Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 9 of 91
Found at i:2643524 original size:2 final size:2
Alignment explanation
Indices: 2643517--2643556 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2643507 NNNNNNNATA
2643517 AT AT 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 AT AT
2643557 TTTAGCCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2644258 original size:16 final size:16
Alignment explanation
Indices: 2644233--2644275 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
2644223 TTAATTTTTT
2644233 ATTAATTAAT-TTATCA
1 ATTAATTAATATT-TCA
*
2644249 ATTAAATAATATTTCA
1 ATTAATTAATATTTCA
2644265 ATTAATTAATA
1 ATTAATTAATA
2644276 AATTTTCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAATTAATATTTCA
Found at i:2656740 original size:21 final size:21
Alignment explanation
Indices: 2656714--2656757 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2656704 TAGCAAAGAG
2656714 ATTGTTTAACTGCTACCATCA
1 ATTGTTTAACTGCTACCATCA
2656735 ATTGTTTAACTGCTACCATCA
1 ATTGTTTAACTGCTACCATCA
2656756 AT
1 AT
2656758 CCATCCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (21 bp):
ATTGTTTAACTGCTACCATCA
Found at i:2657708 original size:16 final size:17
Alignment explanation
Indices: 2657676--2657715 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
2657666 TTTTATTAAT
2657676 TATTTTTTATTTATATA
1 TATTTTTTATTTATATA
2657693 TATTTTTTATTT-TATA
1 TATTTTTTATTTATATA
2657709 TATTTTT
1 TATTTTT
2657716 AATATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TATTTTTTATTTATATA
Found at i:2667531 original size:2 final size:2
Alignment explanation
Indices: 2667524--2667576 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
2667514 GGATGTAACG
2667524 AT AT AT 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 AT AT AT
2667566 AT AT AT AT AT A
1 AT AT AT AT AT A
2667577 ACTATATCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2673346 original size:12 final size:13
Alignment explanation
Indices: 2673327--2673363 Score: 67
Period size: 12 Copynumber: 2.9 Consensus size: 13
2673317 TGTAGACACC
2673327 TAAAAAAATTAAT
1 TAAAAAAATTAAT
2673340 T-AAAAAATTAAT
1 TAAAAAAATTAAT
2673352 TAAAAAAATTAA
1 TAAAAAAATTAA
2673364 ATTGTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAAAAAATTAAT
Found at i:2673659 original size:15 final size:15
Alignment explanation
Indices: 2673639--2673667 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2673629 CACAAGCAAA
2673639 AATAAAAAAAACAAC
1 AATAAAAAAAACAAC
2673654 AATAAAAAAAACAA
1 AATAAAAAAAACAA
2673668 AGCACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (15 bp):
AATAAAAAAAACAAC
Found at i:2674536 original size:2 final size:2
Alignment explanation
Indices: 2674529--2674561 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2674519 NNNNNNNNNN
2674529 AT AT AT 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 AT A
2674562 ATAAGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2674647 original size:9 final size:9
Alignment explanation
Indices: 2674625--2674696 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
2674615 AATGATAAGT
*
2674625 AAATGAAAAG
1 AAAT-AAAAA
2674635 AAATAAAAA
1 AAATAAAAA
2674644 AAATAATAATAA
1 AAAT-A-AA-AA
2674656 AAATAAAATA
1 AAATAAAA-A
**
2674666 AAATAGTAA
1 AAATAAAAA
* *
2674675 TAATAATAA
1 AAATAAAAA
2674684 AAATAAAAA
1 AAATAAAAA
2674693 AAAT
1 AAAT
2674697 GAATGAAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
9 28 0.55
10 14 0.27
11 3 0.06
12 6 0.12
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (9 bp):
AAATAAAAA
Found at i:2674660 original size:6 final size:6
Alignment explanation
Indices: 2674642--2674692 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
2674632 AAGAAATAAA
* ** *
2674642 AAAAAT AATAAT AAAAAT -AAAAT -AAAAT AGTAAT AATAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
2674688 AAAAA
1 AAAAA
2674693 AAATGAATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 10 0.26
6 28 0.74
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:2674675 original size:22 final size:22
Alignment explanation
Indices: 2674635--2674691 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
2674625 AAATGAAAAG
2674635 AAATAAAA-AAAATAATAATAA
1 AAATAAAATAAAATAATAATAA
*
2674656 AAATAAAATAAAATAGTAATAA
1 AAATAAAATAAAATAATAATAA
*
2674678 TAATAAAAATAAAA
1 AAAT-AAAATAAAA
2674692 AAAATGAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 8 0.25
22 15 0.47
23 9 0.28
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAATAAAATAAAATAATAATAA
Found at i:2687068 original size:62 final size:62
Alignment explanation
Indices: 2686954--2687505 Score: 784
Period size: 62 Copynumber: 8.9 Consensus size: 62
2686944 CATTAAAGAA
* * *
2686954 TTAAATCGAACCTGTTGTGAAATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTTAATTTTGT
* * * **
2687016 TTAAATCAAACTTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAAAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTTAATTTTGT
* * * *
2687078 TTAAATCGAACCTGTTGCGAGATAGGTCGAGCCTAAATTTAGTTTAAGAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTTAATTTTGT
* * * **
2687140 TTAAATCGAACCTGTTGTGAGATAGGTCGAACTTAGATTAAGTCTAAAAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTTAATTTTGT
*
2687202 CTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTTAATTTTGT
* * * * *
2687264 TTAAATCGAACATGTTATGAGATAGGTCAAGCCTAAATTAAGTTTAGGAATTTCAA--TTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTTAATTTTGT
* * *
2687324 TTAAATCGAACTTGTTGTGAGATAGGTCAAGCCTAGATTAAGTCTAGGAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTTAATTTTGT
* * * *
2687386 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTCAACTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTT-AATTTTGT
* * *
2687449 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAATCTAGAAATTTTAAT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTTAAT
2687506 CGAATTTGTT
Statistics
Matches: 434, Mismatches: 53, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
60 55 0.13
62 324 0.75
63 55 0.13
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (62 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTCTAGGAATTTTAATTTTGT
Found at i:2688805 original size:8 final size:8
Alignment explanation
Indices: 2688789--2688831 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
2688779 TGATGTGTAG
2688789 AAATAAAA
1 AAATAAAA
*
2688797 AAATTAAA
1 AAATAAAA
*
2688805 AAA-AAAT
1 AAATAAAA
2688812 AAATAAAA
1 AAATAAAA
2688820 AAATAAAA
1 AAATAAAA
2688828 AAAT
1 AAAT
2688832 GAATGAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 5 0.17
8 25 0.83
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
AAATAAAA
Found at i:2704812 original size:2 final size:2
Alignment explanation
Indices: 2704800--2704838 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2704790 AATATAATCA
2704800 AT AT A- 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 AT AT
2704839 GAAAAACGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2706193 original size:23 final size:23
Alignment explanation
Indices: 2706167--2706215 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
2706157 TGTTGTTGTG
2706167 TTTCAACAAATGTATCTATTATA
1 TTTCAACAAATGTATCTATTATA
*
2706190 TTTCAACAAATGTATCTATTGTA
1 TTTCAACAAATGTATCTATTATA
2706213 TTT
1 TTT
2706216 TAATAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (23 bp):
TTTCAACAAATGTATCTATTATA
Found at i:2706268 original size:19 final size:19
Alignment explanation
Indices: 2706220--2706268 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
2706210 GTATTTTAAT
*
2706220 AATTATG-TTTATTGAAAA
1 AATTATGTTTTATTCAAAA
2706238 AACTT-T-TATTTATTCAAAA
1 AA-TTATGT-TTTATTCAAAA
2706257 AATTATGTTTTA
1 AATTATGTTTTA
2706269 ATCTAGCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 9
0.71 0.03 0.26
Matches are distributed among these distances:
18 5 0.20
19 19 0.76
20 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (19 bp):
AATTATGTTTTATTCAAAA
Found at i:2708124 original size:18 final size:20
Alignment explanation
Indices: 2708087--2708125 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
2708077 GATTTAATCT
2708087 ACTAATATAATAAAGAATTA
1 ACTAATATAATAAAGAATTA
2708107 ACTAATA-AATAAAG-ATTA
1 ACTAATATAATAAAGAATTA
2708125 A
1 A
2708126 GGAAACATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 7 0.37
20 7 0.37
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
ACTAATATAATAAAGAATTA
Found at i:2709267 original size:24 final size:24
Alignment explanation
Indices: 2709223--2709268 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2709213 TTTGTTTAGC
*
2709223 TTTCTATATGTTTACTGTTCATAT
1 TTTCTATATGTATACTGTTCATAT
*
2709247 TTTCTATGTGTATAGCT-TTCAT
1 TTTCTATATGTATA-CTGTTCAT
2709269 TGTCATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.20, C:0.13, G:0.11, T:0.57
Consensus pattern (24 bp):
TTTCTATATGTATACTGTTCATAT
Found at i:2711701 original size:16 final size:16
Alignment explanation
Indices: 2711680--2711727 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
2711670 CTTATAAATA
*
2711680 AAATATTAATATTTTT
1 AAATATTAATATTTTC
*
2711696 AAATATTAATGATTATC
1 AAATATTAAT-ATTTTC
2711713 AAATATTAATATTTT
1 AAATATTAATATTTT
2711728 ATATAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
AAATATTAATATTTTC
Found at i:2711716 original size:17 final size:16
Alignment explanation
Indices: 2711680--2711725 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
2711670 CTTATAAATA
* *
2711680 AAATATTAATATTTTT
1 AAATATTAATATTATC
2711696 AAATATTAATGATTATC
1 AAATATTAAT-ATTATC
2711713 AAATATTAATATT
1 AAATATTAATATT
2711726 TTATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
AAATATTAATATTATC
Found at i:2711720 original size:112 final size:112
Alignment explanation
Indices: 2711598--2711822 Score: 328
Period size: 112 Copynumber: 2.0 Consensus size: 112
2711588 TATTTAAATG
* *
2711598 ATCAATTATTAATATTTTAAAAAAATTATAAATGATTAATATTTAAAAATTAATAATCATAATAT
1 ATCAAATATTAATATTTTAAAAAAATTATAAATGATTAATATTTAAAAATAAATAATCATAAT-T
* * *
2711663 -CCTTTAACTTATAAATAAAATATTAATATTTTTAA-ATATTAATGATT
65 GCATTTAAATTATAAATAAAATATTAAGATTTTTAAGA-ATTAATGATT
* * *
2711710 ATCAAATATTAATATTTTATATAAATTATAAATTATTAATATTTAAAAATAAATAATCATAATTG
1 ATCAAATATTAATATTTTAAAAAAATTATAAATGATTAATATTTAAAAATAAATAATCATAATTG
* *
2711775 TATTTAAATTATAAATAAATTATTAAGATTTTTAAGAATTAATGATT
66 CATTTAAATTATAAATAAAATATTAAGATTTTTAAGAATTAATGATT
2711822 A
1 A
2711823 AATTATAATA
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
111 1 0.01
112 99 0.98
113 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (112 bp):
ATCAAATATTAATATTTTAAAAAAATTATAAATGATTAATATTTAAAAATAAATAATCATAATTG
CATTTAAATTATAAATAAAATATTAAGATTTTTAAGAATTAATGATT
Found at i:2711737 original size:27 final size:29
Alignment explanation
Indices: 2711680--2711753 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 29
2711670 CTTATAAATA
2711680 AAATATTAATATTTTTAAATATTAATGATTAT
1 AAATATTAATA-TTTT-AATATTAA-GATTAT
2711712 CAAATATTAATATTTT-ATA-TAA-ATTAT
1 -AAATATTAATATTTTAATATTAAGATTAT
2711739 AAATTATTAATATTT
1 AAA-TATTAATATTT
2711754 AAAAATAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
26 3 0.08
27 16 0.40
29 3 0.08
30 3 0.08
32 4 0.10
33 11 0.28
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (29 bp):
AAATATTAATATTTTAATATTAAGATTAT
Found at i:2711787 original size:48 final size:47
Alignment explanation
Indices: 2711731--2711932 Score: 136
Period size: 48 Copynumber: 4.3 Consensus size: 47
2711721 ATATTTTATA
2711731 TAAATTATAAATTATTAATATTTAAA-AATAAATAATCATAATTGTATT
1 TAAATTATAAATTATTAATATTTAAATAATAAATAATCATAATTG-A-T
** * *
2711779 TAAATTATAAA-TA--AAT-TATTAAGATTTTTAAGAAT--TAA-TGAT
1 TAAATTATAAATTATTAATAT-TTAA-ATAATAAATAATCATAATTGAT
* * * * * *
2711821 TAAATTATAATAAAATAGTAATATTTAAATTATCAATTAGTAATATATTGAT
1 TAAA-T-T-ATAAATTATTAATATTTAAATAAT-AAATAATCATA-ATTGAT
2711873 TAAATTATAAATTATTAATATTTAAA-AATAAATAATCATAATAAT-ATT
1 TAAATTATAAATTATTAATATTTAAATAATAAATAATCATAAT--TGA-T
2711921 TAAATTATAAAT
1 TAAATTATAAAT
2711933 AAAATATTAA
Statistics
Matches: 121, Mismatches: 15, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
42 5 0.04
43 2 0.02
44 4 0.03
45 15 0.12
46 5 0.04
47 21 0.17
48 37 0.31
49 19 0.16
50 3 0.02
51 2 0.02
52 8 0.07
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (47 bp):
TAAATTATAAATTATTAATATTTAAATAATAAATAATCATAATTGAT
Found at i:2711800 original size:52 final size:49
Alignment explanation
Indices: 2711737--2711949 Score: 153
Period size: 52 Copynumber: 4.4 Consensus size: 49
2711727 TATATAAATT
2711737 ATAAATTATTAATATTTAAAAATAAATAATCATAATTGTATTTAAATTATAA
1 ATAAATTATTAATATTTAAAAATAAATAATCATAATTG-A-TTAAATTAT-A
* * *
2711789 ATAAATTATTAAGATTT-----TTAAGAAT--TAA-TGATTAAATTATA
1 ATAAATTATTAATATTTAAAAATAAATAATCATAATTGATTAAATTATA
* * * * * *
2711830 ATAAAATAGTAATATTTAAATTATCAATTAGTAATATATTGATTAAA-T-T-
1 ATAAATTATTAATATTTAAA-AAT-AAATAATCATA-ATTGATTAAATTATA
2711879 ATAAATTATTAATATTTAAAAATAAATAATCATAATAAT-ATTTAAATTATAA
1 ATAAATTATTAATATTTAAAAATAAATAATCATAAT--TGA-TTAAATTAT-A
*
2711931 ATAAAATATTAATACTTTA
1 ATAAATTATTAATA-TTTA
2711950 TAATGTTAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 37
0.70 0.09 0.21
Matches are distributed among these distances:
41 15 0.12
42 9 0.07
43 1 0.01
44 2 0.02
45 3 0.02
46 2 0.02
47 16 0.13
48 11 0.09
49 19 0.15
50 4 0.03
51 2 0.02
52 37 0.30
53 4 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (49 bp):
ATAAATTATTAATATTTAAAAATAAATAATCATAATTGATTAAATTATA
Found at i:2711864 original size:22 final size:22
Alignment explanation
Indices: 2711830--2711932 Score: 71
Period size: 27 Copynumber: 4.3 Consensus size: 22
2711820 TTAAATTATA
*
2711830 ATAAAATAGTAATATTTAAATT
1 ATAAATTAGTAATATTTAAATT
*
2711852 ATCAATTAGTAATATATTGATTAAATT
1 ATAAATTAGT-A-ATA-T--TTAAATT
* *
2711879 ATAAATTATTAATATTTAAAAAT
1 ATAAATTAGTAATATTT-AAATT
* *
2711902 AAATAATCATAATAATATTTAAATT
1 ATA-AAT--TAGTAATATTTAAATT
2711927 ATAAAT
1 ATAAAT
2711933 AAAATATTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
22 10 0.16
23 7 0.11
24 10 0.16
25 10 0.16
26 11 0.17
27 15 0.24
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (22 bp):
ATAAATTAGTAATATTTAAATT
Found at i:2711969 original size:42 final size:41
Alignment explanation
Indices: 2711920--2712019 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 41
2711910 ATAATAATAT
*
2711920 TTAAATTATAAATAAAATATTAATACTTTATAATG-TTAATGA
1 TTAAATTATAAATAAAATATTAATA-TTTA-AATGATCAATGA
* *
2711962 TTAAATTAGAAATAAAATATTAATATTTAAATGATCAATTA
1 TTAAATTATAAATAAAATATTAATATTTAAATGATCAATGA
*
2712003 TTAATATTTTAAATAAA
1 TTAA-ATTATAAATAAA
2712020 TTATAAATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 4 0.08
41 13 0.25
42 34 0.67
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (41 bp):
TTAAATTATAAATAAAATATTAATATTTAAATGATCAATGA
Found at i:2712028 original size:27 final size:27
Alignment explanation
Indices: 2711989--2712245 Score: 78
Period size: 27 Copynumber: 9.0 Consensus size: 27
2711979 TATTAATATT
* *
2711989 TAAATGATCAATTATTAATATTTTAAA
1 TAAATTATAAATTATTAATATTTTAAA
* *
2712016 TAAATTATAAATTATAAATATTTAAAAAA
1 TAAATTATAAATTATTAATATTT--TAAA
* * * *
2712045 TAAA-AAAAAATCATAATAACATTTATTATAA
1 TAAATTATAAAT--TATTAATA-TT-TTA-AA
* * *
2712076 TAAAATATTAATACTT-TATAATATTAATAAT
1 TAAATTA-TAA-A-TTAT-TAATATT-TTAAA
* * *
2712107 TAAATTATAAATAAAATAACATTATT---
1 TAAATTATAAAT-TATTAATATT-TTAAA
*
2712133 TAAATTATCAATTATTAATATTTGT-AA
1 TAAATTATAAATTATTAATATTT-TAAA
*
2712160 TAAATTATAAATTATTAATATTTAAAAAA
1 TAAATTATAAATTATTAATATTT--TAAA
* * *
2712189 TAAAATAAAAATAATCATAATGATATTTAAA
1 TAAATTATAAATTAT--TAAT-AT-TTTAAA
* * *
2712220 T-TATAATAAAATATTAATATTTTAAA
1 TAAATTATAAATTATTAATATTTTAAA
2712246 ATATTAATGA
Statistics
Matches: 169, Mismatches: 38, Indels: 47
0.67 0.15 0.19
Matches are distributed among these distances:
24 1 0.01
25 8 0.05
26 17 0.10
27 44 0.26
28 10 0.06
29 30 0.18
30 16 0.09
31 23 0.14
32 9 0.05
33 9 0.05
34 1 0.01
35 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (27 bp):
TAAATTATAAATTATTAATATTTTAAA
Found at i:2712047 original size:22 final size:22
Alignment explanation
Indices: 2711879--2712048 Score: 69
Period size: 22 Copynumber: 7.2 Consensus size: 22
2711869 TGATTAAATT
2711879 ATAAATTATTAATATTT-AAAA
1 ATAAATTATTAATATTTAAAAA
2711900 ATAAATAATCATAATAATATTTAAATTATAA
1 ATAAAT--T-AT--TAATATTT-AA--A-AA
* * *
2711931 ATAAAATATTAATACTTTATAAT
1 ATAAATTATTAATA-TTTAAAAA
* * * *
2711954 GTTAATGATTAA-A-TT-AGAA
1 ATAAATTATTAATATTTAAAAA
* **
2711973 ATAAAATATTAATATTTAAATG
1 ATAAATTATTAATATTTAAAAA
*
2711995 ATCAATTATTAATATTTTAAATAAA
1 ATAAATTATTAATA-TTT-AA-AAA
*
2712020 TTATAAATTATAAATATTTAAAAA
1 --ATAAATTATTAATATTTAAAAA
2712044 ATAAA
1 ATAAA
2712049 AAAAAATCAT
Statistics
Matches: 107, Mismatches: 23, Indels: 37
0.64 0.14 0.22
Matches are distributed among these distances:
19 9 0.08
20 3 0.03
21 8 0.07
22 19 0.18
23 13 0.12
24 8 0.07
25 3 0.03
26 17 0.16
27 15 0.14
28 3 0.03
29 1 0.01
30 1 0.01
31 7 0.07
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAATTATTAATATTTAAAAA
Found at i:2712123 original size:144 final size:142
Alignment explanation
Indices: 2711707--2712283 Score: 707
Period size: 144 Copynumber: 4.0 Consensus size: 142
2711697 AATATTAATG
* * *
2711707 ATTATCAAATATTAATATTTTATATAAATTATAAATTATTAATATTTAAAAATAAATAATCATAA
1 ATTATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAATAAAAAATCATAA
** * * * *
2711772 TTGTATTTAAATTATAAATAAATTATTAAGA-TTTTTAAGAATTAATGATTAAATTAT-AATAAA
66 TAATATTT-AATTATAAATAAAATATTAATACTTTATAA-TATTAATGATTAAATTATAAATAAA
*
2711835 ATAGTAATATTTAA
129 ATATTAATATTTAA
* * * * *
2711849 ATTATCAATTAGTAATATATTGATTAAATTATAAATTATTAATATTTAAAAATAAATAATCATAA
1 ATTATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAATAAAAAATCATAA
* *
2711914 TAATATTTAAATTATAAATAAAATATTAATACTTTATAATGTTAATGATTAAATTAGAAATAAAA
66 TAATATTT-AATTATAAATAAAATATTAATACTTTATAATATTAATGATTAAATTATAAATAAAA
2711979 TATTAATATTTAA
130 TATTAATATTTAA
* *
2711992 ATGATCAATTATTAATATTTTAAATAAATTATAAATTATAAATATTTAAAAAATAAAAAAAAATC
1 ATTATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTT-AAAAAT---AAAAAATC
* *
2712057 ATAATAACATTT-ATTAT-AATAAAATATTAATACTTTATAATATTAATAATTAAATTATAAATA
62 ATAATAATATTTAATTATAAATAAAATATTAATACTTTATAATATTAATGATTAAATTATAAATA
** *
2712120 AAATAACATTATTTAA
127 AAATATTAATATTTAA
2712136 ATTATCAATTATTAATATTTGT-AATAAATTATAAATTATTAATATTTAAAAAATAAAATAAAAA
1 ATTATCAATTATTAATATTT-TAAATAAATTATAAATTATTAATATTT-----A-AAAAT-AAAA
* * * *
2712200 TAATCATAATGATATTTAAATTAT-AATAAAATATTAATATTTTAAAATATTAATGATTAAAATA
58 -AATCATAATAATATTT-AATTATAAATAAAATATTAATACTTTATAATATTAATGATTAAATTA
2712264 TAAATAAAATATTAATATTT
121 TAAATAAAATATTAATATTT
2712284 TAAAATATAA
Statistics
Matches: 380, Mismatches: 40, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
142 101 0.27
143 66 0.17
144 105 0.28
145 6 0.02
147 23 0.06
148 16 0.04
149 5 0.01
150 58 0.15
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (142 bp):
ATTATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAATAAAAAATCATAA
TAATATTTAATTATAAATAAAATATTAATACTTTATAATATTAATGATTAAATTATAAATAAAAT
ATTAATATTTAA
Found at i:2712247 original size:16 final size:14
Alignment explanation
Indices: 2712226--2712325 Score: 88
Period size: 16 Copynumber: 7.2 Consensus size: 14
2712216 TAAATTATAA
2712226 TAAAATATTAATATTT
1 TAAAATATTAATA--T
2712242 TAAAATATTAATGAT
1 TAAAATATTAAT-AT
2712257 TAAAATA-TAA-A-
1 TAAAATATTAATAT
2712268 TAAAATATTAATATTT
1 TAAAATATTAATA--T
2712284 TAAAATA-TAA-A-
1 TAAAATATTAATAT
2712295 TAAAATATT-ATAT
1 TAAAATATTAATAT
*
2712308 TTAAATGATTAATAT
1 TAAAAT-ATTAATAT
2712323 TAA
1 TAA
2712326 TATTTTAAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 23
0.74 0.02 0.24
Matches are distributed among these distances:
11 15 0.21
12 6 0.08
13 6 0.08
14 7 0.10
15 17 0.24
16 19 0.27
17 1 0.01
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
TAAAATATTAATAT
Found at i:2712274 original size:26 final size:26
Alignment explanation
Indices: 2712242--2712312 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 26
2712232 ATTAATATTT
2712242 TAAAATATTAATGA-TTAAAATATAAA
1 TAAAATATTAAT-ATTTAAAATATAAA
2712268 TAAAATATTAATATTTTAAAATATAAA
1 TAAAATATTAATA-TTTAAAATATAAA
2712295 TAAAATATT-ATATTTAAA
1 TAAAATATTAATATTTAAA
2712313 TGATTAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
25 7 0.16
26 15 0.35
27 21 0.49
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (26 bp):
TAAAATATTAATATTTAAAATATAAA
Found at i:2712318 original size:14 final size:14
Alignment explanation
Indices: 2712228--2712323 Score: 62
Period size: 15 Copynumber: 6.9 Consensus size: 14
2712218 AATTATAATA
2712228 AAATATTAATATTTT
1 AAATATTAATA-TTT
*
2712243 AAAATATTAATGATTA
1 -AAATATTAAT-ATTT
*
2712259 AAATA-TAA-A-TA
1 AAATATTAATATTT
2712270 AAATATTAATATTTT
1 AAATATTAATA-TTT
*
2712285 AAA-ATATAA-A-TA
1 AAATAT-TAATATTT
2712297 AAATATT-ATATTT
1 AAATATTAATATTT
2712310 AAATGATTAATATT
1 AAAT-ATTAATATT
2712324 AATATTTTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 23
0.71 0.04 0.25
Matches are distributed among these distances:
11 8 0.12
12 10 0.15
13 8 0.12
14 9 0.14
15 17 0.26
16 12 0.18
17 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
AAATATTAATATTT
Found at i:2713047 original size:27 final size:27
Alignment explanation
Indices: 2713017--2713291 Score: 218
Period size: 27 Copynumber: 10.0 Consensus size: 27
2713007 TTCCAAATGT
* *
2713017 GGAAGTGCCCAGGAGAGTTCCAAGCGA
1 GGAAGCGCCCAGGGGAGTTCCAAGCGA
* * *
2713044 GGAAGCACCCAAGGGTGTTCCAAGC-A
1 GGAAGCGCCCAGGGGAGTTCCAAGCGA
* * *
2713070 TGGAAACG-CCAAGGGAGTTCCAAGTGA
1 -GGAAGCGCCCAGGGGAGTTCCAAGCGA
*
2713097 GGAAGCGCCCAGGGGTGTTCCAAGC-A
1 GGAAGCGCCCAGGGGAGTTCCAAGCGA
*
2713123 TGGAAGCGCCTA-GGGAGTTCCAAGCGA
1 -GGAAGCGCCCAGGGGAGTTCCAAGCGA
* ** *
2713150 GGAAACGCCCAAAGGCGTTCCAAGCGA
1 GGAAGCGCCCAGGGGAGTTCCAAGCGA
*
2713177 GGAAGCGCCCAGGGGTGTTCCAAGCATGGAA
1 GGAAGCGCCCAGGGGAGTTCCAAGC---G-A
* * *
2713208 GTTTGAAAGTGCCTAGGGGAGTTCCAAACGA
1 G---G-AAGCGCCCAGGGGAGTTCCAAGCGA
*
2713239 GGAAGCGCCTAGGGGAGTTCCAAGCGTA
1 GGAAGCGCCCAGGGGAGTTCCAAGCG-A
* * *
2713267 -GAAGTGCCCAGGAGAGATCCAAGCG
1 GGAAGCGCCCAGGGGAGTTCCAAGCG
2713292 TAAAAACACC
Statistics
Matches: 200, Mismatches: 33, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
26 44 0.22
27 128 0.64
28 2 0.01
30 1 0.00
31 4 0.02
32 1 0.00
34 1 0.00
35 19 0.09
ACGTcount: A:0.29, C:0.23, G:0.35, T:0.13
Consensus pattern (27 bp):
GGAAGCGCCCAGGGGAGTTCCAAGCGA
Found at i:2713102 original size:53 final size:53
Alignment explanation
Indices: 2713000--2713201 Score: 235
Period size: 53 Copynumber: 3.8 Consensus size: 53
2712990 AAATTACCTT
*** * * *
2713000 AAGGGTGTTCCAAATGTGGAAGTGCCCAGGAGAGTTCCAAGCGAGGAAGCACCC
1 AAGGGTGTTCCAAGCATGGAAGCGCCAAGG-GAGTTCCAAGCGAGGAAGCGCCC
* *
2713054 AAGGGTGTTCCAAGCATGGAAACGCCAAGGGAGTTCCAAGTGAGGAAGCGCCC
1 AAGGGTGTTCCAAGCATGGAAGCGCCAAGGGAGTTCCAAGCGAGGAAGCGCCC
* * *
2713107 AGGGGTGTTCCAAGCATGGAAGCGCCTAGGGAGTTCCAAGCGAGGAAACGCCC
1 AAGGGTGTTCCAAGCATGGAAGCGCCAAGGGAGTTCCAAGCGAGGAAGCGCCC
* * * *
2713160 AAAGGCGTTCCAAGCGA-GGAAGCGCCCAGGGGTGTTCCAAGC
1 AAGGGTGTTCCAAGC-ATGGAAGCG-CCAAGGGAGTTCCAAGC
2713202 ATGGAAGTTT
Statistics
Matches: 127, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
53 88 0.69
54 39 0.31
ACGTcount: A:0.28, C:0.24, G:0.35, T:0.13
Consensus pattern (53 bp):
AAGGGTGTTCCAAGCATGGAAGCGCCAAGGGAGTTCCAAGCGAGGAAGCGCCC
Found at i:2713170 original size:80 final size:80
Alignment explanation
Indices: 2713006--2713208 Score: 259
Period size: 80 Copynumber: 2.5 Consensus size: 80
2712996 CCTTAAGGGT
* * * * * *
2713006 GTTCCAAATGTGGAAGTGCCCAGGAGAGTTCCAAGCGA-GGAAGCACCCAAGGGTGTTCCAAGCA
1 GTTCCAAGTGAGGAAGCGCCCAGGGGTGTTCCAAGC-ATGGAAGCACCCAAGGGAGTTCCAAGCA
*
2713070 TGGAAACGCCAAGGGA
65 TGGAAACGCCAAAGGA
* *
2713086 GTTCCAAGTGAGGAAGCGCCCAGGGGTGTTCCAAGCATGGAAGC-GCCTAGGGAGTTCCAAGCGA
1 GTTCCAAGTGAGGAAGCGCCCAGGGGTGTTCCAAGCATGGAAGCACCCAAGGGAGTTCCAAGC-A
*
2713150 -GGAAACGCCCAAAGGC
65 TGGAAACG-CCAAAGGA
*
2713166 GTTCCAAGCGAGGAAGCGCCCAGGGGTGTTCCAAGCATGGAAG
1 GTTCCAAGTGAGGAAGCGCCCAGGGGTGTTCCAAGCATGGAAG
2713209 TTTGAAAGTG
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
79 23 0.21
80 86 0.79
ACGTcount: A:0.29, C:0.24, G:0.34, T:0.13
Consensus pattern (80 bp):
GTTCCAAGTGAGGAAGCGCCCAGGGGTGTTCCAAGCATGGAAGCACCCAAGGGAGTTCCAAGCAT
GGAAACGCCAAAGGA
Found at i:2721406 original size:39 final size:39
Alignment explanation
Indices: 2721363--2721451 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 39
2721353 TGCCTCTACG
** *
2721363 AGAAGAAGAAGAATTATGAGTAGAATCCGGAACACCCCC
1 AGAAGAAGAAGAATTACAAGTAGAATCCAGAACACCCCC
** * * *
2721402 AGAAGAAGAACCATTACAAGTAGTATTCAGAACACCCTC
1 AGAAGAAGAAGAATTACAAGTAGAATCCAGAACACCCCC
2721441 AGAAGAAGAAG
1 AGAAGAAGAAG
2721452 CATCGCGACT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (39 bp):
AGAAGAAGAAGAATTACAAGTAGAATCCAGAACACCCCC
Found at i:2721713 original size:33 final size:33
Alignment explanation
Indices: 2721636--2721714 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 33
2721626 TTTGGTTAAT
* ** * *
2721636 GGCATTCACATCATCACCTCCAACTCTAGTAGT
1 GGCATCCACATCATCACCAACAACTCTAATAGC
* *
2721669 AGCA-CTGACATCATCACCAACAACTCTAATAGC
1 GGCATC-CACATCATCACCAACAACTCTAATAGC
2721702 GGCATCCACATCA
1 GGCATCCACATCA
2721715 CCTTCACTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.34, G:0.11, T:0.22
Consensus pattern (33 bp):
GGCATCCACATCATCACCAACAACTCTAATAGC
Found at i:2725117 original size:21 final size:21
Alignment explanation
Indices: 2725088--2725127 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2725078 TAGGGAAGCA
*
2725088 TCTAAAGCTATTCTAAATGTG
1 TCTAAAGCTATCCTAAATGTG
*
2725109 TCTAGAGCTATCCTAAATG
1 TCTAAAGCTATCCTAAATG
2725128 CAGGCATTCC
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:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
TCTAAAGCTATCCTAAATGTG
Found at i:2725345 original size:24 final size:24
Alignment explanation
Indices: 2725318--2725367 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
2725308 TAAATTTTAG
2725318 AAATTATTTTCCTAGTAGGAATCT
1 AAATTATTTTCCTAGTAGGAATCT
2725342 AAATTATTTTCCTAGTAGGAATCT
1 AAATTATTTTCCTAGTAGGAATCT
2725366 AA
1 AA
2725368 CTCTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (24 bp):
AAATTATTTTCCTAGTAGGAATCT
Found at i:2725569 original size:2 final size:2
Alignment explanation
Indices: 2725564--2725590 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2725554 AAAAAAAAAA
2725564 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 A
2725591 AAGAGAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2725780 original size:27 final size:27
Alignment explanation
Indices: 2725739--2725998 Score: 229
Period size: 27 Copynumber: 9.4 Consensus size: 27
2725729 CCTTAGTGGT
* * *
2725739 GTTCCAAGCGTGGAAGTGCCCAGGAGA
1 GTTCCAAGCGAGGAAGCGCCCAGGGGA
* * * *
2725766 GTTCCAAGCGAGGAAGCACCTAGGAGT
1 GTTCCAAGCGAGGAAGCGCCCAGGGGA
* *
2725793 GTTCCAAGC-ATGGAAACG-CCAAGGGA
1 GTTCCAAGCGA-GGAAGCGCCCAGGGGA
* *
2725819 GTTCCAAGCGAGGAAGTGCCCAGGGGT
1 GTTCCAAGCGAGGAAGCGCCCAGGGGA
* ** *
2725846 GTTCCAAGCGTGGAAGTACCCAGGGGT
1 GTTCCAAGCGAGGAAGCGCCCAGGGGA
* *
2725873 GTTCCAAGCGAGGAAGCTCCCAGGGGT
1 GTTCCAAGCGAGGAAGCGCCCAGGGGA
2725900 GTTCCAAGCATGGAACCGTGGAAGCGCCCAGGGGA
1 GTTCCAAGC---G-A----GGAAGCGCCCAGGGGA
*
2725935 GTTCCAAGCGAGGAAGCGCCTAGGGGA
1 GTTCCAAGCGAGGAAGCGCCCAGGGGA
* *
2725962 GTTCTAAGCGTA-GAAGCGCCCAAGGGA
1 GTTCCAAGCG-AGGAAGCGCCCAGGGGA
2725989 GTTCCAAGCG
1 GTTCCAAGCG
2725999 TAGAAACACC
Statistics
Matches: 194, Mismatches: 27, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
26 19 0.10
27 147 0.76
28 1 0.01
30 1 0.01
31 2 0.01
32 1 0.01
35 23 0.12
ACGTcount: A:0.26, C:0.23, G:0.36, T:0.14
Consensus pattern (27 bp):
GTTCCAAGCGAGGAAGCGCCCAGGGGA
Found at i:2725888 original size:54 final size:54
Alignment explanation
Indices: 2725736--2725998 Score: 269
Period size: 54 Copynumber: 4.7 Consensus size: 54
2725726 TTACCTTAGT
* * * *
2725736 GGTGTTCCAAGCGTGGAAGTGCCCAGGAGAGTTCCAAGCGAGGAAGCACCTAGG
1 GGTGTTCCAAGCGTGGAAGTACCCAGGGGAGTTCCAAGCGAGGAAGCGCCCAGG
* * * *
2725790 AGTGTTCCAAGCATGGAA--ACGCCAAGGGAGTTCCAAGCGAGGAAGTGCCCAGG
1 GGTGTTCCAAGCGTGGAAGTAC-CCAGGGGAGTTCCAAGCGAGGAAGCGCCCAGG
* *
2725843 GGTGTTCCAAGCGTGGAAGTACCCAGGGGTGTTCCAAGCGAGGAAGCTCCCAGG
1 GGTGTTCCAAGCGTGGAAGTACCCAGGGGAGTTCCAAGCGAGGAAGCGCCCAGG
* *
2725897 GGTGTTCCAAGCATGGAACCGTGGAAGCGCCCAGGGGAGTTCCAAGCGAGGAAGCGCCTAGG
1 GGTGTTCCAAGCGTGGAA--GT---A---CCCAGGGGAGTTCCAAGCGAGGAAGCGCCCAGG
* * * ** *
2725959 GGAGTTCTAAGCGTAGAAGCGCCCAAGGGAGTTCCAAGCG
1 GGTGTTCCAAGCGTGGAAGTACCCAGGGGAGTTCCAAGCG
2725999 TAGAAACACC
Statistics
Matches: 173, Mismatches: 25, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
52 1 0.01
53 43 0.25
54 79 0.46
55 2 0.01
56 2 0.01
59 1 0.01
60 1 0.01
62 44 0.25
ACGTcount: A:0.26, C:0.23, G:0.37, T:0.14
Consensus pattern (54 bp):
GGTGTTCCAAGCGTGGAAGTACCCAGGGGAGTTCCAAGCGAGGAAGCGCCCAGG
Found at i:2725932 original size:62 final size:62
Alignment explanation
Indices: 2725854--2725970 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 62
2725844 GTGTTCCAAG
* * * *
2725854 CGTGGAAGTACCCAGGGGTGTTCCAAGCGAGGAAGCTCCCAGGGGTGTTCCAAGCATGGAAC
1 CGTGGAAGCACCCAGGGGAGTTCCAAGCGAGGAAGCGCCCAGGGGAGTTCCAAGCATGGAAC
* * *
2725916 CGTGGAAGCGCCCAGGGGAGTTCCAAGCGAGGAAGCGCCTAGGGGAGTTCTAAGC
1 CGTGGAAGCACCCAGGGGAGTTCCAAGCGAGGAAGCGCCCAGGGGAGTTCCAAGC
2725971 GTAGAAGCGC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 48 1.00
ACGTcount: A:0.24, C:0.24, G:0.38, T:0.15
Consensus pattern (62 bp):
CGTGGAAGCACCCAGGGGAGTTCCAAGCGAGGAAGCGCCCAGGGGAGTTCCAAGCATGGAAC
Found at i:2725993 original size:89 final size:89
Alignment explanation
Indices: 2725830--2725997 Score: 221
Period size: 89 Copynumber: 1.9 Consensus size: 89
2725820 TTCCAAGCGA
* * * * * *
2725830 GGAAGTGCCCAGGGGTGTTCCAAGCGTGGAAGTACCCAGGGGTGTTCCAAGCGAGGAAGCTCCCA
1 GGAAGCGCCCAGGGGAGTTCCAAGCGAGGAAGCACCCAGGGGAGTTCCAAGCGAGGAAGCGCCCA
* *
2725895 GGGGTGTTCCAAGCATGGAACCGT
66 AGGGAGTTCCAAGCATGGAACCGT
* * *
2725919 GGAAGCGCCCAGGGGAGTTCCAAGCGAGGAAGCGCCTAGGGGAGTTCTAAGCGTA-GAAGCGCCC
1 GGAAGCGCCCAGGGGAGTTCCAAGCGAGGAAGCACCCAGGGGAGTTCCAAGCG-AGGAAGCGCCC
2725983 AAGGGAGTTCCAAGC
65 AAGGGAGTTCCAAGC
2725998 GTAGAAACAC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
89 66 0.99
90 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.38, T:0.14
Consensus pattern (89 bp):
GGAAGCGCCCAGGGGAGTTCCAAGCGAGGAAGCACCCAGGGGAGTTCCAAGCGAGGAAGCGCCCA
AGGGAGTTCCAAGCATGGAACCGT
Found at i:2725999 original size:27 final size:27
Alignment explanation
Indices: 2725920--2726012 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
2725910 TGGAACCGTG
*
2725920 GAAGCGCCCAGGGGAGTTCCAAGCG-A
1 GAAGCGCCCAAGGGAGTTCCAAGCGTA
* * *
2725946 GGAAGCGCCTAGGGGAGTTCTAAGCGTA
1 -GAAGCGCCCAAGGGAGTTCCAAGCGTA
2725974 GAAGCGCCCAAGGGAGTTCCAAGCGTA
1 GAAGCGCCCAAGGGAGTTCCAAGCGTA
* *
2726001 GAAACACCCAAG
1 GAAGCGCCCAAG
2726013 AACAAATATA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.34, T:0.11
Consensus pattern (27 bp):
GAAGCGCCCAAGGGAGTTCCAAGCGTA
Found at i:2728865 original size:33 final size:33
Alignment explanation
Indices: 2728801--2728866 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
2728791 CAATGTGCCG
* *
2728801 TGTCATCATTCAATATAGCATATTAGCATGTCA
1 TGTCATCATTCAATATAGCATATAAACATGTCA
* * * *
2728834 TGTCATCATTTATTATAGTATATAAATATGTCA
1 TGTCATCATTCAATATAGCATATAAACATGTCA
2728867 CGTTAGCATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (33 bp):
TGTCATCATTCAATATAGCATATAAACATGTCA
Found at i:2732726 original size:21 final size:21
Alignment explanation
Indices: 2732702--2732744 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2732692 AATAATTAAA
*
2732702 TTAAATTGTTTTAGTTTAATT
1 TTAAATTATTTTAGTTTAATT
* *
2732723 TTAATTTATTTTATTTTAATT
1 TTAAATTATTTTAGTTTAATT
2732744 T
1 T
2732745 ACTTTAGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTAAATTATTTTAGTTTAATT
Found at i:2732738 original size:15 final size:15
Alignment explanation
Indices: 2732720--2732750 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2732710 TTTTAGTTTA
*
2732720 ATTTTAATTTATTTT
1 ATTTTAATTTACTTT
2732735 ATTTTAATTTACTTT
1 ATTTTAATTTACTTT
2732750 A
1 A
2732751 GGGAGTTAAT
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:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTAATTTACTTT
Found at i:2741390 original size:28 final size:29
Alignment explanation
Indices: 2741332--2741395 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
2741322 GTAAATTTTT
**
2741332 AAAAATTACACTTTTACCCTTGTAAAGTG
1 AAAAATTACACTTTTACCCTTAAAAAGTG
* * *
2741361 AAAAATTATATTTTTACCC-TAAAAATTG
1 AAAAATTACACTTTTACCCTTAAAAAGTG
2741389 AAAAATT
1 AAAAATT
2741396 GCCCATAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCTTAAAAAGTG
Found at i:2760008 original size:2 final size:2
Alignment explanation
Indices: 2760001--2760029 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2759991 TAATAAAGAA
2760001 AT 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 A
2760030 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2760034 original size:2 final size:2
Alignment explanation
Indices: 2760029--2760063 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
2760019 ATATATATAT
2760029 AG AG AG AG AG AG AG AG AG AG ANG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG A-G AG AG AG AG AG AG
2760064 GGGAGAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2760069 original size:15 final size:15
Alignment explanation
Indices: 2760029--2760069 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
2760019 ATATATATAT
2760029 AGAGAGA-GAGAGAG
1 AGAGAGAGGAGAGAG
*
2760043 AGAGAGANGAGAGAG
1 AGAGAGAGGAGAGAG
*
2760058 AGAGAGGGGAGA
1 AGAGAGAGGAGA
2760070 ATTCTGCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.00
Consensus pattern (15 bp):
AGAGAGAGGAGAGAG
Found at i:2761065 original size:29 final size:30
Alignment explanation
Indices: 2761032--2761088 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2761022 AACTATTAAT
* *
2761032 TATAA-AACTTATTTGATTCAAAATAAAAA
1 TATAATAACTTATTCGACTCAAAATAAAAA
*
2761061 TATAATAGCTTATTCGACTCAAAATAAA
1 TATAATAACTTATTCGACTCAAAATAAA
2761089 CATAAAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (30 bp):
TATAATAACTTATTCGACTCAAAATAAAAA
Found at i:2762799 original size:21 final size:19
Alignment explanation
Indices: 2762769--2762808 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
2762759 AAAGACATAA
*
2762769 TATTTTAAAAATGTTCTAAAT
1 TATTTAAAAAAT-TT-TAAAT
2762790 TATTTAAAAAATTTTAAAT
1 TATTTAAAAAATTTTAAAT
2762809 AAAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
TATTTAAAAAATTTTAAAT
Found at i:2763455 original size:55 final size:55
Alignment explanation
Indices: 2763321--2763529 Score: 176
Period size: 55 Copynumber: 3.8 Consensus size: 55
2763311 TTGTTACACA
* * * * * * * *
2763321 TCATGTTAAAAATTTAATTGTTACACG-CTATATTGGAAAATGTAATTGTTACATG
1 TCATGTTGAAAATTTAGTTATTACACGTC-ATGTTGAAAAATTTAATTATTACATC
* *
2763376 TCATGCT-AAAGATTTTA-TTGTTACACGTCATGTT-AAAAATTTAATTATTACATAC
1 TCATGTTGAAA-A-TTTAGTTATTACACGTCATGTTGAAAAATTTAATTATTACAT-C
* * * *
2763431 T-ATGTTGAAAAATTTAGTTATTACACATCATGTTGAAAAATATAGTTATTACATG
1 TCATGTTG-AAAATTTAGTTATTACACGTCATGTTGAAAAATTTAATTATTACATC
* * * *
2763486 TCATGTTGAAGATTTAGTTGTTACATGTCATATTGAAAAATTTA
1 TCATGTTGAAAATTTAGTTATTACACGTCATGTTGAAAAATTTA
2763530 CTTGTTATAC
Statistics
Matches: 127, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
54 27 0.21
55 69 0.54
56 31 0.24
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (55 bp):
TCATGTTGAAAATTTAGTTATTACACGTCATGTTGAAAAATTTAATTATTACATC
Found at i:2763462 original size:82 final size:82
Alignment explanation
Indices: 2763311--2763462 Score: 205
Period size: 82 Copynumber: 1.9 Consensus size: 82
2763301 TGTAATATAG
* * * * **
2763311 TTGTTACACATCATGTTAAAAATTTAATTGTTACACGCTATATTGGAAAATGTAATTGTTACATG
1 TTGTTACACATCATGTTAAAAATTTAATTATTACACACTATATTGAAAAATGTAATTATTACACA
2763376 TCATGCTAAAGATTTTA
66 TCATGCTAAAGATTTTA
* * * * *
2763393 TTGTTACACGTCATGTTAAAAATTTAATTATTACATACTATGTTGAAAAATTTAGTTATTACACA
1 TTGTTACACATCATGTTAAAAATTTAATTATTACACACTATATTGAAAAATGTAATTATTACACA
2763458 TCATG
66 TCATG
2763463 TTGAAAAATA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
82 59 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (82 bp):
TTGTTACACATCATGTTAAAAATTTAATTATTACACACTATATTGAAAAATGTAATTATTACACA
TCATGCTAAAGATTTTA
Found at i:2763471 original size:110 final size:110
Alignment explanation
Indices: 2763323--2763529 Score: 258
Period size: 110 Copynumber: 1.9 Consensus size: 110
2763313 GTTACACATC
* * * *
2763323 ATGTTAAAAATTTAATTGTTACACGCTATATTGGAAAATGTAATTGTTACATGTCATGCTAAAGA
1 ATGTTAAAAATTTAATTATTACACGCTATATTGAAAAATATAATTATTACATGTCATGCTAAAGA
*
2763388 TTTTA-TTGTTACACGTCATGTT-AAAAATTTAATTATTACATACT
66 -TTTAGTTGTTACACGTCATATTGAAAAATTTAATTATTACATACT
* * * * * *
2763432 ATGTTGAAAAATTTAGTTATTACAC-ATCATGTTGAAAAATATAGTTATTACATGTCATGTTGAA
1 ATGTT-AAAAATTTAATTATTACACGCT-ATATTGAAAAATATAATTATTACATGTCATGCTAAA
*
2763496 GATTTAGTTGTTACATGTCATATTGAAAAATTTA
64 GATTTAGTTGTTACACGTCATATTGAAAAATTTA
2763530 CTTGTTATAC
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
109 10 0.12
110 63 0.77
111 9 0.11
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (110 bp):
ATGTTAAAAATTTAATTATTACACGCTATATTGAAAAATATAATTATTACATGTCATGCTAAAGA
TTTAGTTGTTACACGTCATATTGAAAAATTTAATTATTACATACT
Found at i:2763543 original size:28 final size:28
Alignment explanation
Indices: 2763311--2763553 Score: 194
Period size: 28 Copynumber: 8.8 Consensus size: 28
2763301 TGTAATATAG
*
2763311 TTGTTACACATCATGTT-AAAAATTTAA
1 TTGTTACACGTCATGTTGAAAAATTTAA
* * *
2763338 TTGTTACACG-CTATATTGGAAAATGTAA
1 TTGTTACACGTC-ATGTTGAAAAATTTAA
* * * *
2763366 TTGTTACATGTCATGCT-AAAGATTTTA
1 TTGTTACACGTCATGTTGAAAAATTTAA
2763393 TTGTTACACGTCATGTT-AAAAATTTAA
1 TTGTTACACGTCATGTTGAAAAATTTAA
* *
2763420 TTATTACA--TACTATGTTGAAAAATTTAG
1 TTGTTACACGT-C-ATGTTGAAAAATTTAA
* * * *
2763448 TTATTACACATCATGTTGAAAAATATAG
1 TTGTTACACGTCATGTTGAAAAATTTAA
* * * *
2763476 TTATTACATGTCATGTTG-AAGATTTAG
1 TTGTTACACGTCATGTTGAAAAATTTAA
* * *
2763503 TTGTTACATGTCATATTGAAAAATTTAC
1 TTGTTACACGTCATGTTGAAAAATTTAA
* * *
2763531 TTGTTATACGTCAGGATGAAAAA
1 TTGTTACACGTCATGTTGAAAAA
2763554 GTTGTTACAC
Statistics
Matches: 176, Mismatches: 31, Indels: 17
0.79 0.14 0.08
Matches are distributed among these distances:
25 1 0.01
26 2 0.01
27 77 0.44
28 93 0.53
29 2 0.01
30 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (28 bp):
TTGTTACACGTCATGTTGAAAAATTTAA
Found at i:2767106 original size:58 final size:58
Alignment explanation
Indices: 2767037--2767149 Score: 165
Period size: 58 Copynumber: 1.9 Consensus size: 58
2767027 CTCTATAGAC
* ** *
2767037 GTACAAGCAATAGCCC-AAAATCATAACTTACATGTGTTAAAAATCAACACAAAATCAT
1 GTACAAACAATAGCCCAAAAAT-ATAACCCACATATGTTAAAAATCAACACAAAATCAT
*
2767095 GTACAAACAATAGCCCAAAAATATAGCCCACATATGTTAAAAATCAACACAAAAT
1 GTACAAACAATAGCCCAAAAATATAACCCACATATGTTAAAAATCAACACAAAAT
2767150 TTAGCATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
58 44 0.90
59 5 0.10
ACGTcount: A:0.50, C:0.21, G:0.08, T:0.20
Consensus pattern (58 bp):
GTACAAACAATAGCCCAAAAATATAACCCACATATGTTAAAAATCAACACAAAATCAT
Found at i:2767977 original size:32 final size:32
Alignment explanation
Indices: 2767860--2768019 Score: 133
Period size: 32 Copynumber: 5.2 Consensus size: 32
2767850 ATTCTCTTTC
* * *
2767860 TTCTTCAAGTCTTTTTCTTCCTTCCATTAAATT
1 TTCTTCAAGTCTCTTTCTTTCTTCTATTAAA-T
* * * * *
2767893 TTCTTTATTGT-TC-TTCTTTTTTATATTAAAC
1 TTCTTCA-AGTCTCTTTCTTTCTTCTATTAAAT
*
2767924 TTCTTCAAAT-TC--TC---CTTCTATTAAAT
1 TTCTTCAAGTCTCTTTCTTTCTTCTATTAAAT
*
2767950 TTCTTCAAGTCTCTTTCTTTCTTCTATTAAAA
1 TTCTTCAAGTCTCTTTCTTTCTTCTATTAAAT
*
2767982 TTCTTCAAGTCT-TTTCCTT-TTCTATTAAAT
1 TTCTTCAAGTCTCTTTCTTTCTTCTATTAAAT
2768012 TTCTTCAA
1 TTCTTCAA
2768020 TTTTTCTTCT
Statistics
Matches: 102, Mismatches: 18, Indels: 17
0.74 0.13 0.12
Matches are distributed among these distances:
26 18 0.18
27 2 0.02
29 4 0.04
30 21 0.21
31 12 0.12
32 36 0.35
33 7 0.07
34 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.03, T:0.56
Consensus pattern (32 bp):
TTCTTCAAGTCTCTTTCTTTCTTCTATTAAAT
Found at i:2770816 original size:98 final size:98
Alignment explanation
Indices: 2770596--2770880 Score: 372
Period size: 99 Copynumber: 2.9 Consensus size: 98
2770586 TCACTCTTAA
* * *
2770596 TCTGAAACACTTCTACCTCAATCTATTCAACTCATAAACTCTCCACCTAAATCACTGTTGCCAGA
1 TCTGAAACACTTCTACCTCAATCTATTCAACTCATAAACTCTCCACTTGAATCACT-TTTCCAGA
* * *
2770661 TAGTGAAAGTTTTCCAACAACTTGTTGGTCTCCT
65 TAGTGAAAGTCTTCCAACAACTTGTTGATCTCCC
* * * *
2770695 TTTGAAACACCTCTATCTCAATCTATTTAACTCATAAACTCTCCACTTGAATCACTTTTCCAGAT
1 TCTGAAACACTTCTACCTCAATCTATTCAACTCATAAACTCTCCACTTGAATCACTTTTCCAGAT
* * *
2770760 AGTGAAAATCTTCCAAAAACTTGTTTATCTCCC
66 AGTGAAAGTCTTCCAACAACTTGTTGATCTCCC
* * * * * * *
2770793 TCTGAAACACTTATACCTTAATCTATTCAACTTATAAACTTTCCAATTGAATTACCTTTTCCAAA
1 TCTGAAACACTTCTACCTCAATCTATTCAACTCATAAACTCTCCACTTGAATCA-CTTTTCCAGA
2770858 TAGTGAAAGTCTTCCAACAACTT
65 TAGTGAAAGTCTTCCAACAACTT
2770881 ATTCTTTTCC
Statistics
Matches: 159, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
98 79 0.50
99 80 0.50
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (98 bp):
TCTGAAACACTTCTACCTCAATCTATTCAACTCATAAACTCTCCACTTGAATCACTTTTCCAGAT
AGTGAAAGTCTTCCAACAACTTGTTGATCTCCC
Found at i:2770911 original size:99 final size:98
Alignment explanation
Indices: 2770609--2770883 Score: 262
Period size: 98 Copynumber: 2.8 Consensus size: 98
2770599 GAAACACTTC
* ** * * * * *
2770609 TACCTCAATCTATTCAACTCATAAACTCTCCACCTAAATCACTGTTGCCAGATAGTGAAAGTTTT
1 TACCTTAATCTATTCAACTCATAAACTCTCCAATTGAATCACT-TTTCCAAATAGTGAAAATCTT
* * ** * * ***
2770674 CCAACAACTTGTTGGTCTCCTTTTGAAACACCTC
65 CCAAAAACTTATTTATCTCCCTCTGAAACACAAA
* * * * *
2770708 TATCTCAATCTATTTAACTCATAAACTCTCCACTTGAATCACTTTTCCAGATAGTGAAAATCTTC
1 TACCTTAATCTATTCAACTCATAAACTCTCCAATTGAATCACTTTTCCAAATAGTGAAAATCTTC
* **
2770773 CAAAAACTTGTTTATCTCCCTCTGAAACACTTA
66 CAAAAACTTATTTATCTCCCTCTGAAACACAAA
* * * *
2770806 TACCTTAATCTATTCAACTTATAAACTTTCCAATTGAATTACCTTTTCCAAATAGTGAAAGTCTT
1 TACCTTAATCTATTCAACTCATAAACTCTCCAATTGAATCA-CTTTTCCAAATAGTGAAAATCTT
*
2770871 CCAACAACTTATT
65 CCAAAAACTTATT
2770884 CTTTTCCTTT
Statistics
Matches: 150, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
98 79 0.53
99 71 0.47
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.35
Consensus pattern (98 bp):
TACCTTAATCTATTCAACTCATAAACTCTCCAATTGAATCACTTTTCCAAATAGTGAAAATCTTC
CAAAAACTTATTTATCTCCCTCTGAAACACAAA
Found at i:2772729 original size:58 final size:58
Alignment explanation
Indices: 2772649--2772763 Score: 158
Period size: 58 Copynumber: 2.0 Consensus size: 58
2772639 ACCTTTACAA
* * * * * * *
2772649 ATGTACAAATAGTAGCCTAAAATCATAGCTTACATGTGTTAAAAATAAGCATAAAATC
1 ATGTACAAACAGAAACCCAAAATCATAGCTCACATGTGCTAAAAATAAGCACAAAATC
*
2772707 ATGTACAAACAGAAACCCAAAATCATAGCTCACATGTGCTAAAAATCAGCACAAAAT
1 ATGTACAAACAGAAACCCAAAATCATAGCTCACATGTGCTAAAAATAAGCACAAAAT
2772764 TTAACACACA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (58 bp):
ATGTACAAACAGAAACCCAAAATCATAGCTCACATGTGCTAAAAATAAGCACAAAATC
Found at i:2786788 original size:28 final size:29
Alignment explanation
Indices: 2786730--2786793 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
2786720 GTAAATTTTT
** *
2786730 AAAAATTACACTTTTGCCTCCGTAAAGTG
1 AAAAATTACACTTTTGCCTCCAAAAACTG
* *
2786759 AAAATTTACATTTTTGCC-CCAAAAACTG
1 AAAAATTACACTTTTGCCTCCAAAAACTG
2786787 AAAAATT
1 AAAAATT
2786794 GCCCATAGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (29 bp):
AAAAATTACACTTTTGCCTCCAAAAACTG
Found at i:2791140 original size:21 final size:20
Alignment explanation
Indices: 2791092--2791140 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 20
2791082 TGGTTTTATG
2791092 AATATTAATA-TTTAACTTA
1 AATATTAATATTTTAACTTA
2791111 AA-A--AA-ATTTTAACTTA
1 AATATTAATATTTTAACTTA
2791127 AGATATTAATATTT
1 A-ATATTAATATTT
2791141 AAATAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
15 1 0.04
16 12 0.50
17 1 0.04
18 2 0.08
19 2 0.08
20 2 0.08
21 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
AATATTAATATTTTAACTTA
Found at i:2809218 original size:21 final size:21
Alignment explanation
Indices: 2809179--2809220 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2809169 TGTTTTTACT
2809179 TTTTGTTTTTTTACTATTAATC
1 TTTTGTTTTTTTAC-ATTAATC
2809201 TTTTGTTTTTATTA-ATTAAT
1 TTTTGTTTTT-TTACATTAAT
2809221 GGGAATAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 10 0.53
23 3 0.16
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTGTTTTTTTACATTAATC
Found at i:2814176 original size:42 final size:42
Alignment explanation
Indices: 2814147--2814373 Score: 238
Period size: 42 Copynumber: 5.4 Consensus size: 42
2814137 CAGCTCATAT
* ** * *
2814147 GCACTCCCACTAGCACATGGTTGGGTCATCATCGGCTTATGC
1 GCACTCCCACTCGCACACAGTTGGGTCAGCATCGGCTTATAC
** * * *
2814189 GCACTCTTACTCGCACACAATCGGGTCAACATCGGCTTATAC
1 GCACTCCCACTCGCACACAGTTGGGTCAGCATCGGCTTATAC
* * * *
2814231 GCACTCCTACTCGCACATAGCTGGGTCAGCATCGGCTTATGC
1 GCACTCCCACTCGCACACAGTTGGGTCAGCATCGGCTTATAC
* *
2814273 GCACTCCCACTCGCACACAGTTGGGTCAGCATCGACTTATGC
1 GCACTCCCACTCGCACACAGTTGGGTCAGCATCGGCTTATAC
* * * * ** *
2814315 ACACTCCCACTCGCACACAGTCGGGTCAGTAACTACTTATGC
1 GCACTCCCACTCGCACACAGTTGGGTCAGCATCGGCTTATAC
*
2814357 GCACTCCTACTCGCACA
1 GCACTCCCACTCGCACA
2814374 TAGCCGAGTC
Statistics
Matches: 158, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 158 1.00
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.23
Consensus pattern (42 bp):
GCACTCCCACTCGCACACAGTTGGGTCAGCATCGGCTTATAC
Found at i:2814264 original size:84 final size:83
Alignment explanation
Indices: 2814147--2814373 Score: 274
Period size: 84 Copynumber: 2.7 Consensus size: 83
2814137 CAGCTCATAT
* * * *
2814147 GCACTCCCACTAGCACATGGTTGGGTCATCATCGGCTTATGCGCACTCTTACTCGCACACAATCG
1 GCACTCCCACTCGCACATAG-TGGGTCAGCATCGGCTTATGCGCACTCCTACTCGCACACAATCG
*
2814212 GGTCAACATCGGCTTATAC
65 GGTCAACATCGACTTATAC
* * * *
2814231 GCACTCCTACTCGCACATAGCTGGGTCAGCATCGGCTTATGCGCACTCCCACTCGCACACAGTTG
1 GCACTCCCACTCGCACATAG-TGGGTCAGCATCGGCTTATGCGCACTCCTACTCGCACACAATCG
* *
2814296 GGTCAGCATCGACTTATGC
65 GGTCAACATCGACTTATAC
* * * * **
2814315 ACACTCCCACTCGCACACAGTCGGGTCAGTAACTACTTATGCGCACTCCTACTCGCACA
1 GCACTCCCACTCGCACATAGT-GGGTCAGCATCGGCTTATGCGCACTCCTACTCGCACA
2814374 TAGCCGAGTC
Statistics
Matches: 122, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
83 1 0.01
84 121 0.99
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.23
Consensus pattern (83 bp):
GCACTCCCACTCGCACATAGTGGGTCAGCATCGGCTTATGCGCACTCCTACTCGCACACAATCGG
GTCAACATCGACTTATAC
Found at i:2814342 original size:126 final size:126
Alignment explanation
Indices: 2814147--2814377 Score: 327
Period size: 126 Copynumber: 1.8 Consensus size: 126
2814137 CAGCTCATAT
** * * * **
2814147 GCACTCCCACTAGCACATGGTTGGGTCATCATCGGCTTATGCGCACTCTTACTCGCACACAATCG
1 GCACTCCCACTAGCACACAGTTGGGTCAGCATCGACTTATGCACACTCCCACTCGCACACAATCG
* *
2814212 GGTCAACATCGGCTTATACGCACTCCTACTCGCACATAGCTGGGTCAGCATCGGCTTATGC
66 GGTCAACAACGACTTATACGCACTCCTACTCGCACATAGCTGGGTCAGCATCGGCTTATGC
* *
2814273 GCACTCCCACTCGCACACAGTTGGGTCAGCATCGACTTATGCACACTCCCACTCGCACACAGTCG
1 GCACTCCCACTAGCACACAGTTGGGTCAGCATCGACTTATGCACACTCCCACTCGCACACAATCG
** * *
2814338 GGTCAGTAACTACTTATGCGCACTCCTACTCGCACATAGC
66 GGTCAACAACGACTTATACGCACTCCTACTCGCACATAGC
2814378 CGAGTCAATA
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
126 90 1.00
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.23
Consensus pattern (126 bp):
GCACTCCCACTAGCACACAGTTGGGTCAGCATCGACTTATGCACACTCCCACTCGCACACAATCG
GGTCAACAACGACTTATACGCACTCCTACTCGCACATAGCTGGGTCAGCATCGGCTTATGC
Found at i:2814415 original size:2 final size:2
Alignment explanation
Indices: 2814408--2814442 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2814398 ACATTATTCG
2814408 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 T
2814443 CATCACAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2816592 original size:36 final size:36
Alignment explanation
Indices: 2816516--2816593 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 36
2816506 TTATTGTAAA
* *
2816516 GGTTATCACTTGATCCCGTGAAAAAGCCGTTGAAAG
1 GGTTATCACTTGATCCCATGAAAAAGCCGATGAAAG
* * * * *
2816552 GGTTATCACTTGATTCCATTAAAAAGTCGATGCAAT
1 GGTTATCACTTGATCCCATGAAAAAGCCGATGAAAG
2816588 GGTTAT
1 GGTTAT
2816594 TGCGTGATCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (36 bp):
GGTTATCACTTGATCCCATGAAAAAGCCGATGAAAG
Found at i:2819199 original size:930 final size:939
Alignment explanation
Indices: 2817363--2819232 Score: 2983
Period size: 930 Copynumber: 2.0 Consensus size: 939
2817353 AAAAGACAAA
* *
2817363 GCTATTATGGAAATGACTAGATGTTTGTTGTTTGACAAAAGATTGCCTCTAAGTTTTTGGGCTAA
1 GCTATTATGGAAATGACTAGATGTTTATTATTTGACAAAAGATTGCCTCTAAGTTTTTGGGCTAA
* * * * *
2817428 GACAGCTGATATTGTAGTGTCATTGTTGAATATCTTACCTATAAAAGCTCTTTAAGCTCAATGTC
66 AACAGCTAATATGGTAGTGTCATTGTTGAATATCTTACCTATAAAAGCTCTTTAAGCTAAATGCC
* * * *
2817493 CTTATGAAGCTTGGTATAAGGTAAAGCCATCAGTGAGTCATTTGAGAATCTTTGGTTGTGTGTGC
131 CTTATGAAGCCTGGTATAAGGTAAAGCCATCAGTGAGTCATCTAAGAATCTTTGATTGTGTGTGC
* *
2817558 TATGCTAAAGTGCTTGATGAAAAAAGGTCTAAGCTGGATACAAAGTCTAAAGTGGCCATTAACTT
196 TATGCTAAAGTACTTGATGAAAAAAGGTCTAAGCTGGATACAAAGTCTAAAGTGGCCATCAACTT
* * *
2817623 AGGATTTAATGATGTTTCCATGGGTTATAGGCTTTACAACATTATAACAAAAAAGGTATTCATCT
261 AGGATTCAATGATGTTTCCATGGGTTAAAGGCTTTACAACATTATAACAAAAAAGGTATTCATAT
*
2817688 GCAAAGATGTTAAATTCGATGAGAACTTCATGTGGAACTAGGACAAATTTGTAGTTGAAAGCTCA
326 GCAAAGATGTTAAATTCGATGAGAACTTCATGTGGAACTAGGACAAATTTGTAGTTGAAAACTCA
*
2817753 AAGAATGATGATATTGTCAATGACATATCTTTGCAAGATGAAATTCCAGATGACGAAGATGATGA
391 AAGAATGATGATATTGTCAATGACATA--TTTGC-ACAT--AATT-C-GAT-A-GAAGATGATGA
* * * *
2817818 AAACTACGCAATAAAAGGGACAAGGTTCTTACAGGAGATTTATGAGAGATGCAATCTGGTAGTAA
447 AAACTACGCAATAAAAAGGACAAGGTCCTTACAAGAGATTTATGAGAGATGAAATCTGGTAGTAA
2817883 TTGAAACTAAAAATCTTTTGGATGCAATGAAAAACAATAAATGGAGGAAAATAATGACAAATGAA
512 TTGAAACTAAAAATCTTTTGGATGCAATGAAAAACAATAAATGGAGGAAAATAATGACAAATGAA
*
2817948 ATTGAGATGATTAAGAAGGATGGCACATGGGAATTGGTTGATAAACTTGAACATCAAAAGGTGAT
577 ATTGAGATGATTAAGAAGAATGGCACATGGGAATTGGTTGATAAACTTGAACATCAAAAGGTGAT
* * * * *
2818013 TGAAGGTAAATGGGTTTGTAAGACTAAATTAAATCTAGATGGCTTGATAAACAAGTATAAAGACA
642 TGAAGGTAAACGAGTTTATAAGACTAAATTAAATCCAGATGGCTCGATAAACAAGTATAAAGACA
* * *
2818078 GATTTGTTGTTAAAGGTTGCTCTCAAGAATATGGAGTGGACTTCACTAAGACATTTGCTCTAGTG
707 GATTTGTTGTCAAAAGTTACTCTCAAGAATATGGAGTGGACTTCACTAAGACATTTGCTCTAGTG
** * **
2818143 GCTGGGCATGACACTATACCTTTTAATTGCCTTAGTTGCAAAAGAGAGTTGGACAATTAGTCATC
772 GCTACGCATGACACTATACCTTTTAATTGCCTTAGTTGAAAAAGAGAGTTAAACAATTAGTCATC
* * * **
2818208 TTCATATAAAGCTTGCATTTCTTAATGGTGTCTTATCAGAGAAAGTTTAAATTGGGCAACCAAAA
837 TTCATATAAAGCTTACATTTCTTAATGGTGTCTTATCAAAGAAAGTCTAAATTAAGCAACCAAAA
2818273 GGTTTTGTTGAGAAAGGAAAAGACGGCAAGATTTTTGG
902 GGTTTTGTTGAGAAAGGAAAAGACGGCAAGATTTTTGG
*
2818311 GCTATTTTGGAAATGACTAGATGTTTATTATTTGACAAAAGATTGCCTCTAAGTTTTTGGGCTAA
1 GCTATTATGGAAATGACTAGATGTTTATTATTTGACAAAAGATTGCCTCTAAGTTTTTGGGCTAA
* * *
2818376 AACAGCTAATATGGTATTGTCATTGTTGAATATTTTACTTATAAAAGCTCTTTAAGCTAAATGCC
66 AACAGCTAATATGGTAGTGTCATTGTTGAATATCTTACCTATAAAAGCTCTTTAAGCTAAATGCC
*
2818441 CTTATGAAGCCTGGTATAAGGTAAAGCCATCAGTGAGTCATCTAAGAATCTTTGATTGTGTGTGT
131 CTTATGAAGCCTGGTATAAGGTAAAGCCATCAGTGAGTCATCTAAGAATCTTTGATTGTGTGTGC
2818506 TATGCTAAAGTACTTGATGAAAAAAGGTCTAAGCTGGATACAAAGTCTAAAGTGGCCATCAACTT
196 TATGCTAAAGTACTTGATGAAAAAAGGTCTAAGCTGGATACAAAGTCTAAAGTGGCCATCAACTT
*
2818571 GGGATTCAATGATGTTTCCATGGGTTAAAGGCTTTACAACATTATAACAAAAAAGGTATTCATAT
261 AGGATTCAATGATGTTTCCATGGGTTAAAGGCTTTACAACATTATAACAAAAAAGGTATTCATAT
*
2818636 GCAAATATGTTAAATTCGATGAGAACTTCATGTGGAACTAGGACAAATTTGTAGTTGAAAACTCA
326 GCAAAGATGTTAAATTCGATGAGAACTTCATGTGGAACTAGGACAAATTTGTAGTTGAAAACTCA
*
2818701 AAGAATGATGATATTGTCAATGA-A-A-TT-C-CAT-A-T-GAT-GAAGATGATGAAGACTACGC
391 AAGAATGATGATATTGTCAATGACATATTTGCACATAATTCGATAGAAGATGATGAAAACTACGC
* * *
2818757 AATAAAAAGGACAAGGTCCTTACAAGAGATTTATGAGATATGAAATCTGGTGGTAATTGAAACTG
456 AATAAAAAGGACAAGGTCCTTACAAGAGATTTATGAGAGATGAAATCTGGTAGTAATTGAAACTA
* *
2818822 AAAATCTTTTGGATGCAATGTAAAACAGTAAATGGAGGAAAATAATGACAAATGAAATTGAGATG
521 AAAATCTTTTGGATGCAATGAAAAACAATAAATGGAGGAAAATAATGACAAATGAAATTGAGATG
2818887 ATTAAGAAGAATGGCACATGGGAATTGGTTGATAAACTTGCAA-ATCAAAAGGTGATTGAAGGTA
586 ATTAAGAAGAATGGCACATGGGAATTGGTTGATAAACTTG-AACATCAAAAGGTGATTGAAGGTA
2818951 AACGAGTTTATAAGACTAAATTAAATCCAGATGGCTCGATAAACAAGTATAAAG-CTAGATTTGT
650 AACGAGTTTATAAGACTAAATTAAATCCAGATGGCTCGATAAACAAGTATAAAGAC-AGATTTGT
* *
2819015 TGTCAAAAGTTACTCTCAAGAATATGTAGTGGACTTCACTAAGACATTTTCTCTAGTGGCTACGC
714 TGTCAAAAGTTACTCTCAAGAATATGGAGTGGACTTCACTAAGACATTTGCTCTAGTGGCTACGC
* * *
2819080 ATGAGA-TAATAGCTTTTAATTGCCTTAGTTGAAAAAGAGAGTTAAACAATTAGTCCTCTTCATA
779 ATGACACT-ATACCTTTTAATTGCCTTAGTTGAAAAAGAGAGTTAAACAATTAGTCATCTTCATA
* *
2819144 TAAAG-TTCACATTTCTTAATGGTGTCTTATCAAAGAAAGTCTATATTAAGCAACCAGAAGGTTT
843 TAAAGCTT-ACATTTCTTAATGGTGTCTTATCAAAGAAAGTCTAAATTAAGCAACCAAAAGGTTT
2819208 TGTTGAGAAAGGAAAAGACGGCAAG
907 TGTTGAGAAAGGAAAAGACGGCAAG
2819233 GTTTGTAATC
Statistics
Matches: 857, Mismatches: 61, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
929 4 0.00
930 450 0.53
931 2 0.00
933 3 0.00
936 1 0.00
937 1 0.00
940 2 0.00
942 1 0.00
943 2 0.00
946 1 0.00
947 1 0.00
948 389 0.45
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (939 bp):
GCTATTATGGAAATGACTAGATGTTTATTATTTGACAAAAGATTGCCTCTAAGTTTTTGGGCTAA
AACAGCTAATATGGTAGTGTCATTGTTGAATATCTTACCTATAAAAGCTCTTTAAGCTAAATGCC
CTTATGAAGCCTGGTATAAGGTAAAGCCATCAGTGAGTCATCTAAGAATCTTTGATTGTGTGTGC
TATGCTAAAGTACTTGATGAAAAAAGGTCTAAGCTGGATACAAAGTCTAAAGTGGCCATCAACTT
AGGATTCAATGATGTTTCCATGGGTTAAAGGCTTTACAACATTATAACAAAAAAGGTATTCATAT
GCAAAGATGTTAAATTCGATGAGAACTTCATGTGGAACTAGGACAAATTTGTAGTTGAAAACTCA
AAGAATGATGATATTGTCAATGACATATTTGCACATAATTCGATAGAAGATGATGAAAACTACGC
AATAAAAAGGACAAGGTCCTTACAAGAGATTTATGAGAGATGAAATCTGGTAGTAATTGAAACTA
AAAATCTTTTGGATGCAATGAAAAACAATAAATGGAGGAAAATAATGACAAATGAAATTGAGATG
ATTAAGAAGAATGGCACATGGGAATTGGTTGATAAACTTGAACATCAAAAGGTGATTGAAGGTAA
ACGAGTTTATAAGACTAAATTAAATCCAGATGGCTCGATAAACAAGTATAAAGACAGATTTGTTG
TCAAAAGTTACTCTCAAGAATATGGAGTGGACTTCACTAAGACATTTGCTCTAGTGGCTACGCAT
GACACTATACCTTTTAATTGCCTTAGTTGAAAAAGAGAGTTAAACAATTAGTCATCTTCATATAA
AGCTTACATTTCTTAATGGTGTCTTATCAAAGAAAGTCTAAATTAAGCAACCAAAAGGTTTTGTT
GAGAAAGGAAAAGACGGCAAGATTTTTGG
Found at i:2821128 original size:18 final size:18
Alignment explanation
Indices: 2821105--2821142 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2821095 ATTTTCATTC
2821105 ATTCAGAGGCATTCGAAG
1 ATTCAGAGGCATTCGAAG
2821123 ATTCAGAGGCATTCGAAG
1 ATTCAGAGGCATTCGAAG
2821141 AT
1 AT
2821143 GGGGAGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (18 bp):
ATTCAGAGGCATTCGAAG
Found at i:2821217 original size:23 final size:23
Alignment explanation
Indices: 2821190--2821336 Score: 179
Period size: 23 Copynumber: 6.3 Consensus size: 23
2821180 CTGAAGTGAA
2821190 GATCAAGCAACAACGAAGTTCGT
1 GATCAAGCAACAACGAAGTTCGT
***
2821213 GATCAAGTGGCAACGAAGTTCGT
1 GATCAAGCAACAACGAAGTTCGT
* *
2821236 GATCAAGTAACAACAAAGTTCGT
1 GATCAAGCAACAACGAAGTTCGT
**
2821259 GATCAAGCGGCAACGAAGTTCGT
1 GATCAAGCAACAACGAAGTTCGT
**
2821282 GATCAAGCGGCAACGAAGTTCGT
1 GATCAAGCAACAACGAAGTTCGT
2821305 GATCAAG-ATATCAAGCGAAGTTCGT
1 GATCAAGCA-A-CAA-CGAAGTTCGT
2821330 GATCAAG
1 GATCAAG
2821337 ATACTGCGTT
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
23 89 0.82
24 3 0.03
25 17 0.16
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (23 bp):
GATCAAGCAACAACGAAGTTCGT
Found at i:2821248 original size:46 final size:46
Alignment explanation
Indices: 2821190--2821336 Score: 213
Period size: 46 Copynumber: 3.2 Consensus size: 46
2821180 CTGAAGTGAA
2821190 GATCAAGCAACAACGAAGTTCGTGATCAAGTGGCAACGAAGTTCGT
1 GATCAAGCAACAACGAAGTTCGTGATCAAGTGGCAACGAAGTTCGT
* * *
2821236 GATCAAGTAACAACAAAGTTCGTGATCAAGCGGCAACGAAGTTCGT
1 GATCAAGCAACAACGAAGTTCGTGATCAAGTGGCAACGAAGTTCGT
** **
2821282 GATCAAGCGGCAACGAAGTTCGTGATCAAGATATCAAGCGAAGTTCGT
1 GATCAAGCAACAACGAAGTTCGTGATCAAG-TGGCAA-CGAAGTTCGT
2821330 GATCAAG
1 GATCAAG
2821337 ATACTGCGTT
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 69 0.78
47 3 0.03
48 17 0.19
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (46 bp):
GATCAAGCAACAACGAAGTTCGTGATCAAGTGGCAACGAAGTTCGT
Found at i:2821301 original size:69 final size:71
Alignment explanation
Indices: 2821190--2821336 Score: 235
Period size: 69 Copynumber: 2.1 Consensus size: 71
2821180 CTGAAGTGAA
*
2821190 GATCAAGCAACAACGAAGTTCGTGATCAAGTGGCAACGAAGTTCGTGATCAAG-TAACAA-CAAA
1 GATCAAGCAACAACGAAGTTCGTGATCAAGCGGCAACGAAGTTCGTGATCAAGATAACAAGCAAA
2821253 GTTCGT
66 GTTCGT
** * *
2821259 GATCAAGCGGCAACGAAGTTCGTGATCAAGCGGCAACGAAGTTCGTGATCAAGATATCAAGCGAA
1 GATCAAGCAACAACGAAGTTCGTGATCAAGCGGCAACGAAGTTCGTGATCAAGATAACAAGCAAA
2821324 GTTCGT
66 GTTCGT
2821330 GATCAAG
1 GATCAAG
2821337 ATACTGCGTT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 50 0.70
70 5 0.07
71 16 0.23
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (71 bp):
GATCAAGCAACAACGAAGTTCGTGATCAAGCGGCAACGAAGTTCGTGATCAAGATAACAAGCAAA
GTTCGT
Found at i:2821458 original size:51 final size:51
Alignment explanation
Indices: 2821343--2821620 Score: 371
Period size: 51 Copynumber: 5.4 Consensus size: 51
2821333 CAAGATACTG
* * * ** * *
2821343 CGTTCTTGATCAAGATTCAGTTGTGAAGACCCTTGAAGCGAGGATCAAG--
1 CGTTCGTGATCAAGACTAAGTCATGAAGACCCTTGACGCGAAGATCAAGCA
* * *
2821392 TGTTCGTGATCAAGACTAAGTCATGAAGACCTTTGACGTGAAGATCAAGCA
1 CGTTCGTGATCAAGACTAAGTCATGAAGACCCTTGACGCGAAGATCAAGCA
*
2821443 CGTTCGTGATCAAGACTAAGTCGTCATGAAGACCCTTGATGCGAAGATCAAGCA
1 CGTTCGTGATCAAGACTAA---GTCATGAAGACCCTTGACGCGAAGATCAAGCA
* *
2821497 CGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAGTA
1 CGTTCGTGATCAAGACTAAGTCATGAAGACCCTTGACGCGAAGATCAAGCA
* *
2821548 CGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGCA
1 CGTTCGTGATCAAGACTAAGTCATGAAGACCCTTGACGCGAAGATCAAGCA
*
2821599 AGTTCGTGATCAAGACTAAGTC
1 CGTTCGTGATCAAGACTAAGTC
2821621 CAAGTTCGTG
Statistics
Matches: 204, Mismatches: 20, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
49 39 0.19
51 117 0.57
54 48 0.24
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (51 bp):
CGTTCGTGATCAAGACTAAGTCATGAAGACCCTTGACGCGAAGATCAAGCA
Found at i:2821517 original size:105 final size:102
Alignment explanation
Indices: 2821343--2821620 Score: 407
Period size: 105 Copynumber: 2.7 Consensus size: 102
2821333 CAAGATACTG
* * * * * *
2821343 CGTTCTTGATCAAGATTCAGTTGTGAAGACCCTTGAAGCGAGGATCAAG--TGTTCGTGATCAAG
1 CGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGCAAGTTCGTGATCAAG
* *
2821406 ACTAAGTCATGAAGACCTTTGACGTGAAGATCAAGCA
66 ACTAAGTCATGAAGACCCTTGACGCGAAGATCAAGCA
* *
2821443 CGTTCGTGATCAAGACTAAGTCGTCATGAAGACCCTTGATGCGAAGATCAAGCACGTTCGTGATC
1 CGTTCGTGATCAAGACTAAGTCG---TGAAGACCCTTGAAGCGAAGATCAAGCAAGTTCGTGATC
* *
2821508 AAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAGTA
63 AAGACTAAGTCATGAAGACCCTTGACGCGAAGATCAAGCA
2821548 CGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGCAAGTTCGTGATCAAG
1 CGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGCAAGTTCGTGATCAAG
2821613 ACTAAGTC
66 ACTAAGTC
2821621 CAAGTTCGTG
Statistics
Matches: 160, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
100 19 0.12
102 48 0.30
103 24 0.15
105 69 0.43
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (102 bp):
CGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGCAAGTTCGTGATCAAG
ACTAAGTCATGAAGACCCTTGACGCGAAGATCAAGCA
Found at i:2831714 original size:2 final size:2
Alignment explanation
Indices: 2831707--2831750 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2831697 NNNNNNNNNN
2831707 AT AT AT 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 AT AT AT
2831749 AT
1 AT
2831751 GAACTACGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2832207 original size:40 final size:39
Alignment explanation
Indices: 2832100--2832502 Score: 238
Period size: 36 Copynumber: 10.8 Consensus size: 39
2832090 ATACCATGGT
* *
2832100 GATAATAAATTGTGTGTTATTTTAAAGAGCACCTCCCAAG
1 GATAATAAA-TGTGTGCTATTATAAAGAGCACCTCCCAAG
* *
2832140 GAT--TAACA--AGTGCTATTATAAAAAGCACC-CTCCAAG
1 GATAATAA-ATGTGTGCTATTATAAAGAGCACCTC-CCAAG
* *
2832176 GATAATTAACTGTGTGCTAGTATAAAGAGCACCTCCCAAG
1 GATAA-TAAATGTGTGCTATTATAAAGAGCACCTCCCAAG
* *
2832216 GATCAA-CAA---GTGCTATTATAAAGAGCA-TTCTCCAAG
1 GAT-AATAAATGTGTGCTATTATAAAGAGCACCTC-CCAAG
* *
2832252 GATAATAAATTGTATGCTATTTTAAAGAGCACCTCCCAAG
1 GATAATAAA-TGTGTGCTATTATAAAGAGCACCTCCCAAG
* * *
2832292 GGTCAACAAA----TGCTATTATAAAGAGTACC-CTCCAAG
1 GAT-AATAAATGTGTGCTATTATAAAGAGCACCTC-CCAAG
*
2832328 GATAATAAATTGTGTGCTATTTTAAAGAGCACCTCCCAAG
1 GATAATAAA-TGTGTGCTATTATAAAGAGCACCTCCCAAG
* ** * *
2832368 GATCAGCAA---GTGCTATTATAAAGAGCA-TTCTCCAAA
1 GATAATAAATGTGTGCTATTATAAAGAGCACCTC-CCAAG
* *
2832404 GATAATAAAT-TGTG------TGAAGAGCACCCCCCAAG
1 GATAATAAATGTGTGCTATTATAAAGAGCACCTCCCAAG
* *
2832436 GATTAAT-AA---GTGCTATGATAAAGAGCACC-CTCCGAG
1 GA-TAATAAATGTGTGCTATTATAAAGAGCACCTC-CCAAG
* *
2832472 GATAACAAATTGTGTGTTATTATAAAGAGCA
1 GATAATAAA-TGTGTGCTATTATAAAGAGCA
2832503 TCACTTTAAA
Statistics
Matches: 280, Mismatches: 42, Indels: 82
0.69 0.10 0.20
Matches are distributed among these distances:
30 3 0.01
32 16 0.06
33 5 0.02
35 17 0.06
36 121 0.43
38 6 0.02
39 5 0.02
40 96 0.34
41 11 0.04
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (39 bp):
GATAATAAATGTGTGCTATTATAAAGAGCACCTCCCAAG
Found at i:2832226 original size:76 final size:76
Alignment explanation
Indices: 2832100--2832502 Score: 516
Period size: 76 Copynumber: 5.4 Consensus size: 76
2832090 ATACCATGGT
* * * *
2832100 GATAATAAATTGTGTGTTATTTTAAAGAGCACCTCCCAAGGATTAACAAGTGCTATTATAAAAAG
1 GATAATAAATTGTGTGCTATTATAAAGAGCACCTCCCAAGGATCAACAAGTGCTATTATAAAGAG
2832165 CACCCTCCAAG
66 CACCCTCCAAG
* * *
2832176 GATAATTAACTGTGTGCTAGTATAAAGAGCACCTCCCAAGGATCAACAAGTGCTATTATAAAGAG
1 GATAATAAATTGTGTGCTATTATAAAGAGCACCTCCCAAGGATCAACAAGTGCTATTATAAAGAG
**
2832241 CATTCTCCAAG
66 CACCCTCCAAG
* * * *
2832252 GATAATAAATTGTATGCTATTTTAAAGAGCACCTCCCAAGGGTCAACAAATGCTATTATAAAGAG
1 GATAATAAATTGTGTGCTATTATAAAGAGCACCTCCCAAGGATCAACAAGTGCTATTATAAAGAG
*
2832317 TACCCTCCAAG
66 CACCCTCCAAG
* *
2832328 GATAATAAATTGTGTGCTATTTTAAAGAGCACCTCCCAAGGATCAGCAAGTGCTATTATAAAGAG
1 GATAATAAATTGTGTGCTATTATAAAGAGCACCTCCCAAGGATCAACAAGTGCTATTATAAAGAG
** *
2832393 CATTCTCCAAA
66 CACCCTCCAAG
* * * *
2832404 GATAATAAATTGTGTG--------AAGAGCACCCCCCAAGGATTAATAAGTGCTATGATAAAGAG
1 GATAATAAATTGTGTGCTATTATAAAGAGCACCTCCCAAGGATCAACAAGTGCTATTATAAAGAG
*
2832461 CACCCTCCGAG
66 CACCCTCCAAG
* *
2832472 GATAACAAATTGTGTGTTATTATAAAGAGCA
1 GATAATAAATTGTGTGCTATTATAAAGAGCA
2832503 TCACTTTAAA
Statistics
Matches: 282, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
68 58 0.21
76 224 0.79
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (76 bp):
GATAATAAATTGTGTGCTATTATAAAGAGCACCTCCCAAGGATCAACAAGTGCTATTATAAAGAG
CACCCTCCAAG
Found at i:2832461 original size:68 final size:68
Alignment explanation
Indices: 2832352--2832487 Score: 182
Period size: 68 Copynumber: 2.0 Consensus size: 68
2832342 TGCTATTTTA
* * * ** *
2832352 AAGAGCACCTCCCAAGGATCAGCAAGTGCTATTATAAAGAGCATTCTCCAAAGATAATAAATTGT
1 AAGAGCACCCCCCAAGGATCAACAAGTGCTATGATAAAGAGCACCCTCCAAAGATAACAAATTGT
2832417 GTG
66 GTG
* * * *
2832420 AAGAGCACCCCCCAAGGATTAATAAGTGCTATGATAAAGAGCACCCTCCGAGGATAACAAATTGT
1 AAGAGCACCCCCCAAGGATCAACAAGTGCTATGATAAAGAGCACCCTCCAAAGATAACAAATTGT
2832485 GTG
66 GTG
2832488 TTATTATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (68 bp):
AAGAGCACCCCCCAAGGATCAACAAGTGCTATGATAAAGAGCACCCTCCAAAGATAACAAATTGT
GTG
Found at i:2833461 original size:28 final size:28
Alignment explanation
Indices: 2833421--2833581 Score: 198
Period size: 28 Copynumber: 5.6 Consensus size: 28
2833411 TGTAATCCTA
*
2833421 ATTGCAGTATACTTCTTTAAATAGTTTT
1 ATTGCAATATACTTCTTTAAATAGTTTT
2833449 ATTGCAATATACTTCTTTAAATAGTTTT
1 ATTGCAATATACTTCTTTAAATAGTTTT
2833477 ATTGCAATATACTTCTTTAAATAG-TTT
1 ATTGCAATATACTTCTTTAAATAGTTTT
* **
2833504 ATTGCAATATACCTCTTTCAAAATTATAGCCTT
1 ATTGCAATATACTTCTTT---AA--ATAGTTTT
* *
2833537 ATTGCAATATACTTCTTCAAATAATTTT
1 ATTGCAATATACTTCTTTAAATAGTTTT
* *
2833565 GTTGCAATATACATCTT
1 ATTGCAATATACTTCTT
2833582 CCAAGATTAT
Statistics
Matches: 117, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
27 20 0.17
28 71 0.61
30 4 0.03
32 4 0.03
33 18 0.15
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (28 bp):
ATTGCAATATACTTCTTTAAATAGTTTT
Found at i:2834307 original size:18 final size:18
Alignment explanation
Indices: 2834281--2834336 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
2834271 ATTTTCATTC
*
2834281 ATTCAGAGGCATTCGAAG
1 ATTCGGAGGCATTCGAAG
2834299 ATTCGGAGGCATTCGAAG
1 ATTCGGAGGCATTCGAAG
** *
2834317 ATGGGGA-GCATTTGAAG
1 ATTCGGAGGCATTCGAAG
2834334 ATT
1 ATT
2834337 GAGAGCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
17 11 0.33
18 22 0.67
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.25
Consensus pattern (18 bp):
ATTCGGAGGCATTCGAAG
Found at i:2834333 original size:17 final size:17
Alignment explanation
Indices: 2834289--2834346 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
2834279 TCATTCAGAG
*
2834289 GCATTCGAAGATTCGGAG-
1 GCATTTGAAGA-T-GGAGA
* *
2834307 GCATTCGAAGATGGGGA
1 GCATTTGAAGATGGAGA
*
2834324 GCATTTGAAGATTGAGA
1 GCATTTGAAGATGGAGA
2834341 GCATTT
1 GCATTT
2834347 CAGAGATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.09
17 21 0.60
18 11 0.31
ACGTcount: A:0.29, C:0.12, G:0.33, T:0.26
Consensus pattern (17 bp):
GCATTTGAAGATGGAGA
Found at i:2834408 original size:23 final size:23
Alignment explanation
Indices: 2834381--2834500 Score: 179
Period size: 23 Copynumber: 5.1 Consensus size: 23
2834371 TTCTGAAGTG
2834381 AAGCAACAACGAAGTTCGTGATC
1 AAGCAACAACGAAGTTCGTGATC
*
2834404 AAGCAGCAACGAAGTTCGTGATC
1 AAGCAACAACGAAGTTCGTGATC
*
2834427 AAGTAACAACGAAGTTCGTGATC
1 AAGCAACAACGAAGTTCGTGATC
*
2834450 AAGCAGCAACGAAGTTCGTGATC
1 AAGCAACAACGAAGTTCGTGATC
2834473 AAG-ATATCAAGCGAAGTTCGTGATC
1 AAGCA-A-CAA-CGAAGTTCGTGATC
2834498 AAG
1 AAG
2834501 ATTAAGTCGT
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
22 1 0.01
23 67 0.76
24 3 0.03
25 17 0.19
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (23 bp):
AAGCAACAACGAAGTTCGTGATC
Found at i:2834437 original size:46 final size:47
Alignment explanation
Indices: 2834385--2834500 Score: 207
Period size: 46 Copynumber: 2.5 Consensus size: 47
2834375 GAAGTGAAGC
2834385 AACAACGAAGTTCGTGATCAAGCAGCAACGAAGTTCGTGATCAAG-T
1 AACAACGAAGTTCGTGATCAAGCAGCAACGAAGTTCGTGATCAAGAT
2834431 AACAACGAAGTTCGTGATCAAGCAGCAACGAAGTTCGTGATCAAGAT
1 AACAACGAAGTTCGTGATCAAGCAGCAACGAAGTTCGTGATCAAGAT
*
2834478 ATCAAGCGAAGTTCGTGATCAAG
1 AACAA-CGAAGTTCGTGATCAAG
2834501 ATTAAGTCGT
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
46 45 0.67
47 5 0.07
48 17 0.25
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (47 bp):
AACAACGAAGTTCGTGATCAAGCAGCAACGAAGTTCGTGATCAAGAT
Found at i:2834627 original size:54 final size:51
Alignment explanation
Indices: 2834478--2834649 Score: 195
Period size: 49 Copynumber: 3.3 Consensus size: 51
2834468 TGATCAAGAT
* * * *
2834478 ATCAAGCGAAGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAGG
1 ATCAAGC-ACGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAG
* * * *
2834530 ATCAAG--TGTTCGTGACCAAGACTAAGTCGTGAAGACCTTTGACGCAAAG
1 ATCAAGCACGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAG
* *
2834579 ATCAAGCACGTTCGTGATCATGACTAAGTCATCGTGAAGACCCTTGACGTGAAG
1 ATCAAGCACGTTCGTGATCAAGACTAAG---TCGTGAAGACCCTTGACGCGAAG
*
2834633 ATCAAGCACATTCGTGA
1 ATCAAGCACGTTCGTGA
2834650 CCTTTGACGC
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
49 42 0.42
51 17 0.17
52 6 0.06
54 36 0.36
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (51 bp):
ATCAAGCACGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAG
Found at i:2834654 original size:85 final size:82
Alignment explanation
Indices: 2834563--2834718 Score: 258
Period size: 85 Copynumber: 1.9 Consensus size: 82
2834553 AAGTCGTGAA
*
2834563 GACCTTTGACGCAAAGATCAAGCACGTTCGTGATCATGACTAAGTCATCGTGAAGACCCTTGACG
1 GACCTTTGACGCAAAGATCAAGCACGTTCGTGATCAAGACTAAG---TCGTGAAGACCCTTGACG
*
2834628 TGAAGATCAAGCACATTCGT
63 CGAAGATCAAGCACATTCGT
*
2834648 GACCTTTGACGCGAAGATCAAGCACGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGA
1 GACCTTTGACGCAAAGATCAAGCACGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGA
2834713 AGATCA
66 AGATCA
2834719 TGTACGTTCG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
82 26 0.38
85 42 0.62
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (82 bp):
GACCTTTGACGCAAAGATCAAGCACGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGA
AGATCAAGCACATTCGT
Found at i:2834658 original size:31 final size:31
Alignment explanation
Indices: 2834617--2834680 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
2834607 TCATCGTGAA
*
2834617 GACCCTTGACGTGAAGATCAAGCACATTCGT
1 GACCCTTGACGCGAAGATCAAGCACATTCGT
* *
2834648 GACCTTTGACGCGAAGATCAAGCACGTTCGT
1 GACCCTTGACGCGAAGATCAAGCACATTCGT
2834679 GA
1 GA
2834681 TCAAGACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (31 bp):
GACCCTTGACGCGAAGATCAAGCACATTCGT
Found at i:2834710 original size:51 final size:51
Alignment explanation
Indices: 2834648--2834795 Score: 242
Period size: 51 Copynumber: 2.9 Consensus size: 51
2834638 GCACATTCGT
*
2834648 GACCTTTGACGCGAAGATCAAGCACGTTCGTGATCAAGACTAAGTCGTGAA
1 GACCCTTGACGCGAAGATCAAGCACGTTCGTGATCAAGACTAAGTCGTGAA
* *
2834699 GACCCTTGACGCGAAGATCATGTACGTTCGTGATCAAGACTAAGTCGTGAA
1 GACCCTTGACGCGAAGATCAAGCACGTTCGTGATCAAGACTAAGTCGTGAA
* * *
2834750 GACCCTTGAAGCGAAGATCAACCAAGTTCGTGATCAAGACTAAGTC
1 GACCCTTGACGCGAAGATCAAGCACGTTCGTGATCAAGACTAAGTC
2834796 CAAGTTCGTG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 89 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (51 bp):
GACCCTTGACGCGAAGATCAAGCACGTTCGTGATCAAGACTAAGTCGTGAA
Found at i:2835816 original size:31 final size:31
Alignment explanation
Indices: 2835774--2835844 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
2835764 TTGAAGTAAA
* *
2835774 AATTTAATCTATTAAATATAGGGTTTTGTTT
1 AATTTAATCTATTAAATATAGAGTTTTGTTC
* * *
2835805 AATTTAGTCTATTTACTATAGAGTTTTGTTC
1 AATTTAATCTATTAAATATAGAGTTTTGTTC
2835836 AATTTAATC
1 AATTTAATC
2835845 CTTGTACTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (31 bp):
AATTTAATCTATTAAATATAGAGTTTTGTTC
Found at i:2835853 original size:31 final size:31
Alignment explanation
Indices: 2835774--2835871 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
2835764 TTGAAGTAAA
* * *
2835774 AATTTAATCTAT-TAAATATAGGGTTTTGTTT
1 AATTTAATCTATGT-ACTATAGAGTTTTGTTC
* *
2835805 AATTTAGTCTATTTACTATAGAGTTTTGTTC
1 AATTTAATCTATGTACTATAGAGTTTTGTTC
* *
2835836 AATTTAATCCT-TGTACTAT-GCAATTTTGTGC
1 AATTTAAT-CTATGTACTATAG-AGTTTTGTTC
2835867 AATTT
1 AATTT
2835872 GATTCCTATG
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
30 1 0.02
31 52 0.93
32 3 0.05
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (31 bp):
AATTTAATCTATGTACTATAGAGTTTTGTTC
Found at i:2836190 original size:2 final size:2
Alignment explanation
Indices: 2836183--2836258 Score: 120
Period size: 2 Copynumber: 39.0 Consensus size: 2
2836173 AATAAAGGAC
**
2836183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT -T NC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2836223 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
2836259 TATTTCTCTA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
1 2 0.03
2 67 0.97
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2837353 original size:28 final size:28
Alignment explanation
Indices: 2837321--2837376 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2837311 CTCATCTTAA
2837321 ATTTCGATGAAATAAGTTAGTGATTTTT
1 ATTTCGATGAAATAAGTTAGTGATTTTT
2837349 ATTTCGATGAAATAAGTTAGTGATTTTT
1 ATTTCGATGAAATAAGTTAGTGATTTTT
2837377 TTGTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (28 bp):
ATTTCGATGAAATAAGTTAGTGATTTTT
Found at i:2837389 original size:28 final size:28
Alignment explanation
Indices: 2837330--2837389 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
2837320 AATTTCGATG
* **
2837330 AAATAAGTTAGTGATTTTTATTTCGATG
1 AAATAAGTTAGTGATTTTTATTTCAAAA
*
2837358 AAATAAGTTAGTGATTTTT-TTGTTAAAA
1 AAATAAGTTAGTGATTTTTATT-TCAAAA
2837386 AAAT
1 AAAT
2837390 GTAATTAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (28 bp):
AAATAAGTTAGTGATTTTTATTTCAAAA
Found at i:2838192 original size:2 final size:2
Alignment explanation
Indices: 2838185--2838214 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2838175 ACCCTAGAAA
2838185 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2838215 GATTGCTACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2847098 original size:13 final size:13
Alignment explanation
Indices: 2847080--2847104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2847070 TTATCATTAC
2847080 TTTTCATATCTCA
1 TTTTCATATCTCA
2847093 TTTTCATATCTC
1 TTTTCATATCTC
2847105 TTGATTTTAT
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:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTCATATCTCA
Found at i:2849042 original size:32 final size:29
Alignment explanation
Indices: 2848961--2849031 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
2848951 TTAAAATGTC
* * *
2848961 ACAA-AATA-TTTTTGAATATGTCGTGTA
1 ACAACAATATTTTTTCAACATGGCGTGTA
2848988 ACAACAATATTTTTTCAACATGGCGTGTA
1 ACAACAATATTTTTTCAACATGGCGTGTA
2849017 ACAACAATATTTTTT
1 ACAACAATATTTTTT
2849032 TTTCATCATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 4 0.10
28 4 0.10
29 31 0.79
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (29 bp):
ACAACAATATTTTTTCAACATGGCGTGTA
Found at i:2849174 original size:45 final size:45
Alignment explanation
Indices: 2849117--2849213 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
2849107 ATTTTTTTCA
* * *
2849117 ACATGGCGTGTAACAACCTAACCATAGTTTGTCACAGGTTTTTGT
1 ACATGGCGTGTAACAACCTAACCATAGCTTGCCAAAGGTTTTTGT
* *
2849162 ATATGGCGTGTAACAAGCTAACCATAGCTTGCCAAAGGTTTTTGT
1 ACATGGCGTGTAACAACCTAACCATAGCTTGCCAAAGGTTTTTGT
2849207 ACATGGC
1 ACATGGC
2849214 TTGTCACATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (45 bp):
ACATGGCGTGTAACAACCTAACCATAGCTTGCCAAAGGTTTTTGT
Found at i:2849245 original size:114 final size:114
Alignment explanation
Indices: 2849125--2849555 Score: 468
Period size: 114 Copynumber: 3.7 Consensus size: 114
2849115 CAACATGGCG
* * * * * *
2849125 TGTAACAACCTAACCATAGTTTGTCACAGGTTTTTGTATATGGCGTGTAACAAGCTAACCATAGC
1 TGTAACAACCTAACCATGGCTTGTCACAGATTTTCGTACATTGCGTGTAACAAGCTAACCATAGC
* *
2849190 TTGCCAAAGGTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACA
66 TTGTCAAAGGTTTTTGTACATGACTTGTCACATATTTTTGTACATGACA
* * * ** *
2849239 TGTAACAAGCTAACCATGGTTTGTCACATATTTTCGTACATTGCGTGTAACACCCTAACCATTGC
1 TGTAACAACCTAACCATGGCTTGTCACAGATTTTCGTACATTGCGTGTAACAAGCTAACCATAGC
* * * * * *
2849304 TTGTCACAGGTTTTTGTATATGACATGTAACAACAGTATTTTTTTCAACATGGCG
66 TTGTCAAAGGTTTTTGTACATGACTTGT--C-ACA-TATTTTTGT--ACATGACA
* * * * * **
2849359 TATAATAACCTAACCATTGCTTGTCACAGGTTTTTGTACATAACGTGTAACAAGCTAACCATAGC
1 TGTAACAACCTAACCATGGCTTGTCACAGATTTTCGTACATTGCGTGTAACAAGCTAACCATAGC
* * *
2849424 TTGTAAAAAGTTTTTGTACATGACTTGTCACATATTTTTGTATATGACA
66 TTGTCAAAGGTTTTTGTACATGACTTGTCACATATTTTTGTACATGACA
* * * **
2849473 TGTAACAAGCTAACCATGGCTTATCACATATTTTCGTACATTGCGTGTAACACTCTAACCATTA-
1 TGTAACAACCTAACCATGGCTTGTCACAGATTTTCGTACATTGCGTGTAACAAGCTAACCA-TAG
*
2849537 CTTGTCACAGGTTTTTGTA
65 CTTGTCAAAGGTTTTTGTA
2849556 TATGGCATGT
Statistics
Matches: 255, Mismatches: 55, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
114 148 0.58
115 2 0.01
116 9 0.04
117 6 0.02
118 9 0.04
120 81 0.32
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (114 bp):
TGTAACAACCTAACCATGGCTTGTCACAGATTTTCGTACATTGCGTGTAACAAGCTAACCATAGC
TTGTCAAAGGTTTTTGTACATGACTTGTCACATATTTTTGTACATGACA
Found at i:2849272 original size:45 final size:45
Alignment explanation
Indices: 2849208--2849337 Score: 163
Period size: 45 Copynumber: 2.9 Consensus size: 45
2849198 GGTTTTTGTA
*
2849208 CATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAAC
1 CATGGCTTGTCACATATTTTTGTACATGACATGTAACAACCTAAC
* * * *
2849253 CATGGTTTGTCACATATTTTCGTACATTG-CGTGTAACACCCTAAC
1 CATGGCTTGTCACATATTTTTGTACA-TGACATGTAACAACCTAAC
* ** *
2849298 CATTGCTTGTCACAGGTTTTTGTATATGACATGTAACAAC
1 CATGGCTTGTCACATATTTTTGTACATGACATGTAACAAC
2849338 AGTATTTTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 2 0.03
45 66 0.94
46 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (45 bp):
CATGGCTTGTCACATATTTTTGTACATGACATGTAACAACCTAAC
Found at i:2849278 original size:69 final size:69
Alignment explanation
Indices: 2849145--2849279 Score: 162
Period size: 69 Copynumber: 2.0 Consensus size: 69
2849135 TAACCATAGT
* * * * * *
2849145 TTGTCACAGGTTTTTGTATATGGCGTGTAACAAGCTAACCATAGCTTGCCAAAGGTTTTTGTACA
1 TTGTCACAGATTTTTGTACATGACATGTAACAAGCTAACCATAGCTTGCCAAAGATTTTCGTACA
2849210 TGGC
66 TGGC
* * * * * *
2849214 TTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCATGGTTTGTCACATATTTTCGTACA
1 TTGTCACAGATTTTTGTACATGACATGTAACAAGCTAACCATAGCTTGCCAAAGATTTTCGTACA
2849279 T
66 T
2849280 TGCGTGTAAC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (69 bp):
TTGTCACAGATTTTTGTACATGACATGTAACAAGCTAACCATAGCTTGCCAAAGATTTTCGTACA
TGGC
Found at i:2849473 original size:234 final size:234
Alignment explanation
Indices: 2849060--2849570 Score: 797
Period size: 234 Copynumber: 2.2 Consensus size: 234
2849050 CAACCTTTTT
* * * * * * * *
2849060 TAACCATAACGTGTAACATGTTATTGTACATGACATGTAATAATAGTATTTTTTTCAACATGGCG
1 TAACCATTACTTGTCACAGGTTTTTGTATATGACATGTAACAACAGTATTTTTTTCAACATGGCG
* * * **
2849125 TGTAACAACCTAACCATAGTTTGTCACAGGTTTTTGTATATGGCGTGTAACAAGCTAACCATAGC
66 TATAACAACCTAACCATAGCTTGTCACAGGTTTTTGTACATAACGTGTAACAAGCTAACCATAGC
* * *
2849190 TTGCCAAAGGTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCA
131 TTGCAAAAAGTTTTTGTACATGACTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCA
* *
2849255 TGGTTTGTCACATATTTTCGTACATTGCGTGTAACACCC
196 TGGCTTATCACATATTTTCGTACATTGCGTGTAACACCC
*
2849294 TAACCATTGCTTGTCACAGGTTTTTGTATATGACATGTAACAACAGTATTTTTTTCAACATGGCG
1 TAACCATTACTTGTCACAGGTTTTTGTATATGACATGTAACAACAGTATTTTTTTCAACATGGCG
* *
2849359 TATAATAACCTAACCATTGCTTGTCACAGGTTTTTGTACATAACGTGTAACAAGCTAACCATAGC
66 TATAACAACCTAACCATAGCTTGTCACAGGTTTTTGTACATAACGTGTAACAAGCTAACCATAGC
* *
2849424 TTGTAAAAAGTTTTTGTACATGACTTGTCACATATTTTTGTATATGACATGTAACAAGCTAACCA
131 TTGCAAAAAGTTTTTGTACATGACTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCA
*
2849489 TGGCTTATCACATATTTTCGTACATTGCGTGTAACACTC
196 TGGCTTATCACATATTTTCGTACATTGCGTGTAACACCC
*
2849528 TAACCATTACTTGTCACAGGTTTTTGTATATGGCATGTAACAA
1 TAACCATTACTTGTCACAGGTTTTTGTATATGACATGTAACAA
2849571 GCTAACCATA
Statistics
Matches: 251, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
234 251 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (234 bp):
TAACCATTACTTGTCACAGGTTTTTGTATATGACATGTAACAACAGTATTTTTTTCAACATGGCG
TATAACAACCTAACCATAGCTTGTCACAGGTTTTTGTACATAACGTGTAACAAGCTAACCATAGC
TTGCAAAAAGTTTTTGTACATGACTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCA
TGGCTTATCACATATTTTCGTACATTGCGTGTAACACCC
Found at i:2849502 original size:45 final size:44
Alignment explanation
Indices: 2849442--2849600 Score: 174
Period size: 45 Copynumber: 3.5 Consensus size: 44
2849432 AGTTTTTGTA
2849442 CATGACTTGTCACATATTTTTGTATATGACATGTAACAAGCTAAC
1 CATGACTTGTCACATATTTTTGTATATG-CATGTAACAAGCTAAC
* * * * * **
2849487 CATGGCTTATCACATATTTTCGTACATTGCGTGTAACACTCTAAC
1 CATGACTTGTCACATATTTTTGTATA-TGCATGTAACAAGCTAAC
* **
2849532 CATTACTTGTCACAGGTTTTTGTATATGGCATGTAACAAGCTAAC
1 CATGACTTGTCACATATTTTTGTATAT-GCATGTAACAAGCTAAC
* **
2849577 CATAACTTGTCACAGGTTTTTGTA
1 CATGACTTGTCACATATTTTTGTA
2849601 CACGGCTTAT
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.01
45 91 0.97
46 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (44 bp):
CATGACTTGTCACATATTTTTGTATATGCATGTAACAAGCTAAC
Found at i:2849512 original size:69 final size:69
Alignment explanation
Indices: 2849378--2849513 Score: 166
Period size: 69 Copynumber: 2.0 Consensus size: 69
2849368 CTAACCATTG
* * * *
2849378 CTTGTCACAGGTTTTTGTACATAACGTGTAACAAGCTAACCATAGCTTGTAAAAAGTTTTTGTAC
1 CTTGTCACAGATTTTTGTACATAACATGTAACAAGCTAACCATAGCTTATAAAAAGTTTTCGTAC
2849443 ATGA
66 ATGA
* * * * * *
2849447 CTTGTCACATATTTTTGTATATGACATGTAACAAGCTAACCATGGCTTATCACATA-TTTTCGTA
1 CTTGTCACAGATTTTTGTACATAACATGTAACAAGCTAACCATAGCTTAT-AAAAAGTTTTCGTA
2849511 CAT
65 CAT
2849514 TGCGTGTAAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
69 53 0.95
70 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (69 bp):
CTTGTCACAGATTTTTGTACATAACATGTAACAAGCTAACCATAGCTTATAAAAAGTTTTCGTAC
ATGA
Found at i:2849608 original size:114 final size:114
Alignment explanation
Indices: 2849490--2849716 Score: 310
Period size: 114 Copynumber: 2.0 Consensus size: 114
2849480 AGCTAACCAT
* * ** * *
2849490 GGCTTATCACATATTTTCGTACATTGCGTGTAACACTCTAACCATTACTTGTCACAGGTTTTTGT
1 GGCTTATCACATATTTTCGTACATGGCATGTAACAAGCTAACCATGACTTGTCACAGATTTTTGT
* ** *
2849555 ATATGGCATGTAACAAGCTAACCATAACTTGTCACAGGTTTTTGTACAC
66 ACATAACATGTAACAAGCTAACCATAACTTGTCACAGATTTTTGTACAC
* * * *
2849604 GGCTTATCACATATTTTTGTGCATGGCATGTAACAAGCTAACCATGGCTTGTCACATATTTTTGT
1 GGCTTATCACATATTTTCGTACATGGCATGTAACAAGCTAACCATGACTTGTCACAGATTTTTGT
* *
2849669 ACATAACATGTAACACGCTAACCATAACTTGTCACATATTTTTGTACA
66 ACATAACATGTAACAAGCTAACCATAACTTGTCACAGATTTTTGTACA
2849717 TAGCGTGTAA
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.36
Consensus pattern (114 bp):
GGCTTATCACATATTTTCGTACATGGCATGTAACAAGCTAACCATGACTTGTCACAGATTTTTGT
ACATAACATGTAACAAGCTAACCATAACTTGTCACAGATTTTTGTACAC
Found at i:2849659 original size:159 final size:159
Alignment explanation
Indices: 2849368--2849924 Score: 729
Period size: 159 Copynumber: 3.5 Consensus size: 159
2849358 GTATAATAAC
* * * *
2849368 CTAACCATTGCTTGTCACAGGTTTTTGTACATAACGTGTAACAAGCTAACCATAGCTTGTAAAAA
1 CTAACCATTACTTGTCACAGGTTTTTGTACATAGCGTGTAACAAGCTAACCATAGCTTGTCACAA
* * *
2849433 GTTTTTGTACATGACTTGTCACATATTTTTGTATATGACATGTAACAAGCTAACCATGGCTTATC
66 GTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCATGGCTTGTC
* * *
2849498 ACATATTTTCGTACATTGCGTGTAACACT
131 ACATATTTTTGTACATAGCGTGTAACACG
* * * * *
2849527 CTAACCATTACTTGTCACAGGTTTTTGTATATGGCATGTAACAAGCTAACCATAACTTGTCACAG
1 CTAACCATTACTTGTCACAGGTTTTTGTACATAGCGTGTAACAAGCTAACCATAGCTTGTCACAA
* * * *
2849592 GTTTTTGTACACGGCTTATCACATATTTTTGTGCATGGCATGTAACAAGCTAACCATGGCTTGTC
66 GTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCATGGCTTGTC
* *
2849657 ACATATTTTTGTACATAACATGTAACACG
131 ACATATTTTTGTACATAGCGTGTAACACG
* ** * *
2849686 CTAACCATAACTTGTCACATATTTTTGTACATAGCGTGTAACACGCTAATCATAGCTTGTCACAA
1 CTAACCATTACTTGTCACAGGTTTTTGTACATAGCGTGTAACAAGCTAACCATAGCTTGTCACAA
* *
2849751 GTTTTTGTACATGGTTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCATGACTTGTC
66 GTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCATGGCTTGTC
*
2849816 ACATATTTTTGTATATAGCGTGTAACACG
131 ACATATTTTTGTACATAGCGTGTAACACG
* ** ** ** * * * * *
2849845 TTAATTATGGCTTGTCACATATTATTGTACATAGCGTGTAATACGCTAACCATGAG-TTATCATA
1 CTAACCATTACTTGTCACAGGTTTTTGTACATAGCGTGTAACAAGCTAACCAT-AGCTTGTCACA
2849909 AGTTTTTGTACATGGC
65 AGTTTTTGTACATGGC
2849925 ATGTAACAAG
Statistics
Matches: 346, Mismatches: 51, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
159 344 0.99
160 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (159 bp):
CTAACCATTACTTGTCACAGGTTTTTGTACATAGCGTGTAACAAGCTAACCATAGCTTGTCACAA
GTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCATGGCTTGTC
ACATATTTTTGTACATAGCGTGTAACACG
Found at i:2849668 original size:45 final size:45
Alignment explanation
Indices: 2849605--2849762 Score: 219
Period size: 45 Copynumber: 3.5 Consensus size: 45
2849595 TTTGTACACG
* * * * *
2849605 GCTTATCACATATTTTTGTGCATGGCATGTAACAAGCTAACCATG
1 GCTTGTCACATATTTTTGTACATAGCATGTAACACGCTAACCATA
*
2849650 GCTTGTCACATATTTTTGTACATAACATGTAACACGCTAACCATA
1 GCTTGTCACATATTTTTGTACATAGCATGTAACACGCTAACCATA
* * *
2849695 ACTTGTCACATATTTTTGTACATAGCGTGTAACACGCTAATCATA
1 GCTTGTCACATATTTTTGTACATAGCATGTAACACGCTAACCATA
2849740 GCTTGTCACA-AGTTTTTGTACAT
1 GCTTGTCACATA-TTTTTGTACAT
2849763 GGTTTGTCAC
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
44 1 0.01
45 100 0.99
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (45 bp):
GCTTGTCACATATTTTTGTACATAGCATGTAACACGCTAACCATA
Found at i:2849764 original size:114 final size:114
Alignment explanation
Indices: 2849646--2849876 Score: 365
Period size: 114 Copynumber: 2.0 Consensus size: 114
2849636 ACAAGCTAAC
*
2849646 CATGGCTTGTCACATATTTTTGTACATAACATGTAACACGCTAACCATAACTTGTCACATATTTT
1 CATGGCTTGTCACATATTTTTGTACATAACATGTAACAAGCTAACCATAACTTGTCACATATTTT
*
2849711 TGTACATAGCGTGTAACACGCTAATCATAGCTTGTCACA-AGTTTTTGTA
66 TGTACATAGCGTGTAACACGCTAATCATAGCTTGTCACATA-TTATTGTA
* * *
2849760 CATGGTTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCATGACTTGTCACATATTTT
1 CATGGCTTGTCACATATTTTTGTACATAACATGTAACAAGCTAACCATAACTTGTCACATATTTT
* * * *
2849825 TGTATATAGCGTGTAACACGTTAATTATGGCTTGTCACATATTATTGTA
66 TGTACATAGCGTGTAACACGCTAATCATAGCTTGTCACATATTATTGTA
2849874 CAT
1 CAT
2849877 AGCGTGTAAT
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
114 106 0.99
115 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (114 bp):
CATGGCTTGTCACATATTTTTGTACATAACATGTAACAAGCTAACCATAACTTGTCACATATTTT
TGTACATAGCGTGTAACACGCTAATCATAGCTTGTCACATATTATTGTA
Found at i:2849779 original size:24 final size:24
Alignment explanation
Indices: 2849742--2849787 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
2849732 TAATCATAGC
2849742 TTGTCACAAGTTTTTGTACATGGT
1 TTGTCACAAGTTTTTGTACATGGT
2849766 TTGTCACATA-TTTTTGTACATG
1 TTGTCACA-AGTTTTTGTACATG
2849788 ACATGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TTGTCACAAGTTTTTGTACATGGT
Found at i:2849814 original size:69 final size:69
Alignment explanation
Indices: 2849697--2849828 Score: 189
Period size: 69 Copynumber: 1.9 Consensus size: 69
2849687 TAACCATAAC
* * *
2849697 TTGTCACATATTTTTGTACATAGCGTGTAACACGCTAATCATAGCTTGTCACA-AGTTTTTGTAC
1 TTGTCACATATTTTTGTACATAGCATGTAACAAGCTAACCATAGCTTGTCACATA-TTTTTGTAC
2849761 ATGGT
65 ATGGT
2849766 TTGTCACATATTTTTGTACAT-GACATGTAACAAGCTAACCAT-GACTTGTCACATATTTTTGTA
1 TTGTCACATATTTTTGTACATAG-CATGTAACAAGCTAACCATAG-CTTGTCACATATTTTTGTA
2849829 TATAGCGTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
68 2 0.04
69 54 0.95
70 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (69 bp):
TTGTCACATATTTTTGTACATAGCATGTAACAAGCTAACCATAGCTTGTCACATATTTTTGTACA
TGGT
Found at i:2849817 original size:45 final size:45
Alignment explanation
Indices: 2849760--2850106 Score: 351
Period size: 45 Copynumber: 7.7 Consensus size: 45
2849750 AGTTTTTGTA
* * *
2849760 CATGGTTTGTCACATATTTTTGTACAT-GACATGTAACAAGCTAAC
1 CATGGCTTGTCACATATTTTTGTACATAG-CGTGTAACACGCTAAC
* * * *
2849805 CATGACTTGTCACATATTTTTGTATATAGCGTGTAACACGTTAAT
1 CATGGCTTGTCACATATTTTTGTACATAGCGTGTAACACGCTAAC
* * *
2849850 TATGGCTTGTCACATATTATTGTACATAGCGTGTAATACGCTAAC
1 CATGGCTTGTCACATATTTTTGTACATAGCGTGTAACACGCTAAC
* * * * *
2849895 CATGAG-TTATCATA-AGTTTTTGTACATGGCATGTAACAAGCTAAC
1 CATG-GCTTGTCACATA-TTTTTGTACATAGCGTGTAACACGCTAAC
** * * *
2849940 CATAACTTATCACA-AGTTTTTGTACATAGCGTGTAATACTCTAAC
1 CATGGCTTGTCACATA-TTTTTGTACATAGCGTGTAACACGCTAAC
* ** * * *
2849985 CATGGTTTGTCACAGGTTTTTGTATATGGCGTGTAACAAGCTAAC
1 CATGGCTTGTCACATATTTTTGTACATAGCGTGTAACACGCTAAC
* *
2850030 TATGGCTTGTCACATATTTTTGTACATAGCGCGTAACACGCTAAC
1 CATGGCTTGTCACATATTTTTGTACATAGCGTGTAACACGCTAAC
** *
2850075 CATGGCTTGTCACAGGTTTTTGTACATGGCGT
1 CATGGCTTGTCACATATTTTTGTACATAGCGT
2850107 ATAATATATT
Statistics
Matches: 244, Mismatches: 53, Indels: 10
0.79 0.17 0.03
Matches are distributed among these distances:
44 1 0.00
45 241 0.99
46 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (45 bp):
CATGGCTTGTCACATATTTTTGTACATAGCGTGTAACACGCTAAC
Found at i:2849930 original size:90 final size:90
Alignment explanation
Indices: 2849761--2850106 Score: 403
Period size: 90 Copynumber: 3.8 Consensus size: 90
2849751 GTTTTTGTAC
* * * *
2849761 ATGGTTTGTCACATATTTTTGTACAT-GACATGTAACAAGCTAACCATGACTTGTCACATA-TTT
1 ATGGCTTGTCACATATTTTTGTACATAG-CGTGTAACACGCTAACCATGGCTTGTCACA-AGTTT
* * * * *
2849824 TTGTATATAGCGTGTAACACGTTAATT
64 TTGTACATGGCGTGTAACAAGCTAACT
* * * *
2849851 ATGGCTTGTCACATATTATTGTACATAGCGTGTAATACGCTAACCATGAG-TTATCATAAGTTTT
1 ATGGCTTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATG-GCTTGTCACAAGTTTT
* *
2849915 TGTACATGGCATGTAACAAGCTAACC
65 TGTACATGGCGTGTAACAAGCTAACT
** * * * * *
2849941 ATAACTTATCACA-AGTTTTTGTACATAGCGTGTAATACTCTAACCATGGTTTGTCACAGGTTTT
1 ATGGCTTGTCACATA-TTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAAGTTTT
*
2850005 TGTATATGGCGTGTAACAAGCTAACT
65 TGTACATGGCGTGTAACAAGCTAACT
* *
2850031 ATGGCTTGTCACATATTTTTGTACATAGCGCGTAACACGCTAACCATGGCTTGTCACAGGTTTTT
1 ATGGCTTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAAGTTTTT
2850096 GTACATGGCGT
66 GTACATGGCGT
2850107 ATAATATATT
Statistics
Matches: 216, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
89 3 0.01
90 211 0.98
91 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (90 bp):
ATGGCTTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAAGTTTTT
GTACATGGCGTGTAACAAGCTAACT
Found at i:2850018 original size:135 final size:135
Alignment explanation
Indices: 2849760--2850112 Score: 390
Period size: 135 Copynumber: 2.6 Consensus size: 135
2849750 AGTTTTTGTA
* * *
2849760 CATGGTTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCATGACTTGTCACATA-TTT
1 CATGGCTTATCACATATTTTTGTACATGGCATGTAACAAGCTAACCATGACTTGTCACA-AGTTT
* * ** * * *
2849824 TTGTATATAGCGTGTAACACGTTAATTATGGCTTGTCACATATTATTGTACATAGCGTGTAATAC
65 TTGTACATAGCGTGTAATACGTTAACCATGGCTTGTCACAGATTATTGTACATAGCGTGTAACAA
2849889 GCTAAC
130 GCTAAC
* * *
2849895 CATGAG-TTATCATA-AGTTTTTGTACATGGCATGTAACAAGCTAACCATAACTTATCACAAGTT
1 CATG-GCTTATCACATA-TTTTTGTACATGGCATGTAACAAGCTAACCATGACTTGTCACAAGTT
* * * * *
2849958 TTTGTACATAGCGTGTAATAC-TCTAACCATGGTTTGTCACAGGTTTTTGTATATGGCGTGTAAC
64 TTTGTACATAGCGTGTAATACGT-TAACCATGGCTTGTCACAGATTATTGTACATAGCGTGTAAC
2850022 AAGCTAAC
128 AAGCTAAC
* * * ** * * *
2850030 TATGGCTTGTCACATATTTTTGTACATAGCGCGTAACACGCTAACCATGGCTTGTCACAGGTTTT
1 CATGGCTTATCACATATTTTTGTACATGGCATGTAACAAGCTAACCATGACTTGTCACAAGTTTT
* *
2850095 TGTACATGGCGTATAATA
66 TGTACATAGCGTGTAATA
2850113 TATTTTTATA
Statistics
Matches: 182, Mismatches: 30, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
134 4 0.02
135 176 0.97
136 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (135 bp):
CATGGCTTATCACATATTTTTGTACATGGCATGTAACAAGCTAACCATGACTTGTCACAAGTTTT
TGTACATAGCGTGTAATACGTTAACCATGGCTTGTCACAGATTATTGTACATAGCGTGTAACAAG
CTAAC
Found at i:2850142 original size:69 final size:69
Alignment explanation
Indices: 2850043--2850175 Score: 194
Period size: 69 Copynumber: 1.9 Consensus size: 69
2850033 GGCTTGTCAC
* * * * * *
2850043 ATATTTTTGTACATAGCGCGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTA
1 ATATTTTTATACATAGCACGTAACAAGCTAACCATGACTTGTCACAGATTTTTGTACATAGCGTA
2850108 TAAT
66 TAAT
* *
2850112 ATATTTTTATACATAGCATGTAACAAGCTAACCATGACTTGTCACATATTTTTGTACATAGCGT
1 ATATTTTTATACATAGCACGTAACAAGCTAACCATGACTTGTCACAGATTTTTGTACATAGCGT
2850176 GTAACACGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 56 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (69 bp):
ATATTTTTATACATAGCACGTAACAAGCTAACCATGACTTGTCACAGATTTTTGTACATAGCGTA
TAAT
Found at i:2850179 original size:45 final size:45
Alignment explanation
Indices: 2850112--2850202 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
2850102 GGCGTATAAT
2850112 ATATTTTTATACATAGCATGTAACAAGCTAACCATGACTTGTCAC
1 ATATTTTTATACATAGCATGTAACAAGCTAACCATGACTTGTCAC
* * * * **
2850157 ATATTTTTGTACATAGCGTGTAACACGTTAACCATGGTTTGTCAC
1 ATATTTTTATACATAGCATGTAACAAGCTAACCATGACTTGTCAC
2850202 A
1 A
2850203 GGTTTTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (45 bp):
ATATTTTTATACATAGCATGTAACAAGCTAACCATGACTTGTCAC
Found at i:2867969 original size:2 final size:2
Alignment explanation
Indices: 2867955--2867990 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
2867945 ACAATGAGTT
2867955 TA TA TA T- TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2867991 AATGCAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2874243 original size:54 final size:54
Alignment explanation
Indices: 2874161--2874416 Score: 379
Period size: 54 Copynumber: 4.7 Consensus size: 54
2874151 TCATCATGTG
* *
2874161 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAACCGGACATCC
1 CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
* * * *
2874215 CATCTCATCTGGCTCATGCGCATCCCACCACATCGTGCACATAGCCCGACATCC
1 CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
* * * *
2874269 CAACTCACCTAGCTCATGTGCATCCCACCATATTGTGCACATAGCTGGACATCC
1 CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
*
2874323 CATCTCACCT-GACTCATGTGCATCCCACCACATCGTGCACATAGTCGGACATCC
1 CATCTCACCTAG-CTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
* *
2874377 CATCTCACCCAGCTCATGTGCATCCCACCACATCATGCAC
1 CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCAC
2874417 CGGATAGTAT
Statistics
Matches: 179, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 177 0.99
55 1 0.01
ACGTcount: A:0.25, C:0.41, G:0.14, T:0.21
Consensus pattern (54 bp):
CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
Found at i:2875170 original size:21 final size:23
Alignment explanation
Indices: 2875146--2875190 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
2875136 ACCACAGTCA
*
2875146 TTTCAA-ATCTATCCA-ATTATT
1 TTTCAATATCAATCCACATTATT
*
2875167 TTTCAATTTCAATCCACATTATT
1 TTTCAATATCAATCCACATTATT
2875190 T
1 T
2875191 CTCCTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
23 7 0.35
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTCAATATCAATCCACATTATT
Done.