Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 46 of 133
Found at i:9940463 original size:17 final size:16
Alignment explanation
Indices: 9940443--9940498 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
9940433 AAAAAGTGAA
9940443 AAAAATGAGAAAATAAG
1 AAAAATGAGAAAA-AAG
* *
9940460 AAAAAAGAGAGAAAATG
1 AAAAATGAGA-AAAAAG
9940477 AAAGAATGA-AGAAAAAG
1 AAA-AATGAGA-AAAAAG
9940494 AAAAA
1 AAAAA
9940499 AGCAAAAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 2 0.06
17 24 0.73
18 7 0.21
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (16 bp):
AAAAATGAGAAAAAAG
Found at i:9940463 original size:28 final size:28
Alignment explanation
Indices: 9940432--9940499 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
9940422 AAAAAAAGGA
*
9940432 AAAAAAGTGAAAAAAATGAGAA-AAT-AAG
1 AAAAAAGAG-AAAAAATGA-AAGAATGAAG
*
9940460 AAAAAAGAGAGAAAATGAAAGAATGAAG
1 AAAAAAGAGAAAAAATGAAAGAATGAAG
9940488 -AAAAAGA-AAAAA
1 AAAAAAGAGAAAAA
9940500 GCAAAAAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 6 0.17
27 18 0.51
28 11 0.31
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (28 bp):
AAAAAAGAGAAAAAATGAAAGAATGAAG
Found at i:9942771 original size:36 final size:35
Alignment explanation
Indices: 9942654--9942773 Score: 123
Period size: 36 Copynumber: 3.3 Consensus size: 35
9942644 AAACCTTTAA
* *
9942654 GCATCAAGATAAAAAATTTATCCCTAAGACCTTCGG
1 GCATCAAGATGAGAAATTTATCCCTAAGACCTTC-G
* * * ** *
9942690 GCATTAAGAAGAGAAATTTGTTACTAAGACTTTCG
1 GCATCAAGATGAGAAATTTATCCCTAAGACCTTCG
* *
9942725 AGTATCAAGATGAGAAATTTATCCCCAAGACCTTCAG
1 -GCATCAAGATGAGAAATTTATCCCTAAGACCTTC-G
9942762 GCATCAAGATGA
1 GCATCAAGATGA
9942774 AAAAATTGTT
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
35 1 0.02
36 63 0.97
37 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (35 bp):
GCATCAAGATGAGAAATTTATCCCTAAGACCTTCG
Found at i:9942783 original size:72 final size:72
Alignment explanation
Indices: 9942656--9942791 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 72
9942646 ACCTTTAAGC
* * * * *
9942656 ATCAAGATAAAAAATTTATCCCTAAGACCTTCGGGCATTAAGAAGAGAAATTTGTTACTAAGACT
1 ATCAAGATAAAAAATTTATCCCCAAGACCTTCAGGCATCAAGAAGAAAAAATTGTTACTAAGACT
9942721 TTCGAGT
66 TTCGAGT
* * * *
9942728 ATCAAGATGAGAAATTTATCCCCAAGACCTTCAGGCATCAAGATGAAAAAATTGTTGCTAAGAC
1 ATCAAGATAAAAAATTTATCCCCAAGACCTTCAGGCATCAAGAAGAAAAAATTGTTACTAAGAC
9942792 CTCCAGGCAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (72 bp):
ATCAAGATAAAAAATTTATCCCCAAGACCTTCAGGCATCAAGAAGAAAAAATTGTTACTAAGACT
TTCGAGT
Found at i:9942791 original size:36 final size:36
Alignment explanation
Indices: 9942654--9942800 Score: 111
Period size: 36 Copynumber: 4.1 Consensus size: 36
9942644 AAACCTTTAA
*
9942654 GCATCAAGAT-AAAAAATT-TATCCCTAAGACCTTCGG
1 GCATCAAGATGAAAAAATTGT-T-CCTAAGACCTTCAG
* * * * * *
9942690 GCATTAAGAAGAGAAATTTGTTACTAAGACTTTC-G
1 GCATCAAGATGAAAAAATTGTTCCTAAGACCTTCAG
* * * * * *
9942725 AGTATCAAGATGAGAAATTTATCCCCAAGACCTTCAG
1 -GCATCAAGATGAAAAAATTGTTCCTAAGACCTTCAG
* *
9942762 GCATCAAGATGAAAAAATTGTTGCTAAGACCTCCAG
1 GCATCAAGATGAAAAAATTGTTCCTAAGACCTTCAG
9942798 GCA
1 GCA
9942801 AAGATTAGAA
Statistics
Matches: 85, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
35 1 0.01
36 75 0.88
37 8 0.09
38 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (36 bp):
GCATCAAGATGAAAAAATTGTTCCTAAGACCTTCAG
Found at i:9944359 original size:48 final size:50
Alignment explanation
Indices: 9944287--9944405 Score: 134
Period size: 48 Copynumber: 2.4 Consensus size: 50
9944277 TGATTTTTTT
* * *
9944287 TTAAAATTAAATTATAAATTAAATCAAATCAAATAT-TATTA-AAAAAAA
1 TTAAATTTAAATTTTAAATAAAATCAAATCAAATATATATTATAAAAAAA
* * *
9944335 TTAAATTTAAATTTTAAATAAAATCAAATCTAATTTGATATTATATAAAAA
1 TTAAATTTAAATTTTAAATAAAATCAAATCAAATAT-ATATTATAAAAAAA
** *
9944386 TTATTTTTAAATTTTTAATA
1 TTAAATTTAAATTTTAAATA
9944406 TATTTATATA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 31 0.53
50 5 0.08
51 23 0.39
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (50 bp):
TTAAATTTAAATTTTAAATAAAATCAAATCAAATATATATTATAAAAAAA
Found at i:9944468 original size:15 final size:16
Alignment explanation
Indices: 9944448--9944479 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9944438 TTTATTAATT
9944448 TCAAATC-AAATTAAA
1 TCAAATCAAAATTAAA
9944463 TCAAATCAAAATTAAA
1 TCAAATCAAAATTAAA
9944479 T
1 T
9944480 AATTACGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (16 bp):
TCAAATCAAAATTAAA
Found at i:9944514 original size:25 final size:26
Alignment explanation
Indices: 9944470--9944525 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
9944460 AAATCAAATC
9944470 AAAATTAAATAATTACGA-TTT-ATAT
1 AAAATTAAATAATTA-GATTTTGATAT
9944495 AAAATTAAATCAAATT-GATTTTGATAT
1 AAAATTAAAT--AATTAGATTTTGATAT
9944522 AAAA
1 AAAA
9944526 ATATAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
25 12 0.44
26 3 0.11
27 12 0.44
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (26 bp):
AAAATTAAATAATTAGATTTTGATAT
Found at i:9946532 original size:3 final size:3
Alignment explanation
Indices: 9946524--9946565 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
9946514 GGAATGGGAG
9946524 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9946566 TTATTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9946570 original size:3 final size:3
Alignment explanation
Indices: 9946564--9946601 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9946554 ATAATAATAA
9946564 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9946602 ATGCCTATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9946945 original size:20 final size:20
Alignment explanation
Indices: 9946920--9946957 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9946910 AAGATTTTTA
*
9946920 TTTTATTCTTAAATAAAAGG
1 TTTTATTCCTAAATAAAAGG
9946940 TTTTATTCCTAAATAAAA
1 TTTTATTCCTAAATAAAA
9946958 TGAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTTATTCCTAAATAAAAGG
Found at i:9948596 original size:32 final size:31
Alignment explanation
Indices: 9948560--9948633 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 31
9948550 TTTAGTTTAG
9948560 ATAAATTATTTTTATGATCTTTAAATTTT-AAA
1 ATAAATTATTTTT-TG-TCTTTAAATTTTAAAA
* *
9948592 ATAAATATAATTTTTGTTTTTAAATTTTAAAA
1 ATAAAT-TATTTTTTGTCTTTAAATTTTAAAA
*
9948624 ATAAAATATT
1 ATAAATTATT
9948634 AATCTTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 14 0.39
32 16 0.44
33 6 0.17
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (31 bp):
ATAAATTATTTTTTGTCTTTAAATTTTAAAA
Found at i:9951369 original size:61 final size:61
Alignment explanation
Indices: 9951164--9951456 Score: 252
Period size: 58 Copynumber: 4.9 Consensus size: 61
9951154 TTGTGCAGGA
* * * * * *
9951164 AAAACTGATACTTTTAACTTTT-TTCCCAAAATA---TTTTTT-AGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCTT-CAAAAATATTTTTTTTTGAAAAAC-TTATTTTCAAGG
* * *** *
9951222 AAAATTGATACTTTTAACTTTTCCTC-AAAA-ATCCATTTTTG-AAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTTGAAAAACTTATTTTCAAGG
*
9951280 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTTGAAAAACTTATTTTCAAGG
* * ** *
9951341 AAAATTGATA-TTTCAATTTTTTTTTCAAAAATA--TTTTTTT-AAAATTTTTACTTTCAAAGG
1 AAAATTGATACTTTCAA-CTTTTCTTCAAAAATATTTTTTTTTGAAAA-ACTTATTTTC-AAGG
* * *
9951401 -AAATTGATACTTTCAACTTTCCTTCAAAAATAGTTTTTTTTTAAAAAAATTATTTT
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATA-TTTTTTTTTGAAAAACTTATTTT
9951457 AAAAGAATCA
Statistics
Matches: 195, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
56 1 0.01
57 4 0.02
58 60 0.31
59 50 0.26
60 24 0.12
61 39 0.20
62 13 0.07
63 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (61 bp):
AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTTGAAAAACTTATTTTCAAGG
Found at i:9953112 original size:17 final size:16
Alignment explanation
Indices: 9953075--9953124 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
9953065 GATAGACCAT
*
9953075 AAAAAAAT-AAAAATG
1 AAAAAAATCAAAAATA
* *
9953090 ATAAATA-CAAAAATA
1 AAAAAAATCAAAAATA
*
9953105 AAAAAAATCTAAAATA
1 AAAAAAATCAAAAATA
9953121 AAAA
1 AAAA
9953125 TGAATAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAAAAATCAAAAATA
Found at i:9953117 original size:23 final size:23
Alignment explanation
Indices: 9953091--9953136 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9953081 ATAAAAATGA
9953091 TAAATACAAAAAT-AAAAAAAATC
1 TAAA-ACAAAAATGAAAAAAAATC
* *
9953114 TAAAATAAAAATGAATAAAAATC
1 TAAAACAAAAATGAAAAAAAATC
9953137 CCTACAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.20
Consensus pattern (23 bp):
TAAAACAAAAATGAAAAAAAATC
Found at i:9953444 original size:42 final size:42
Alignment explanation
Indices: 9953348--9953831 Score: 417
Period size: 42 Copynumber: 11.2 Consensus size: 42
9953338 AGGCTCAACG
* * **
9953348 ACAGAGACTCAACAACTTTGAAAAAATAAACAAAGGCTCCTCTAA
1 ACAGAGGCTCAACGACTTTGAAAAAAT--A-AATTGCTCCTCTAA
* *
9953393 GCA-AGGGCTCAACGACTTTGGAAAAATAAATTGCTCCTCTAA
1 ACAGA-GGCTCAACGACTTTGAAAAAATAAATTGCTCCTCTAA
9953435 ACAGAGGCTCAACGACTTTGAAAAAATAAAATTGCTCCTCTAA
1 ACAGAGGCTCAACGACTTTGAAAAAAT-AAATTGCTCCTCTAA
9953478 ACAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCCTCTAA
1 ACAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCCTCTAA
* * *
9953520 ACAGAGGCTTAATGACTTTAGAAAATAAATAAAGT-CTCCTCTAA
1 ACAGAGGCTCAACGACTTT-G-AAA-AAATAAATTGCTCCTCTAA
** * *
9953564 GTAGAGGCTCAACGACTTTGGAAAAATAAATTGCTCTTCTAA
1 ACAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCCTCTAA
* **
9953606 ACAGAGGCTCAACAACTTCAAAAAAATAAATAAATAAAGCTCCTCTAA
1 ACAGAGGCTCAACGACTTTGAAAAAATAAAT---T---GCTCCTCTAA
** * * *
9953654 TTAGAGGCAACCACGA-TTTTAAAAAATAAA-TGCTCCTCTAA
1 ACAGAGGC-TCAACGACTTTGAAAAAATAAATTGCTCCTCTAA
* ** * *
9953695 ACAGAGGCTCAACAACTTCAAAAAATAATAAATAAAGCTCTTCTAA
1 ACAGAGGCTCAACGACTT-TGAAAA-AATAAAT--TGCTCCTCTAA
* * * * *
9953741 TCAGAGGCAACCACAACTTT-AAAAAATAAA-CGCTCCTCTAA
1 ACAGAGGC-TCAACGACTTTGAAAAAATAAATTGCTCCTCTAA
*
9953782 ACAGAGG--CAACTGAACTTTTAAAAAATAAATTGCTCCTCTAA
1 ACAGAGGCTCAAC-G-ACTTTGAAAAAATAAATTGCTCCTCTAA
*
9953824 ATAGAGGC
1 ACAGAGGC
9953832 AACTGAACTT
Statistics
Matches: 361, Mismatches: 52, Indels: 54
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.01
40 9 0.02
41 51 0.14
42 122 0.34
43 52 0.14
44 35 0.10
45 34 0.09
46 16 0.04
47 8 0.02
48 27 0.07
49 4 0.01
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (42 bp):
ACAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCCTCTAA
Found at i:9953762 original size:87 final size:88
Alignment explanation
Indices: 9953348--9953789 Score: 455
Period size: 87 Copynumber: 5.1 Consensus size: 88
9953338 AGGCTCAACG
* * * * * *
9953348 ACAGAGACTCAACAACTTTGAAAAAATAA-ACA-AAGGCTCCTCTAAGCA-AGGGCTCAACGACT
1 ACAGAGGCTCAACAAC-TTCAAAAAATAATAAATAAAGCTCCTCTAATCAGA-GGCACAACGACT
*
9953410 TTGGAAAAATAAATTGCTCCTCTAA
64 TTGAAAAAATAAATTGCTCCTCTAA
* * * * *
9953435 ACAGAGGCTCAACGACTTTGAAAAAAT-A-AAAT--TGCTCCTCTAAACAGAGGCTCAACGACTT
1 ACAGAGGCTCAACAAC-TTCAAAAAATAATAAATAAAGCTCCTCTAATCAGAGGCACAACGACTT
9953496 TGAAAAAATAAATTGCTCCTCTAA
65 TGAAAAAATAAATTGCTCCTCTAA
* ** * * *
9953520 ACAGAGGCTTAATGACTT--TAGAA-AATAAATAAAGTCTCCTCTAAGT-AGAGGCTCAACGACT
1 ACAGAGGCTCAACAACTTCAAAAAATAATAAATAAAG-CTCCTCTAA-TCAGAGGCACAACGACT
* *
9953581 TTGGAAAAATAAATTGCTCTTCTAA
64 TTGAAAAAATAAATTGCTCCTCTAA
* *
9953606 ACAGAGGCTCAACAACTTCAAAAAAATAAATAAATAAAGCTCCTCTAATTAGAGGCAACCACGA-
1 ACAGAGGCTCAACAACTTC-AAAAAAT-AATAAATAAAGCTCCTCTAATCAGAGGC-ACAACGAC
*
9953670 TTTTAAAAAATAAA-TGCTCCTCTAA
63 TTTGAAAAAATAAATTGCTCCTCTAA
* * *
9953695 ACAGAGGCTCAACAACTTCAAAAAATAATAAATAAAGCTCTTCTAATCAGAGGCAACCACAACTT
1 ACAGAGGCTCAACAACTTCAAAAAATAATAAATAAAGCTCCTCTAATCAGAGGC-ACAACGACTT
*
9953760 T-AAAAAATAAA-CGCTCCTCTAA
65 TGAAAAAATAAATTGCTCCTCTAA
9953782 ACAGAGGC
1 ACAGAGGC
9953790 AACTGAACTT
Statistics
Matches: 311, Mismatches: 28, Indels: 32
0.84 0.08 0.09
Matches are distributed among these distances:
82 4 0.01
83 4 0.01
84 2 0.01
85 63 0.20
86 66 0.21
87 86 0.28
88 10 0.03
89 33 0.11
90 27 0.09
91 16 0.05
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (88 bp):
ACAGAGGCTCAACAACTTCAAAAAATAATAAATAAAGCTCCTCTAATCAGAGGCACAACGACTTT
GAAAAAATAAATTGCTCCTCTAA
Found at i:9953799 original size:87 final size:87
Alignment explanation
Indices: 9953404--9953834 Score: 394
Period size: 86 Copynumber: 5.0 Consensus size: 87
9953394 CAAGGGCTCA
* * *
9953404 ACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAAT-A-AAAT
1 ACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGC-CAACAAC-TTCAAAAAATAATAAAT
* * * *
9953467 --TGCTCCTCTAAACAGAGGC-TCA
64 AAAGCTCCTCT-AATAGAGGCAACC
* ** * *
9953489 ACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCTTAATGACTT--TAGAA-AATAAATA
1 ACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGC-CAACAACTTCAAAAAATAATAAATA
* *
9953551 AAGTCTCCTCTAAGTAGAGGC-TCA
65 AAG-CTCCTCTAA-TAGAGGCAACC
* *
9953575 ACGACTTTGGAAAAATAAATTGCTCTTCTAAACAGAGGCTCAACAACTTCAAAAAAATAAATAAA
1 ACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGC-CAACAACTTC-AAAAAAT-AATAAA
9953640 TAAAGCTCCTCTAATTAGAGGCAACC
63 TAAAGCTCCTCTAA-TAGAGGCAACC
*
9953666 ACGA-TTTTAAAAAATAAA-TGCTCCTCTAAACAGAGGCTCAACAACTTCAAAAAATAATAAATA
1 ACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGC-CAACAACTTCAAAAAATAATAAATA
*
9953729 AAGCTCTTCTAATCAGAGGCAACC
65 AAGCTCCTCTAAT-AGAGGCAACC
* * **
9953753 ACAACTTT-AAAAAATAAA-CGCTCCTCTAAACAGAGG-CAACTGAACTT-TTAAAA-AATAAAT
1 ACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCCAAC--AACTTCAAAAAATAATAAAT
*
9953813 --TGCTCCTCTAAATAGAGGCAAC
64 AAAGCTCCTCT-AATAGAGGCAAC
9953835 TGAACTTTTA
Statistics
Matches: 302, Mismatches: 27, Indels: 36
0.83 0.07 0.10
Matches are distributed among these distances:
82 4 0.01
83 20 0.07
84 5 0.02
85 58 0.19
86 65 0.22
87 64 0.21
88 10 0.03
89 32 0.11
90 28 0.09
91 16 0.05
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (87 bp):
ACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCCAACAACTTCAAAAAATAATAAATAA
AGCTCCTCTAATAGAGGCAACC
Found at i:9953832 original size:42 final size:42
Alignment explanation
Indices: 9953670--9953855 Score: 161
Period size: 42 Copynumber: 4.4 Consensus size: 42
9953660 GCAACCACGA
9953670 TTTTAAAAAATAAA-TGCTCCTCTAAACAGAGGCTCAAC-AAC
1 TTTTAAAAAATAAATTGCTCCTCTAAACAGAGGC-CAACGAAC
** * * * *
9953711 TTCAAAAAATAATAAATAAAGCTCTTCTAATCAGAGG-CAACCACAAC
1 TT-TTAAAA-AATAAAT--TGCTCCTCTAAACAGAGGCCAA-C-GAAC
*
9953758 -TTTAAAAAATAAA-CGCTCCTCTAAACAGAGG-CAACTGAAC
1 TTTTAAAAAATAAATTGCTCCTCTAAACAGAGGCCAAC-GAAC
*
9953798 TTTTAAAAAATAAATTGCTCCTCTAAATAGAGG-CAACTGAAC
1 TTTTAAAAAATAAATTGCTCCTCTAAACAGAGGCCAAC-GAAC
9953840 TTTTAGAAAAATAAAT
1 TTTTA-AAAAATAAAT
9953856 GGCTTTTTGA
Statistics
Matches: 120, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
40 4 0.03
41 33 0.28
42 34 0.28
43 16 0.13
44 9 0.08
45 5 0.04
46 16 0.13
47 3 0.03
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (42 bp):
TTTTAAAAAATAAATTGCTCCTCTAAACAGAGGCCAACGAAC
Found at i:9953853 original size:128 final size:123
Alignment explanation
Indices: 9953348--9953855 Score: 372
Period size: 128 Copynumber: 3.9 Consensus size: 123
9953338 AGGCTCAACG
* *
9953348 ACAGAGACTCAACAACTTTGAAAAAATAAACAAAGGCTCCTCTAAGCA-AGGGCTCAAC-GACTT
1 ACAGAGGCTCAACAACTTT-AAAAAAT----AAA-GCTCCTCTAAACAGA-GG--CAACTGACTT
** * *
9953411 TGGAAAAATAAATTGCTCCTCTAAACAGAGGCTCAACGACTTTGA-AAAAATAAA-ATTGCTCCT
57 TTAAAAAATAAATTGCTCCTCTAAACAGAGGC-CAACGACTTTTAGAAAAATAAATA-TGCTCTT
9953474 CTAA
120 CTAA
* *
9953478 ACAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCTTAA-TGAC-TTTAG
1 ACAGAGGCTCAACAACTTT-AAAAAATAAA--GCTCCTCTAAACAGAGGC--AACTGACTTTTAA
* ** *
9953541 AAAATAAATAAAGTCTCCTCTAAGTAGAGGCTCAACGAC-TTTGGAAAAATAAAT-TGCTCTTCT
61 AAAATAAAT--TG-CTCCTCTAAACAGAGGC-CAACGACTTTTAGAAAAATAAATATGCTCTTCT
9953604 AA
122 AA
** *
9953606 ACAGAGGCTCAACAACTTCAAAAAAATAAATAAATAAAGCTCCTCTAATTAGAGGCAAC-CACGA
1 ACAGAGGCTCAACAACTT--------TAAA-AAATAAAGCTCCTCTAAACAGAGGCAACTGAC--
* ** * *
9953670 TTTTAAAAAATAAA-TGCTCCTCTAAACAGAGGCTCAACAACTTCAAAAAATAATAAATAAAGCT
55 TTTTAAAAAATAAATTGCTCCTCTAAACAGAGGC-CAACGACTTTTAGAAA-AATAAAT-ATGCT
9953734 CTTCTAA
117 CTTCTAA
* * *
9953741 TCAGAGGCAACCACAACTTTAAAAAATAAACGCTCCTCTAAACAGAGGCAACTGAACTTTTAAAA
1 ACAGAGGC-TCAACAACTTTAAAAAATAAA-GCTCCTCTAAACAGAGGCAACTG-ACTTTTAAAA
*
9953806 AATAAATTGCTCCTCTAAATAGAGG-CAACTGAACTTTTAGAAAAATAAAT
63 AATAAATTGCTCCTCTAAACAGAGGCCAAC-G-ACTTTTAGAAAAATAAAT
9953856 GGCTTTTTGA
Statistics
Matches: 306, Mismatches: 38, Indels: 70
0.74 0.09 0.17
Matches are distributed among these distances:
125 1 0.00
126 14 0.05
127 30 0.10
128 75 0.25
129 57 0.19
130 27 0.09
131 22 0.07
132 9 0.03
133 7 0.02
134 16 0.05
135 32 0.10
136 16 0.05
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (123 bp):
ACAGAGGCTCAACAACTTTAAAAAATAAAGCTCCTCTAAACAGAGGCAACTGACTTTTAAAAAAT
AAATTGCTCCTCTAAACAGAGGCCAACGACTTTTAGAAAAATAAATATGCTCTTCTAA
Found at i:9954242 original size:21 final size:21
Alignment explanation
Indices: 9954195--9954242 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9954185 ACGCCAAGAT
*
9954195 TTTTC-TTTAAAATTCAAAGA
1 TTTTCATTTAAAATTCAAAAA
* *
9954215 TTCTCATTTGAAATTCAAAAA
1 TTTTCATTTAAAATTCAAAAA
9954236 TTTTCAT
1 TTTTCAT
9954243 CAAAAGGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (21 bp):
TTTTCATTTAAAATTCAAAAA
Found at i:9955457 original size:16 final size:16
Alignment explanation
Indices: 9955438--9955496 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
9955428 ATTTGAATCT
9955438 TTTTTTTATTTTTTCA
1 TTTTTTTATTTTTTCA
* *
9955454 TTTTTTTCTTCTTTC-
1 TTTTTTTATTTTTTCA
*
9955469 -TTTTTT-TTTTGTCTA
1 TTTTTTTATTTTTTC-A
9955484 TTTTTTTATTTTT
1 TTTTTTTATTTTT
9955497 CATCCATTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
16 19 0.56
17 4 0.12
ACGTcount: A:0.07, C:0.08, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTTTATTTTTTCA
Found at i:9959801 original size:59 final size:60
Alignment explanation
Indices: 9959441--9959846 Score: 474
Period size: 58 Copynumber: 6.9 Consensus size: 60
9959431 TTGTGCAGGA
* * * * *
9959441 AAAATTGATACTTTCAACTTTTCC-C-CAAA-ATATTTTTTAGAAAATTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAAACTTATTTTCAAGG
* * *
9959498 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTA--TTTTTGAAAAATTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAAACTTATTTTCAAGG
* * *
9959556 AAAATAGATATTTTCAACTTTTCCTCAAAAAT-TCA--TTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-ATTTTTTTGAAAACTTATTTTCAAGG
* *
9959614 AAAATTGATACTTTCAACTTTT-CTCAAAAA-ATATTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAAACTTATTTTCAAGG
* * * *
9959672 AAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTTTGAAAAACTTATTTCCAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTG-AAAACTTATTTTCAAGG
* **
9959733 AAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTG-AATTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAAACTTATTTTCAAGG
* * ** ** *
9959792 AAAATTGATATTTTCAATTTTTTTTCAAAAATATATTTTTTAAAAAAATTATTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAAACTTATTTT
9959847 AAAATAATCA
Statistics
Matches: 301, Mismatches: 37, Indels: 19
0.84 0.10 0.05
Matches are distributed among these distances:
56 1 0.00
57 34 0.11
58 133 0.44
59 59 0.20
60 20 0.07
61 54 0.18
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAAACTTATTTTCAAGG
Found at i:9963088 original size:14 final size:14
Alignment explanation
Indices: 9963071--9963109 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9963061 CATACCATGT
9963071 AAAAATTATCATAC
1 AAAAATTATCATAC
*
9963085 AAAAATTATCATTC
1 AAAAATTATCATAC
*
9963099 AATAA-TATCAT
1 AAAAATTATCAT
9963110 GTAGATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATTATCATAC
Found at i:9963250 original size:32 final size:32
Alignment explanation
Indices: 9963214--9963275 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
9963204 TATATCATGT
*
9963214 AATTAAATGTATAATCAAGCAAACAAATATGA
1 AATTAAATATATAATCAAGCAAACAAATATGA
* *
9963246 AATTAAATATATAATCATGCAAATAAATAT
1 AATTAAATATATAATCAAGCAAACAAATAT
9963276 ATTATAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.29
Consensus pattern (32 bp):
AATTAAATATATAATCAAGCAAACAAATATGA
Found at i:9964564 original size:6 final size:6
Alignment explanation
Indices: 9964555--9964624 Score: 72
Period size: 6 Copynumber: 12.0 Consensus size: 6
9964545 ACTTTGACTC
* * ** *
9964555 AAAAAT AAAATC AAAATT AAAATT AAAATT AACTTT AAAA-- ACAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
*
9964601 ACAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT
9964625 TTTGGGCTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
4 3 0.06
6 50 0.94
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:9964614 original size:22 final size:22
Alignment explanation
Indices: 9964575--9964616 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9964565 TCAAAATTAA
**
9964575 AATTAAAATTAACTTTAAAAAC
1 AATTAAAATTAAAATTAAAAAC
*
9964597 AATTACAATTAAAATTAAAA
1 AATTAAAATTAAAATTAAAA
9964617 TTAAAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTAAAATTAAAATTAAAAAC
Found at i:9964620 original size:28 final size:28
Alignment explanation
Indices: 9964569--9964622 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
9964559 ATAAAATCAA
**
9964569 AATTAAAATTAAAATTAACTTTAAAAAC
1 AATTAAAATTAAAATTAAAATTAAAAAC
*
9964597 AATTACAATTAAAATTAAAATTAAAA
1 AATTAAAATTAAAATTAAAATTAAAA
9964623 TTTTTGGGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (28 bp):
AATTAAAATTAAAATTAAAATTAAAAAC
Found at i:9965024 original size:44 final size:44
Alignment explanation
Indices: 9964963--9965047 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
9964953 ACATGTCTAG
* * * *
9964963 AGAGGTCTTGAGGATTAT-GTTCGGAAGTCTTACAAATCATGTCC
1 AGAGGTCTTGAGAATTATCCTT-GAAAATCTTACAAATCATGTCC
9965007 AGAGGTCTTTGA-AATTATCCTTGAAAATCTTACAAATCATG
1 AGAGGTC-TTGAGAATTATCCTTGAAAATCTTACAAATCATG
9965048 CCTGGAGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 29 0.83
45 6 0.17
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (44 bp):
AGAGGTCTTGAGAATTATCCTTGAAAATCTTACAAATCATGTCC
Found at i:9965422 original size:22 final size:22
Alignment explanation
Indices: 9965359--9965431 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
9965349 TGATGTTCGG
* *
9965359 AGGTTTTATAAA-TCATGCCTAA
1 AGGTCTTATAAATTC-TGCCCAA
* **
9965381 AGGTCTTAGAAATTAAGCCCAA
1 AGGTCTTATAAATTCTGCCCAA
* *
9965403 AAGTCTTATAAATTCTGCCCGA
1 AGGTCTTATAAATTCTGCCCAA
9965425 AGGTCTT
1 AGGTCTT
9965432 GAAGATTACA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 38 0.97
23 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (22 bp):
AGGTCTTATAAATTCTGCCCAA
Found at i:9965453 original size:44 final size:44
Alignment explanation
Indices: 9965355--9965502 Score: 115
Period size: 44 Copynumber: 3.4 Consensus size: 44
9965345 AAGATGATGT
* * *
9965355 TCGGAGGTTTTATAAA-TCATGCCTAAAGGTCTTAGAAATTA-AGC
1 TCGGAGGTCTTATAAATTCATGCCCAAAGGTC-TAGAGATTACA-C
* ** * * * *
9965399 CCAAAAGTCTTATAAATTC-TGCCCGAAGGTCTTGAAGATTACAT
1 TCGGAGGTCTTATAAATTCATGCCCAAAGGTCTAG-AGATTACAC
* * **
9965443 TTGGAGGTCTTACAAA-TCATGCCCAAAGGTCTAGAGATTATGC
1 TCGGAGGTCTTATAAATTCATGCCCAAAGGTCTAGAGATTACAC
9965486 TCGGAGGTCTTATAAAT
1 TCGGAGGTCTTATAAAT
9965503 CATATTCAGA
Statistics
Matches: 76, Mismatches: 23, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
43 24 0.32
44 49 0.64
45 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
TCGGAGGTCTTATAAATTCATGCCCAAAGGTCTAGAGATTACAC
Found at i:9965629 original size:44 final size:44
Alignment explanation
Indices: 9965492--9965651 Score: 137
Period size: 44 Copynumber: 3.6 Consensus size: 44
9965482 ATGCTCGGAG
* * * *
9965492 GTCTTATAAATCAT-ATTCAGAGGTCTTGAAGATTACA-CCAAGA
1 GTCTTATAAATCATGCTT-GGAGGTCTTAAAGATTACACCCAAAA
* * *** * * *
9965535 GATCTTACAAATCATGCTTAGAGGTCTTGGGGGTTACGCCTAAATA
1 G-TCTTATAAATCATGCTTGGAGGTCTTAAAGATTACACCCAAA-A
*
9965581 -TCTTATAAATCATGCCTGGAGGTCTTAAAGATTACACCCAAAA
1 GTCTTATAAATCATGCTTGGAGGTCTTAAAGATTACACCCAAAA
* *
9965624 GTCTTATAAATCATACTTGAAGGTCTTA
1 GTCTTATAAATCATGCTTGGAGGTCTTA
9965652 CGAATCATGC
Statistics
Matches: 92, Mismatches: 20, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
43 2 0.02
44 84 0.91
45 5 0.05
46 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (44 bp):
GTCTTATAAATCATGCTTGGAGGTCTTAAAGATTACACCCAAAA
Found at i:9965727 original size:22 final size:23
Alignment explanation
Indices: 9965702--9965750 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
9965692 TTTACAAATC
*
9965702 ATGCCTGA-AGGTCTTGAAGATT
1 ATGCCTGAGAGATCTTGAAGATT
*
9965724 ATG-CTTAGAGATCTTGAAGATT
1 ATGCCTGAGAGATCTTGAAGATT
9965746 ATGCC
1 ATGCC
9965751 CGAAAGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 19 0.83
23 1 0.04
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (23 bp):
ATGCCTGAGAGATCTTGAAGATT
Found at i:9967275 original size:7 final size:7
Alignment explanation
Indices: 9967234--9967276 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
9967224 TTTATTTTTA
9967234 TTTTTCT
1 TTTTTCT
9967241 TTTTTCT
1 TTTTTCT
*
9967248 TTTCAT-T
1 TTT-TTCT
9967255 TTTTTCAT
1 TTTTTC-T
9967263 TTTTTCT
1 TTTTTCT
9967270 TTTTTCT
1 TTTTTCT
9967277 ATCATGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
6 1 0.03
7 22 0.71
8 8 0.26
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:9971296 original size:22 final size:23
Alignment explanation
Indices: 9971270--9971342 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 23
9971260 CATATCACAC
*
9971270 AATATATTAATTATCATGCAAA-
1 AATATATTAATTATCATACAAAT
*
9971292 AATATA--AATAATCATACAAAT
1 AATATATTAATTATCATACAAAT
* *
9971313 AA-ATATTAATTATACAAATAAAT
1 AATATATTAATTAT-CATACAAAT
9971336 AATATAT
1 AATATAT
9971343 CATGCAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 15 0.37
21 2 0.05
22 11 0.27
23 9 0.22
24 4 0.10
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (23 bp):
AATATATTAATTATCATACAAAT
Found at i:9971356 original size:20 final size:21
Alignment explanation
Indices: 9971282--9971376 Score: 103
Period size: 20 Copynumber: 4.8 Consensus size: 21
9971272 TATATTAATT
*
9971282 ATCATGCAAA-AATATAA-ATA
1 ATCATACAAATAA-ATAATATA
9971302 ATCATACAAATAAAT-AT-TA
1 ATCATACAAATAAATAATATA
*
9971321 ATTATACAAATAAATAATAT-
1 ATCATACAAATAAATAATATA
* *
9971341 ATCATGCAATTAAAT-ATATA
1 ATCATACAAATAAATAATATA
9971361 ATCATACAAATAAATA
1 ATCATACAAATAAATA
9971377 TGAAATTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
19 21 0.34
20 38 0.61
21 3 0.05
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (21 bp):
ATCATACAAATAAATAATATA
Found at i:9971377 original size:20 final size:20
Alignment explanation
Indices: 9971299--9971377 Score: 108
Period size: 20 Copynumber: 4.0 Consensus size: 20
9971289 AAAAATATAA
9971299 ATAATCATACAAATAAATAT
1 ATAATCATACAAATAAATAT
*
9971319 -TAATTATACAAATAAATA-
1 ATAATCATACAAATAAATAT
* *
9971337 ATATATCATGCAATTAAATAT
1 ATA-ATCATACAAATAAATAT
9971358 ATAATCATACAAATAAATAT
1 ATAATCATACAAATAAATAT
9971378 GAAATTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
19 19 0.38
20 28 0.56
21 3 0.06
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (20 bp):
ATAATCATACAAATAAATAT
Found at i:9971393 original size:31 final size:32
Alignment explanation
Indices: 9971348--9971407 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
9971338 TATATCATGC
9971348 AATTAAATATATAATCATACAAATAAATATGA
1 AATTAAATATATAATCATACAAATAAATATGA
* *
9971380 AATTAAA-ATATAATCATGCAATTAAATA
1 AATTAAATATATAATCATACAAATAAATA
9971408 AATTATCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (32 bp):
AATTAAATATATAATCATACAAATAAATATGA
Found at i:9973289 original size:7 final size:6
Alignment explanation
Indices: 9973234--9973331 Score: 72
Period size: 6 Copynumber: 16.3 Consensus size: 6
9973224 TGACTTTAAT
* * * * *
9973234 TTAAAA ATAAAA TTGAAA TTAAAA TTAACA TTAACA TTAAAA -AAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
* * * * * * *
9973281 TTCAAAA TTAAAA TCAAGA TTACAT TTACAA TCAAAA TCAAAA TTAAAA
1 TT-AAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
9973330 TT
1 TT
9973332 TTTGGGCTTT
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
5 4 0.06
6 62 0.86
7 6 0.08
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (6 bp):
TTAAAA
Found at i:9973289 original size:36 final size:36
Alignment explanation
Indices: 9973232--9973331 Score: 107
Period size: 36 Copynumber: 2.8 Consensus size: 36
9973222 ATTGACTTTA
*
9973232 ATTTAAAAATAAAATT-GAAATTAAAATTAACATTAAC
1 ATTTAAAAA-AAAATTCAAAATTAAAATTAACATT-AC
* *
9973269 A-TTAAAAAAAAATTCAAAATTAAAATCAAGATTAC
1 ATTTAAAAAAAAATTCAAAATTAAAATTAACATTAC
**
9973304 ATTTACAATCAAAA-TCAAAATTAAAATT
1 ATTTA-AAAAAAAATTCAAAATTAAAATT
9973332 TTTGGGCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
35 9 0.17
36 38 0.70
37 7 0.13
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (36 bp):
ATTTAAAAAAAAATTCAAAATTAAAATTAACATTAC
Found at i:9975811 original size:22 final size:22
Alignment explanation
Indices: 9975786--9975835 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
9975776 CTACATAAAC
*
9975786 CAAGCTTTGAGACTCTCGTTGA
1 CAAGCTATGAGACTCTCGTTGA
*
9975808 CAAGCTATGAGACTTTCGTTGA
1 CAAGCTATGAGACTCTCGTTGA
9975830 CAAGCT
1 CAAGCT
9975836 GAGAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (22 bp):
CAAGCTATGAGACTCTCGTTGA
Found at i:9977287 original size:44 final size:45
Alignment explanation
Indices: 9977192--9977292 Score: 114
Period size: 45 Copynumber: 2.3 Consensus size: 45
9977182 TATTTGCTAA
* ** *
9977192 TAAAGATCACATTTTTTTAGTTTAAAAACATGGTTAATAATTTAT
1 TAAAAATCACATTTTTTTAGTTTAAAAACATAATTAATAATTAAT
* * * *
9977237 CAAAAATCATATTTTTTTAGTTTCAAAACATAATTGATAA-TAAT
1 TAAAAATCACATTTTTTTAGTTTAAAAACATAATTAATAATTAAT
*
9977281 TAAAAATAACAT
1 TAAAAATCACAT
9977293 AATAAAGTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
44 12 0.27
45 33 0.73
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.41
Consensus pattern (45 bp):
TAAAAATCACATTTTTTTAGTTTAAAAACATAATTAATAATTAAT
Found at i:9977863 original size:59 final size:58
Alignment explanation
Indices: 9977743--9977929 Score: 152
Period size: 58 Copynumber: 3.3 Consensus size: 58
9977733 AAATGTATAA
* * * *
9977743 TTTTTTTAATTAAAGATTATATTTTTATTTAAAAAAACGTAATTTTTGTATATTTAAT
1 TTTTTTTAATTAAAGATCACATTTTCATTTAAAAAAACGTAATATTTGTATATTTAAT
**
9977801 TTTTTTTAATTAAAGATCACATTTTCACTTT-AAAAATTGTAATCATTT-TATGA-TT--T
1 TTTTTTTAATTAAAGATCACATTTTCA-TTTAAAAAAACGTAAT-ATTTGTAT-ATTTAAT
** * ** * ** *
9977857 TTTTTTTAATTAAAGA-CTAGGTTTTCATTTTAAAGTACATTGTCTTTGTATATTTAAT
1 TTTTTTTAATTAAAGATC-ACATTTTCATTTAAAAAAACGTAATATTTGTATATTTAAT
*
9977915 TTTTTTCAATTAAAG
1 TTTTTTTAATTAAAG
9977930 TTTTTCAATT
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
55 8 0.08
56 34 0.33
58 54 0.52
59 7 0.07
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (58 bp):
TTTTTTTAATTAAAGATCACATTTTCATTTAAAAAAACGTAATATTTGTATATTTAAT
Found at i:9977933 original size:14 final size:14
Alignment explanation
Indices: 9977916--9977942 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9977906 ATATTTAATT
9977916 TTTTTCAATTAAAG
1 TTTTTCAATTAAAG
9977930 TTTTTCAATTAAA
1 TTTTTCAATTAAA
9977943 AATCATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
TTTTTCAATTAAAG
Found at i:9978049 original size:59 final size:59
Alignment explanation
Indices: 9977930--9978079 Score: 151
Period size: 59 Copynumber: 2.6 Consensus size: 59
9977920 TCAATTAAAG
* * **
9977930 TTTTTCAATTAAAAATCATATTTTCACTTTAAAATACGTAATCTTTGTATGTTTAATTT
1 TTTTTCAATTAAAAATCACATTTTCACTTTAAAATACGTAACCTTTGTATGAATAATTT
* * * *
9977989 TTTTTCAATTAAAGATCACATTTTTATTTTATAAA-ACGTAGCCTTTGTAT-AATAATTT
1 TTTTTCAATTAAAAATCACATTTTCACTTTA-AAATACGTAACCTTTGTATGAATAATTT
*** ***
9978047 TTTAAAAATTAAAGGCCACATTTTCACTTTAAA
1 TTTTTCAATTAAAAATCACATTTTCACTTTAAA
9978080 TAATGTAGTT
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
57 2 0.03
58 30 0.40
59 40 0.53
60 3 0.04
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (59 bp):
TTTTTCAATTAAAAATCACATTTTCACTTTAAAATACGTAACCTTTGTATGAATAATTT
Found at i:9980237 original size:20 final size:21
Alignment explanation
Indices: 9980212--9980250 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9980202 ATAATAATTT
*
9980212 TTAAAATATTAAT-TTTAAGA
1 TTAAAATAATAATATTTAAGA
9980232 TTAAAATAATAATATTTAA
1 TTAAAATAATAATATTTAA
9980251 TTTATTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
TTAAAATAATAATATTTAAGA
Found at i:9981032 original size:31 final size:30
Alignment explanation
Indices: 9980996--9981061 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
9980986 ATTGTAACCT
*
9980996 AATTTAAACATAAAAATTAATATA-AATTAAA
1 AATTTAAA-ATAAAAA-TAATATATAATAAAA
* *
9981027 AATTTAAATTATAAATAATATATAATAAAA
1 AATTTAAAATAAAAATAATATATAATAAAA
9981057 AATTT
1 AATTT
9981062 CGTGCATGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 16 0.52
31 8 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (30 bp):
AATTTAAAATAAAAATAATATATAATAAAA
Found at i:9984494 original size:31 final size:31
Alignment explanation
Indices: 9984451--9984513 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
9984441 AATTTGCTGA
*
9984451 TAATGCTATTTAATTCCTAGCAGACAACCTT
1 TAATACTATTTAATTCCTAGCAGACAACCTT
*
9984482 TAATACTATTTAATTCCTGGCAGACAACCTT
1 TAATACTATTTAATTCCTAGCAGACAACCTT
9984513 T
1 T
9984514 GGCAGTAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (31 bp):
TAATACTATTTAATTCCTAGCAGACAACCTT
Found at i:9989515 original size:20 final size:20
Alignment explanation
Indices: 9989490--9989534 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
9989480 ATATAAAAAT
*
9989490 TAAATGTATAATTATA-TCAA
1 TAAATGTATAAATA-AGTCAA
9989510 TAAATGTATAAATAAGTCAA
1 TAAATGTATAAATAAGTCAA
9989530 TAAAT
1 TAAAT
9989535 AATAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (20 bp):
TAAATGTATAAATAAGTCAA
Found at i:9992553 original size:41 final size:41
Alignment explanation
Indices: 9992496--9992578 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
9992486 ATACATAGCA
9992496 TGGATTGTAAGATTCATAGTAACAGTATTAGATGACTATTG
1 TGGATTGTAAGATTCATAGTAACAGTATTAGATGACTATTG
9992537 TGGATTGTAAGATTCATAGTAACAGTATTAGATGACTATTG
1 TGGATTGTAAGATTCATAGTAACAGTATTAGATGACTATTG
9992578 T
1 T
9992579 TGTCAGCGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (41 bp):
TGGATTGTAAGATTCATAGTAACAGTATTAGATGACTATTG
Found at i:9993805 original size:6 final size:6
Alignment explanation
Indices: 9993784--9993818 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
9993774 CTCTCCCAAC
*
9993784 TTTTGT TTTTGGT TTTTTT TTTTGT TTTTGT TTTT
1 TTTTGT TTTT-GT TTTTGT TTTTGT TTTTGT TTTT
9993819 TTTGTTCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:9993811 original size:18 final size:19
Alignment explanation
Indices: 9993784--9993821 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
9993774 CTCTCCCAAC
9993784 TTTTGTTTTTGGTTTTTTT
1 TTTTGTTTTTGGTTTTTTT
9993803 TTTTGTTTTT-GTTTTTTT
1 TTTTGTTTTTGGTTTTTTT
9993821 T
1 T
9993822 GTTCATGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (19 bp):
TTTTGTTTTTGGTTTTTTT
Found at i:9994797 original size:25 final size:25
Alignment explanation
Indices: 9994743--9994802 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
9994733 ATGAATTAAA
9994743 ATTAACATAT-TTTATTAAAAAATAT
1 ATTAA-ATATATTTATTAAAAAATAT
9994768 ATTAATATATATTTA-TAAAAAATA-
1 ATTAA-ATATATTTATTAAAAAATAT
9994792 ATTTAAATATA
1 A-TTAAATATA
9994803 CAAAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.19
25 22 0.69
26 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTAAATATATTTATTAAAAAATAT
Found at i:9994802 original size:26 final size:25
Alignment explanation
Indices: 9994743--9994791 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
9994733 ATGAATTAAA
*
9994743 ATTAACATATTTTATTAAAAAATAT
1 ATTAATATATTTTATTAAAAAATAT
9994768 ATTAATATATATTTA-TAAAAAATA
1 ATTAATATAT-TTTATTAAAAAATA
9994792 ATTTAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTAATATATTTTATTAAAAAATAT
Found at i:9994955 original size:17 final size:19
Alignment explanation
Indices: 9994930--9994967 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
9994920 TAATTATTAA
9994930 ATATAAATATAAAATT-TG
1 ATATAAATATAAAATTCTG
9994948 ATAT-AATATAAAATTCTG
1 ATATAAATATAAAATTCTG
9994966 AT
1 AT
9994968 GATGACTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
ATATAAATATAAAATTCTG
Found at i:9995830 original size:15 final size:15
Alignment explanation
Indices: 9995810--9995855 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
9995800 CAATTTTGAC
9995810 AATAAAATTAAATTA
1 AATAAAATTAAATTA
*
9995825 AATAAAATTACATT-
1 AATAAAATTAAATTA
* *
9995839 TATGAAATTAAA-TA
1 AATAAAATTAAATTA
9995853 AAT
1 AAT
9995856 TCAAAGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 1 0.04
14 11 0.44
15 13 0.52
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AATAAAATTAAATTA
Found at i:10006405 original size:23 final size:23
Alignment explanation
Indices: 10006379--10006422 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10006369 AGAGTTAATG
10006379 AAAAA-TTAAATTTTTAAAAATTT
1 AAAAATTTAAA-TTTTAAAAATTT
*
10006402 AAAAATTTTAATTTTAAAAAT
1 AAAAATTTAAATTTTAAAAAT
10006423 GATTGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAAATTTAAATTTTAAAAATTT
Found at i:10007459 original size:23 final size:22
Alignment explanation
Indices: 10007415--10007459 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
10007405 GAATTTATTT
*
10007415 TATTTTATTTTTTAAAATTATA
1 TATTTTATTTTTTAAAACTATA
* *
10007437 TATTTTAATTTTTTTATACTATA
1 TATTTT-ATTTTTTAAAACTATA
10007460 AAATTTATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTATTTTTTAAAACTATA
Found at i:10009236 original size:283 final size:283
Alignment explanation
Indices: 10008708--10009277 Score: 926
Period size: 283 Copynumber: 2.0 Consensus size: 283
10008698 CAATTTTCAC
* *
10008708 TAAAATAGAGGCTAGATACATTTGGTCAATAAGAGAATCAATGGGATCATGACACTTTGACTTAG
1 TAAAATAAAGGCTAGATACATTTGATCAATAAGAGAATCAATGGGATCATGACACTTTGACTTAG
* * *
10008773 CTTTAAAGAGTTTGCTTGGTGGAGGAATTTATCTCTTCAAAAGTTAGATGAAATTCAAATTTTTG
66 CTTTAAAGAGTTTGCTTGGTGAAGGAATTTATATCCTCAAAAGTTAGATGAAATTCAAATTTTTG
* *
10008838 CTCTTGAAATCCATCTTAGCTAAATCAAAGAGAGGAGACCTATCAAGATTTAATCAAACATTAAT
131 CTCTTGAAATCCATCTTAGCTAAATCAAAGAGAGAAGACCTACCAAGATTTAATCAAACATTAAT
* * * *
10008903 CAAAGGCCAAAATTTCACCTTCAAGACCCTATTTAGCTAAGCACACTCAAGCAAGAGAAGTCTCA
196 CAAAGGCCAAAATTTCACCTTCAAGACCATATTCAGCTAAGCAAACTCAAGCAAGAGAAGTCCCA
* *
10008968 TTCGATTATGCCTCATTAGAAGA
261 TTCGATTACGCCTCATTAAAAGA
10008991 TAAAATAAAGGCTAGATACATTTGATCAATAAGAGAATCAATGGGATCATGACACTTTGACTTAG
1 TAAAATAAAGGCTAGATACATTTGATCAATAAGAGAATCAATGGGATCATGACACTTTGACTTAG
* *
10009056 CTTTAAAGAGTTTGCTTGGTGAAGGAATTTATATCCTCAAGAGTTGGATGAAATTCAAATTTTTG
66 CTTTAAAGAGTTTGCTTGGTGAAGGAATTTATATCCTCAAAAGTTAGATGAAATTCAAATTTTTG
* * *
10009121 TTCTTGAAATCCATCTTAGCTAAATCAAAGAGAGAATACCTACCAAGATTTAATCAAACATTGAT
131 CTCTTGAAATCCATCTTAGCTAAATCAAAGAGAGAAGACCTACCAAGATTTAATCAAACATTAAT
* * *
10009186 C-AAGAGCCAAAATTTTACTTTCAAGACCATATTCAGTTAAGCAAACTCAAGCAAGAGAAGTCCC
196 CAAAG-GCCAAAATTTCACCTTCAAGACCATATTCAGCTAAGCAAACTCAAGCAAGAGAAGTCCC
*
10009250 ATTCGATTACGCCTCTTTAAAAGA
260 ATTCGATTACGCCTCATTAAAAGA
10009274 TAAA
1 TAAA
10009278 GATGAGCTTA
Statistics
Matches: 264, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
282 3 0.01
283 261 0.99
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (283 bp):
TAAAATAAAGGCTAGATACATTTGATCAATAAGAGAATCAATGGGATCATGACACTTTGACTTAG
CTTTAAAGAGTTTGCTTGGTGAAGGAATTTATATCCTCAAAAGTTAGATGAAATTCAAATTTTTG
CTCTTGAAATCCATCTTAGCTAAATCAAAGAGAGAAGACCTACCAAGATTTAATCAAACATTAAT
CAAAGGCCAAAATTTCACCTTCAAGACCATATTCAGCTAAGCAAACTCAAGCAAGAGAAGTCCCA
TTCGATTACGCCTCATTAAAAGA
Found at i:10013510 original size:39 final size:39
Alignment explanation
Indices: 10013467--10013549 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
10013457 TTCTTTTTTT
* *
10013467 CTTTTTTTTTTTGTTTAGCTACATAATAAGCCAATAAAC
1 CTTTTCTTTTTTATTTAGCTACATAATAAGCCAATAAAC
*
10013506 CTTTTCTTTTTTATTTAGCTACATAATAAGCCAATAAGC
1 CTTTTCTTTTTTATTTAGCTACATAATAAGCCAATAAAC
10013545 CTTTT
1 CTTTT
10013550 ATTTGATTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.47
Consensus pattern (39 bp):
CTTTTCTTTTTTATTTAGCTACATAATAAGCCAATAAAC
Found at i:10017870 original size:22 final size:22
Alignment explanation
Indices: 10017844--10017921 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
10017834 AATTGACTAC
* * *
10017844 TTAATAGTTAATTATTAATAAT
1 TTAATAATAAATTAATAATAAT
* *
10017866 TTAATAATAAATCAATGATAAT
1 TTAATAATAAATTAATAATAAT
* *
10017888 TTAATAATAAATTAGTAATAAA
1 TTAATAATAAATTAATAATAAT
*
10017910 TTAATAGTAAAT
1 TTAATAATAAAT
10017922 CTGTTTTAGT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (22 bp):
TTAATAATAAATTAATAATAAT
Found at i:10017875 original size:11 final size:11
Alignment explanation
Indices: 10017853--10017921 Score: 75
Period size: 11 Copynumber: 6.3 Consensus size: 11
10017843 CTTAATAGTT
*
10017853 AATTATTAATA
1 AATTAATAATA
*
10017864 ATTTAATAATA
1 AATTAATAATA
* *
10017875 AATCAATGATA
1 AATTAATAATA
*
10017886 ATTTAATAATA
1 AATTAATAATA
*
10017897 AATTAGTAATA
1 AATTAATAATA
*
10017908 AATTAATAGTA
1 AATTAATAATA
10017919 AAT
1 AAT
10017922 CTGTTTTAGT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 46 1.00
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (11 bp):
AATTAATAATA
Found at i:10018018 original size:22 final size:22
Alignment explanation
Indices: 10017949--10018018 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
10017939 TAATTAATAG
*
10017949 TAGTAAATAATAAATAATTTAA
1 TAGTAAATAATTAATAATTTAA
* * *
10017971 AAGTAAATCAATT-ATAAATTAG
1 TAGTAAAT-AATTAATAATTTAA
10017993 TAGTAAATAATTAATAATTTAA
1 TAGTAAATAATTAATAATTTAA
10018015 TAGT
1 TAGT
10018019 TATTCATTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.10
22 32 0.82
23 3 0.08
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (22 bp):
TAGTAAATAATTAATAATTTAA
Found at i:10018279 original size:22 final size:22
Alignment explanation
Indices: 10017946--10018280 Score: 75
Period size: 22 Copynumber: 15.5 Consensus size: 22
10017936 TAGTAATTAA
* *
10017946 TAGTAGTAAATAATAAATAATT
1 TAGTAGTAAATCATTAATAATT
** *
10017968 TAAAAGTAAATCAATT-ATAAAT
1 TAGTAGTAAATC-ATTAATAATT
*
10017990 TAGTAGTAAATAATTAATAATT
1 TAGTAGTAAATCATTAATAATT
* * *
10018012 TAATAGTTATTCATTGAA-AATT
1 TAGTAGTAAATCATT-AATAATT
* * * *
10018034 TCA-AAATAAATTAGT-ATAATT
1 T-AGTAGTAAATCATTAATAATT
* ** * **
10018055 TAGTAATAAATCATCGACAACA
1 TAGTAGTAAATCATTAATAATT
* * * *
10018077 TAATAATTAATCAATT-ATAACT
1 TAGTAGTAAATC-ATTAATAATT
* *
10018099 TAATAATAAATCA-TATATAATT
1 TAGTAGTAAATCATTA-ATAATT
* * * *
10018121 TAATA-TAAAACAATAATAACT
1 TAGTAGTAAATCATTAATAATT
** *
10018142 TAGTAGTGGATCATAAATAATT
1 TAGTAGTAAATCATTAATAATT
* *
10018164 TAGT-GATAAATTAGTAATAATT
1 TAGTAG-TAAATCATTAATAATT
* ** * *
10018186 TTGT-GATAGGTAATTAAAAATT
1 TAGTAG-TAAATCATTAATAATT
* * **
10018208 AAGTAGTAAATCAATAATAACA
1 TAGTAGTAAATCATTAATAATT
* * * *
10018230 TAATAATATAT-A-T-A-AATA
1 TAGTAGTAAATCATTAATAATT
* *
10018248 TAATAATAAATCATTAATAATT
1 TAGTAGTAAATCATTAATAATT
10018270 TAGTAGTAAAT
1 TAGTAGTAAAT
10018281 TGATAGCTTA
Statistics
Matches: 224, Mismatches: 71, Indels: 36
0.68 0.21 0.11
Matches are distributed among these distances:
18 13 0.06
19 2 0.01
20 5 0.02
21 35 0.16
22 161 0.72
23 8 0.04
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
TAGTAGTAAATCATTAATAATT
Found at i:10018300 original size:41 final size:41
Alignment explanation
Indices: 10018248--10018367 Score: 114
Period size: 44 Copynumber: 2.9 Consensus size: 41
10018238 TATATAAATA
* * * * *
10018248 TAATAATAAATCATTAATAATTTAGTAGTAAATTGATAGCT
1 TAATAGTAAATCACTGATAATTTAGTAGTAAATTAATAACT
* * *
10018289 TAATAGTAAATCCCTGATAATGTAATAGTAAATTACTAATAACT
1 TAATAGTAAATCACTGATAATTTAGTAGTAAA-T--TAATAACT
* * *
10018333 TAATTGTAAATCAGTGATAATTTAGTAATAAATTA
1 TAATAGTAAATCACTGATAATTTAGTAGTAAATTA
10018368 GTTAATTATT
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 28 0.45
42 1 0.02
43 1 0.02
44 32 0.52
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.38
Consensus pattern (41 bp):
TAATAGTAAATCACTGATAATTTAGTAGTAAATTAATAACT
Found at i:10018352 original size:22 final size:22
Alignment explanation
Indices: 10018248--10018352 Score: 74
Period size: 22 Copynumber: 4.9 Consensus size: 22
10018238 TATATAAATA
* * * *
10018248 TAATAATAAATCATTAATAATT
1 TAATAGTAAATCACTGATAACT
* *
10018270 TAGTAGTAAAT---TGATAGCT
1 TAATAGTAAATCACTGATAACT
*
10018289 TAATAGTAAATCCCTGATAA-T
1 TAATAGTAAATCACTGATAACT
* *
10018310 GTAATAGTAAATTACTAATAACT
1 -TAATAGTAAATCACTGATAACT
* *
10018333 TAATTGTAAATCAGTGATAA
1 TAATAGTAAATCACTGATAA
10018353 TTTAGTAATA
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
19 15 0.23
21 1 0.02
22 47 0.73
23 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (22 bp):
TAATAGTAAATCACTGATAACT
Found at i:10018438 original size:22 final size:22
Alignment explanation
Indices: 10018423--10018464 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10018413 TAAATCAGTT
*
10018423 ATAACTTTATAATAAATCATCA
1 ATAACTTAATAATAAATCATCA
*
10018445 ATAACTTAATGATAAATCAT
1 ATAACTTAATAATAAATCAT
10018465 TAACAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAATAAATCATCA
Found at i:10018535 original size:22 final size:22
Alignment explanation
Indices: 10018508--10018569 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
10018498 AATAATTGGT
10018508 AAATCATTAATAACTTAATAGC
1 AAATCATTAATAACTTAATAGC
* * * *
10018530 AAATCATTTATAAATTAGTAGT
1 AAATCATTAATAACTTAATAGC
* *
10018552 ATATCATTGATAACTTAA
1 AAATCATTAATAACTTAA
10018570 AAATAAATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (22 bp):
AAATCATTAATAACTTAATAGC
Found at i:10018889 original size:19 final size:20
Alignment explanation
Indices: 10018867--10018925 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 20
10018857 TGATAGGTTA
10018867 TTAAA-AAAT-AAGTGATAAC
1 TTAAATAAATCAA-TGATAAC
10018886 TTAATAATAAATCAATGATAAC
1 TT-A-AATAAATCAATGATAAC
10018908 TTAATAATAAATCAATGA
1 TT-A-AATAAATCAATGA
10018926 ACACTTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.06
20 1 0.03
21 2 0.06
22 29 0.81
23 2 0.06
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (20 bp):
TTAAATAAATCAATGATAAC
Found at i:10018897 original size:22 final size:22
Alignment explanation
Indices: 10018879--10019063 Score: 99
Period size: 22 Copynumber: 8.7 Consensus size: 22
10018869 AAAAAATAAG
10018879 TGATAACTTAATAATAAATCAA
1 TGATAACTTAATAATAAATCAA
10018901 TGATAACTTAATAATAAATCAA
1 TGATAACTTAATAATAAATCAA
* * *
10018923 TGA-ACACTTAATAGTAAGTCAG
1 TGATA-ACTTAATAATAAATCAA
*
10018945 T-TTCAA-TT--TAAT-AAT---
1 TGAT-AACTTAATAATAAATCAA
* * *
10018960 TGATAAATTTAGTAGTAAATC-A
1 TGAT-AACTTAATAATAAATCAA
* *
10018982 TAAATAACTTAATAGTAAATCAA
1 T-GATAACTTAATAATAAATCAA
* * *
10019005 TGATAATTTAATAATTAATCAT
1 TGATAACTTAATAATAAATCAA
*
10019027 TAGA-AACTTAA-AAGTAAATCGA
1 T-GATAACTTAATAA-TAAATCAA
*
10019049 T-ATAACTTAGTAATA
1 TGATAACTTAATAATA
10019064 GTTAATCATT
Statistics
Matches: 125, Mismatches: 22, Indels: 33
0.69 0.12 0.18
Matches are distributed among these distances:
15 1 0.01
16 3 0.02
17 2 0.02
18 2 0.02
19 6 0.05
20 4 0.03
21 13 0.10
22 87 0.70
23 7 0.06
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (22 bp):
TGATAACTTAATAATAAATCAA
Found at i:10019014 original size:44 final size:44
Alignment explanation
Indices: 10018960--10019063 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
10018950 ATTTAATAAT
* *
10018960 TGATAAATTTAGTAGTAAATCA-TAAATAACTTAATAGTAAATCAA
1 TGAT-AATTTAGTAATAAATCATTAAA-AACTTAAAAGTAAATCAA
* * * *
10019005 TGATAATTTAATAATTAATCATTAGAAACTTAAAAGTAAATCGA
1 TGATAATTTAGTAATAAATCATTAAAAACTTAAAAGTAAATCAA
*
10019049 T-ATAACTTAGTAATA
1 TGATAATTTAGTAATA
10019064 GTTAATCATT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
43 11 0.22
44 31 0.63
45 7 0.14
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (44 bp):
TGATAATTTAGTAATAAATCATTAAAAACTTAAAAGTAAATCAA
Found at i:10019074 original size:46 final size:44
Alignment explanation
Indices: 10018987--10019074 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
10018977 AATCATAAAT
*
10018987 AACTTAATAGTAAATCAATGATAATTTAATAATTAATCATTAGA
1 AACTTAAAAGTAAATCAATGATAATTTAATAATTAATCATTAGA
* *
10019031 AACTTAAAAGTAAATCGAT-ATAACTTAGTAATAGTTAATCATTA
1 AACTTAAAAGTAAATCAATGATAA-TT--TAATAATTAATCATTA
10019075 ATAGGTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 4 0.11
44 19 0.50
46 15 0.39
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (44 bp):
AACTTAAAAGTAAATCAATGATAATTTAATAATTAATCATTAGA
Found at i:10019114 original size:22 final size:21
Alignment explanation
Indices: 10019080--10019133 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
10019070 CATTAATAGG
* *
10019080 TTAATAGTTAATTATTGAAAAC
1 TTAATA-TAAATTATGGAAAAC
* *
10019102 TTAACTATAAATTATGGATAAT
1 TTAA-TATAAATTATGGAAAAC
10019124 TTAATATAAA
1 TTAATATAAA
10019134 ATCAATGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 6 0.22
22 19 0.70
23 2 0.07
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (21 bp):
TTAATATAAATTATGGAAAAC
Found at i:10019262 original size:22 final size:22
Alignment explanation
Indices: 10019237--10019306 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
10019227 TATTAATAGG
10019237 TTAATAGTTAATCAATGAAAAC
1 TTAATAGTTAATCAATGAAAAC
* * * *
10019259 TTAAAAGTAAAT-TAT--AGA-
1 TTAATAGTTAATCAATGAAAAC
10019277 TTAATAGTTAATCAATGAAAAC
1 TTAATAGTTAATCAATGAAAAC
*
10019299 TTAGTAGT
1 TTAATAGT
10019307 AAATTATAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
18 10 0.29
19 4 0.11
21 4 0.11
22 17 0.49
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (22 bp):
TTAATAGTTAATCAATGAAAAC
Found at i:10019283 original size:40 final size:40
Alignment explanation
Indices: 10019232--10019317 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
10019222 TTAACTATTA
*
10019232 ATAGGTTAATAGTTAATCAATGAAAACTTAAAAGTAAATT
1 ATAGATTAATAGTTAATCAATGAAAACTTAAAAGTAAATT
**
10019272 ATAGATTAATAGTTAATCAATGAAAACTTAGTAGTAAATT
1 ATAGATTAATAGTTAATCAATGAAAACTTAAAAGTAAATT
10019312 ATAGAT
1 ATAGAT
10019318 AATTTAAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.34
Consensus pattern (40 bp):
ATAGATTAATAGTTAATCAATGAAAACTTAAAAGTAAATT
Found at i:10019473 original size:22 final size:22
Alignment explanation
Indices: 10019413--10019539 Score: 98
Period size: 22 Copynumber: 5.8 Consensus size: 22
10019403 AAAACATAGC
* *
10019413 AGTAAATCAATGATAACATAAT
1 AGTAAATCATTGATAATATAAT
* *
10019435 AATAAATGCA-TAATAATATAAT
1 AGTAAAT-CATTGATAATATAAT
*
10019457 AGTAAATCATTGATAATTTAA-
1 AGTAAATCATTGATAATATAAT
*
10019478 ATGTAAATTATTGATAACT-TAAT
1 A-GTAAATCATTGATAA-TATAAT
* * * *
10019501 AGTAAATCACTCATAATTTAGT
1 AGTAAATCATTGATAATATAAT
* *
10019523 TGTAAATAATTGATAAT
1 AGTAAATCATTGATAAT
10019540 TTAGTAGCAA
Statistics
Matches: 84, Mismatches: 15, Indels: 12
0.76 0.14 0.11
Matches are distributed among these distances:
21 4 0.05
22 76 0.90
23 4 0.05
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (22 bp):
AGTAAATCATTGATAATATAAT
Found at i:10019484 original size:66 final size:66
Alignment explanation
Indices: 10019414--10019542 Score: 161
Period size: 66 Copynumber: 2.0 Consensus size: 66
10019404 AAACATAGCA
*
10019414 GTAAATCAATGATAACATAATAATAAATGCA-TAATAATATAATAGTAAATCATTGATAATTTAA
1 GTAAATCAATGATAACATAATAATAAAT-CACTAATAATATAATAGTAAATAATTGATAATTTAA
10019478 AT
65 AT
* * * * * * * *
10019480 GTAAATTATTGATAACTTAATAGTAAATCACTCATAATTTAGTTGTAAATAATTGATAATTTA
1 GTAAATCAATGATAACATAATAATAAATCACTAATAATATAATAGTAAATAATTGATAATTTA
10019543 GTAGCAAATT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 2 0.04
66 51 0.96
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (66 bp):
GTAAATCAATGATAACATAATAATAAATCACTAATAATATAATAGTAAATAATTGATAATTTAAA
T
Found at i:10019544 original size:22 final size:22
Alignment explanation
Indices: 10019447--10019542 Score: 102
Period size: 22 Copynumber: 4.4 Consensus size: 22
10019437 TAAATGCATA
* *
10019447 ATAATATAATAGTAAATCATTG
1 ATAATTTAATTGTAAATCATTG
* *
10019469 ATAATTTAAATGTAAATTATTG
1 ATAATTTAATTGTAAATCATTG
* * * *
10019491 ATAACTTAATAGTAAATCACTC
1 ATAATTTAATTGTAAATCATTG
* *
10019513 ATAATTTAGTTGTAAATAATTG
1 ATAATTTAATTGTAAATCATTG
10019535 ATAATTTA
1 ATAATTTA
10019543 GTAGCAAATT
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (22 bp):
ATAATTTAATTGTAAATCATTG
Found at i:10019622 original size:44 final size:44
Alignment explanation
Indices: 10019574--10019759 Score: 130
Period size: 44 Copynumber: 4.2 Consensus size: 44
10019564 GACAACTTTA
*
10019574 TAGTAAATCAGT-TATAACTTTA-TAACAAATCA-TCAATAACTTAG
1 TAGTAAATCA-TCAATAA-TTTAGTAACAAATCAGTC-ATAACTTAG
* *
10019618 TAGTAAATCATCAATAATTTAGTAATAAATTAGTCATAACTTAG
1 TAGTAAATCATCAATAATTTAGTAACAAATCAGTCATAACTTAG
* * ** * *
10019662 TAGTAAATTATTC-ATAAATTAGTAGTAAATCAATGC-TAATTTAG
1 TAGTAAATCA-TCAATAATTTAGTAACAAATCAGT-CATAACTTAG
* ** * * * * * *
10019706 TAATAAATCATTGATAATTTAGCAATATATTATTGATAACTTAG
1 TAGTAAATCATCAATAATTTAGTAACAAATCAGTCATAACTTAG
10019750 TAGTAAATCA
1 TAGTAAATCA
10019760 AAGATAAAGT
Statistics
Matches: 114, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
43 6 0.05
44 103 0.90
45 5 0.04
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (44 bp):
TAGTAAATCATCAATAATTTAGTAACAAATCAGTCATAACTTAG
Found at i:10019640 original size:19 final size:21
Alignment explanation
Indices: 10019571--10019693 Score: 81
Period size: 22 Copynumber: 5.6 Consensus size: 21
10019561 ATTGACAACT
*
10019571 TTATAGTAAATCAGT-TATAAC
1 TTATAGTAAATCA-TCAATAAC
**
10019592 TTTATAACAAATCATCAATAAC
1 -TTATAGTAAATCATCAATAAC
*
10019614 TTAGTAGTAAATCATCAATAAT
1 TTA-TAGTAAATCATCAATAAC
* *
10019636 TTAGTAATAAATTAGTC-ATAAC
1 TTA-TAGTAAATCA-TCAATAAC
* *
10019658 TTAGTAGTAAATTATTC-ATAAA
1 TTA-TAGTAAATCA-TCAATAAC
10019680 TTAGTAGTAAATCA
1 TTA-TAGTAAATCA
10019694 ATGCTAATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
21 4 0.05
22 79 0.93
23 2 0.02
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (21 bp):
TTATAGTAAATCATCAATAAC
Found at i:10019650 original size:11 final size:11
Alignment explanation
Indices: 10019608--10019691 Score: 62
Period size: 11 Copynumber: 7.6 Consensus size: 11
10019598 ACAAATCATC
*
10019608 AATAACTTAGT
1 AATAAATTAGT
* *
10019619 AGTAAATCA-T
1 AATAAATTAGT
*
10019629 CAATAATTTAGT
1 -AATAAATTAGT
10019641 AATAAATTAGT
1 AATAAATTAGT
* *
10019652 CATAACTTAGT
1 AATAAATTAGT
* *
10019663 AGTAAATTATT
1 AATAAATTAGT
*
10019674 CATAAATTAGT
1 AATAAATTAGT
*
10019685 AGTAAAT
1 AATAAAT
10019692 CAATGCTAAT
Statistics
Matches: 53, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
10 1 0.02
11 51 0.96
12 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (11 bp):
AATAAATTAGT
Found at i:10019657 original size:66 final size:66
Alignment explanation
Indices: 10019577--10019760 Score: 169
Period size: 66 Copynumber: 2.8 Consensus size: 66
10019567 AACTTTATAG
* *
10019577 TAAATCAGTTATAACTTTA-TAACAAATCA-TCAATAACTTAGTAGTAAATC-AT-CAATAATTT
1 TAAATCAGTCATAAC-TTAGTAACAAATCATTC-ATAAATTAGTAGTAAATCAATGC--TAATTT
10019638 AGTAA
62 AGTAA
* ** *
10019643 TAAATTAGTCATAACTTAGTAGTAAATTATTCATAAATTAGTAGTAAATCAATGCTAATTTAGTA
1 TAAATCAGTCATAACTTAGTAACAAATCATTCATAAATTAGTAGTAAATCAATGCTAATTTAGTA
10019708 A
66 A
* * * * * * * * *
10019709 TAAATCATTGATAATTTAGCAATATATTATTGATAACTTAGTAGTAAATCAA
1 TAAATCAGTCATAACTTAGTAACAAATCATTCATAAATTAGTAGTAAATCAA
10019761 AGATAAAGTA
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
65 3 0.03
66 91 0.92
67 4 0.04
68 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (66 bp):
TAAATCAGTCATAACTTAGTAACAAATCATTCATAAATTAGTAGTAAATCAATGCTAATTTAGTA
A
Found at i:10019705 original size:22 final size:22
Alignment explanation
Indices: 10019614--10019784 Score: 80
Period size: 22 Copynumber: 7.8 Consensus size: 22
10019604 CATCAATAAC
10019614 TTAGTAGTAAATC-AT-CAATAAT
1 TTAGTAGTAAATCAATGC--TAAT
* * * *
10019636 TTAGTAATAAATTAGT-CATAAC
1 TTAGTAGTAAATCAATGC-TAAT
* * *
10019658 TTAGTAGTAAAT-TATTCATAAA
1 TTAGTAGTAAATCAATGC-TAAT
10019680 TTAGTAGTAAATCAATGCTAAT
1 TTAGTAGTAAATCAATGCTAAT
* * *
10019702 TTAGTAATAAATCATTGATAAT
1 TTAGTAGTAAATCAATGCTAAT
* * * * * * *
10019724 TTAGCAATATATTATTGATAAC
1 TTAGTAGTAAATCAATGCTAAT
* * *
10019746 TTAGTAGTAAATCAAAGATAAA
1 TTAGTAGTAAATCAATGCTAAT
* *
10019768 GTAATAGTAAATCAATG
1 TTAGTAGTAAATCAATG
10019785 ATAACTTAAT
Statistics
Matches: 118, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
21 1 0.01
22 112 0.95
23 5 0.04
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (22 bp):
TTAGTAGTAAATCAATGCTAAT
Found at i:10019766 original size:44 final size:44
Alignment explanation
Indices: 10019609--10019810 Score: 163
Period size: 44 Copynumber: 4.6 Consensus size: 44
10019599 CAAATCATCA
* *
10019609 ATAACTTAGTAGTAAATCATCA-ATAATTTAGTAATAAATTAGTC
1 ATAACTTAGTAGTAAATCAT-AGATAATTTAGTAATAAATTAATG
* ** * * *
10019653 ATAACTTAGTAGTAAATTATTCATAAATTAGTAGTAAATCAATG
1 ATAACTTAGTAGTAAATCATAGATAATTTAGTAATAAATTAATG
* * * * * * *
10019697 CTAATTTAGTAATAAATCATTGATAATTTAGCAATATATTATTG
1 ATAACTTAGTAGTAAATCATAGATAATTTAGTAATAAATTAATG
* ** * * *
10019741 ATAACTTAGTAGTAAATCAAAGATAAAGTAATAGTAAATCAATG
1 ATAACTTAGTAGTAAATCATAGATAATTTAGTAATAAATTAATG
* * * *
10019785 ATAACTTAATTGTCAATCATTGATAA
1 ATAACTTAGTAGTAAATCATAGATAA
10019811 ATTTTTTATA
Statistics
Matches: 121, Mismatches: 36, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
44 121 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (44 bp):
ATAACTTAGTAGTAAATCATAGATAATTTAGTAATAAATTAATG
Found at i:10019787 original size:22 final size:22
Alignment explanation
Indices: 10019750--10019811 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
10019740 GATAACTTAG
*
10019750 TAGTAAATCAAAGATAAAGTAA
1 TAGTAAATCAATGATAAAGTAA
**
10019772 TAGTAAATCAATGATAACTTAA
1 TAGTAAATCAATGATAAAGTAA
* * *
10019794 TTGTCAATCATTGATAAA
1 TAGTAAATCAATGATAAA
10019812 TTTTTTATAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (22 bp):
TAGTAAATCAATGATAAAGTAA
Found at i:10020134 original size:22 final size:22
Alignment explanation
Indices: 10020081--10020134 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
10020071 TATATTATAA
10020081 GTTATCAAAAGATTACTAAAAT
1 GTTATCAAAAGATTACTAAAAT
** *
10020103 GACATCAAAAGGTTACTAAAAT
1 GTTATCAAAAGATTACTAAAAT
* *
10020125 TTTATAAAAA
1 GTTATCAAAA
10020135 AATGACCAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (22 bp):
GTTATCAAAAGATTACTAAAAT
Found at i:10020169 original size:21 final size:21
Alignment explanation
Indices: 10020139--10020217 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
10020129 TAAAAAAATG
10020139 ACCAAAATTATATCAATAGTT
1 ACCAAAATTATATCAATAGTT
*
10020160 ACCAACATTATATC-ATAAGTT
1 ACCAAAATTATATCAAT-AGTT
** *
10020181 ATTAAAATTGTATCGAA-AGTT
1 ACCAAAATTATATC-AATAGTT
* *
10020202 ACCAAGATTTTATCAA
1 ACCAAAATTATATCAA
10020218 AGGCTATCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 4 0.09
21 41 0.89
23 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (21 bp):
ACCAAAATTATATCAATAGTT
Found at i:10020230 original size:42 final size:42
Alignment explanation
Indices: 10020141--10020232 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
10020131 AAAAAATGAC
*
10020141 CAAAATTATATCAATAGTTACCAACATTATATCATAAGTTAT
1 CAAAATTATATCAATAGTTACCAACATTATATCATAAGCTAT
* * * *
10020183 TAAAATTGTATCGAA-AGTTACCAAGATTTTATCA-AAGGCTAT
1 CAAAATTATATC-AATAGTTACCAACATTATATCATAA-GCTAT
10020225 CAAAATTA
1 CAAAATTA
10020233 AAATTATATC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.05
42 37 0.90
43 2 0.05
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.34
Consensus pattern (42 bp):
CAAAATTATATCAATAGTTACCAACATTATATCATAAGCTAT
Found at i:10020315 original size:3 final size:3
Alignment explanation
Indices: 10020301--10020352 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
10020291 TTTTTAGTAT
*
10020301 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10020349 TTA T
1 TTA T
10020353 CATCATCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10024898 original size:16 final size:15
Alignment explanation
Indices: 10024864--10024913 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 15
10024854 ACGAAAATTT
10024864 AAAAAAATAAAAAGGA
1 AAAAAAATAAAAA-GA
* *
10024880 AAAGAAATAAAATG-
1 AAAAAAATAAAAAGA
10024894 -AAAAAA-AAAAAGA
1 AAAAAAATAAAAAGA
10024907 AAAAAAA
1 AAAAAAA
10024914 AGATTCAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 5 0.18
13 5 0.18
14 6 0.21
15 1 0.04
16 11 0.39
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (15 bp):
AAAAAAATAAAAAGA
Found at i:10025163 original size:59 final size:58
Alignment explanation
Indices: 10024970--10025186 Score: 284
Period size: 59 Copynumber: 3.8 Consensus size: 58
10024960 TAATTTCGTA
* *
10024970 CAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAATATTTTTTTAAAAAA-TTATTGT
1 CAAGAAAAATTGATACTTTCAACTTTTCCT--CAAAAATA-TTTTTTAAAAAACTTATTTT
*
10025030 CAA-AGAAAA-T--TACTTTCAACTTTTTCTCAAAAATA-TTTTTAAAAAACTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
* *
10025084 TAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTA-AAAAACTTATTTT
* *
10025143 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
10025187 TTTGAAATTT
Statistics
Matches: 141, Mismatches: 8, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
53 11 0.08
54 12 0.09
55 9 0.06
57 41 0.29
58 6 0.04
59 55 0.39
60 7 0.05
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
Found at i:10025214 original size:5 final size:5
Alignment explanation
Indices: 10025206--10025263 Score: 75
Period size: 5 Copynumber: 11.4 Consensus size: 5
10025196 TTATTTAAAG
10025206 AAAAT AAAAT --AAT AAAAT AAAAAT AAAGAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAA-AT -AAAAT AAAAT AAAAT
10025252 AAAAT AAAAT AA
1 AAAAT AAAAT AA
10025264 GAAATACTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.06
5 33 0.69
6 9 0.19
7 3 0.06
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:10025234 original size:28 final size:27
Alignment explanation
Indices: 10025216--10025269 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
10025206 AAAATAAAAT
10025216 AATAAAATAAAAATAAAGATAAAAATAA
1 AATAAAAT-AAAATAAAGATAAAAATAA
10025244 AATAAAATAAAATAAA-ATAAGAAATA
1 AATAAAATAAAATAAAGATAA-AAATA
10025270 CTAAATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 4 0.16
27 13 0.52
28 8 0.32
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.19
Consensus pattern (27 bp):
AATAAAATAAAATAAAGATAAAAATAA
Found at i:10025306 original size:22 final size:22
Alignment explanation
Indices: 10025212--10025321 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
10025202 AAAGAAAATA
*
10025212 AAATAATAA-AATAAAAATAA-
1 AAATAATAATAATAATAATAAT
* *
10025232 AGATAAAAATAA-AATAA-AAT
1 AAATAATAATAATAATAATAAT
* *
10025252 -AA-AATAA-AATAAGAAATACT
1 AAATAATAATAATAA-TAATAAT
** *
10025272 AAATAATTTTAAT-CTAATCAAT
1 AAATAATAATAATAATAAT-AAT
10025294 AAATAATAATAATAATAATAAT
1 AAATAATAATAATAATAATAAT
10025316 AAATAA
1 AAATAA
10025322 ATAAATAAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 18
0.66 0.15 0.18
Matches are distributed among these distances:
17 2 0.03
18 6 0.09
19 5 0.08
20 13 0.20
21 7 0.11
22 25 0.38
23 7 0.11
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (22 bp):
AAATAATAATAATAATAATAAT
Found at i:10025330 original size:4 final size:3
Alignment explanation
Indices: 10025208--10025317 Score: 56
Period size: 3 Copynumber: 37.7 Consensus size: 3
10025198 ATTTAAAGAA
* *
10025208 AAT AA- AAT AAT AA- AAT AAA AAT AA- AGAT AAA AAT AA- AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * ** *
10025249 AAT AA- AAT AA- AAT AAGA AAT ACT AAAT AAT TTT AAT -CT AAT CAAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT -AAT
10025294 AAAT AAT AAT AAT AAT AAT AAT AA
1 -AAT AAT AAT AAT AAT AAT AAT AA
10025318 ATAAATAAAT
Statistics
Matches: 80, Mismatches: 15, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
2 14 0.17
3 55 0.69
4 11 0.14
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:10025588 original size:2 final size:2
Alignment explanation
Indices: 10025581--10025608 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10025571 CTCCCCTTCC
10025581 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10025609 TTTCTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10025682 original size:20 final size:20
Alignment explanation
Indices: 10025654--10025691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10025644 AACTCCAGTT
* *
10025654 AAATCTCGTCAGATTCTGAA
1 AAATATCGTCAGAATCTGAA
10025674 AAATATCGTCAGAATCTG
1 AAATATCGTCAGAATCTG
10025692 GGTTTTTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (20 bp):
AAATATCGTCAGAATCTGAA
Found at i:10026215 original size:19 final size:17
Alignment explanation
Indices: 10026186--10026241 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 17
10026176 AAAAAAATAA
10026186 AATAAAGATAATATATT
1 AATAAAGATAATATATT
*
10026203 AATTAATAGATAA-ATAAT
1 AA-TAA-AGATAATATATT
10026221 AATAAAGTATATATATATT
1 AATAAAG-ATA-ATATATT
10026240 AA
1 AA
10026242 CAGATAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 2 0.06
17 8 0.25
18 10 0.31
19 12 0.38
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (17 bp):
AATAAAGATAATATATT
Found at i:10026241 original size:33 final size:34
Alignment explanation
Indices: 10026185--10026291 Score: 116
Period size: 33 Copynumber: 3.2 Consensus size: 34
10026175 AAAAAAAATA
10026185 AAATAAAG-ATAATATATTAATTAATAGATAAATAAT
1 AAATAAAGTAT-ATATA-T-ATTAATAGATAAATAAT
*
10026221 -AATAAAGTATATATATATTAACAGATAAATAAT
1 AAATAAAGTATATATATATTAATAGATAAATAAT
* * *
10026254 AAATAAA-TAAATATAAATAAATAG-T-AATAAT
1 AAATAAAGTATATATATATTAATAGATAAATAAT
10026285 AAATAAA
1 AAATAAA
10026292 TAAAATACAA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
31 13 0.20
32 1 0.02
33 29 0.45
34 7 0.11
35 12 0.19
36 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (34 bp):
AAATAAAGTATATATATATTAATAGATAAATAAT
Found at i:10026259 original size:37 final size:37
Alignment explanation
Indices: 10026185--10026294 Score: 97
Period size: 37 Copynumber: 3.0 Consensus size: 37
10026175 AAAAAAAATA
* *
10026185 AAATAAAG-ATAATATATTAATTAATAGATAAATAAT
1 AAATAAAGTATAATATATTAATCAATAAATAAATAAT
10026221 -AATAAAGTATATATATATTAA-CAGATAAAT-AATAAAT
1 AAATAAAGTATA-ATATATTAATCA-ATAAATAAAT-AAT
*
10026258 AAATAAA-TATAAATAAATAGTAAT-AATAAATAAATAA
1 AAATAAAGTAT-AAT--ATATTAATCAATAAATAAATAA
10026295 AATACAAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
35 7 0.11
36 7 0.11
37 22 0.36
38 15 0.25
39 10 0.16
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (37 bp):
AAATAAAGTATAATATATTAATCAATAAATAAATAAT
Found at i:10026286 original size:17 final size:15
Alignment explanation
Indices: 10026206--10026295 Score: 78
Period size: 14 Copynumber: 6.0 Consensus size: 15
10026196 ATATATTAAT
*
10026206 TAATAGATAAAT-AA
1 TAATAAATAAATAAA
* *
10026220 TAATAAAGTATATATA
1 TAATAAA-TAAATAAA
* * *
10026236 T-ATTAACAGATAAA
1 TAATAAATAAATAAA
10026250 TAATAAATAAATAAA
1 TAATAAATAAATAAA
10026265 T-ATAAATAAATAGTAA
1 TAATAAATAAATA--AA
10026281 TAATAAATAAATAAA
1 TAATAAATAAATAAA
10026296 ATACAAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
14 23 0.38
15 21 0.35
16 5 0.08
17 11 0.18
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (15 bp):
TAATAAATAAATAAA
Found at i:10026307 original size:31 final size:31
Alignment explanation
Indices: 10026248--10026307 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
10026238 TTAACAGATA
*
10026248 AATAATAAATAAATAAATATAAATAAATAGT
1 AATAATAAATAAATAAATATAAAAAAATAGT
10026279 AATAATAAATAAATAAA-ATACAAAAAATA
1 AATAATAAATAAATAAATATA-AAAAAATA
10026308 AAATATACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (31 bp):
AATAATAAATAAATAAATATAAAAAAATAGT
Found at i:10026311 original size:23 final size:23
Alignment explanation
Indices: 10026258--10026343 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
10026248 AATAATAAAT
**
10026258 AAATAAATATAAAT-AAATAGTAA
1 AAATAAA-ATAAATAAAATACAAA
*
10026281 TAAT-AAATAAATAAAATACAAA
1 AAATAAAATAAATAAAATACAAA
* *
10026303 AAATAAAATATACAAAATACAAA
1 AAATAAAATAAATAAAATACAAA
10026326 ATAA-AAAATAAA-AAAATA
1 A-AATAAAATAAATAAAATA
10026344 AAATGGGCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.11
22 18 0.34
23 27 0.51
24 2 0.04
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.21
Consensus pattern (23 bp):
AAATAAAATAAATAAAATACAAA
Found at i:10026340 original size:7 final size:7
Alignment explanation
Indices: 10026245--10026346 Score: 71
Period size: 7 Copynumber: 13.9 Consensus size: 7
10026235 ATATTAACAG
*
10026245 ATAAATA
1 ATAAAAA
10026252 ATAAATAA
1 ATAAA-AA
*
10026260 AT-AAAT
1 ATAAAAA
10026266 ATAAATAA
1 ATAAA-AA
*
10026274 ATAGTAATA
1 ATA--AAAA
10026283 ATAAATAA
1 ATAAA-AA
*
10026291 ATAAAAT
1 ATAAAAA
*
10026298 ACAAAAA
1 ATAAAAA
*
10026305 ATAAAAT
1 ATAAAAA
*
10026312 ATACAAA
1 ATAAAAA
*
10026319 ATACAAA
1 ATAAAAA
10026326 ATAAAAA
1 ATAAAAA
10026333 ATAAAAAA
1 AT-AAAAA
10026341 ATAAAA
1 ATAAAA
10026347 TGGGCTTACC
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
6 3 0.04
7 46 0.61
8 20 0.27
9 4 0.05
10 2 0.03
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.22
Consensus pattern (7 bp):
ATAAAAA
Found at i:10026959 original size:3 final size:3
Alignment explanation
Indices: 10026951--10027115 Score: 91
Period size: 3 Copynumber: 58.0 Consensus size: 3
10026941 TCAATTTTTA
* * * * *
10026951 TAT TAT TAT TAG CAT TAT TTT TAT TAT TAG TAT TAG TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * * * *
10026997 TATT TAT TAT TAT TAT TAT TGT TGT TGT TGT TAC TAG TAT TA- TAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
10027042 TAC TA- TAG TA- TAG TA- TAT TAT TAT TA- TAT TA- TAT TA- TAC TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10027083 TAT TA- TAT T-T TAT TA- TCT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10027116 AAGCTTTATT
Statistics
Matches: 131, Mismatches: 18, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
2 21 0.16
3 104 0.79
4 6 0.05
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:10027015 original size:47 final size:48
Alignment explanation
Indices: 10026944--10027115 Score: 133
Period size: 47 Copynumber: 3.5 Consensus size: 48
10026934 ATCAGTGTCA
**
10026944 ATTT-TTATATTATTATTAGCATTATTTTTATTATTAGTATTAGTATT
1 ATTTATTATATTATTATTATTATTATTTTTATTATTAGTATTAGTATT
* * * *
10026991 ATTTATTAT-TTATTATTATTATTATTGTTGTTGTT-GTTACTAGTATT
1 ATTTATTATATTATTATTATTATTATTTTTATTATTAG-TATTAGTATT
* *
10027038 ATATTACTATAGTATAGTATATTATTATTATATTATATTATACTA-TATTA-TA-T
1 AT-TTATTATA-T-TA-T-TATTATTATTAT-TTTTATTAT--TAGTATTAGTATT
*
10027091 -TTTATTATCTTATTATTATTATTAT
1 ATTTATTATATTATTATTATTATTAT
10027116 AAGCTTTATT
Statistics
Matches: 99, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
46 1 0.01
47 48 0.48
48 11 0.11
49 2 0.02
50 2 0.02
51 8 0.08
52 2 0.02
53 13 0.13
54 7 0.07
55 4 0.04
56 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (48 bp):
ATTTATTATATTATTATTATTATTATTTTTATTATTAGTATTAGTATT
Found at i:10027063 original size:26 final size:26
Alignment explanation
Indices: 10027034--10027088 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
10027024 TTGTTACTAG
*
10027034 TATTA-TATTACTATAGTATAGTATAT
1 TATTATTA-TACTATAGTATACTATAT
* *
10027060 TATTATTATATTATATTATACTATAT
1 TATTATTATACTATAGTATACTATAT
10027086 TAT
1 TAT
10027089 ATTTTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (26 bp):
TATTATTATACTATAGTATACTATAT
Found at i:10027071 original size:5 final size:5
Alignment explanation
Indices: 10027034--10027116 Score: 76
Period size: 5 Copynumber: 15.4 Consensus size: 5
10027024 TTGTTACTAG
* *
10027034 TATTA TATTA CTATAGTA TAGTA TATTA TTATTA TATTA TATTA TACTA
1 TATTA TATTA -TAT--TA TATTA TATTA -TATTA TATTA TATTA TATTA
* *
10027083 TATTA TATTT TATTA TCTTA TTATTA TTATTA TA
1 TATTA TATTA TATTA TATTA -TATTA -TATTA TA
10027117 AGCTTTATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
5 43 0.66
6 18 0.28
7 2 0.03
8 2 0.03
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:10027941 original size:14 final size:14
Alignment explanation
Indices: 10027919--10028038 Score: 73
Period size: 15 Copynumber: 8.1 Consensus size: 14
10027909 CGATCGCAGG
*
10027919 TTTTCATTTTTTTA
1 TTTTTATTTTTTTA
*
10027933 TTTTTATTTTTTGA
1 TTTTTATTTTTTTA
10027947 -TTTTATTTTTTATA
1 TTTTTATTTTTT-TA
* *
10027961 TTTTAAGTTTTTTA
1 TTTTTATTTTTTTA
* * *
10027975 TATTTATTTTCAATAA
1 TTTTTATTTT--TTTA
10027991 TTATTTATTTTATTT-
1 TT-TTTATTTT-TTTA
*
10028006 TATTTTACTTATTTTA
1 T-TTTTA-TTTTTTTA
*
10028022 TTATTATTTATTTTA
1 TTTTTATTT-TTTTA
10028037 TT
1 TT
10028039 GAGTAATTTA
Statistics
Matches: 81, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
13 11 0.14
14 24 0.30
15 28 0.35
16 10 0.12
17 8 0.10
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:10033723 original size:27 final size:27
Alignment explanation
Indices: 10033691--10033746 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
10033681 ACGAATATTG
*
10033691 TTACATTTTTACATAAATACTTATTTT
1 TTACATTTTTACATAAACACTTATTTT
*
10033718 TTACATTTTTACGTAAACACTTATTTT
1 TTACATTTTTACATAAACACTTATTTT
10033745 TT
1 TT
10033747 GATTGAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.55
Consensus pattern (27 bp):
TTACATTTTTACATAAACACTTATTTT
Found at i:10034095 original size:67 final size:67
Alignment explanation
Indices: 10033906--10034111 Score: 232
Period size: 67 Copynumber: 3.1 Consensus size: 67
10033896 TTCTTTAAGG
* * * * * * * *
10033906 TGTTATAATAATTTTAACATAGTTTACACTAAATAATACTAATTTTACAACTATTCTCATATTTT
1 TGTTACAATACTTTTAACATATTTTACATTAAATTATACTAATTTTACGACTATTTTCACATTTT
10033971 TA
66 TA
* * * *
10033973 TGTCACAATACTTTTAATATATTTTACATGAAATTATACCAATTTTACGACTATTTTCACATTTT
1 TGTTACAATACTTTTAACATATTTTACATTAAATTATACTAATTTTACGACTATTTTCACATTTT
10034038 TA
66 TA
** * * * * * *
10034040 TGTTATGATGCTTTTAACATATTTTACATTAAATTATACTAATTTTATGATTATTTTTACCTTCT
1 TGTTACAATACTTTTAACATATTTTACATTAAATTATACTAATTTTACGACTATTTTCACATTTT
10034105 TA
66 TA
10034107 TGTTA
1 TGTTA
10034112 ACATTTCTTT
Statistics
Matches: 115, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
67 115 1.00
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (67 bp):
TGTTACAATACTTTTAACATATTTTACATTAAATTATACTAATTTTACGACTATTTTCACATTTT
TA
Found at i:10034168 original size:21 final size:21
Alignment explanation
Indices: 10034144--10034202 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
10034134 TTATAAAAAA
* *
10034144 TTATAATAATAATTTTTTATG
1 TTATAATAATAATTATTTAAG
*
10034165 TTATCAAT-TTAATTATTTAAG
1 TTAT-AATAATAATTATTTAAG
*
10034186 TTACAATAA-AATCTATT
1 TTATAATAATAAT-TATT
10034203 ATGCTTATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 6 0.20
21 21 0.70
22 3 0.10
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (21 bp):
TTATAATAATAATTATTTAAG
Found at i:10034632 original size:21 final size:20
Alignment explanation
Indices: 10034560--10034632 Score: 51
Period size: 21 Copynumber: 3.5 Consensus size: 20
10034550 TGTTTAAAAT
* *
10034560 TATTTTTTTATTTGTAATAA
1 TATTTTTTTAATTATAATAA
10034580 TAATTTTTTTATATTATCAACT--
1 T-ATTTTTTTA-ATTAT-AA-TAA
* *
10034602 TAATTATTTACATTATAATAA
1 TATTTTTTTA-ATTATAATAA
10034623 TATTTTTTTA
1 TATTTTTTTA
10034633 TATTTATTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
19 1 0.03
20 3 0.08
21 29 0.73
22 4 0.10
23 2 0.05
24 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (20 bp):
TATTTTTTTAATTATAATAA
Found at i:10035996 original size:2 final size:2
Alignment explanation
Indices: 10035978--10036028 Score: 68
Period size: 2 Copynumber: 25.5 Consensus size: 2
10035968 TAGTAATGCA
* *
10035978 AT AT AG AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
10036021 AT A- AT AT A
1 AT AT AT AT A
10036029 ATAAAAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 40 0.93
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:10037105 original size:3 final size:3
Alignment explanation
Indices: 10037097--10037147 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
10037087 TTTAGAAAAC
10037097 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10037145 TAA
1 TAA
10037148 CAAAATGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10038874 original size:78 final size:78
Alignment explanation
Indices: 10038745--10038903 Score: 291
Period size: 78 Copynumber: 2.0 Consensus size: 78
10038735 AAATAAAAAG
* *
10038745 AAACCAAATGTATTTGAAAGAAGCTTGATTCACATTACCTTAACATTTTTTGGAATTTTGAAATC
1 AAACCAAATGTATTTGAAAAAAGCTTGATTCACATTACCTTAACATTTTTTGGAATTTTAAAATC
*
10038810 CTTAATATGGGCC
66 CTTAATATGAGCC
10038823 AAACCAAATGTATTTGAAAAAAGCTTGATTCACATTACCTTAACATTTTTTGGAATTTTAAAATC
1 AAACCAAATGTATTTGAAAAAAGCTTGATTCACATTACCTTAACATTTTTTGGAATTTTAAAATC
10038888 CTTAATATGAGCC
66 CTTAATATGAGCC
10038901 AAA
1 AAA
10038904 ATTCGATCAA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (78 bp):
AAACCAAATGTATTTGAAAAAAGCTTGATTCACATTACCTTAACATTTTTTGGAATTTTAAAATC
CTTAATATGAGCC
Found at i:10045113 original size:37 final size:37
Alignment explanation
Indices: 10045049--10045140 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 37
10045039 ACATTCAAAG
*
10045049 AAAATTAAAAAA---AAAAAA--AAAATAATTTTA-A
1 AAAATTAAAAAATCCAAAAAATCAAAACAATTTTAGA
*
10045080 AAAGTTAAAAAAATCCAAAAAATCAAAACAATTTTAGA
1 AAAATT-AAAAAATCCAAAAAATCAAAACAATTTTAGA
*
10045118 AAAATTAAAAAATTCAAAAAATC
1 AAAATTAAAAAATCCAAAAAATC
10045141 CTAAAATCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
31 5 0.10
32 6 0.12
35 6 0.12
37 27 0.54
38 6 0.12
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.22
Consensus pattern (37 bp):
AAAATTAAAAAATCCAAAAAATCAAAACAATTTTAGA
Found at i:10045866 original size:8 final size:8
Alignment explanation
Indices: 10045841--10045883 Score: 59
Period size: 8 Copynumber: 5.1 Consensus size: 8
10045831 AATTTTATAG
10045841 TAAAATTTT
1 TAAAA-TTT
10045850 TGAAAATTT
1 T-AAAATTT
*
10045859 TGAAATTT
1 TAAAATTT
10045867 TAAAATTT
1 TAAAATTT
10045875 TAAAATTT
1 TAAAATTT
10045883 T
1 T
10045884 TTCTTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 22 0.71
9 5 0.16
10 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (8 bp):
TAAAATTT
Found at i:10046124 original size:16 final size:17
Alignment explanation
Indices: 10046103--10046135 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10046093 AGATTTTAGG
*
10046103 AAATTTTTA-AAATTTT
1 AAATTTGTAGAAATTTT
10046119 AAATTTGTAGAAATTTT
1 AAATTTGTAGAAATTTT
10046136 TATGATTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
AAATTTGTAGAAATTTT
Found at i:10046216 original size:20 final size:21
Alignment explanation
Indices: 10046191--10046237 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
10046181 AAATTTAAAA
*
10046191 TTTTAAAATGTTTT--TTTTT
1 TTTTAAAATGTTTTCATATTT
*
10046210 TTTTTAAATGTTTTCATATTT
1 TTTTAAAATGTTTTCATATTT
10046231 TTTTAAA
1 TTTTAAA
10046238 TTTTTAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 13 0.57
21 10 0.43
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTAAAATGTTTTCATATTT
Done.