGGTGG
9309522 TACATAAGTC
Statistics
Matches: 899, Mismatches: 254, Indels: 38
0.75 0.21 0.03
Matches are distributed among these distances:
30 42 0.05
31 817 0.91
32 18 0.02
33 20 0.02
34 2 0.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (31 bp):
GTCAAAGCCCACACGAGTTGGTGGCACCCTA
Found at i:9309524 original size:62 final size:62
Alignment explanation
Indices: 9308319--9309521 Score: 966
Period size: 62 Copynumber: 19.4 Consensus size: 62
9308309 GCCTTAGAAT
* * **
9308319 GTCAAAGCCCACACGAGTTGGTGGCACCCAAGTCAAAGCCTGCACAAGTTGACGGCA-CCTAAA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCT--A
***** * * * * *
9308382 TGTCAAAGCTTGTTCAAGTCGGTGGCACCTTAGTCAAAGCCCGCACAAGTTGGTAGCACCCGA
1 -GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * *
9308445 GTCTAAGCCAACACGAGTTGGTGGCA-CCTAGTCAAAGCCCGCATAAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * * ** * *
9308506 GTCAAAGCCCGCACAAGTTGGTGACACCCGAGTCTAAA-CCTACATAAGTTGGTGGCAGCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTC-AAAGCCCGCACAAGTTGGTGGCACCCTA
* * * ** * * * *
9308568 GTCAAAGCTCTCACAAGTTGGCAGCA-CTTAAGTCTAAGCCCACACGAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCT-AGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* ** * * * ** * *
9308630 ATTTAAGCCCACAGGAGTTGGTGGCACCCTAGTCAAAGGCCACACAAGTTGGCAGCATCCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * * * * * * * *
9308692 GTCTAAGGCTACCCAAGTTGGTGGCACCCTAGTCAAAGGCCACACGAGTTGGCGGCACTCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * * * *
9308754 GTCAAAGCCCATACGAGTTGGTGGCACCCTAGTTAAAGCTCGCACAAGTTGGCGGCACTCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* ** * *
9308816 GTCTAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCTTGCACAAGTTAGTAGCA-CCTGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCT-A
* * * * *
9308878 GTCTAAGCCCACACGAGTTGGTGGCACCCGAGTCTAAGCCCACACAAGTTGGGGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * * * ** * *
9308940 GTCAAAGCTCGCACAAGTTGGCGGCA-CCTAAGTCTAAGCCAACACGAGTTAGTGGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCT-AGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * * * *
9309002 GTCAAAGGCCACACGAGTTGGTGGCACCTTAGTCAAAGCCCGCATAAGTTGGCGACACCCCA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * * * ** * * *
9309064 ATTAAAGCCCACATGAGTTGGTGGCACCATAGTCAAAGCCCGCACAAGGTGACGACATCCAA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * ** * * **
9309126 GTTAAAGCCTACACGAGTTGGTGGTACCCTAGTCAAAGCTTGCACAAGTTAGTAGCACCGGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * * * *
9309188 GTCTAAGCCCACACGAGTTGGTAGCACCCGAGTCTAAGCCCACACGAGTTGAG-GGCACCCTA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTG-GTGGCACCCTA
* ** * *** * *
9309250 GTCAAAGCTCGA-ATAAGTTGGTGGCA-CCTAAGTCTAAGCTAACACGAGTTAGTGGCACCCTA
1 GTCAAAGC-CCACACGAGTTGGTGGCACCCT-AGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * *** *
9309312 GTCAAAGGCCACACGAGTTGGTGGCACCTTAGTCAAAGCTCGCACAAGTTGGCAACACCCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * * * * * * * *
9309374 GTTAAAGCCCACATGAGTTGGTGACATCATAGTCAAAGCCCGCACGAGGTGGTGACATCCAA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
* * * * * * *
9309436 GTCAAAGCCCACACGAGTTGGTGGTACTCTAGTCAAAGTCCGTACAAGTTGGTAGCAACCGA
1 GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
9309498 GTCAAAGCCCACACGAGTTGGTGG
1 GTCAAAGCCCACACGAGTTGGTGG
9309522 TACATAAGTC
Statistics
Matches: 901, Mismatches: 222, Indels: 34
0.78 0.19 0.03
Matches are distributed among these distances:
61 63 0.07
62 776 0.86
63 16 0.02
64 44 0.05
65 2 0.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (62 bp):
GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGTTGGTGGCACCCTA
Found at i:9313881 original size:13 final size:13
Alignment explanation
Indices: 9313863--9313889 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9313853 ACATGCTGCT
9313863 TTGTATCGATACA
1 TTGTATCGATACA
9313876 TTGTATCGATACA
1 TTGTATCGATACA
9313889 T
1 T
9313890 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:9313886 original size:33 final size:32
Alignment explanation
Indices: 9313844--9313908 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
9313834 CACACCCAGA
*
9313844 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
9313877 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
9313909 GGCCAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:9313920 original size:21 final size:19
Alignment explanation
Indices: 9313874--9313930 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
9313864 TGTATCGATA
**
9313874 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGGC
9313893 CATTGTATCGATACATGGC
1 CATTGTATCGATACATGGC
9313912 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
9313931 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGGC
Found at i:9313985 original size:20 final size:19
Alignment explanation
Indices: 9313960--9314012 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
9313950 TATCACTATT
9313960 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
9313980 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
9314000 TGTATCGATACAT
1 TGTATCGATACAT
9314013 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:9320604 original size:21 final size:21
Alignment explanation
Indices: 9320563--9320601 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
9320553 CTAGGCAACC
* *
9320563 CTCTCTAGGTCGCGATCGGCA
1 CTCTCTAGGTCGCAACCGGCA
9320584 CTCTC-AGGTCGCAACCGG
1 CTCTCTAGGTCGCAACCGG
9320602 GCAGCCCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (21 bp):
CTCTCTAGGTCGCAACCGGCA
Found at i:9322029 original size:35 final size:36
Alignment explanation
Indices: 9321988--9322061 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 36
9321978 AAGGGGGAGA
*
9321988 AGATAATCGTTTAAGGGGGAGAAT-TTTTTTAGGGG
1 AGATAATCGTTTAAGGGGGAGAATATTTTTAAGGGG
9322023 AGATAATCGTTTAAGGGGGAGAATATTTTTAAGGGG
1 AGATAATCGTTTAAGGGGGAGAATATTTTTAAGGGG
9322059 AGA
1 AGA
9322062 AAAACGACGA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 24 0.65
36 13 0.35
ACGTcount: A:0.32, C:0.03, G:0.34, T:0.31
Consensus pattern (36 bp):
AGATAATCGTTTAAGGGGGAGAATATTTTTAAGGGG
Found at i:9322035 original size:17 final size:18
Alignment explanation
Indices: 9321988--9322061 Score: 64
Period size: 17 Copynumber: 4.2 Consensus size: 18
9321978 AAGGGGGAGA
9321988 AGATAATCGTTTAAGGGG
1 AGATAATCGTTTAAGGGG
* ** *
9322006 -GAGAATTTTTTTAGGGG
1 AGATAATCGTTTAAGGGG
9322023 AGATAATCGTTTAAGGGGG
1 AGATAATCGTTTAA-GGGG
*
9322042 AGA-ATAT-TTTTAAGGGG
1 AGATA-ATCGTTTAAGGGG
9322059 AGA
1 AGA
9322062 AAAACGACGA
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
17 20 0.45
18 15 0.34
19 9 0.20
ACGTcount: A:0.32, C:0.03, G:0.34, T:0.31
Consensus pattern (18 bp):
AGATAATCGTTTAAGGGG
Found at i:9322062 original size:17 final size:18
Alignment explanation
Indices: 9321997--9322062 Score: 68
Period size: 17 Copynumber: 3.8 Consensus size: 18
9321987 AAGATAATCG
9321997 TTTAAGGGGGAGAAT-TT
1 TTTAAGGGGGAGAATATT
* *
9322014 TTTTA-GGGGAG-ATAATCG
1 TTTAAGGGGGAGAAT-AT-T
9322032 TTTAAGGGGGAGAATATT
1 TTTAAGGGGGAGAATATT
9322050 TTTAA-GGGGAGAA
1 TTTAAGGGGGAGAA
9322063 AAACGACGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
15 2 0.05
16 6 0.15
17 13 0.32
18 9 0.22
19 8 0.20
20 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.35, T:0.32
Consensus pattern (18 bp):
TTTAAGGGGGAGAATATT
Found at i:9322645 original size:32 final size:33
Alignment explanation
Indices: 9322585--9322649 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
9322575 CACACCCAGA
*
9322585 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATGCTGCATTGTATCGATACAT
* *
9322618 TGTATTGATACATG-TTCATTGTATCGATACAT
1 TGTATCGATACATGCTGCATTGTATCGATACAT
9322650 GGCCAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGCTGCATTGTATCGATACAT
Found at i:9322737 original size:13 final size:13
Alignment explanation
Indices: 9322716--9322746 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9322706 CGATACATGG
*
9322716 TACAATGTATCGA
1 TACATTGTATCGA
9322729 TACATTGTATCGA
1 TACATTGTATCGA
9322742 TACAT
1 TACAT
9322747 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:9322742 original size:33 final size:32
Alignment explanation
Indices: 9322700--9322766 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
9322690 CTATCACTAT
9322700 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
9322733 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
9322766 T
1 T
9322767 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:9324775 original size:13 final size:13
Alignment explanation
Indices: 9324757--9324782 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9324747 TACAGCAAGT
9324757 ATGTATCGATACA
1 ATGTATCGATACA
9324770 ATGTATCGATACA
1 ATGTATCGATACA
9324783 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:9327030 original size:21 final size:21
Alignment explanation
Indices: 9326997--9327041 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9326987 TTGCAAGTTG
*
9326997 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
9327019 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
9327039 AAA
1 AAA
9327042 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:9328866 original size:15 final size:15
Alignment explanation
Indices: 9328846--9328876 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9328836 TAAAAATGTC
*
9328846 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
9328861 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
9328876 C
1 C
9328877 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:9330965 original size:13 final size:13
Alignment explanation
Indices: 9330947--9330985 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
9330937 ACATTTTTCT
9330947 TTGTATCGATACA
1 TTGTATCGATACA
9330960 TTGTATCGATACA
1 TTGTATCGATACA
9330973 TTGTATCGATACA
1 TTGTATCGATACA
9330986 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:9333562 original size:28 final size:29
Alignment explanation
Indices: 9333509--9333567 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
9333499 GCCAAACTTG
* *
9333509 TATCGATACACAAGTATGTATCGATACAT
1 TATCGATACAAAAATATGTATCGATACAT
9333538 TATCGATACAAAAAT-TGTATCGATACAT
1 TATCGATACAAAAATATGTATCGATACAT
9333566 TA
1 TA
9333568 GCTTGTAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (29 bp):
TATCGATACAAAAATATGTATCGATACAT
Found at i:9339217 original size:19 final size:19
Alignment explanation
Indices: 9339192--9339242 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
9339182 GTAGCCAAAC
**
9339192 TTGTATCGATACAGCAAGTA
1 TTGTATCGATACA-CAAAAA
9339212 -TGTATCGATACACAAAAA
1 TTGTATCGATACACAAAAA
9339230 TTGTATCGATACA
1 TTGTATCGATACA
9339243 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
TTGTATCGATACACAAAAA
Found at i:9342944 original size:52 final size:52
Alignment explanation
Indices: 9342796--9342924 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
9342786 CGAAATATGA
9342796 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
9342848 AAATTTGCCTGCATGTAACGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
9342900 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
9342925 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:9342951 original size:13 final size:13
Alignment explanation
Indices: 9342933--9342957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9342923 CAAAGATCAG
9342933 TGTATCGATACAA
1 TGTATCGATACAA
9342946 TGTATCGATACA
1 TGTATCGATACA
9342958 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:9343041 original size:32 final size:33
Alignment explanation
Indices: 9343000--9343064 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
9342990 TAGCTTAAAT
*
9343000 TGTATCGATACAA-AACTTATGTATTGATACAA
1 TGTATCGATACAATAACTTATGTATCGATACAA
**
9343032 TGTATCGATACAATATTTTATGTATCGATACAA
1 TGTATCGATACAATAACTTATGTATCGATACAA
9343065 ATCGTTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATAACTTATGTATCGATACAA
Found at i:9344097 original size:49 final size:49
Alignment explanation
Indices: 9343937--9344257 Score: 398
Period size: 49 Copynumber: 6.7 Consensus size: 49
9343927 AAAAGGATGT
* * *
9343937 CAATGTGCTGATTCAAGGCCAGCTACATT-GATCTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGA-CTTAAAGA---AGAAGGTGC
*
9343989 CAATATGCTGATTTAAGGCCAGCTATATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* *
9344032 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* **
9344081 CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
9344130 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* * *
9344173 CAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
*
9344222 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
9344258 GAAGGGTTGC
Statistics
Matches: 236, Mismatches: 20, Indels: 29
0.83 0.07 0.10
Matches are distributed among these distances:
43 78 0.33
44 1 0.00
48 2 0.01
49 124 0.53
52 29 0.12
53 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
Found at i:9344113 original size:92 final size:93
Alignment explanation
Indices: 9343937--9344257 Score: 370
Period size: 92 Copynumber: 3.4 Consensus size: 93
9343927 AAAAGGATGT
*
9343937 CAATGTGCTGATTCAAGGCCAGCTACATT-GATCTTAAAGATGGAAAAGGTGCCAATATGCTGAT
1 CAATATGCTGATTCAAGGCCAGCTACATTGGA-CTT-AA-A--GAAAAGGTGCCAATATGCTGAT
*
9344001 TTAAGGCCAGCTATATTGGACTT-A-AAGGTGC
61 TCAAGGCCAGCTATATTGGACTTAAGAAGGTGC
*
9344032 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA-AAGGTGCCAATATGCTGATTCAA
*
9344097 GGCCAACTATATTGGACTTAAAGGTGAAGGTGC
65 GGCCAGCTATATTGGACTT-AA---GAAGGTGC
* * *
9344130 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----AAAGGTGCCAATGTGTTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTCAAG
*
9344190 GCCAGCTACATTGGACTTAAAGAAGAAGGTGC
66 GCCAGCTATATTGGACTT----AAGAAGGTGC
* *
9344222 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
9344258 GAAGGGTTGC
Statistics
Matches: 204, Mismatches: 10, Indels: 26
0.85 0.04 0.11
Matches are distributed among these distances:
91 3 0.01
92 120 0.59
93 2 0.01
94 3 0.01
95 34 0.17
96 2 0.01
98 40 0.20
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (93 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTCAAG
GCCAGCTATATTGGACTTAAGAAGGTGC
Found at i:9344169 original size:22 final size:22
Alignment explanation
Indices: 9344144--9344211 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
9344134 ATGCTGATTC
9344144 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
9344166 AAGGTGCCA-ATGTGTT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
9344187 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
9344209 AAG
1 AAG
9344212 AAGAAGGTGC
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 9 0.28
23 5 0.16
24 4 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:9344199 original size:141 final size:143
Alignment explanation
Indices: 9343937--9344262 Score: 541
Period size: 141 Copynumber: 2.3 Consensus size: 143
9343927 AAAAGGATGT
* * *
9343937 CAATGTGCTGATTCAAGGCCAGCTACATT-GATCTTAAAGATGGAAAAGGTGCCAATATGCTGAT
1 CAATATGCTGATTCAAGGCCAGCTATATTGGA-CTTAAAGGTGG-AAAGGTGCCAATATGCTGAT
*
9344001 TTAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
64 TCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
9344066 TAAAGAAGAAGGTGC
129 TAAAGAAGAAGGTGC
*
9344081 CAATATGCTGATTCAAGGCCAACTATATTGGACTTAAAGGT-G-AAGGTGCCAATATGCTGATTC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAGGTGCCAATATGCTGATTC
*
9344144 AAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTA
66 AAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
9344209 AAGAAGAAGGTGC
131 AAGAAGAAGGTGC
*
9344222 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAGAAGG
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAGG
9344263 GTTGCCACCG
Statistics
Matches: 172, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
141 131 0.76
142 4 0.02
143 1 0.01
144 34 0.20
145 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (143 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAGGTGCCAATATGCTGATTC
AAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
AAGAAGAAGGTGC
Done.