Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 27 of 130
Found at i:6916235 original size:14 final size:14
Alignment explanation
Indices: 6916216--6916297 Score: 94
Period size: 14 Copynumber: 5.7 Consensus size: 14
6916206 GTATCGAAAG
6916216 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
*
6916230 TTTAGGGTTTGAAGAT
1 TTTAGGGTTT--TGAT
*
6916246 TTTAGGGTTTTGGT
1 TTTAGGGTTTTGAT
**
6916260 TTTAAAG-TTTGAT
1 TTTAGGGTTTTGAT
6916273 GTTTAGGGTTTTGAT
1 -TTTAGGGTTTTGAT
6916288 TTTAGGGTTT
1 TTTAGGGTTT
6916298 AGAAATTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
13 5 0.09
14 32 0.57
15 6 0.11
16 13 0.23
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:6916248 original size:16 final size:16
Alignment explanation
Indices: 6916168--6916255 Score: 60
Period size: 16 Copynumber: 5.7 Consensus size: 16
6916158 GTTTTAAGGG
* *
6916168 TTTTTGGGTTTAGAAGG
1 TTTTAGGGTTT-GAAGA
* *
6916185 TCTTAGGGCTTG-A-A
1 TTTTAGGGTTTGAAGA
*
6916199 TTTTAGGGTATCGAA-A
1 TTTTAGGGT-TTGAAGA
* *
6916215 GTTTAGGGTTT--TGA
1 TTTTAGGGTTTGAAGA
6916229 TTTTAGGGTTTGAAGA
1 TTTTAGGGTTTGAAGA
6916245 TTTTAGGGTTT
1 TTTTAGGGTTT
6916256 TGGTTTTAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
14 18 0.33
15 4 0.07
16 24 0.44
17 8 0.15
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.45
Consensus pattern (16 bp):
TTTTAGGGTTTGAAGA
Found at i:6916283 original size:58 final size:58
Alignment explanation
Indices: 6916215--6916327 Score: 176
Period size: 58 Copynumber: 1.9 Consensus size: 58
6916205 GGTATCGAAA
* *
6916215 GTTTAGGGTTTTGATTTTAGGGTTT-GAAGATTTTAGGGTTTTGGTTT-TAAAGTTTGAT
1 GTTTAGGGTTTTGATTTTAGGGTTTAGAA-ATTTT-GGGTTTAGGTTTCGAAAGTTTGAT
6916273 GTTTAGGGTTTTGATTTTAGGGTTTAGAAATTTTGGGTTTAGGTTTCGAAAGTTT
1 GTTTAGGGTTTTGATTTTAGGGTTTAGAAATTTTGGGTTTAGGTTTCGAAAGTTT
6916328 TGGGGTTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
57 11 0.22
58 37 0.73
59 3 0.06
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.50
Consensus pattern (58 bp):
GTTTAGGGTTTTGATTTTAGGGTTTAGAAATTTTGGGTTTAGGTTTCGAAAGTTTGAT
Found at i:6916313 original size:22 final size:23
Alignment explanation
Indices: 6916288--6916380 Score: 70
Period size: 23 Copynumber: 4.1 Consensus size: 23
6916278 GGGTTTTGAT
6916288 TTTAGGGTTTAGAAATTTT-GGG
1 TTTAGGGTTTAGAAATTTTAGGG
* *
6916310 TTTA-GGTTTCGAAAGTTTTGGGG
1 TTTAGGGTTTAGAAA-TTTTAGGG
* * **
6916333 TTT-GGATTTTA-AGATTTTAGAT
1 TTTAGG-GTTTAGAAATTTTAGGG
6916355 TTTAGAGGTTTAGAAATTTT-GGG
1 TTTAG-GGTTTAGAAATTTTAGGG
6916378 TTT
1 TTT
6916381 TGATTTTAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
21 9 0.17
22 16 0.30
23 18 0.34
24 10 0.19
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (23 bp):
TTTAGGGTTTAGAAATTTTAGGG
Found at i:6916565 original size:26 final size:25
Alignment explanation
Indices: 6916525--6916573 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
6916515 TTATGAAAAT
*
6916525 TTATTATTAAGAAAATCAATTTATTA
1 TTATTATTAAGAAAA-AAATTTATTA
**
6916551 TTATTATTATTAAAAAAATTTAT
1 TTATTATTAAGAAAAAAATTTAT
6916574 ATAATTCCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TTATTATTAAGAAAAAAATTTATTA
Found at i:6916660 original size:3 final size:3
Alignment explanation
Indices: 6916648--6916698 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
6916638 AAAATAAAAA
* *
6916648 TAT T-T TAT TAT TAT TAT TAT TAT T-T AGAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
6916692 TAT TAT T
1 TAT TAT T
6916699 TAAGCATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 3 0.07
3 37 0.90
4 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6919130 original size:61 final size:61
Alignment explanation
Indices: 6919053--6919173 Score: 197
Period size: 61 Copynumber: 2.0 Consensus size: 61
6919043 TAAAAAATTT
* * *
6919053 TGAAAAATATTTTTTTTGTATTTTCAACAAAAATAATATTTTTAATCATAGTTTTTGTCAA
1 TGAAAAATAATATTTTTATATTTTCAACAAAAATAATATTTTTAATCATAGTTTTTGTCAA
* *
6919114 TGAAAAATAATATTTTTATATTTTCAACAAAGATCATATTTTTAATCATAGTTTTTGTCA
1 TGAAAAATAATATTTTTATATTTTCAACAAAAATAATATTTTTAATCATAGTTTTTGTCA
6919174 GGAATTTCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (61 bp):
TGAAAAATAATATTTTTATATTTTCAACAAAAATAATATTTTTAATCATAGTTTTTGTCAA
Found at i:6919541 original size:11 final size:11
Alignment explanation
Indices: 6919475--6919697 Score: 90
Period size: 11 Copynumber: 21.1 Consensus size: 11
6919465 ACTCCATTTG
6919475 TTATTAATA-A
1 TTATTAATATA
* *
6919485 TAAATAATAT-
1 TTATTAATATA
*
6919495 TTAATAATATA
1 TTATTAATATA
6919506 TTATT--TAGTA
1 TTATTAATA-TA
*
6919516 ATA-TAATAT-
1 TTATTAATATA
6919525 TTATTAATATA
1 TTATTAATATA
*
6919536 TTATTATTATA
1 TTATTAATATA
6919547 TTATATTAATAATAAA
1 -T-TATTAAT-AT--A
6919563 TTATTAATATAA
1 TTATTAATAT-A
6919575 TATATTAATA-A
1 T-TATTAATATA
6919586 -TA-TAATA-A
1 TTATTAATATA
6919594 CTTATTAATATA
1 -TTATTAATATA
* *
6919606 ATA-TATTATA
1 TTATTAATATA
*
6919616 TTAATAA-ATA
1 TTATTAATATA
*
6919626 ATA-T-AT-TA
1 TTATTAATATA
6919634 -TATTAATATGA
1 TTATTAATAT-A
6919645 -TATTAATA-A
1 TTATTAATATA
6919654 TATATTAATA-A
1 T-TATTAATATA
* *
6919665 ATATT-ATTTA
1 TTATTAATATA
*
6919675 TTAATAATATA
1 TTATTAATATA
*
6919686 TTAATAATATA
1 TTATTAATATA
6919697 T
1 T
6919698 AATATCTTTA
Statistics
Matches: 168, Mismatches: 18, Indels: 53
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.01
8 10 0.06
9 13 0.08
10 51 0.30
11 60 0.36
12 5 0.03
13 16 0.10
14 9 0.05
15 1 0.01
16 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.48
Consensus pattern (11 bp):
TTATTAATATA
Found at i:6919768 original size:60 final size:56
Alignment explanation
Indices: 6919497--6919776 Score: 189
Period size: 54 Copynumber: 5.0 Consensus size: 56
6919487 AATAATATTT
* * *
6919497 AATAAT-ATATTAT-TTAGT-AAT-ATAATATTTATTAATATATTA-TTATTATATTA
1 AATAATAATATTATATTATTAAATAAT-ATATTTATTAATATAATATTTA-TATAATA
* * *
6919550 TATTAATAATA--A-ATTATTAATATAATATA-TTAATAATATAATAACTTAT-TAAT-
1 -AATAATAATATTATATTATTAA-ATAATATATTTATTAATATAAT-ATTTATATAATA
* *
6919603 -ATAAT-ATATTATATTAATAAATAATATATTATATTAATATGATA-TTA-ATAATA
1 AATAATAATATTATATTATTAAATAATATATT-TATTAATATAATATTTATATAATA
* * *
6919656 TATTAATAAATATTAT-TTATT-AATAATATATTAATAATATATAATATCTTTATATTAATA
1 -AATAAT-AATATTATATTATTAAATAATATATTTATTA-ATATAATA--TTTATA-TAATA
* *
6919716 AACAAATAATATTGTATTATTAATATAATATTATTTATTAATATAATATTTATATAATA
1 AA-TAATAATATTATATTATTAA-ATAATA-TATTTATTAATATAATATTTATATAATA
6919775 AA
1 AA
6919777 ACTATTATTT
Statistics
Matches: 178, Mismatches: 19, Indels: 53
0.71 0.08 0.21
Matches are distributed among these distances:
50 3 0.02
51 4 0.02
52 16 0.09
53 14 0.08
54 33 0.19
55 32 0.18
56 9 0.05
57 7 0.04
58 3 0.02
59 16 0.09
60 19 0.11
61 1 0.01
62 14 0.08
63 7 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (56 bp):
AATAATAATATTATATTATTAAATAATATATTTATTAATATAATATTTATATAATA
Found at i:6919791 original size:57 final size:55
Alignment explanation
Indices: 6919563--6919794 Score: 153
Period size: 57 Copynumber: 4.2 Consensus size: 55
6919553 TAATAATAAA
* *
6919563 TTATTAAT--ATAATATATTAATAATATAATAACTTAT-TAAT-A-TAATA-TATT
1 TTATTAATAAATAATATATTAATAATATAAT-ATTTATATAATAACAAATATTATT
* * * *
6919613 ATATTAATAAATAATATATTATATTAATATGATATTAATAATATATTAATAAATATTA-T
1 TTATTAATAAATAATATATTA-A-TAATATAATATT--T-ATATAATAACAAATATTATT
* *
6919672 TTATTAAT-AAT-ATATTAATAAT-ATATAATATCTTTATATTAATAAACAAATAATATT
1 TTATTAATAAATAATA-TATTAATAATATAATA--TTTATA-TAAT-AACAAATATTATT
* * * *
6919729 GTATTATTAATATAATATTATTTATTAATATAATATTTATATAATAA-AACTATTATT
1 TTATTAATAA-ATAATA-TA-TTAATAATATAATATTTATATAATAACAAATATTATT
6919786 TTATTAATA
1 TTATTAATA
6919795 TATTATTTGT
Statistics
Matches: 141, Mismatches: 19, Indels: 37
0.72 0.10 0.19
Matches are distributed among these distances:
50 7 0.05
52 11 0.08
53 3 0.02
54 11 0.08
55 12 0.09
56 12 0.09
57 31 0.22
58 11 0.08
59 18 0.13
60 14 0.10
61 3 0.02
62 8 0.06
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (55 bp):
TTATTAATAAATAATATATTAATAATATAATATTTATATAATAACAAATATTATT
Found at i:6920031 original size:20 final size:20
Alignment explanation
Indices: 6919993--6920031 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6919983 CAATTTTCAA
* **
6919993 AAAAAATTGAAAATGAAAAT
1 AAAAAATAGAAAACAAAAAT
6920013 AAAAAATAGAAAACAAAAA
1 AAAAAATAGAAAACAAAAA
6920032 CAAACGACCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAAAATAGAAAACAAAAAT
Found at i:6935029 original size:81 final size:82
Alignment explanation
Indices: 6934874--6935034 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 82
6934864 CTAGGACTTC
* * *
6934874 AAGATTTTGAAGCTTTCAATCTTGTTCTTCTAGCCAAGCAATGTTGGAGATTGGTGCATAGTGAT
1 AAGATTTTGAAACTTTCAATCTTG-T-TTCTAGCCAAGCAATGTTGGAGATTAGTGCAGAGTGAT
* *
6934939 TCTAGTTTATTTTTTGAGG
64 TCTACTTTATGTTTTGAGG
* *
6934958 AAGATTTTGAAACTTTCAATCTTG-TTCTAGCCAAGCATTGTTGGAGATTAGTTCAGAGTGATTC
1 AAGATTTTGAAACTTTCAATCTTGTTTCTAGCCAAGCAATGTTGGAGATTAGTGCAGAGTGATTC
*
6935022 TCCTTTATGTTTT
66 TACTTTATGTTTT
6935035 AAGGTTCTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 46 0.67
84 23 0.33
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (82 bp):
AAGATTTTGAAACTTTCAATCTTGTTTCTAGCCAAGCAATGTTGGAGATTAGTGCAGAGTGATTC
TACTTTATGTTTTGAGG
Found at i:6948069 original size:25 final size:25
Alignment explanation
Indices: 6948035--6948120 Score: 154
Period size: 25 Copynumber: 3.4 Consensus size: 25
6948025 TAACTTCTAT
6948035 TTTAGGCCTTCATTGCCGAACCCTG
1 TTTAGGCCTTCATTGCCGAACCCTG
*
6948060 TTTAGGCCTTAATTGCCGAACCCTG
1 TTTAGGCCTTCATTGCCGAACCCTG
6948085 TTTAGGCCTTCATTGCCGAACCCTG
1 TTTAGGCCTTCATTGCCGAACCCTG
*
6948110 TTAAGGCCTTC
1 TTTAGGCCTTC
6948121 GTAGCCATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (25 bp):
TTTAGGCCTTCATTGCCGAACCCTG
Found at i:6949581 original size:18 final size:18
Alignment explanation
Indices: 6949558--6949593 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6949548 TTGCACATCA
6949558 TTTGTTCATGTTCACAGT
1 TTTGTTCATGTTCACAGT
6949576 TTTGTTCATGTTCACAGT
1 TTTGTTCATGTTCACAGT
6949594 CATAATGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (18 bp):
TTTGTTCATGTTCACAGT
Found at i:6951866 original size:22 final size:22
Alignment explanation
Indices: 6951840--6951881 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6951830 TATATTTATT
*
6951840 TTTGTATCTCTAGAATTAAGTA
1 TTTGTATCCCTAGAATTAAGTA
*
6951862 TTTGTATCCCTGGAATTAAG
1 TTTGTATCCCTAGAATTAAG
6951882 GAAAATGATA
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:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (22 bp):
TTTGTATCCCTAGAATTAAGTA
Found at i:6972114 original size:13 final size:14
Alignment explanation
Indices: 6972092--6972120 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6972082 AAAGGAATTA
6972092 TAAATATTTATATT
1 TAAATATTTATATT
6972106 TAAAT-TTTATATT
1 TAAATATTTATATT
6972119 TA
1 TA
6972121 TTAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAAATATTTATATT
Found at i:6972138 original size:14 final size:15
Alignment explanation
Indices: 6972092--6972139 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
6972082 AAAGGAATTA
*
6972092 TAAATATT-TATATT
1 TAAATATTATATTTT
*
6972106 TAAATTTTATATTTAT
1 TAAATATTATATTT-T
6972122 TAAATATTAT-TTTT
1 TAAATATTATATTTT
6972136 TAAA
1 TAAA
6972140 AAATAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 12 0.41
15 7 0.24
16 10 0.34
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAAATATTATATTTT
Found at i:6972651 original size:26 final size:26
Alignment explanation
Indices: 6972596--6972651 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
6972586 TATTTGGTAC
**
6972596 ATAATATTATGATAAAATATGATAAG
1 ATAATATTATGATAAAATAAAATAAG
*
6972622 ATAATATTATGAATAAGATAAAATAA-
1 ATAATATTATG-ATAAAATAAAATAAG
6972648 ATAA
1 ATAA
6972652 CGTTATTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (26 bp):
ATAATATTATGATAAAATAAAATAAG
Found at i:6973694 original size:79 final size:79
Alignment explanation
Indices: 6973558--6973711 Score: 227
Period size: 79 Copynumber: 1.9 Consensus size: 79
6973548 GTCAGATTAT
* * **
6973558 TGAATGTATGATCGACACCCTTAGTGTAGGGTAAATTGGCAAAAGGAGATGACCTGAAAGTTTGA
1 TGAATGTATGATCGACACCCTTAGTGTAAGGCAAATTGGCAAAAAAAGATGACCTGAAAGTTTGA
6973623 TTCTTCGAAACTTC
66 TTCTTCGAAACTTC
* * * * *
6973637 TGAATGTATGATTGACGCCCTTAGTGTAAGGCAGATTGGTAAAAAAAGATGATCTGAAAGTTTGA
1 TGAATGTATGATCGACACCCTTAGTGTAAGGCAAATTGGCAAAAAAAGATGACCTGAAAGTTTGA
6973702 TTCTTCGAAA
66 TTCTTCGAAA
6973712 TCGAAGTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 66 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (79 bp):
TGAATGTATGATCGACACCCTTAGTGTAAGGCAAATTGGCAAAAAAAGATGACCTGAAAGTTTGA
TTCTTCGAAACTTC
Found at i:6979511 original size:30 final size:30
Alignment explanation
Indices: 6979472--6979528 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
6979462 TTATTTATTT
* * *
6979472 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
6979502 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
6979529 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:6979531 original size:21 final size:22
Alignment explanation
Indices: 6979501--6979552 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
6979491 GATATTTTTA
6979501 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
6979521 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
6979543 AATATTTTAT
1 AATATTTTAT
6979553 TAATTTCGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:6981319 original size:20 final size:20
Alignment explanation
Indices: 6981291--6981343 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
6981281 GATATAGATG
* *
6981291 TTGATTTTGCTAATATGGCA
1 TTGACTTTGCTAATATAGCA
* * *
6981311 TTGACTTTGTTGATATAGCG
1 TTGACTTTGCTAATATAGCA
*
6981331 TTGACTTTACTAA
1 TTGACTTTGCTAA
6981344 CATGACAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (20 bp):
TTGACTTTGCTAATATAGCA
Found at i:6981951 original size:24 final size:25
Alignment explanation
Indices: 6981904--6981954 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
6981894 TTTTTAAAAA
6981904 ATAAGAATTTCAAAAATTAAAAATTT
1 ATAAGAATTTCAAAAATT-AAAATTT
6981930 ATAA-AATTTCAAAATATT-AAATTT
1 ATAAGAATTTCAAAA-ATTAAAATTT
6981954 A
1 A
6981955 ATTTTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.29
25 10 0.42
26 7 0.29
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (25 bp):
ATAAGAATTTCAAAAATTAAAATTT
Found at i:6982309 original size:23 final size:21
Alignment explanation
Indices: 6982258--6982343 Score: 75
Period size: 22 Copynumber: 3.9 Consensus size: 21
6982248 TGAAAAATTC
6982258 TAAAAATTGAAAAATATTTTT
1 TAAAAATTGAAAAATATTTTT
*
6982279 TAATAAATTGAAATATGATTTTT
1 TAA-AAATTGAAAAAT-ATTTTT
**
6982302 TGAAAAATAAAAAAATAATATTTTT
1 T-AAAAAT--TGAAA-AATATTTTT
*
6982327 TAAAAAATG-AAAATATT
1 TAAAAATTGAAAAATATT
6982344 AGAAAAAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
20 6 0.12
21 5 0.10
22 11 0.21
23 11 0.21
24 7 0.13
25 10 0.19
26 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (21 bp):
TAAAAATTGAAAAATATTTTT
Found at i:6985128 original size:2 final size:2
Alignment explanation
Indices: 6985115--6985151 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6985105 CTTATAAATA
*
6985115 AT AT AA 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 AT AT A
6985152 GTGGTAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6985436 original size:24 final size:23
Alignment explanation
Indices: 6985380--6985436 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
6985370 AAGTAAGATT
*
6985380 AATTATTTTTTTAATATAAAATA
1 AATTATTTTTTTAAAATAAAATA
*
6985403 ATTTAATTTTTTTAAAATGAAAA-A
1 AATT-ATTTTTTTAAAAT-AAAATA
6985427 AATTATTTTT
1 AATTATTTTT
6985437 AGTTTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 9 0.31
24 16 0.55
25 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AATTATTTTTTTAAAATAAAATA
Found at i:6985495 original size:26 final size:24
Alignment explanation
Indices: 6985456--6985505 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
6985446 AATTAATATT
6985456 AATAATTTAAATTATATAAATTAAAA
1 AATAATTTAAATTA-ATAAA-TAAAA
**
6985482 AATAATTTTGATTAATAAATAAAA
1 AATAATTTAAATTAATAAATAAAA
6985506 TTATTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 5 0.23
26 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AATAATTTAAATTAATAAATAAAA
Found at i:6988878 original size:22 final size:21
Alignment explanation
Indices: 6988860--6988908 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
6988850 TAGTTAATTC
6988860 AATTTAAAAATTAAATTAATCA
1 AATTT-AAAATTAAATTAATCA
*
6988882 AATTTTAAATTAAAATATAAT-A
1 AATTTAAAATT-AAAT-TAATCA
6988904 AATTT
1 AATTT
6988909 TATATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 15 0.62
23 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTAAAATTAAATTAATCA
Found at i:6988882 original size:21 final size:22
Alignment explanation
Indices: 6988853--6988895 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
6988843 TAATTTTTAG
6988853 TTAATTC-AATTTAAAAATTAAA
1 TTAATTCAAATTT-AAAATTAAA
*
6988875 TTAA-TCAAATTTTAAATTAAA
1 TTAATTCAAATTTAAAATTAAA
6988896 ATATAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATTCAAATTTAAAATTAAA
Found at i:6988909 original size:22 final size:22
Alignment explanation
Indices: 6988867--6988926 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
6988857 TTCAATTTAA
6988867 AAATT-AAATTAATCAAATTTT
1 AAATTAAAATTAATCAAATTTT
6988888 AAATTAAAATATAAT-AAATTTT
1 AAATTAAAAT-TAATCAAATTTT
*
6988910 ATATATAAAATT-ATCAA
1 AAAT-TAAAATTAATCAA
6988927 TTTCATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
21 7 0.21
22 17 0.50
23 10 0.29
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATTAAAATTAATCAAATTTT
Found at i:6992222 original size:68 final size:68
Alignment explanation
Indices: 6992113--6992251 Score: 269
Period size: 68 Copynumber: 2.0 Consensus size: 68
6992103 ATATTATAAT
6992113 TCTTTCAAATAAATAACTTGCTTCCTGCCTTTAATGCCACAATCCTTGCTTTAGTGCCAAAGTGC
1 TCTTTCAAATAAATAACTTGCTTCCTGCCTTTAATGCCACAATCCTTGCTTTAGTGCCAAAGTGC
6992178 CAA
66 CAA
*
6992181 TCTTTCAAATAAATAACTTGCTTCCTGCCTTTAATTCCACAATCCTTGCTTTAGTGCCAAAGTGC
1 TCTTTCAAATAAATAACTTGCTTCCTGCCTTTAATGCCACAATCCTTGCTTTAGTGCCAAAGTGC
6992246 CAA
66 CAA
6992249 TCT
1 TCT
6992252 CCAGTAAATA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (68 bp):
TCTTTCAAATAAATAACTTGCTTCCTGCCTTTAATGCCACAATCCTTGCTTTAGTGCCAAAGTGC
CAA
Found at i:6995983 original size:102 final size:102
Alignment explanation
Indices: 6995807--6996005 Score: 292
Period size: 102 Copynumber: 2.0 Consensus size: 102
6995797 TAATTTTGAC
* * ** **
6995807 ATGAAAAAGCTCTTTTATGTCTTAGGTTTCTCTCTAAAGCATGAAAGTCCGTTGATTTTCCTAAG
1 ATGAAAAAGCCCTATTATGTCTTAGGTTTCTCTCTAAAGCATGAAACCCCACTGATTTTCCTAAG
6995872 TTGTCATTAATTTTGAGAAATCATAGTAAGTAGGGAA
66 TTGTCATTAATTTTGAGAAATCATAGTAAGTAGGGAA
* *
6995909 ATGAAAAAGCCCTATTATGTCTTAGGTTTCTCTGTAAAGTATGAAACCCCACT-ATTTTTCCTAA
1 ATGAAAAAGCCCTATTATGTCTTAGGTTTCTCTCTAAAGCATGAAACCCCACTGA-TTTTCCTAA
* *
6995973 GTTTTCATTAATTTTGAGAAATTATAGTAAGTA
65 GTTGTCATTAATTTTGAGAAATCATAGTAAGTA
6996006 AGGGTATAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 1 0.01
102 85 0.99
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (102 bp):
ATGAAAAAGCCCTATTATGTCTTAGGTTTCTCTCTAAAGCATGAAACCCCACTGATTTTCCTAAG
TTGTCATTAATTTTGAGAAATCATAGTAAGTAGGGAA
Found at i:6998832 original size:15 final size:17
Alignment explanation
Indices: 6998804--6998836 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
6998794 ATAAATAATT
6998804 ATTTAACTACAAATTCA
1 ATTTAACTACAAATTCA
6998821 ATTTAA-TA-AAATTCA
1 ATTTAACTACAAATTCA
6998836 A
1 A
6998837 ACTCAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAACTACAAATTCA
Found at i:7000969 original size:4 final size:4
Alignment explanation
Indices: 7000956--7000994 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
7000946 TAATCATACA
*
7000956 AAAT -AAT AAAT AAAT AAAT AACT AAAT AAAT AAA- AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
7000995 CCAAAAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 6 0.19
4 25 0.81
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:7001895 original size:24 final size:24
Alignment explanation
Indices: 7001850--7001896 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
7001840 TTATTATCTT
**
7001850 AAAAATCAAAGATAAATCAAATAA
1 AAAAATCAAAGATAAAAAAAATAA
*
7001874 AAAAATCAGAGATAAAAAAAATA
1 AAAAATCAAAGATAAAAAAAATA
7001897 GCAATCAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.15
Consensus pattern (24 bp):
AAAAATCAAAGATAAAAAAAATAA
Found at i:7001931 original size:4 final size:4
Alignment explanation
Indices: 7001922--7001967 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
7001912 ATAAACCTAA
* * *
7001922 AAAT AAAT AAAT AAGT AAAT AGAT AAAT -AAT AAAT AAAT AAGT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
7001968 ATATAAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:7002274 original size:44 final size:44
Alignment explanation
Indices: 7002215--7002541 Score: 177
Period size: 44 Copynumber: 7.3 Consensus size: 44
7002205 GGCTCATAAC
* * * *
7002215 TTTTGGAAAAA-TAAATACGACTCCTTTAAATAGAGGCTCAACGA
1 TTTT-GAAAAAGTAAATACAACTCCTTTAAATAAAGGCTAAACAA
* * *
7002259 TATTGAAAAAGTAAATA-AAGCTGCTCT-AATCAAAGGCTAAACAA
1 TTTTGAAAAAGTAAATACAA-CTCCTTTAAAT-AAAGGCTAAACAA
* * *
7002303 TTTTTGAAAAAATAAATACAACTCTTTTAAACAAAGGCTAAACAA
1 -TTTTGAAAAAGTAAATACAACTCCTTTAAATAAAGGCTAAACAA
* *
7002348 TTTTGAAAAAGTAAATAAAACT-C-TTATAATCAAAGGCTCAACAA
1 TTTTGAAAAAGTAAATACAACTCCTTTA-AAT-AAAGGCTAAACAA
* **** * * * *
7002392 CTTTTGAAAAAATAAATAGGGGTCCTCTAAAATAGACGCTCAACAA
1 -TTTTGAAAAAGTAAATACAACTCCT-TTAAATAAAGGCTAAACAA
*** * * *
7002438 CTTTTGGAAAAA-TAAATATGGCTCATTTAAACAAAGGCTTAACAA
1 -TTTT-GAAAAAGTAAATACAACTCCTTTAAATAAAGGCTAAACAA
* * * * *
7002483 CTTTGAAAAAATAAATA-AAGCTTCTTT-AATCAGAGGCTCAACAA
1 TTTTGAAAAAGTAAATACAA-CTCCTTTAAAT-AAAGGCTAAACAA
*
7002527 CTTTT-AAAAAATAAA
1 -TTTTGAAAAAGTAAA
7002542 ATTTCTTGAC
Statistics
Matches: 223, Mismatches: 43, Indels: 34
0.74 0.14 0.11
Matches are distributed among these distances:
42 3 0.01
43 20 0.09
44 91 0.41
45 66 0.30
46 32 0.14
47 9 0.04
48 2 0.01
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (44 bp):
TTTTGAAAAAGTAAATACAACTCCTTTAAATAAAGGCTAAACAA
Found at i:7002354 original size:89 final size:89
Alignment explanation
Indices: 7002212--7002409 Score: 272
Period size: 89 Copynumber: 2.2 Consensus size: 89
7002202 AGAGGCTCAT
* * * * * *
7002212 AACTTTTGGAAAAATAAATACGACTCCTTTAAATAGAGGCTCAACGATATTGAAAAAGTAAATAA
1 AACTTTTGAAAAAATAAATACAACTCCTTTAAACAAAGGCTAAACAATATTGAAAAAGTAAATAA
* *
7002277 AGCTGC-TCTAATCAAAGGCTAAAC
66 AACT-CTTATAATCAAAGGCTAAAC
* * *
7002301 AATTTTTGAAAAAATAAATACAACTCTTTTAAACAAAGGCTAAACAATTTTGAAAAAGTAAATAA
1 AACTTTTGAAAAAATAAATACAACTCCTTTAAACAAAGGCTAAACAATATTGAAAAAGTAAATAA
*
7002366 AACTCTTATAATCAAAGGCTCAAC
66 AACTCTTATAATCAAAGGCTAAAC
7002390 AACTTTTGAAAAAATAAATA
1 AACTTTTGAAAAAATAAATA
7002410 GGGGTCCTCT
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 1 0.01
89 94 0.99
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (89 bp):
AACTTTTGAAAAAATAAATACAACTCCTTTAAACAAAGGCTAAACAATATTGAAAAAGTAAATAA
AACTCTTATAATCAAAGGCTAAAC
Found at i:7002436 original size:46 final size:45
Alignment explanation
Indices: 7002381--7002541 Score: 152
Period size: 46 Copynumber: 3.6 Consensus size: 45
7002371 TTATAATCAA
*
7002381 AGGCTCAACAACTTTTGAAAAAATAAATAGGGGTCCTCTAAAATAG
1 AGGCTCAACAACTTTTGAAAAAATAAATA-GGGTCATCTAAAATAG
* * * *
7002427 ACGCTCAACAACTTTTGGAAAAATAAATATGGCTCATTTAAACA-A-
1 AGGCTCAACAACTTTTGAAAAAATAAATA-GGGTCATCTAAA-ATAG
* ** * **
7002472 AGGCTTAACAAC-TTTGAAAAAATAAATAAAG-CTTCTTTAATCAG
1 AGGCTCAACAACTTTTGAAAAAATAAATAGGGTCATCTAAAAT-AG
7002516 AGGCTCAACAACTTTT-AAAAAATAAA
1 AGGCTCAACAACTTTTGAAAAAATAAA
7002542 ATTTCTTGAC
Statistics
Matches: 93, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.01
42 4 0.04
43 1 0.01
44 36 0.39
45 13 0.14
46 37 0.40
47 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (45 bp):
AGGCTCAACAACTTTTGAAAAAATAAATAGGGTCATCTAAAATAG
Found at i:7002467 original size:135 final size:134
Alignment explanation
Indices: 7002298--7002541 Score: 364
Period size: 135 Copynumber: 1.8 Consensus size: 134
7002288 TCAAAGGCTA
* * * *
7002298 AACAATTTTTGAAAAAATAAATACAACTCTTTTAAACAAAGGCTAAACAATTTTGAAAAAGTAAA
1 AACAACTTTTGAAAAAATAAATACAACTCATTTAAACAAAGGCTAAACAACTTTGAAAAAATAAA
7002363 TAAAAC-TCTTATAATCAAAGGCTCAACAACTTTTGAAAAAATAAATAGGGGTCCTCTAAAATAG
66 TAAAACTTCTT-TAATCAAAGGCTCAACAACTTTT-AAAAAATAAATAGGGGTCCTCTAAAATAG
7002427 ACGCTC
129 ACGCTC
* *** *
7002433 AACAACTTTTGGAAAAATAAATATGGCTCATTTAAACAAAGGCTTAACAACTTTGAAAAAATAAA
1 AACAACTTTTGAAAAAATAAATACAACTCATTTAAACAAAGGCTAAACAACTTTGAAAAAATAAA
* *
7002498 TAAAGCTTCTTTAATCAGAGGCTCAACAACTTTTAAAAAATAAA
66 TAAAACTTCTTTAATCAAAGGCTCAACAACTTTTAAAAAATAAA
7002542 ATTTCTTGAC
Statistics
Matches: 97, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
134 10 0.10
135 83 0.86
136 4 0.04
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.27
Consensus pattern (134 bp):
AACAACTTTTGAAAAAATAAATACAACTCATTTAAACAAAGGCTAAACAACTTTGAAAAAATAAA
TAAAACTTCTTTAATCAAAGGCTCAACAACTTTTAAAAAATAAATAGGGGTCCTCTAAAATAGAC
GCTC
Found at i:7003104 original size:22 final size:22
Alignment explanation
Indices: 7003076--7003119 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7003066 CACATCTAAG
* * *
7003076 TTTAAAGGTTCTCATTCAAAAA
1 TTTAAAGATTCGCATCCAAAAA
7003098 TTTAAAGATTCGCATCCAAAAA
1 TTTAAAGATTCGCATCCAAAAA
7003120 GTTGAGTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (22 bp):
TTTAAAGATTCGCATCCAAAAA
Found at i:7003254 original size:21 final size:21
Alignment explanation
Indices: 7003202--7003255 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
7003192 TTTTTTAAAG
*
7003202 ATTCTCATTTAAAACTAAAAA
1 ATTCTCATTTGAAACTAAAAA
7003223 ATTCTCATTTGAAACTAAAAA
1 ATTCTCATTTGAAACTAAAAA
7003244 ATTCTCATTTGA
1 ATTCTCATTTGA
7003256 GGATTTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (21 bp):
ATTCTCATTTGAAACTAAAAA
Found at i:7003761 original size:79 final size:79
Alignment explanation
Indices: 7003655--7003856 Score: 280
Period size: 79 Copynumber: 2.6 Consensus size: 79
7003645 AATTCTGTCA
* * * * *
7003655 ACTGATCCACATCATTTGCATCATTTGAT-AGCAACTCACAGGTTTCTCAGTACTAGCAATTTCA
1 ACTGATCCACATCATTTTCATCATTTGATCA-CAACTCACAAGTTTCTCAGCACCAGCAAATTCA
*
7003719 GCATAAATTTCATAC
65 ACATAAATTTCATAC
* *
7003734 ACTGATCTACATCATTTTCATCGTTTGATCACAACTCACAAGTTTCTCAGCACCAGCAAATTCAA
1 ACTGATCCACATCATTTTCATCATTTGATCACAACTCACAAGTTTCTCAGCACCAGCAAATTCAA
*
7003799 CATAAATTTCATCC
66 CATAAATTTCATAC
* * *
7003813 ACTAATCCACATCATTTTCATCATTTGATCAAAACTCTCAAGTT
1 ACTGATCCACATCATTTTCATCATTTGATCACAACTCACAAGTT
7003857 ATGTCAACCA
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 107 0.99
80 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (79 bp):
ACTGATCCACATCATTTTCATCATTTGATCACAACTCACAAGTTTCTCAGCACCAGCAAATTCAA
CATAAATTTCATAC
Found at i:7004444 original size:19 final size:17
Alignment explanation
Indices: 7004422--7004492 Score: 62
Period size: 18 Copynumber: 4.3 Consensus size: 17
7004412 TTTTTGCATT
7004422 TTTTTCTTTCATCATTTTA
1 TTTTTCTTT-ATC-TTTTA
*
7004441 TTTTTCATTTATCTTTTT
1 TTTTTC-TTTATCTTTTA
*
7004459 TTTTTCTTT-T-TTTCA
1 TTTTTCTTTATCTTTTA
7004474 --TTTCTTTAT-TTTTA
1 TTTTTCTTTATCTTTTA
7004488 TTTTT
1 TTTTT
7004493 TCATTTTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 7 0.16
14 5 0.11
15 3 0.07
16 4 0.09
17 3 0.07
18 10 0.23
19 9 0.20
20 3 0.07
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCTTTATCTTTTA
Found at i:7004491 original size:22 final size:22
Alignment explanation
Indices: 7004460--7004516 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
7004450 TATCTTTTTT
*
7004460 TTTTCTTTTTTTCATTTCTTT-A
1 TTTTCATTTTTTCATTT-TTTCA
*
7004482 TTTTTATTTTTTCATTTTTTCA
1 TTTTCATTTTTTCATTTTTTCA
*
7004504 TTTTCAATTTTTC
1 TTTTCATTTTTTC
7004517 CCACACATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTCATTTTTTCATTTTTTCA
Found at i:7004492 original size:30 final size:31
Alignment explanation
Indices: 7004443--7004506 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
7004433 TCATTTTATT
*
7004443 TTTCATTTATCTTTTTTTTTTCTTTTTTTCA
1 TTTCATTTATCTTTTTTTTTTCATTTTTTCA
7004474 TTTC-TTTAT-TTTTATTTTTTCATTTTTTCA
1 TTTCATTTATCTTTT-TTTTTTCATTTTTTCA
7004504 TTT
1 TTT
7004507 TCAATTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 4 0.13
30 23 0.74
31 4 0.13
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (31 bp):
TTTCATTTATCTTTTTTTTTTCATTTTTTCA
Found at i:7008826 original size:16 final size:16
Alignment explanation
Indices: 7008805--7008855 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
7008795 TAATCATACA
7008805 AAATAATAAAAAAAAT
1 AAATAATAAAAAAAAT
*
7008821 AAATAACT-AAATAAAT
1 AAATAA-TAAAAAAAAT
* *
7008837 AAAGAATACAAAAAAT
1 AAATAATAAAAAAAAT
7008853 AAA
1 AAA
7008856 AATGGATCCG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (16 bp):
AAATAATAAAAAAAAT
Found at i:7009777 original size:4 final size:4
Alignment explanation
Indices: 7009768--7009817 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
7009758 ATAAACCTAA
* * * *
7009768 AAAT AAAT AAAT AAAC AAGT AAAT AGAT AAAT -AAT AAAT AAAC AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
7009815 AAA
1 AAA
7009818 ATATAAAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 3 0.08
4 34 0.92
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:7009824 original size:15 final size:15
Alignment explanation
Indices: 7009769--7009816 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
7009759 TAAACCTAAA
* *
7009769 AATAAATAAATAAAC
1 AATAAATAAACAAAT
* *
7009784 AAGTAAATAGATAAAT
1 AA-TAAATAAACAAAT
7009800 AATAAATAAACAAAT
1 AATAAATAAACAAAT
7009815 AA
1 AA
7009817 AATATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (15 bp):
AATAAATAAACAAAT
Found at i:7009826 original size:27 final size:27
Alignment explanation
Indices: 7009767--7009826 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
7009757 GATAAACCTA
*
7009767 AAAATAAATAAATAAACAAGTAAATAG
1 AAAATAAATAAATAAACAAATAAATAG
*
7009794 ATAAAT-AATAAATAAACAAATAAAATAT
1 A-AAATAAATAAATAAACAAAT-AAATAG
7009822 AAAAT
1 AAAAT
7009827 GATGAATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (27 bp):
AAAATAAATAAATAAACAAATAAATAG
Found at i:7010485 original size:13 final size:15
Alignment explanation
Indices: 7010453--7010484 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
7010443 CCTTAATTGA
7010453 TTTTATCTTTAATTT
1 TTTTATCTTTAATTT
7010468 TTTTAT-TTTAATTT
1 TTTTATCTTTAATTT
7010482 TTT
1 TTT
7010485 AAGATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATCTTTAATTT
Found at i:7010496 original size:3 final size:3
Alignment explanation
Indices: 7010488--7010534 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7010478 ATTTTTTAAG
7010488 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7010535 GTTAGCCTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7012184 original size:3 final size:3
Alignment explanation
Indices: 7012176--7012219 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7012166 GCTAACAAAC
7012176 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7012220 AGGAAAATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7013335 original size:125 final size:125
Alignment explanation
Indices: 7013162--7013483 Score: 398
Period size: 125 Copynumber: 2.6 Consensus size: 125
7013152 TTTTACGTCC
* * * * * *
7013162 ATTTAAAAATAATAAAATTGTACATACACTTCATTTAACGTACAAATATCTAAATGGTAATGTCA
1 ATTTGAAAATAATAAAGTTGTACATACACTTTATTTCATGTATAAATATCTAAATGGTAATGTCA
* * *
7013227 ATTTCGTAAAAATTTTGATATTGAATGTTATTATATCTTTCGCATTTCATTATTTTTCAT
66 ATTTCATAAAAAATTTGATATTGAATGTTATTATACCTTTCGCATTTCATTATTTTTCAT
* * *
7013287 ATTTGAAAATAATAAAGTTGTACATACACTTTATTTCATGTATAAATATTTGAATGGTAGTGTCA
1 ATTTGAAAATAATAAAGTTGTACATACACTTTATTTCATGTATAAATATCTAAATGGTAATGTCA
* * * * **
7013352 ATTTCATAAAAAATTTGATTTTGAATGTTATTGTACCTTTCGTATTTTATTATTTTTTGT
66 ATTTCATAAAAAATTTGATATTGAATGTTATTATACCTTTCGCATTTCATTATTTTTCAT
* * * *
7013412 ATTTGATAATAAT-AAGATTGTACATAAATTTTATTTCATGCATAAACGT-TC-AAATGGTAATG
1 ATTTGAAAATAATAAAG-TTGTACATACACTTTATTTCATGTATAAA--TATCTAAATGGTAATG
7013474 TCAATTTCAT
63 TCAATTTCAT
7013484 TAAATTTGCA
Statistics
Matches: 169, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
124 3 0.02
125 164 0.97
126 1 0.01
127 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (125 bp):
ATTTGAAAATAATAAAGTTGTACATACACTTTATTTCATGTATAAATATCTAAATGGTAATGTCA
ATTTCATAAAAAATTTGATATTGAATGTTATTATACCTTTCGCATTTCATTATTTTTCAT
Found at i:7017868 original size:15 final size:16
Alignment explanation
Indices: 7017848--7017879 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
7017838 TATGATGAGA
7017848 AAAAAAAAGA-AAAAT
1 AAAAAAAAGATAAAAT
7017863 AAAAAAAAGATAAAAT
1 AAAAAAAAGATAAAAT
7017879 A
1 A
7017880 GTTTAATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAAAAAAGATAAAAT
Found at i:7018526 original size:33 final size:33
Alignment explanation
Indices: 7018489--7018567 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
7018479 TTGAATATCT
** * *
7018489 TTAAAATTTTTTGATGGTGATATTTGAGCTTCC
1 TTAAAATTTTTCAATAGTAATATTTGAGCTTCC
*
7018522 TTAAAATTTTTCAATAGTAATATTTGAGCTTCT
1 TTAAAATTTTTCAATAGTAATATTTGAGCTTCC
*
7018555 TTAAAATCTTTCA
1 TTAAAATTTTTCA
7018568 GTGGTGACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.48
Consensus pattern (33 bp):
TTAAAATTTTTCAATAGTAATATTTGAGCTTCC
Found at i:7018892 original size:48 final size:47
Alignment explanation
Indices: 7018828--7018986 Score: 169
Period size: 48 Copynumber: 3.3 Consensus size: 47
7018818 TATTTTAAAT
* *
7018828 TTTTAAAATTTTAATGCCTTTTATTAAATGAGCTTTTTCTAGATGAGA
1 TTTTAAAGTTTCAATGCCTTTTATTAAATGAGCTTTTTC-AGATGAGA
* * *
7018876 TTTTAAAGTTTCAATGCCTTTGATTAGATGAGCCTTTTTCAGATGAAA
1 TTTTAAAGTTTCAATGCCTTTTATTAAATGAG-CTTTTTCAGATGAGA
* * **
7018924 TCTTTAAAGTTTCAAAGCCTTTGT-TTATAAAGAGCTATTTTCA-AAAAGA
1 T-TTTAAAGTTTCAATGCCTTT-TATTA-AATGAGCT-TTTTCAGATGAGA
7018973 TTTTAAAGTTTCAA
1 TTTTAAAGTTTCAA
7018987 AACCTTTGCT
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
48 49 0.52
49 35 0.37
50 10 0.11
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (47 bp):
TTTTAAAGTTTCAATGCCTTTTATTAAATGAGCTTTTTCAGATGAGA
Found at i:7019540 original size:10 final size:10
Alignment explanation
Indices: 7019527--7019559 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
7019517 AAAAAAATCC
*
7019527 AAAAATAATG
1 AAAAATAATA
7019537 AAAAATAATA
1 AAAAATAATA
7019547 AAAAATAA-A
1 AAAAATAATA
7019556 AAAA
1 AAAA
7019560 TTTCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (10 bp):
AAAAATAATA
Found at i:7025267 original size:9 final size:9
Alignment explanation
Indices: 7025252--7025319 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
7025242 TCAACATTAA
7025252 AAAAAATTT
1 AAAAAATTT
*
7025261 CAAAAATTT
1 AAAAAATTT
*
7025270 AAAAAAATT
1 AAAAAATTT
7025279 AAAAAA-TT
1 AAAAAATTT
* *
7025287 GAAATATTT
1 AAAAAATTT
*
7025296 TAAAAATTAT
1 AAAAAATT-T
* *
7025306 AGAAAATAT
1 AAAAAATTT
7025315 AAAAA
1 AAAAA
7025320 CTAGTTTTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
8 6 0.13
9 34 0.74
10 6 0.13
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAAAATTT
Found at i:7025536 original size:21 final size:21
Alignment explanation
Indices: 7025481--7025539 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
7025471 TTTGAAAATT
7025481 AAAAATATCT-AAATTTTTTCAA
1 AAAAAT-TCTAAAATTTTTT-AA
* *
7025503 AAAAAATCCAAAATTTTATT-A
1 AAAAATTCTAAAATTTT-TTAA
7025524 AAAAATTCTAAAATTT
1 AAAAATTCTAAAATTT
7025540 CAAAATACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 17 0.55
22 12 0.39
23 2 0.06
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATTCTAAAATTTTTTAA
Found at i:7025599 original size:8 final size:9
Alignment explanation
Indices: 7025570--7025601 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7025560 TAAAATTATT
7025570 AAAAATCTA
1 AAAAATCTA
7025579 AAAAATCTA
1 AAAAATCTA
*
7025588 AAAAATTTA
1 AAAAATCTA
7025597 AAAAA
1 AAAAA
7025602 ATAAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAATCTA
Found at i:7025803 original size:52 final size:51
Alignment explanation
Indices: 7025712--7025812 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 51
7025702 ATAAAAAAAT
**
7025712 TATTTACAATTTTTAAAATTTTTTTATTTTTTCAAAAAATTTTATATTTTTA
1 TATTTACAATTTTTAAAATTTTTTTATAATTTCAAAAAATTTTAT-TTTTTA
*
7025764 TATTTTCAATTTTTAAAATTTTTTTGA-AATTT-AAGAAAATTTTATTTTT
1 TATTTACAATTTTTAAAATTTTTTT-ATAATTTCAA-AAAATTTTATTTTT
7025813 ATTAAAATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
51 6 0.14
52 37 0.84
53 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (51 bp):
TATTTACAATTTTTAAAATTTTTTTATAATTTCAAAAAATTTTATTTTTTA
Found at i:7025819 original size:17 final size:17
Alignment explanation
Indices: 7025799--7025834 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
7025789 GAAATTTAAG
7025799 AAAAT-TTTATTTTTATT
1 AAAATGTTTATTTTT-TT
7025816 AAAATGTTTATTTTTTT
1 AAAATGTTTATTTTTTT
7025833 AA
1 AA
7025835 TTTTTCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AAAATGTTTATTTTTTT
Found at i:7025849 original size:20 final size:19
Alignment explanation
Indices: 7025825--7025897 Score: 94
Period size: 20 Copynumber: 3.8 Consensus size: 19
7025815 TAAAATGTTT
*
7025825 ATTTTTTT-AATTTTTCAA
1 ATTTTTTTAAATTTTTGAA
* *
7025843 CATTTTTTTAATTTTTTGTA
1 -ATTTTTTTAAATTTTTGAA
7025863 ATTTTTTTAAAATTTTTGAA
1 ATTTTTTT-AAATTTTTGAA
7025883 ATTTTTTTAAATTTT
1 ATTTTTTTAAATTTT
7025898 AAGTTTTCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 23 0.49
20 24 0.51
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTTTTTAAATTTTTGAA
Found at i:7025858 original size:10 final size:10
Alignment explanation
Indices: 7025825--7025897 Score: 73
Period size: 10 Copynumber: 7.5 Consensus size: 10
7025815 TAAAATGTTT
7025825 ATTTTTTT-A
1 ATTTTTTTAA
*
7025834 A-TTTTTCAA
1 ATTTTTTTAA
7025843 CATTTTTTT-A
1 -ATTTTTTTAA
7025853 ATTTTTTGT-A
1 ATTTTTT-TAA
7025863 ATTTTTTTAA
1 ATTTTTTTAA
* *
7025873 AATTTTTGAA
1 ATTTTTTTAA
7025883 ATTTTTTTAA
1 ATTTTTTTAA
7025893 ATTTT
1 ATTTT
7025898 AAGTTTTCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
8 5 0.09
9 10 0.19
10 33 0.62
11 5 0.09
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:7025940 original size:18 final size:18
Alignment explanation
Indices: 7025918--7025986 Score: 52
Period size: 19 Copynumber: 3.8 Consensus size: 18
7025908 AATTTTAAAT
*
7025918 TTTTTAAAAATATTTCAGC
1 TTTTTAAAAATATTTCA-A
* * *
7025937 TTTTTAAAATTTTTTTAA
1 TTTTTAAAAATATTTCAA
*
7025955 -TTTTAAAAATATTT-TA
1 TTTTTAAAAATATTTCAA
*
7025971 TATTTTAAAAAAATTT
1 T-TTTTAAAAATATTT
7025987 AGAAATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
16 1 0.03
17 12 0.30
18 13 0.32
19 14 0.35
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (18 bp):
TTTTTAAAAATATTTCAA
Found at i:7025960 original size:17 final size:18
Alignment explanation
Indices: 7025920--7025986 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 18
7025910 TTTTAAATTT
*
7025920 TTTAAAAATATTTCAGCT-T
1 TTTAAAAATATTTTA--TAT
* *
7025939 TTTAAAATTTTTTTA-AT
1 TTTAAAAATATTTTATAT
7025956 TTTAAAAATATTTTATAT
1 TTTAAAAATATTTTATAT
*
7025974 TTTAAAAAAATTT
1 TTTAAAAATATTT
7025987 AGAAATATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 14 0.35
18 14 0.35
19 12 0.30
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (18 bp):
TTTAAAAATATTTTATAT
Found at i:7025987 original size:17 final size:17
Alignment explanation
Indices: 7025950--7025987 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
7025940 TTAAAATTTT
*
7025950 TTTAATTTTAAAAATAT
1 TTTAATTTTAAAAATAA
7025967 TTTATATTTTAAAAA-AA
1 TTTA-ATTTTAAAAATAA
7025984 TTTA
1 TTTA
7025988 GAAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAATTTTAAAAATAA
Found at i:7043083 original size:15 final size:16
Alignment explanation
Indices: 7043063--7043097 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7043053 ATGAATAAAT
*
7043063 TTTGT-AATTTTTTGC
1 TTTGTAAATTTTTTAC
7043078 TTTGTAAATTTTTTAC
1 TTTGTAAATTTTTTAC
7043094 TTTG
1 TTTG
7043098 AGGTTAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.66
Consensus pattern (16 bp):
TTTGTAAATTTTTTAC
Found at i:7049525 original size:19 final size:18
Alignment explanation
Indices: 7049498--7049533 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7049488 AGCATGAGGT
*
7049498 ATTATTTAATTAAATTATA
1 ATTAATTAATT-AATTATA
7049517 ATTAATTAATTAATTAT
1 ATTAATTAATTAATTAT
7049534 TTAGATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTAATTAATTAATTATA
Found at i:7056777 original size:20 final size:20
Alignment explanation
Indices: 7056752--7056800 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
7056742 ATTTTAATTT
7056752 ATTTGTTATCAAATTACTTA
1 ATTTGTTATCAAATTACTTA
7056772 ATTTGTTATCAAATTACTTA
1 ATTTGTTATCAAATTACTTA
7056792 ATTTGTTAT
1 ATTTGTTAT
7056801 TCTACATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (20 bp):
ATTTGTTATCAAATTACTTA
Found at i:7057211 original size:77 final size:78
Alignment explanation
Indices: 7057109--7057256 Score: 185
Period size: 77 Copynumber: 1.9 Consensus size: 78
7057099 TGACTACTGA
* * * * * * *
7057109 TTATTACTTTTACATTTATTTATTATCGAATTACTT-CGTTTATTACTCTTTTTAA-TAAAAAGT
1 TTATTACTTTTACATCTATTCATTATCGAAATACTTAAG-TTATTACTATTTTTAAGAAAAAAAT
7057172 AATATTACAACATT
65 AATATTACAACATT
*
7057186 TTATTA-TCTTTACATCTATTCATTATCGAAATACTTAAGTTGTTACTATTTTTAAGAAAAAAAT
1 TTATTACT-TTTACATCTATTCATTATCGAAATACTTAAGTTATTACTATTTTTAAGAAAAAAAT
7057250 AATATTA
65 AATATTA
7057257 AAATGATCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
76 1 0.02
77 45 0.75
78 14 0.23
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (78 bp):
TTATTACTTTTACATCTATTCATTATCGAAATACTTAAGTTATTACTATTTTTAAGAAAAAAATA
ATATTACAACATT
Found at i:7058575 original size:23 final size:23
Alignment explanation
Indices: 7058531--7058592 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
7058521 ATCCGATAAA
* *
7058531 TTTACTAGTATTT-TTTGGTGTT
1 TTTATTAGTATTTCTTTGATGTT
7058553 TTTATTAGTATTTCTTTGATGTT
1 TTTATTAGTATTTCTTTGATGTT
* *
7058576 TTTGTTGGTATTTCTTT
1 TTTATTAGTATTTCTTT
7058593 CCTAATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 12 0.34
23 23 0.66
ACGTcount: A:0.13, C:0.05, G:0.16, T:0.66
Consensus pattern (23 bp):
TTTATTAGTATTTCTTTGATGTT
Found at i:7062080 original size:14 final size:14
Alignment explanation
Indices: 7062061--7062087 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7062051 TGTCATATGC
7062061 TGCATAAATTACCT
1 TGCATAAATTACCT
7062075 TGCATAAATTACC
1 TGCATAAATTACC
7062088 CAAGGACATT
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:0.22, G:0.07, T:0.33
Consensus pattern (14 bp):
TGCATAAATTACCT
Found at i:7062475 original size:24 final size:24
Alignment explanation
Indices: 7062443--7062489 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
7062433 CTATTTCTAT
*
7062443 CAACTACATTTTTAACTTCTACCC
1 CAACCACATTTTTAACTTCTACCC
**
7062467 CAACCACATTTTTATTTTCTACC
1 CAACCACATTTTTAACTTCTACC
7062490 ATTGCTGCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (24 bp):
CAACCACATTTTTAACTTCTACCC
Found at i:7062700 original size:42 final size:38
Alignment explanation
Indices: 7062630--7062720 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 38
7062620 CAATTTCTAT
* *
7062630 CCTTTTATTCCCTACTGCCTCACTTACATGTTGATTTTTTAC
1 CCTTTTATTCCCTACCGCATCACTTACA---TGA-TTTTTAC
7062672 CCTTTTATTCCCTACCGCATCAAC-TACATGATTTTTAC
1 CCTTTTATTCCCTACCGCATC-ACTTACATGATTTTTAC
*
7062710 CTTTTTATTCC
1 CCTTTTATTCC
7062721 ATACTACCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
38 17 0.38
39 3 0.07
42 23 0.51
43 2 0.04
ACGTcount: A:0.19, C:0.30, G:0.05, T:0.46
Consensus pattern (38 bp):
CCTTTTATTCCCTACCGCATCACTTACATGATTTTTAC
Found at i:7064266 original size:43 final size:43
Alignment explanation
Indices: 7064167--7064268 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 43
7064157 ATGCCTAAGA
*
7064167 ATGAAGAACTACAAAAAAATCCTAAACCAAAATATGCATAACT
1 ATGAAGAACAACAAAAAAATCCTAAACCAAAATATGCATAACT
* * * * *
7064210 TTAAAAAATAACAAAAAAA-CCTTCAACCACAAA-ATG-ACTAACT
1 ATGAAGAACAACAAAAAAATCC-TAAACCA-AAATATGCA-TAACT
7064253 ATGAAGAACAACAAAA
1 ATGAAGAACAACAAAA
7064269 CCCAAAATAT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
42 3 0.07
43 40 0.87
44 3 0.07
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.17
Consensus pattern (43 bp):
ATGAAGAACAACAAAAAAATCCTAAACCAAAATATGCATAACT
Found at i:7068792 original size:21 final size:19
Alignment explanation
Indices: 7068756--7068800 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7068746 ATTAAAAATT
*
7068756 TAATTTAAATATTTTATTA
1 TAATTTAAAAATTTTATTA
**
7068775 TAATTTAAAAATCAT-TTA
1 TAATTTAAAAATTTTATTA
7068793 TAATTTAA
1 TAATTTAA
7068801 CCCTTTTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATTTAAAAATTTTATTA
Found at i:7069584 original size:19 final size:19
Alignment explanation
Indices: 7069562--7069604 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
7069552 TATTTTTATT
*
7069562 TATAAAAATTTAAAATATA
1 TATAAAAATTAAAAATATA
*
7069581 TATAAAAGTTAAAAATATA
1 TATAAAAATTAAAAATATA
7069600 TATAA
1 TATAA
7069605 TTTAATTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TATAAAAATTAAAAATATA
Found at i:7069609 original size:17 final size:18
Alignment explanation
Indices: 7069562--7069609 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
7069552 TATTTTTATT
7069562 TATA-AAAATTTAAAATA
1 TATATAAAATTTAAAATA
*
7069579 TATATAAAAGTTAAAA-A
1 TATATAAAATTTAAAATA
*
7069596 TATATATAATTTAA
1 TATATAAAATTTAA
7069610 TTCGATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TATATAAAATTTAAAATA
Found at i:7070430 original size:18 final size:19
Alignment explanation
Indices: 7070393--7070432 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
7070383 TATTGATCAA
*
7070393 ATTTAATTATATTTATTAT
1 ATTTAATTATATTTAATAT
*
7070412 ATTTAA-TATTTTTAATAT
1 ATTTAATTATATTTAATAT
7070430 ATT
1 ATT
7070433 ATTAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTAATTATATTTAATAT
Found at i:7083089 original size:25 final size:24
Alignment explanation
Indices: 7083039--7083089 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
7083029 GTTTGGTGAG
* *
7083039 ATTTTATTATAAAATATTTATAAA
1 ATTTTATTATAAAAAATTCATAAA
* *
7083063 ATTTTATTTTGAAAAAATTCATTAA
1 ATTTTATTAT-AAAAAATTCATAAA
7083088 AT
1 AT
7083090 CTTCTAATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTTTATTATAAAAAATTCATAAA
Found at i:7083368 original size:17 final size:16
Alignment explanation
Indices: 7083346--7083422 Score: 75
Period size: 17 Copynumber: 4.6 Consensus size: 16
7083336 TAAGCTACTC
7083346 AATAAAAATAAATAAA
1 AATAAAAATAAATAAA
* *
7083362 TAATAAAAATTAGTAAA
1 -AATAAAAATAAATAAA
*
7083379 GTAA-ATAAATAAATAAA
1 --AATAAAAATAAATAAA
*
7083396 ACTAAAAATAAAATAAA
1 AATAAAAAT-AAATAAA
7083413 AATAAAAATA
1 AATAAAAATA
7083423 TAAAATAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
15 1 0.02
16 6 0.12
17 39 0.80
18 3 0.06
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (16 bp):
AATAAAAATAAATAAA
Found at i:7083426 original size:31 final size:27
Alignment explanation
Indices: 7083398--7083474 Score: 66
Period size: 31 Copynumber: 2.6 Consensus size: 27
7083388 TAAATAAAAC
7083398 TAAAAATAAAATAAAAATAAAAATATAAAA
1 TAAAAA-AAAAT-AAAATAAAAA-ATAAAA
7083428 TAAATCAAAAAATAAAATCAAAAAATTAAAA
1 TAAA--AAAAAATAAAAT-AAAAAA-TAAAA
7083459 TTAAAAAAGAAA-AAAA
1 -TAAAAAA-AAATAAAA
7083475 GAACACTTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
30 17 0.41
31 18 0.44
32 6 0.15
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (27 bp):
TAAAAAAAAATAAAATAAAAAATAAAA
Found at i:7083432 original size:17 final size:16
Alignment explanation
Indices: 7083346--7083445 Score: 61
Period size: 17 Copynumber: 6.2 Consensus size: 16
7083336 TAAGCTACTC
*
7083346 AATAAA-AATAAAT-A
1 AATAAATAAAAAATAA
7083360 AAT-AATAAAAATTAGTAA
1 AATAAATAAAAA--A-TAA
*
7083378 AGTAAATAAATAAATAA
1 AATAAATAAA-AAATAA
7083395 AACTAAA-AATAAAAT--
1 AA-TAAATAA-AAAATAA
7083410 AA-AAATAAAAATATAA
1 AATAAATAAAAA-ATAA
7083426 AATAAATCAAAAAATAA
1 AATAAAT-AAAAAATAA
7083443 AAT
1 AAT
7083446 CAAAAAATTA
Statistics
Matches: 68, Mismatches: 3, Indels: 27
0.69 0.03 0.28
Matches are distributed among these distances:
13 8 0.12
14 11 0.16
15 2 0.03
16 3 0.04
17 22 0.32
18 14 0.21
19 6 0.09
20 2 0.03
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (16 bp):
AATAAATAAAAAATAA
Found at i:7083457 original size:14 final size:13
Alignment explanation
Indices: 7083389--7083471 Score: 77
Period size: 13 Copynumber: 6.6 Consensus size: 13
7083379 GTAAATAAAT
*
7083389 AAATAAAA-CTAA
1 AAATAAAATCAAA
7083401 AAATAAAAT--AA
1 AAATAAAATCAAA
*
7083412 AAATAAAAAT-ATA
1 AAAT-AAAATCAAA
7083425 AAAT-AAATCAAA
1 AAATAAAATCAAA
7083437 AAATAAAATCAAA
1 AAATAAAATCAAA
*
7083450 AAATTAAAATTAAA
1 AAA-TAAAATCAAA
*
7083464 AAAGAAAA
1 AAATAAAA
7083472 AAAGAACACT
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
11 10 0.16
12 19 0.31
13 20 0.33
14 12 0.20
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.18
Consensus pattern (13 bp):
AAATAAAATCAAA
Found at i:7084731 original size:37 final size:37
Alignment explanation
Indices: 7084685--7084755 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
7084675 TCCTTTGTAT
*
7084685 GAATTATGCTCCAATA-AATCCAAGATTGAATCACTAA
1 GAATCATGCTCCAA-AGAATCCAAGATTGAATCACTAA
*
7084722 GAATCATGCTCCAAAGAATCCAGGATTGAATCAC
1 GAATCATGCTCCAAAGAATCCAAGATTGAATCAC
7084756 CAATTTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 1 0.03
37 30 0.97
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (37 bp):
GAATCATGCTCCAAAGAATCCAAGATTGAATCACTAA
Found at i:7085490 original size:85 final size:85
Alignment explanation
Indices: 7085401--7085558 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
7085391 TTCAGATTCA
** * *
7085401 CAAGAATGAAAGATTCGTAAGATTTCAAGTTTCACAGATGTTCTAAAT-AGCAAAGATTTCAGGT
1 CAAGAATGAAAGATTCACAAGATTT-AAGTTTCACAGAGGTTCTAAATGAGCAAAGATTTCAAGT
*
7085465 TCGTAAGAACTTTCATATTTG
65 TCGCAAGAACTTTCATATTTG
* *** *
7085486 CAAGAATGAAATATTCACAAGATTTAAGTTTTGTAGAGGTTCTAAATGCGCAAAGATTTCAAGTT
1 CAAGAATGAAAGATTCACAAGATTTAAGTTTCACAGAGGTTCTAAATGAGCAAAGATTTCAAGTT
7085551 CGCAAGAA
66 CGCAAGAA
7085559 TAAAAAATTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
84 18 0.29
85 44 0.71
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (85 bp):
CAAGAATGAAAGATTCACAAGATTTAAGTTTCACAGAGGTTCTAAATGAGCAAAGATTTCAAGTT
CGCAAGAACTTTCATATTTG
Found at i:7085569 original size:67 final size:68
Alignment explanation
Indices: 7085485--7085611 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
7085475 TTTCATATTT
* * * *
7085485 GCAAGAATGAAATATTCACAAGATT-TAAGTTTTGTAGAGGTTCTAAATGCGCAAAGATTTCAAG
1 GCAAGAATAAAAAATTCACAAGATTCTAAGTTTTGCAGAGGTTCTAAATACGCAAAGATTTCAAG
7085549 TTC
66 TTC
* *
7085552 GCAAGAATAAAAAATTCACAAGATTCTAAGTTTTGCAGAGGTTTTAAATACGTAAAGATT
1 GCAAGAATAAAAAATTCACAAGATTCTAAGTTTTGCAGAGGTTCTAAATACGCAAAGATT
7085612 CATGTTCACT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
67 23 0.43
68 30 0.57
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (68 bp):
GCAAGAATAAAAAATTCACAAGATTCTAAGTTTTGCAGAGGTTCTAAATACGCAAAGATTTCAAG
TTC
Found at i:7085913 original size:55 final size:55
Alignment explanation
Indices: 7085854--7085960 Score: 126
Period size: 55 Copynumber: 1.9 Consensus size: 55
7085844 ACAAGTTAGG
* *
7085854 AAAATGATTTGGATAGAG-CAAAGATCAAATAATCAAAATTAAACTACAAGTCAAA
1 AAAATGATCTAGATAGAGTC-AAGATCAAATAATCAAAATTAAACTACAAGTCAAA
* * ****
7085909 AAAATGATCTAGATTGAGTCAAGATCGAATAATTGGGATTAAACTACAAGTC
1 AAAATGATCTAGATAGAGTCAAGATCAAATAATCAAAATTAAACTACAAGTC
7085961 TGAAAGATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
55 42 0.98
56 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (55 bp):
AAAATGATCTAGATAGAGTCAAGATCAAATAATCAAAATTAAACTACAAGTCAAA
Found at i:7085979 original size:55 final size:55
Alignment explanation
Indices: 7085891--7086043 Score: 191
Period size: 55 Copynumber: 2.8 Consensus size: 55
7085881 AATAATCAAA
** * * *
7085891 ATTAAACTACAAGTCAAAAAAATGATCTAGATTGAGTCAAGATCGA-ATAATTGGG
1 ATTAAACTACAAGTCTGAAAAATAATCTAGATTGAGCCAAGAT-GAGATAATTAGG
* * *
7085946 ATTAAACTACAAGTCTGAAAGATAATCTGGATTGAGCCAAGATTAGATAATTAGG
1 ATTAAACTACAAGTCTGAAAAATAATCTAGATTGAGCCAAGATGAGATAATTAGG
* * *
7086001 ATTGAACCACAAGTCTGAAAAATAATCTAGACTGAGCCAAGAT
1 ATTAAACTACAAGTCTGAAAAATAATCTAGATTGAGCCAAGAT
7086044 TGAAAATGAG
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 1 0.01
55 83 0.99
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (55 bp):
ATTAAACTACAAGTCTGAAAAATAATCTAGATTGAGCCAAGATGAGATAATTAGG
Found at i:7086820 original size:9 final size:9
Alignment explanation
Indices: 7086806--7086839 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
7086796 GTTTAAGTCT
*
7086806 TTTTTTTTCT
1 TTTTTTTT-A
7086816 TTTTTTTTA
1 TTTTTTTTA
7086825 TTTTTTTTA
1 TTTTTTTTA
7086834 TTTTTT
1 TTTTTT
7086840 GCCTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:7086838 original size:10 final size:10
Alignment explanation
Indices: 7086805--7086839 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
7086795 AGTTTAAGTC
*
7086805 TTTTTTTTTC
1 TTTTTTTTTA
7086815 TTTTTTTTTA
1 TTTTTTTTTA
7086825 -TTTTTTTTA
1 TTTTTTTTTA
7086834 TTTTTT
1 TTTTTT
7086840 GCCTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:7091537 original size:6 final size:6
Alignment explanation
Indices: 7091526--7091621 Score: 60
Period size: 6 Copynumber: 16.3 Consensus size: 6
7091516 TAAGTTACTC
* * * *
7091526 AATAAA AATAAA TAA-ATA AAT-AA ACTAAA AAT-AA AATCAA AATCAA
1 AATAAA AATAAA -AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
* *
7091572 AATAAA AATAAA TA-AAA AAT-AA AATCAAA AA-ACAA AATTAA AATAGAA
1 AATAAA AATAAA AATAAA AATAAA AAT-AAA AATA-AA AATAAA AATA-AA
7091620 AA
1 AA
7091622 AAGAGAACAC
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
5 20 0.28
6 41 0.58
7 10 0.14
ACGTcount: A:0.76, C:0.05, G:0.01, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:7091558 original size:23 final size:22
Alignment explanation
Indices: 7091526--7091602 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 22
7091516 TAAGTTACTC
7091526 AATAAAAATAAATAAATAAATAA
1 AATAAAAATAAATAAA-AAATAA
* *
7091549 ACTAAAAATAAA-ATCAAAATCAA
1 AATAAAAATAAATA-AAAAAT-AA
7091572 AATAAAAATAAATAAAAAATAA
1 AATAAAAATAAATAAAAAATAA
7091594 AATCAAAAA
1 AAT-AAAAA
7091603 ACAAAATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 10 0.22
23 35 0.76
24 1 0.02
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (22 bp):
AATAAAAATAAATAAAAAATAA
Found at i:7091581 original size:34 final size:35
Alignment explanation
Indices: 7091543--7091616 Score: 107
Period size: 34 Copynumber: 2.1 Consensus size: 35
7091533 ATAAATAAAT
*
7091543 AAATAAACT-AAAAATAAAATCAA-AATCAAAATAA
1 AAATAAA-TAAAAAATAAAATCAAAAAACAAAATAA
*
7091577 AAATAAATAAAAAATAAAATCAAAAAACAAAATTA
1 AAATAAATAAAAAATAAAATCAAAAAACAAAATAA
7091612 AAATA
1 AAATA
7091617 GAAAAAAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 1 0.03
34 21 0.58
35 14 0.39
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.18
Consensus pattern (35 bp):
AAATAAATAAAAAATAAAATCAAAAAACAAAATAA
Found at i:7091601 original size:11 final size:11
Alignment explanation
Indices: 7091526--7091616 Score: 78
Period size: 11 Copynumber: 7.9 Consensus size: 11
7091516 TAAGTTACTC
7091526 AATAAAAAT-A
1 AATAAAAATAA
7091536 AATAAATAAATAA
1 AAT-AA-AAATAA
*
7091549 ACTAAAAATAA
1 AATAAAAATAA
*
7091560 AATCAAAATCAA
1 AATAAAAAT-AA
7091572 AATAAAAAT-A
1 AATAAAAATAA
7091582 AATAAAAAATAA
1 AAT-AAAAATAA
*
7091594 AATCAAAAAACAA
1 AAT--AAAAATAA
*
7091607 AATTAAAATA
1 AATAAAAATA
7091617 GAAAAAAGAG
Statistics
Matches: 67, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
10 7 0.10
11 26 0.39
12 20 0.30
13 14 0.21
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:7093504 original size:7 final size:7
Alignment explanation
Indices: 7093492--7093521 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
7093482 TTCATTAAAA
7093492 TTAGAAT
1 TTAGAAT
7093499 TTAGAAT
1 TTAGAAT
7093506 TTAGAAT
1 TTAGAAT
7093513 TTAGAAT
1 TTAGAAT
7093520 TT
1 TT
7093522 GTTTCACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (7 bp):
TTAGAAT
Found at i:7108367 original size:26 final size:25
Alignment explanation
Indices: 7108338--7108418 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
7108328 ATATAAAATT
7108338 TTTTAAATATAAAATAATATTTTTTA
1 TTTT-AATATAAAATAATATTTTTTA
*
7108364 TTTTTAATATAAAAGTAAT-TTTATTA
1 -TTTTAATATAAAA-TAATATTTTTTA
* * * **
7108390 ATTTATTATATAATAATAAATTTTA
1 TTTTAATATAAAATAATATTTTTTA
7108415 TTTT
1 TTTT
7108419 TCATATTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 4 0.09
25 17 0.39
26 15 0.34
27 8 0.18
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (25 bp):
TTTTAATATAAAATAATATTTTTTA
Found at i:7108375 original size:21 final size:21
Alignment explanation
Indices: 7108328--7108377 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
7108318 ATTAAAATTT
7108328 ATATAAAATTTTTTAAATATA
1 ATATAAAATTTTTTAAATATA
* * ** *
7108349 AAATAATATTTTTTATTTTTA
1 ATATAAAATTTTTTAAATATA
7108370 ATATAAAA
1 ATATAAAA
7108378 GTAATTTTAT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATAAAATTTTTTAAATATA
Found at i:7108393 original size:27 final size:26
Alignment explanation
Indices: 7108337--7108416 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 26
7108327 TATATAAAAT
*
7108337 TTTTTAAATATAAAATAATATTT-TTTA
1 TTTTT-AATATAAAATAAT-TTTATTAA
7108364 TTTTTAATATAAAAGTAATTTTATTAA
1 TTTTTAATATAAAA-TAATTTTATTAA
7108391 TTTATT-ATATAATAATAAATTTTATT
1 TTT-TTAATATAA-AAT-AATTTTATT
7108417 TTTCATATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
26 12 0.26
27 22 0.47
28 13 0.28
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (26 bp):
TTTTTAATATAAAATAATTTTATTAA
Found at i:7109189 original size:32 final size:32
Alignment explanation
Indices: 7109153--7109215 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
7109143 TTTTGTACCT
*
7109153 CTAAATAAAATAATGTTTAAATTTTAATAATA
1 CTAAATAAAATAATATTTAAATTTTAATAATA
* *
7109185 CTAAATATAATAATATTTAATTTTTAATAAT
1 CTAAATAAAATAATATTTAAATTTTAATAAT
7109216 TAATTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (32 bp):
CTAAATAAAATAATATTTAAATTTTAATAATA
Found at i:7117114 original size:24 final size:23
Alignment explanation
Indices: 7117086--7117137 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
7117076 TTACATAACT
7117086 GTTATGTATATTTTATTTATT-TTA
1 GTTAT-TATA-TTTATTTATTATTA
7117110 GTTA-TATATTTATTTATTATTA
1 GTTATTATATTTATTTATTATTA
*
7117132 TTTATT
1 GTTATT
7117138 TAAAATCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 10 0.40
22 10 0.40
23 1 0.04
24 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (23 bp):
GTTATTATATTTATTTATTATTA
Found at i:7117118 original size:22 final size:22
Alignment explanation
Indices: 7117092--7117136 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
7117082 AACTGTTATG
7117092 TATAT-TTTATTTATT-TTAGT
1 TATATATTTATTTATTATTAGT
*
7117112 TATATATTTATTTATTATTATT
1 TATATATTTATTTATTATTAGT
7117134 TAT
1 TAT
7117137 TTAAAATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TATATATTTATTTATTATTAGT
Found at i:7118113 original size:18 final size:18
Alignment explanation
Indices: 7118092--7118126 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7118082 AATTTTAAAA
* *
7118092 TTTTATTAAAATGATAAT
1 TTTTAGTAAAATAATAAT
7118110 TTTTAGTAAAATAATAA
1 TTTTAGTAAAATAATAA
7118127 AAATATTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (18 bp):
TTTTAGTAAAATAATAAT
Found at i:7134021 original size:22 final size:22
Alignment explanation
Indices: 7133996--7134046 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
7133986 AAACAAAGAT
*
7133996 AAAATAAAGTAATGATA-ATTAA
1 AAAATAAAGTAAAGATATA-TAA
7134018 AAAAT-AAGTAAAGATATATAA
1 AAAATAAAGTAAAGATATATAA
7134039 AAAATAAA
1 AAAATAAA
7134047 TCATTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.24
Consensus pattern (22 bp):
AAAATAAAGTAAAGATATATAA
Found at i:7134090 original size:17 final size:17
Alignment explanation
Indices: 7134070--7134112 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
7134060 TTAACCAGTG
7134070 AAGATAAATAACCTATA
1 AAGATAAATAACCTATA
*
7134087 AAGATAAATAATCTATA
1 AAGATAAATAACCTATA
7134104 AAGATAAAT
1 AAGATAAAT
7134113 GAAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (17 bp):
AAGATAAATAACCTATA
Found at i:7135833 original size:11 final size:11
Alignment explanation
Indices: 7135812--7135875 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
7135802 TAAACACATT
7135812 AAAAT-AAATA
1 AAAATAAAATA
*
7135822 ATAATAAAATA
1 AAAATAAAATA
7135833 AAAATAAGAAAGTA
1 AAAAT-A-AAA-TA
*
7135847 AATATAAATATA
1 AAAATAAA-ATA
*
7135859 AAAA-GAAATA
1 AAAATAAAATA
7135869 AAAATAA
1 AAAATAA
7135876 TTTGACCTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
10 11 0.26
11 12 0.29
12 8 0.19
13 5 0.12
14 6 0.14
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:7135838 original size:14 final size:14
Alignment explanation
Indices: 7135811--7135853 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
7135801 TTAAACACAT
7135811 TAAAATAAATAATAA
1 TAAAATAAA-AATAA
7135826 TAAAATAAAAATAA
1 TAAAATAAAAATAA
* * *
7135840 GAAAGTAAATATAA
1 TAAAATAAAAATAA
7135854 ATATAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (14 bp):
TAAAATAAAAATAA
Found at i:7135855 original size:18 final size:17
Alignment explanation
Indices: 7135828--7135875 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
7135818 AATAATAATA
*
7135828 AAATAAAAATAAGAAAG
1 AAATAAAAATAAAAAAG
*
7135845 TAAATATAAATATAAAAAG
1 -AAATAAAAATA-AAAAAG
7135864 AAATAAAAATAA
1 AAATAAAAATAA
7135876 TTTGACCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 20 0.77
19 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (17 bp):
AAATAAAAATAAAAAAG
Found at i:7135904 original size:18 final size:18
Alignment explanation
Indices: 7135812--7135907 Score: 52
Period size: 18 Copynumber: 5.1 Consensus size: 18
7135802 TAAACACATT
*
7135812 AAAATAAATAATAATAAAA
1 AAAAT-AATAAAAATAAAA
*
7135831 TAAA-AATAAGAAAGTAAATA
1 AAAATAATAA-AAA-TAAA-A
* *
7135851 TAAAT-ATAAAAAGAAATA
1 AAAATAATAAAAATAAA-A
** **
7135869 AAAATAATTTGACCTAAAA
1 AAAATAA-TAAAAATAAAA
7135888 AAAATAATAAAAATAAAA
1 AAAATAATAAAAATAAAA
7135906 AA
1 AA
7135908 TAAACTTAGA
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
17 5 0.09
18 20 0.34
19 19 0.33
20 14 0.24
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAATAATAAAAATAAAA
Found at i:7140270 original size:18 final size:19
Alignment explanation
Indices: 7140225--7140270 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7140215 GGGAAAAAGG
7140225 TAAAACATGCAAAAAAAAA
1 TAAAACATGCAAAAAAAAA
* *
7140244 AAAACACATG-AATAAAAAA
1 TAAA-ACATGCAAAAAAAAA
7140263 TAAAACAT
1 TAAAACAT
7140271 TGATAGAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 14 0.61
20 5 0.22
ACGTcount: A:0.72, C:0.11, G:0.04, T:0.13
Consensus pattern (19 bp):
TAAAACATGCAAAAAAAAA
Found at i:7140414 original size:15 final size:16
Alignment explanation
Indices: 7140396--7140434 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
7140386 TAACCATCAA
*
7140396 CAAAAAAACATTAG-G
1 CAAAAAAACAATAGAG
*
7140411 CAAAAAAATAATAGAG
1 CAAAAAAACAATAGAG
7140427 CAAAAAAA
1 CAAAAAAA
7140435 AAAAAAGAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
CAAAAAAACAATAGAG
Found at i:7154460 original size:18 final size:18
Alignment explanation
Indices: 7154437--7154472 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7154427 GAAGAAGGCA
7154437 AAGATTAAAGCAACGACG
1 AAGATTAAAGCAACGACG
7154455 AAGATTAAAGCAACGACG
1 AAGATTAAAGCAACGACG
7154473 CTTCAACGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.22, T:0.11
Consensus pattern (18 bp):
AAGATTAAAGCAACGACG
Found at i:7158662 original size:103 final size:103
Alignment explanation
Indices: 7158536--7158747 Score: 370
Period size: 103 Copynumber: 2.1 Consensus size: 103
7158526 AAAATACAAA
* * *
7158536 CATTTAGATATAATGTGGTATATGCTATTTCAATATTCTTAATCAATGAACATATTCGAAGAAAT
1 CATTGAGACATAATGTGGTATATGCTATTTCAATATTCTTAATCAATGAACATATTCAAAGAAAT
* *
7158601 CAATCAATTTAACTAATATCTATGTTCAAGAATTCATG
66 CAATCAATTTAACTAATAACCATGTTCAAGAATTCATG
7158639 CATTGAGACATAATGTGGTATATGCTATTTCAATATTCTTAATCAATGAACATATTCAAAGAAAT
1 CATTGAGACATAATGTGGTATATGCTATTTCAATATTCTTAATCAATGAACATATTCAAAGAAAT
*
7158704 CAATCAATTTAACTCATAACCATGTTCAAGAATTCATG
66 CAATCAATTTAACTAATAACCATGTTCAAGAATTCATG
7158742 CATTGA
1 CATTGA
7158748 TCAAATATTC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (103 bp):
CATTGAGACATAATGTGGTATATGCTATTTCAATATTCTTAATCAATGAACATATTCAAAGAAAT
CAATCAATTTAACTAATAACCATGTTCAAGAATTCATG
Found at i:7158771 original size:16 final size:18
Alignment explanation
Indices: 7158735--7158772 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
7158725 ATGTTCAAGA
7158735 ATTCATGCATTGATCAAAT
1 ATTCATGCATTGA-CAAAT
7158754 ATTCATGCATT-A-AAAT
1 ATTCATGCATTGACAAAT
7158770 ATT
1 ATT
7158773 TAATCACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (18 bp):
ATTCATGCATTGACAAAT
Found at i:7166589 original size:20 final size:17
Alignment explanation
Indices: 7166578--7166614 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
7166568 TTTTAAAAGG
7166578 AATTTTAAAATTTAAAA
1 AATTTTAAAATTTAAAA
7166595 AATTTT--AATTT-AAA
1 AATTTTAAAATTTAAAA
7166609 AATTTT
1 AATTTT
7166615 GTTAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 5 0.25
17 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTAAAATTTAAAA
Found at i:7166641 original size:15 final size:15
Alignment explanation
Indices: 7166589--7166643 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
7166579 ATTTTAAAAT
7166589 TTAAAAAA-TTTTAA
1 TTAAAAAATTTTTAA
*
7166603 TTTAAAAATTTTGTTAA
1 -TTAAAAAATTT-TTAA
*
7166620 -AAGAAAAATTTTTAA
1 TTA-AAAAATTTTTAA
7166635 TTAAAAAAT
1 TTAAAAAAT
7166644 GAAATTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 18 0.56
16 10 0.31
17 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (15 bp):
TTAAAAAATTTTTAA
Found at i:7171734 original size:42 final size:42
Alignment explanation
Indices: 7171675--7171754 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
7171665 TTAATTTGTT
*
7171675 GTTCATTTGCTACTATTCATCTACAGTCGTTCTCAAGCCACA
1 GTTCATCTGCTACTATTCATCTACAGTCGTTCTCAAGCCACA
* * ** *
7171717 GTTCATCTGTTACTATTCATTTATTGTCGTTCTTAAGC
1 GTTCATCTGCTACTATTCATCTACAGTCGTTCTCAAGC
7171755 TGTTATTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (42 bp):
GTTCATCTGCTACTATTCATCTACAGTCGTTCTCAAGCCACA
Found at i:7174015 original size:36 final size:36
Alignment explanation
Indices: 7173966--7174037 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
7173956 GTTATTTTTT
7173966 GCAATGTTACTATGATGTTTTAAAAGTAAAGTTAAA
1 GCAATGTTACTATGATGTTTTAAAAGTAAAGTTAAA
* *
7174002 GCAATGTTGCTATGATGTTTTAAAAGTAGAGTTAAA
1 GCAATGTTACTATGATGTTTTAAAAGTAAAGTTAAA
7174038 TTACATTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (36 bp):
GCAATGTTACTATGATGTTTTAAAAGTAAAGTTAAA
Done.