Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 25 of 132
Found at i:7046624 original size:6 final size:6
Alignment explanation
Indices: 7046613--7046641 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7046603 ATAACGGTAC
7046613 TCGCAA TCGCAA TCGCAA TCGCAA TCGCA
1 TCGCAA TCGCAA TCGCAA TCGCAA TCGCA
7046642 TCCATGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.17
Consensus pattern (6 bp):
TCGCAA
Found at i:7047369 original size:8 final size:9
Alignment explanation
Indices: 7047346--7047372 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7047336 TTTTGTAACT
7047346 TATTTTTAA
1 TATTTTTAA
7047355 TATTTTTAA
1 TATTTTTAA
7047364 TATTTTTAA
1 TATTTTTAA
7047373 AGTGAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTTAA
Found at i:7049938 original size:15 final size:15
Alignment explanation
Indices: 7049918--7049947 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7049908 AGAATTAAAT
7049918 TCAAAAAGTGTTAGA
1 TCAAAAAGTGTTAGA
7049933 TCAAAAAGTGTTAGA
1 TCAAAAAGTGTTAGA
7049948 CTAGTAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (15 bp):
TCAAAAAGTGTTAGA
Found at i:7050699 original size:18 final size:19
Alignment explanation
Indices: 7050655--7050700 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
7050645 AAATTTTTAA
*
7050655 TTAAACATGTTATACGTAT
1 TTAAATATGTTATACGTAT
*
7050674 TATAAATATGTT-TACTTAT
1 T-TAAATATGTTATACGTAT
7050693 TTAAATAT
1 TTAAATAT
7050701 ATATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.29
19 8 0.33
20 9 0.38
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (19 bp):
TTAAATATGTTATACGTAT
Found at i:7050704 original size:2 final size:2
Alignment explanation
Indices: 7050697--7050730 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7050687 ACTTATTTAA
7050697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7050731 CCAAAAGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7056509 original size:18 final size:18
Alignment explanation
Indices: 7056486--7056520 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7056476 ATAATTTTGA
7056486 AATTTAAATAATGAATTC
1 AATTTAAATAATGAATTC
* *
7056504 AATTTAATTAATTAATT
1 AATTTAAATAATGAATT
7056521 AATAAAAATA
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:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
AATTTAAATAATGAATTC
Found at i:7060376 original size:6 final size:6
Alignment explanation
Indices: 7060365--7060393 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7060355 ACCATATTCT
7060365 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
7060394 CATCCCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:7060464 original size:17 final size:17
Alignment explanation
Indices: 7060442--7060477 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
7060432 AATAGAATTC
*
7060442 ATCATATTCTTTAGGTT
1 ATCATATTCTTTAAGTT
7060459 ATCATATTCTTTAAGTT
1 ATCATATTCTTTAAGTT
7060476 AT
1 AT
7060478 AAATATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (17 bp):
ATCATATTCTTTAAGTT
Found at i:7063345 original size:15 final size:18
Alignment explanation
Indices: 7063308--7063346 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
7063298 AAAATATTCA
7063308 TGTTTATTCATTCTCCAT
1 TGTTTATTCATTCTCCAT
7063326 T-TTTATT-A-TCT-CAT
1 TGTTTATTCATTCTCCAT
7063340 TGTTTAT
1 TGTTTAT
7063347 ACGAGTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.20
15 8 0.40
16 1 0.05
17 6 0.30
18 1 0.05
ACGTcount: A:0.18, C:0.15, G:0.05, T:0.62
Consensus pattern (18 bp):
TGTTTATTCATTCTCCAT
Found at i:7070267 original size:21 final size:22
Alignment explanation
Indices: 7070226--7070281 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
7070216 AACCTTATAC
* *
7070226 CCTAAATCCAAAA-TCTCAAAT
1 CCTAAATTCAAAACCCTCAAAT
7070247 CCTAAATTCAAAACCCT-AAAT
1 CCTAAATTCAAAACCCTCAAAT
* *
7070268 CTTAAATTCCAAAC
1 CCTAAATTCAAAAC
7070282 TCCAAACTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (22 bp):
CCTAAATTCAAAACCCTCAAAT
Found at i:7070294 original size:21 final size:20
Alignment explanation
Indices: 7070227--7070294 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
7070217 ACCTTATACC
*
7070227 CTAAA-TCCAAAATCTCAAAT
1 CTAAATTCCAAACTC-CAAAT
*
7070247 CCTAAATTCAAAAC-CCTAAAT
1 -CTAAATTCCAAACTCC-AAAT
7070268 CTTAAATTCCAAACTCCAAACT
1 C-TAAATTCCAAACTCCAAA-T
7070290 CTAAA
1 CTAAA
7070295 CCCCAAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 2 0.05
21 28 0.72
22 9 0.23
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (20 bp):
CTAAATTCCAAACTCCAAAT
Found at i:7070296 original size:35 final size:35
Alignment explanation
Indices: 7070191--7070297 Score: 85
Period size: 35 Copynumber: 3.1 Consensus size: 35
7070181 TTTTTTTTAT
* * ** *
7070191 CCTAAACCTTGAATTCCAAACTTTAAAC-CTTATAC
1 CCTAAATCTTAAATTCCAAACTCCAAACTC-TAAAC
* * * *
7070226 CCTAAATC-CAAAATCTCAAA-TCCTAAATTCAAAAC
1 CCTAAATCTTAAATTC-CAAACTCC-AAACTCTAAAC
7070261 CCTAAATCTTAAATTCCAAACTCCAAACTCTAAAC
1 CCTAAATCTTAAATTCCAAACTCCAAACTCTAAAC
7070296 CC
1 CC
7070298 CAAGTTTAGG
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
34 5 0.09
35 40 0.74
36 9 0.17
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (35 bp):
CCTAAATCTTAAATTCCAAACTCCAAACTCTAAAC
Found at i:7073482 original size:87 final size:87
Alignment explanation
Indices: 7073334--7073504 Score: 281
Period size: 87 Copynumber: 2.0 Consensus size: 87
7073324 CTATGGTTGG
* * * *
7073334 CTTGATTAATTTCTTCTTTTTAAGATCAACGACCTATATTTATTTTGGTTAGAGTGGTAGCTTAA
1 CTTGATTAATTTCTTCTTTTTAAGATCAACGACCTATATTTATTTTGATTAAAATGATAGCTTAA
7073399 TAATTTAAGTTTCAAATCATTGA
66 TAATTTAAGTTT-AAATCATTGA
*
7073422 CTTGATTAGTTTCTT-TTTTTAAGATCAACGACCTATATTTATTTTGATTAAAATGATAGCTTAA
1 CTTGATTAATTTCTTCTTTTTAAGATCAACGACCTATATTTATTTTGATTAAAATGATAGCTTAA
7073486 TAATTTAAGTTTAAATCAT
66 TAATTTAAGTTTAAATCAT
7073505 CATTATAACT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
86 7 0.09
87 57 0.73
88 14 0.18
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.46
Consensus pattern (87 bp):
CTTGATTAATTTCTTCTTTTTAAGATCAACGACCTATATTTATTTTGATTAAAATGATAGCTTAA
TAATTTAAGTTTAAATCATTGA
Found at i:7075466 original size:98 final size:98
Alignment explanation
Indices: 7075297--7075492 Score: 347
Period size: 98 Copynumber: 2.0 Consensus size: 98
7075287 CTACAAGCCG
*
7075297 TACCTCGAGTCAAAAAGTTTACCAGGCAGTAAATAACGAACAATAATATTTGAATATTGCAGAGG
1 TACCTCGAGTCAAAAAGTTTACCAGGCAGTAAATAACGAACAAAAATATTTGAATATTGCAGAGG
7075362 AAGTATAATTAAGAATAGTTCATATAAATATAA
66 AAGTATAATTAAGAATAGTTCATATAAATATAA
* * * *
7075395 TACCTTGAGTCAAAAAGTTTACTAGGCAGTAAATAACGAGCAAAAATATTTGAGTATTGCAGAGG
1 TACCTCGAGTCAAAAAGTTTACCAGGCAGTAAATAACGAACAAAAATATTTGAATATTGCAGAGG
7075460 AAGTATAATTAAGAATAGTTCATATAAATATAA
66 AAGTATAATTAAGAATAGTTCATATAAATATAA
7075493 CATCCAGGCC
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.28
Consensus pattern (98 bp):
TACCTCGAGTCAAAAAGTTTACCAGGCAGTAAATAACGAACAAAAATATTTGAATATTGCAGAGG
AAGTATAATTAAGAATAGTTCATATAAATATAA
Found at i:7077767 original size:40 final size:43
Alignment explanation
Indices: 7077721--7077820 Score: 118
Period size: 47 Copynumber: 2.3 Consensus size: 43
7077711 AGATTCAGAA
*
7077721 AATATAAAAATAAAATATTTGAA-AT-AT-TT-TAATATAATTT
1 AATATAAAAAAAAAATATTT-AATATAATATTCTAATATAATTT
7077761 AATATAAAACTAAAAAATATTTAATATAAAATATTCTAATATAATTT
1 AATATAAAA--AAAAAATATTTAATAT--AATATTCTAATATAATTT
7077808 AATATAAAAAAAA
1 AATATAAAAAAAA
7077821 GTTAATTGTA
Statistics
Matches: 51, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
40 9 0.18
41 2 0.04
42 12 0.24
45 6 0.12
46 2 0.04
47 20 0.39
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (43 bp):
AATATAAAAAAAAAATATTTAATATAATATTCTAATATAATTT
Found at i:7077780 original size:25 final size:24
Alignment explanation
Indices: 7077751--7077816 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 24
7077741 GAAATATTTT
*
7077751 AATATAATTTAATATAAAACTAAA
1 AATATAATTTAATATAAAATTAAA
***
7077775 AA-AT-ATTTAATATAAAATATTCT
1 AATATAATTTAATATAAAAT-TAAA
7077798 AATATAATTTAATATAAAA
1 AATATAATTTAATATAAAA
7077817 AAAAGTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 13 0.37
23 5 0.14
24 4 0.11
25 13 0.37
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATAATTTAATATAAAATTAAA
Found at i:7077793 original size:14 final size:15
Alignment explanation
Indices: 7077774--7077804 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7077764 ATAAAACTAA
7077774 AAAATATT-TAATAT
1 AAAATATTCTAATAT
7077788 AAAATATTCTAATAT
1 AAAATATTCTAATAT
7077803 AA
1 AA
7077805 TTTAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATATTCTAATAT
Found at i:7079736 original size:61 final size:62
Alignment explanation
Indices: 7079647--7079775 Score: 181
Period size: 61 Copynumber: 2.1 Consensus size: 62
7079637 TTAATATAAA
* *
7079647 AATAATTAAATTAAGAATATTATTAAATTATATATTATTA-CTTTTATTAAATCATATTTAAT
1 AATAATTAAATTAAGAATATGATTAAATTATATATTATCATC-TTTATTAAATCATATTTAAT
* * * *
7079709 AATAATTATATTAA-AATATGATTAAATTATTTATTATCATCTTTATTAAATTATTTTTAAT
1 AATAATTAAATTAAGAATATGATTAAATTATATATTATCATCTTTATTAAATCATATTTAAT
7079770 AATAAT
1 AATAAT
7079776 CCTATTATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 46 0.77
62 14 0.23
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.50
Consensus pattern (62 bp):
AATAATTAAATTAAGAATATGATTAAATTATATATTATCATCTTTATTAAATCATATTTAAT
Found at i:7079934 original size:44 final size:45
Alignment explanation
Indices: 7079878--7079973 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 45
7079868 TACAACATCT
*
7079878 ATTACATTCAACCAAAAACAA-GAATT-CT-ATTACAGTTTTATTCC
1 ATTACATTCAACC--AAACAATGAATTACTGATTACAGCTTTATTCC
* *
7079922 ATTATATTCAACCAAACAATTGAATTATTGATTACAGCTTTATTCC
1 ATTACATTCAACCAAACAA-TGAATTACTGATTACAGCTTTATTCC
7079968 ATTACA
1 ATTACA
7079974 GTTCTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
42 6 0.14
44 17 0.39
45 1 0.02
46 20 0.45
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (45 bp):
ATTACATTCAACCAAACAATGAATTACTGATTACAGCTTTATTCC
Found at i:7079973 original size:16 final size:16
Alignment explanation
Indices: 7079952--7079989 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
7079942 TGAATTATTG
7079952 ATTACAGCTT-TATTCC
1 ATTACAG-TTCTATTCC
7079968 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
7079984 ATTACA
1 ATTACA
7079990 ACCCTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:7080822 original size:48 final size:48
Alignment explanation
Indices: 7080768--7080881 Score: 131
Period size: 48 Copynumber: 2.4 Consensus size: 48
7080758 TAGACGGAAG
* *
7080768 ACTGAGATGATAAAACAAATCTCTACATGAGTTGAT-AGAAGCTTGATA
1 ACTGAGATGATAAAACAAATATCTACATGAGTTGATGA-AAGCCTGATA
* ** * * *
7080816 ATTGAGATGATAAAACATTTATTTGCATGAGTTGATGAAAGCCTGATG
1 ACTGAGATGATAAAACAAATATCTACATGAGTTGATGAAAGCCTGATA
*
7080864 ACTGAAATGATAAAACAA
1 ACTGAGATGATAAAACAA
7080882 GTGCTTGTAT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 53 0.98
49 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (48 bp):
ACTGAGATGATAAAACAAATATCTACATGAGTTGATGAAAGCCTGATA
Found at i:7081098 original size:17 final size:17
Alignment explanation
Indices: 7081076--7081110 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7081066 TTCGTCACAA
7081076 AATGAGTAACATGTTTT
1 AATGAGTAACATGTTTT
7081093 AATGAGTAACATGTTTT
1 AATGAGTAACATGTTTT
7081110 A
1 A
7081111 TGTTGTGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (17 bp):
AATGAGTAACATGTTTT
Found at i:7082356 original size:31 final size:31
Alignment explanation
Indices: 7082310--7082379 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
7082300 AAAGAAAATG
* *
7082310 AGAAGAAAAATATGTTGGGATATAA-TGAGAGA
1 AGAA-AAAAAGATGTTGGGAGA-AATTGAGAGA
7082342 AGAAAAAAAGATGTTGGGAGAAATTGAGAGA
1 AGAAAAAAAGATGTTGGGAGAAATTGAGAGA
7082373 AGAAAAA
1 AGAAAAA
7082380 TTATTTGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 2 0.06
31 29 0.83
32 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (31 bp):
AGAAAAAAAGATGTTGGGAGAAATTGAGAGA
Found at i:7084305 original size:99 final size:99
Alignment explanation
Indices: 7084134--7084331 Score: 326
Period size: 99 Copynumber: 2.0 Consensus size: 99
7084124 TTCTTAAGAA
*
7084134 ATGAGATTGAAATAGAGAACATTGAAGGGTTGGGAGAGTGATGGAAGAAGAAGAAGCTATGATTT
1 ATGAGATTGAAATAGAAAACATTGAAGGGTTGGGAGAGTGATGGAAGAAGAAGAAGCTATGATTT
* *
7084199 GATTCAGAATCTAAGTGGAGAAGTACCCATGGTT
66 GATTCAGAATCCAAGTGGAGAAGTACCCACGGTT
*
7084233 ATGAGATTGAAATAGAAAACCTTGAAGGGTTGGGAGAGTGATGGAAGAAGAAGAAG-TCATGATT
1 ATGAGATTGAAATAGAAAACATTGAAGGGTTGGGAGAGTGATGGAAGAAGAAGAAGCT-ATGATT
* *
7084297 TGGTTCAGAATCCAAGTGGAGAAGTAGCCACGGTT
65 TGATTCAGAATCCAAGTGGAGAAGTACCCACGGTT
7084332 TGGTTTAAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 1 0.01
99 91 0.99
ACGTcount: A:0.37, C:0.08, G:0.32, T:0.23
Consensus pattern (99 bp):
ATGAGATTGAAATAGAAAACATTGAAGGGTTGGGAGAGTGATGGAAGAAGAAGAAGCTATGATTT
GATTCAGAATCCAAGTGGAGAAGTACCCACGGTT
Found at i:7084498 original size:9 final size:9
Alignment explanation
Indices: 7084484--7084533 Score: 68
Period size: 9 Copynumber: 5.6 Consensus size: 9
7084474 ATTAAAATTA
7084484 TTTAATAAT
1 TTTAATAAT
7084493 TTTAATAAT
1 TTTAATAAT
7084502 TTTAAAATAAT
1 TTT--AATAAT
7084513 TTTAATAAT
1 TTTAATAAT
7084522 TTT-AT-AT
1 TTTAATAAT
7084529 TTTAA
1 TTTAA
7084534 AAAAGTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 5 0.13
8 3 0.08
9 21 0.55
11 9 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAATAAT
Found at i:7084506 original size:28 final size:27
Alignment explanation
Indices: 7084475--7084535 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 27
7084465 AAATTGAAAA
*
7084475 TTAAAATTA-TTTAATAATTTTAATAATT
1 TTAAAATAATTTTAATAATTTT-AT-ATT
7084503 TTAAAATAATTTTAATAATTTTATATT
1 TTAAAATAATTTTAATAATTTTATATT
7084530 TTAAAA
1 TTAAAA
7084536 AAGTAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 9 0.29
28 10 0.32
29 12 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAAAATAATTTTAATAATTTTATATT
Found at i:7084510 original size:20 final size:20
Alignment explanation
Indices: 7084487--7084525 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7084477 AAAATTATTT
7084487 AATAATTTTAATAATTTTAA
1 AATAATTTTAATAATTTTAA
7084507 AATAATTTTAATAATTTTA
1 AATAATTTTAATAATTTTA
7084526 TATTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATAATTTTAATAATTTTAA
Found at i:7084537 original size:29 final size:30
Alignment explanation
Indices: 7084484--7084547 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
7084474 ATTAAAATTA
7084484 TTTAATAATTTTAATAATTTTAAAA-TAAT
1 TTTAATAATTTTAATAATTTTAAAAGTAAT
7084513 TTTAATAATTTT-AT-ATTTTAAAAAAGTAAT
1 TTTAATAATTTTAATAATTTT--AAAAGTAAT
7084543 TTTAA
1 TTTAA
7084548 AATCATTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.16
28 2 0.06
29 16 0.50
30 9 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTAATAATTTTAATAATTTTAAAAGTAAT
Found at i:7091512 original size:17 final size:17
Alignment explanation
Indices: 7091487--7091521 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7091477 TAAAATTTTA
7091487 AAATAAAATAAAATAAT
1 AAATAAAATAAAATAAT
* *
7091504 AAATGAAATAATATAAT
1 AAATAAAATAAAATAAT
7091521 A
1 A
7091522 TATTTATCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATAAAATAAAATAAT
Found at i:7092314 original size:9 final size:9
Alignment explanation
Indices: 7092300--7092330 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
7092290 AATTATTTTT
7092300 TATAAAAAA
1 TATAAAAAA
7092309 TATAAAAGAA
1 TATAAAA-AA
7092319 TATAAAAAA
1 TATAAAAAA
7092328 TAT
1 TAT
7092331 TTTACACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (9 bp):
TATAAAAAA
Found at i:7095478 original size:37 final size:37
Alignment explanation
Indices: 7095428--7095528 Score: 150
Period size: 37 Copynumber: 2.7 Consensus size: 37
7095418 ATTTTGGGCA
*
7095428 TTGTGCCTAGTAGGTTTCGTGCCGGTGTAATCGAGCT
1 TTGTGCCTAGTAGGTTTCGTGCCGGTGTAATCGAGCC
* *
7095465 TTGTGCCTAGTAGGCTTCGTGCCGGTGTAATCGGGCC
1 TTGTGCCTAGTAGGTTTCGTGCCGGTGTAATCGAGCC
*
7095502 TTGTGCCTAGTAGGCTTT-GTGTCGGTG
1 TTGTGCCTAGTAGG-TTTCGTGCCGGTG
7095529 ACCAAAGAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
37 56 0.97
38 2 0.03
ACGTcount: A:0.11, C:0.20, G:0.35, T:0.35
Consensus pattern (37 bp):
TTGTGCCTAGTAGGTTTCGTGCCGGTGTAATCGAGCC
Found at i:7102466 original size:36 final size:36
Alignment explanation
Indices: 7102420--7102521 Score: 125
Period size: 36 Copynumber: 2.8 Consensus size: 36
7102410 TGGTAACAAG
*
7102420 CATGACCTTTGGTTCAATAGAGAGTAAAACAAGAAT
1 CATGACCTTTGGGTCAATAGAGAGTAAAACAAGAAT
* * * *
7102456 CATGAACTTTGGGTCAATAGGGAGTAAAACGAGCAT
1 CATGACCTTTGGGTCAATAGAGAGTAAAACAAGAAT
* *
7102492 TATGACCTTTGGGTCAACA-AGGAGTAAAAC
1 CATGACCTTTGGGTCAATAGA-GAGTAAAAC
7102522 GAATAATGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (36 bp):
CATGACCTTTGGGTCAATAGAGAGTAAAACAAGAAT
Found at i:7104620 original size:105 final size:104
Alignment explanation
Indices: 7104433--7104672 Score: 306
Period size: 105 Copynumber: 2.3 Consensus size: 104
7104423 TATATGAAAA
*
7104433 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAACCCTTTACAGATTATGAGGTTTGATGACT
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAACCCTTTACAGATTATGAGGTCTGATGACT
*
7104498 ATGTGTCATCATGAGTATATGAATCCTTTACATAATATG
66 ATGTGACATCATGAGTATATGAATCCTTTACATAATATG
** *
7104537 AGGTCCGAT-ACTTATGTGTCATCGTGAGTATATGAATCTTTTTACGGATTATGAGGTCTGATGA
1 AGGTCCGATGAC-TATGTGTCATCGTGAGTATATGAA-CCCTTTACAGATTATGAGGTCTGATGA
* * * **
7104601 CTATTTGACATCGTGAGTATATGATTCCTTT--ATGAATTAAA
64 CTATGTGACATCATGAGTATATGAATCCTTTACAT-AA-TATG
* * *
7104642 AGGTCCGATGATTATGTGCCATCATGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
7104673 TAAATGAAAT
Statistics
Matches: 118, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
103 4 0.03
104 35 0.30
105 78 0.66
106 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (104 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAACCCTTTACAGATTATGAGGTCTGATGACT
ATGTGACATCATGAGTATATGAATCCTTTACATAATATG
Found at i:7104671 original size:52 final size:52
Alignment explanation
Indices: 7104433--7104672 Score: 254
Period size: 52 Copynumber: 4.6 Consensus size: 52
7104423 TATATGAAAA
* *
7104433 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAACCCTTTA-CAGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGA-ATTATG
** *
7104485 AGGTTTGATGACTATGTGTCATCATGAGTATATGAATCCTTTACAT-AA-TATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTT--ATGAATTATG
* * *
7104537 AGGTCCGAT-ACTTATGTGTCATCGTGAGTATATGAATCTTTTTACGGATTATG
1 AGGTCCGATGAC-TATGTGTCATCGTGAGTATATGAATC-CTTTATGAATTATG
* * * * **
7104590 AGGTCTGATGACTATTTGACATCGTGAGTATATGATTCCTTTATGAATTAAA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGAATTATG
* * *
7104642 AGGTCCGATGATTATGTGCCATCATGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
7104673 TAAATGAAAT
Statistics
Matches: 156, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
51 3 0.02
52 110 0.71
53 39 0.25
54 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGAATTATG
Found at i:7112579 original size:14 final size:14
Alignment explanation
Indices: 7112560--7112649 Score: 71
Period size: 14 Copynumber: 6.6 Consensus size: 14
7112550 AGCCGAACTC
7112560 GACCGTTGACAGTT
1 GACCGTTGACAGTT
7112574 GACCGTTG--A-TT
1 GACCGTTGACAGTT
* * *
7112585 GACCATTAAAAGTT
1 GACCGTTGACAGTT
7112599 GACCGTTGACAGTT
1 GACCGTTGACAGTT
* * *
7112613 GATCATTGACCGTT
1 GACCGTTGACAGTT
* *
7112627 AACGGTTGATC-GTT
1 GACCGTTGA-CAGTT
7112641 GACCGTTGA
1 GACCGTTGA
7112650 TCGTTAACTT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
11 8 0.14
12 1 0.02
13 1 0.02
14 47 0.81
15 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (14 bp):
GACCGTTGACAGTT
Found at i:7112608 original size:7 final size:7
Alignment explanation
Indices: 7112596--7112654 Score: 55
Period size: 7 Copynumber: 8.4 Consensus size: 7
7112586 ACCATTAAAA
7112596 GTTGACC
1 GTTGACC
*
7112603 GTTGACA
1 GTTGACC
*
7112610 GTTGATC
1 GTTGACC
*
7112617 ATTGACC
1 GTTGACC
* *
7112624 GTTAACG
1 GTTGACC
*
7112631 GTTGATC
1 GTTGACC
7112638 GTTGACC
1 GTTGACC
*
7112645 GTTGATC
1 GTTGACC
7112652 GTT
1 GTT
7112655 AACTTTTTTC
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.36
Consensus pattern (7 bp):
GTTGACC
Found at i:7112621 original size:21 final size:21
Alignment explanation
Indices: 7112597--7112649 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
7112587 CCATTAAAAG
7112597 TTGACCGTTGACAGTTGATCA
1 TTGACCGTTGACAGTTGATCA
* * *
7112618 TTGACCGTTAACGGTTGATCG
1 TTGACCGTTGACAGTTGATCA
7112639 TTGACCGTTGA
1 TTGACCGTTGA
7112650 TCGTTAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (21 bp):
TTGACCGTTGACAGTTGATCA
Found at i:7114751 original size:89 final size:89
Alignment explanation
Indices: 7114606--7114782 Score: 205
Period size: 89 Copynumber: 2.0 Consensus size: 89
7114596 TGAACTTGAC
* * * ** *
7114606 ACTTTTTTCTTAATTTGGTATTTAAATTTTTTTTGGTCCAATTTGATATTCAAACTT-GATACTT
1 ACTTTTTTCTTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTGATACTCAAACTTGGAT-CTT
7114670 TTTCCTAATTTGATACCTAATCTTG
65 TTTCCTAATTTGATACCTAATCTTG
* * * *
7114695 ACTTTTTTTTTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTGGTAC-CTGAACTTGGCTCTT
1 ACTTTTTTCTTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTGATACTC-AAACTTGGATCTT
* * *
7114759 TTTTCTAATTTGGTGCCTAATCTT
65 TTTCCTAATTTGATACCTAATCTT
7114783 TTTTAAATAT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
88 1 0.01
89 70 0.96
90 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (89 bp):
ACTTTTTTCTTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTGATACTCAAACTTGGATCTTT
TTCCTAATTTGATACCTAATCTTG
Found at i:7115073 original size:58 final size:60
Alignment explanation
Indices: 7114944--7115114 Score: 213
Period size: 59 Copynumber: 2.9 Consensus size: 60
7114934 AATTGAATCT
* ** *
7114944 AAAAAAAGCTTAGGTACCAAA-TTAGGAAAAAATGCCAAGTTCAGGTACCAAATTGGGTCC
1 AAAAAAAGTTTAGGTACCAAATTTA-GAAAAAATATCAAGTTAAGGTACCAAATTGGGTCC
* * *
7115004 AAAAAAGGTTTAGGTACCAAATTTA-AAAAAGTATCAAGTTTAGGTACCAAATTGGGT-C
1 AAAAAAAGTTTAGGTACCAAATTTAGAAAAAATATCAAGTTAAGGTACCAAATTGGGTCC
* * * *
7115062 AAAAAAAGTTTAGGTACTAAATTAAGAAAAATTATCAAGTTAAGATACCAAAT
1 AAAAAAAGTTTAGGTACCAAATTTAGAAAAAATATCAAGTTAAGGTACCAAAT
7115115 GATATATTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
58 23 0.24
59 52 0.54
60 19 0.20
61 3 0.03
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.25
Consensus pattern (60 bp):
AAAAAAAGTTTAGGTACCAAATTTAGAAAAAATATCAAGTTAAGGTACCAAATTGGGTCC
Found at i:7136747 original size:31 final size:33
Alignment explanation
Indices: 7136679--7136747 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
7136669 AATTACAACC
* *
7136679 CAATGATTTAAATAAAAACATTTTAAATAGCTT
1 CAATGACTTAAATAAAAACATTTTAAATAGATT
* *
7136712 -AATGACTTACATGAAAAC-TTTTAAATA-ATT
1 CAATGACTTAAATAAAAACATTTTAAATAGATT
7136742 CAATGA
1 CAATGA
7136748 TCATTTTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 2 0.06
31 14 0.45
32 15 0.48
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (33 bp):
CAATGACTTAAATAAAAACATTTTAAATAGATT
Found at i:7137906 original size:24 final size:24
Alignment explanation
Indices: 7137878--7137940 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
7137868 AGAGATAATC
7137878 TTTCAGTTAAACTCTGTTTAATAG
1 TTTCAGTTAAACTCTGTTTAATAG
* * *
7137902 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTAATAG
* *
7137926 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
7137941 TATTAGTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTAATAG
Found at i:7139895 original size:24 final size:24
Alignment explanation
Indices: 7139866--7139916 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
7139856 AGAAATAATC
7139866 TTTCAATTAAACTCTGTCTATTTG
1 TTTCAATTAAACTCTGTCTATTTG
* *
7139890 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAATTAAACTCTGTCTATTTG
7139914 TTT
1 TTT
7139917 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTCTATTTG
Found at i:7139925 original size:24 final size:24
Alignment explanation
Indices: 7139866--7139928 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
7139856 AGAAATAATC
*
7139866 TTTCAATTAAACTCTGTCTATTTG
1 TTTCAATCAAACTCTGTCTATTTG
* * *
7139890 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAATCAAACTCTGTCTATTTG
* *
7139914 TTTGAGTCAAACTCT
1 TTTCAATCAAACTCT
7139929 TATTAGTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTCAATCAAACTCTGTCTATTTG
Found at i:7144042 original size:6 final size:6
Alignment explanation
Indices: 7144031--7144060 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
7144021 GGCTTTTCTC
7144031 TTCTTT TTCTTT TTCTTT TTCTTT TT-TTT T
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT T
7144061 ATTTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTCTTT
Found at i:7144055 original size:11 final size:11
Alignment explanation
Indices: 7144024--7144065 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
7144014 TGGAAATGGC
*
7144024 TTTTCTCTTCT
1 TTTTCTTTTCT
7144035 TTTTCTTTTTCT
1 TTTTC-TTTTCT
7144047 TTTTCTTTT-T
1 TTTTCTTTTCT
*
7144057 TTTTATTTT
1 TTTTCTTTT
7144066 TCATTTGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.32
11 9 0.32
12 10 0.36
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:7144059 original size:16 final size:17
Alignment explanation
Indices: 7144035--7144067 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7144025 TTTCTCTTCT
*
7144035 TTTTCTTTTTCTTTTTC
1 TTTTCTTTTTATTTTTC
7144052 TTTT-TTTTTATTTTTC
1 TTTTCTTTTTATTTTTC
7144068 ATTTGACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTTTTTATTTTTC
Found at i:7144059 original size:22 final size:23
Alignment explanation
Indices: 7144024--7144086 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
7144014 TGGAAATGGC
* *
7144024 TTTTCTCTTCTTTTTCTTTTTC-T
1 TTTTCT-TTTTTTTTATTTTTCAT
7144047 TTTTCTTTTTTTTTATTTTTCAT
1 TTTTCTTTTTTTTTATTTTTCAT
** *
7144070 TTGACTTTTTTTATATT
1 TTTTCTTTTTTTTTATT
7144087 CCCCCAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.08, C:0.13, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTCTTTTTTTTTATTTTTCAT
Found at i:7147128 original size:3 final size:3
Alignment explanation
Indices: 7147122--7147165 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7147112 ATAGTAGTAC
7147122 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7147166 GACATGTGAA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7157822 original size:7 final size:7
Alignment explanation
Indices: 7157810--7157835 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7157800 AATTAAGCCC
7157810 TTTTAAA
1 TTTTAAA
7157817 TTTTAAA
1 TTTTAAA
7157824 TTTTAAA
1 TTTTAAA
7157831 TTTTA
1 TTTTA
7157836 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTTAAA
Found at i:7157854 original size:10 final size:10
Alignment explanation
Indices: 7157839--7157872 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
7157829 AATTTTATTT
*
7157839 TAAAAAATCA
1 TAAAAAATTA
7157849 T-AAAAATTA
1 TAAAAAATTA
7157858 TAAAAAATTA
1 TAAAAAATTA
7157868 TAAAA
1 TAAAA
7157873 CTATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:7161208 original size:19 final size:20
Alignment explanation
Indices: 7161186--7161229 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
7161176 ACTTAATTAA
7161186 TTTATATAAAGATTTTG-TT
1 TTTATATAAAGATTTTGATT
* *
7161205 TTTA-ATTATGATTTTGATT
1 TTTATATAAAGATTTTGATT
7161224 TTTATA
1 TTTATA
7161230 GTGAGAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 10 0.48
19 10 0.48
20 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTATATAAAGATTTTGATT
Found at i:7165856 original size:28 final size:30
Alignment explanation
Indices: 7165825--7165884 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
7165815 AAAATTACGG
*
7165825 AAATTATGAAAA-ATTTTAAA-AATATAGA
1 AAATTATGAAAATATTGTAAACAATATAGA
*
7165853 AAATTATTAAAATATTGTAAACAATATAGA
1 AAATTATGAAAATATTGTAAACAATATAGA
7165883 AA
1 AA
7165885 TGTGCAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 11 0.39
29 7 0.25
30 10 0.36
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.32
Consensus pattern (30 bp):
AAATTATGAAAATATTGTAAACAATATAGA
Found at i:7166298 original size:17 final size:17
Alignment explanation
Indices: 7166268--7166319 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
7166258 TTTTTAATAA
*
7166268 TTTTCTATATTTTTAATT
1 TTTTC-ATAATTTTAATT
*
7166286 TTTTCATAATTTTACAAT
1 TTTTCATAATTTTA-ATT
7166304 TTTT-ATAATTTATAAT
1 TTTTCATAATTT-TAAT
7166320 AAAATTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTCATAATTTTAATT
Found at i:7174750 original size:31 final size:30
Alignment explanation
Indices: 7174715--7174788 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
7174705 AAAAATCATT
* * *
7174715 TTTTTAATTTTTGA-ATTTTAAAGAGTTTTTA
1 TTTTTAATTTTT-ATATTTTAAA-AATTATAA
*
7174746 TTTTTCATTTTATATATTTTAAAAATTATAA
1 TTTTTAATTTT-TATATTTTAAAAATTATAA
7174777 TTTTTAATTTTT
1 TTTTTAATTTTT
7174789 TTTGTTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 1 0.03
31 26 0.72
32 9 0.25
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (30 bp):
TTTTTAATTTTTATATTTTAAAAATTATAA
Found at i:7175529 original size:44 final size:46
Alignment explanation
Indices: 7175438--7175531 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
7175428 ATAGAACTGT
*
7175438 AATGGAATAGGGCTGTAATCAGTAATTCAGTTGTTTGGATGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAGTTGTTTGGATGAATGG
* * *
7175484 AATGGAATAGAGTTGTAAT-AGT-ATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAGT-TGTTTGGATGAATGG
7175528 AATG
1 AATG
7175532 ATGCTGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.51
45 3 0.07
46 17 0.40
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAGTTGTTTGGATGAATGG
Found at i:7175651 original size:26 final size:25
Alignment explanation
Indices: 7175619--7175706 Score: 95
Period size: 26 Copynumber: 3.4 Consensus size: 25
7175609 GTTATTAAAT
7175619 TTTAATAAGATTATTATTAAATATAA
1 TTTAATAA-ATTATTATTAAATATAA
* * * *
7175645 TTTAATAAAAATAATATTTAATTATAT
1 TTTAAT-AAATTATTA-TTAAATATAA
*
7175672 TTTAACATAATTATTATTAAATATAA
1 TTTAATA-AATTATTATTAAATATAA
7175698 TTTAATAAA
1 TTTAATAAA
7175707 ATAAATATAA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
25 2 0.04
26 26 0.53
27 21 0.43
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (25 bp):
TTTAATAAATTATTATTAAATATAA
Found at i:7175685 original size:53 final size:56
Alignment explanation
Indices: 7175628--7175773 Score: 201
Period size: 53 Copynumber: 2.6 Consensus size: 56
7175618 TTTTAATAAG
*
7175628 ATTATTATTAAATATAATTTAATAAAAATA-AT-ATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAATATTTTTAACATA
* **
7175681 ATTATTATTAAATATAATTTAATAAAATAAATATAATTTAATAATATTTTTATTATA
1 ATTATTATTAAATATAATTTAATAAAA-ATATATAATTTAATAATATTTTTAACATA
*
7175738 ATTATTATTAAAATATAAATTAATAAAAAT-TATAAT
1 ATTATTATT-AAATATAATTTAATAAAAATATATAAT
7175774 ATATGATATC
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
53 27 0.33
54 2 0.02
55 2 0.02
56 16 0.20
57 18 0.22
58 17 0.21
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.47
Consensus pattern (56 bp):
ATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAATATTTTTAACATA
Found at i:7179205 original size:21 final size:19
Alignment explanation
Indices: 7179181--7179219 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
7179171 AATTGAGTTG
7179181 AAATTTGAATAAATTTTTATA
1 AAATTTGAAT--ATTTTTATA
*
7179202 AAATTTTAATATTTTTAT
1 AAATTTGAATATTTTTAT
7179220 TTGATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
AAATTTGAATATTTTTATA
Found at i:7185346 original size:2 final size:2
Alignment explanation
Indices: 7185339--7185364 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7185329 GAAATTCTTT
7185339 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7185365 GAAGCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7188984 original size:106 final size:106
Alignment explanation
Indices: 7188796--7189008 Score: 417
Period size: 106 Copynumber: 2.0 Consensus size: 106
7188786 AGAAATGAAC
7188796 AAAGAAAATAGAATAATTAGCTGTCTTAAGTAACAGTTTGGATTTAACATTGATATTTTATTATA
1 AAAGAAAATAGAATAATTAGCTGTCTTAAGTAACAGTTTGGATTTAACATTGATATTTTATTATA
*
7188861 TTGTCACCTTGTGATTGGGGTCAATCTTTTGCTGATTGTTA
66 TTGTCACCTTGTAATTGGGGTCAATCTTTTGCTGATTGTTA
7188902 AAAGAAAATAGAATAATTAGCTGTCTTAAGTAACAGTTTGGATTTAACATTGATATTTTATTATA
1 AAAGAAAATAGAATAATTAGCTGTCTTAAGTAACAGTTTGGATTTAACATTGATATTTTATTATA
7188967 TTGTCACCTTGTAATTGGGGTCAATCTTTTGCTGATTGTTA
66 TTGTCACCTTGTAATTGGGGTCAATCTTTTGCTGATTGTTA
7189008 A
1 A
7189009 TAATATCTAG
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.41
Consensus pattern (106 bp):
AAAGAAAATAGAATAATTAGCTGTCTTAAGTAACAGTTTGGATTTAACATTGATATTTTATTATA
TTGTCACCTTGTAATTGGGGTCAATCTTTTGCTGATTGTTA
Found at i:7196323 original size:24 final size:24
Alignment explanation
Indices: 7196296--7196358 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
7196286 GGAATTAAAT
7196296 TATATATTTTTATT-ATTAAAAAA
1 TATATATTTTTATTAATTAAAAAA
* *
7196319 -ATATAATTTTT-TTAATTTAATAA
1 TATAT-ATTTTTATTAATTAAAAAA
*
7196342 TTTATATTTTTA-TAATT
1 TATATATTTTTATTAATT
7196359 TTTAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 6 0.18
23 24 0.73
24 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATATTTTTATTAATTAAAAAA
Found at i:7198172 original size:13 final size:13
Alignment explanation
Indices: 7198136--7198172 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
7198126 TTATAATTGA
7198136 TTGTGATTA-TCT
1 TTGTGATTATTCT
7198148 TTGTGA-TATTCT
1 TTGTGATTATTCT
*
7198160 TTGTCATTATTCT
1 TTGTGATTATTCT
7198173 CATTAAGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 14 0.64
13 6 0.27
ACGTcount: A:0.16, C:0.11, G:0.14, T:0.59
Consensus pattern (13 bp):
TTGTGATTATTCT
Found at i:7199560 original size:10 final size:10
Alignment explanation
Indices: 7199545--7199569 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7199535 TTAAATTTAT
7199545 CTCATAGCTC
1 CTCATAGCTC
7199555 CTCATAGCTC
1 CTCATAGCTC
7199565 CTCAT
1 CTCAT
7199570 GTCTATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.08, T:0.32
Consensus pattern (10 bp):
CTCATAGCTC
Found at i:7202822 original size:21 final size:21
Alignment explanation
Indices: 7202798--7202837 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7202788 CTTTTTATTT
*
7202798 TATATTATAATATTATTATAA
1 TATATAATAATATTATTATAA
**
7202819 TATATAATTTTATTATTAT
1 TATATAATAATATTATTAT
7202838 CATTATTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATATAATAATATTATTATAA
Found at i:7217708 original size:19 final size:20
Alignment explanation
Indices: 7217672--7217709 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
7217662 TGTCTAACCG
**
7217672 ATAAATCTATTTTTAATTAA
1 ATAAATCTATTTAAAATTAA
7217692 ATAAAT-TATTTAAAATTA
1 ATAAATCTATTTAAAATTA
7217710 TAAAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAATCTATTTAAAATTAA
Found at i:7220118 original size:30 final size:30
Alignment explanation
Indices: 7220082--7220360 Score: 129
Period size: 30 Copynumber: 9.4 Consensus size: 30
7220072 TAAGTTCAGA
*
7220082 AAAGTTTAAGGGTAAAAATGTAGTTTTAGG
1 AAAGTTTAAGGGTAAAAATGTAATTTTAGG
** * *
7220112 AAAGTTTGGGGGGTAAAAATGTGATTTCA--
1 AAAGTTT-AAGGGTAAAAATGTAATTTTAGG
* * **
7220141 AAGGAGTTTAGGGGTTAAAATACAATTTT-GG
1 AA--AGTTTAAGGGTAAAAATGTAATTTTAGG
* *
7220172 AAAAGTTTAGAGGCT-AAAATGCAATTTT-GG
1 -AAAGTTTA-AGGGTAAAAATGTAATTTTAGG
* *
7220202 AAAAGTTT---GGTATCAAAGTGTAATTTTA-A
1 -AAAGTTTAAGGGTA--AAAATGTAATTTTAGG
*
7220231 AGAAGTTTAAGGGTTAAAATGTAATTTTA-G
1 A-AAGTTTAAGGGTAAAAATGTAATTTTAGG
* * *
7220261 AGAAGTTT-GGGGTTAAAATGTAATTTT-GAA
1 A-AAGTTTAAGGGTAAAAATGTAATTTTAG-G
*
7220291 AAAGTTT-AGGGTCAAAATGTAATTTT-GG
1 AAAGTTTAAGGGTAAAAATGTAATTTTAGG
* * * * *
7220319 AGAACTTTAGGGGTCAAAATAG-GATTTTAAG
1 A-AAGTTTAAGGGTAAAAAT-GTAATTTTAGG
7220350 AAAGTTTAAGG
1 AAAGTTTAAGG
7220361 ACCTTCAGTG
Statistics
Matches: 196, Mismatches: 32, Indels: 42
0.73 0.12 0.16
Matches are distributed among these distances:
26 2 0.01
28 2 0.01
29 66 0.34
30 94 0.48
31 27 0.14
32 5 0.03
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.33
Consensus pattern (30 bp):
AAAGTTTAAGGGTAAAAATGTAATTTTAGG
Found at i:7220346 original size:59 final size:57
Alignment explanation
Indices: 7220145--7220357 Score: 196
Period size: 59 Copynumber: 3.6 Consensus size: 57
7220135 ATTTCAAAGG
* ** * * *
7220145 AGTTTAGGGGTTAAAATACAATTTTGGAAAAGTTTAGAGG-CTAAAATGCAATTTTGGAAA
1 AGTTT-GGGGTCAAAATGTAATTTT-AAAAAGTTTAG-GGTC-AAAATGTAATTTTGGAGA
** * * *
7220205 AGTTTGGTATCAAAGTGTAATTTTAAAGAAGTTTAAGGGTTAAAATGTAATTTTAGAGA
1 AGTTTGGGGTCAAAATGTAATTTTAAA-AAGTTT-AGGGTCAAAATGTAATTTTGGAGA
*
7220264 AGTTTGGGGTTAAAATGTAATTTTGAAAAAGTTTAGGGTCAAAATGTAATTTTGGAGA
1 AGTTTGGGGTCAAAATGTAATTTT-AAAAAGTTTAGGGTCAAAATGTAATTTTGGAGA
* *
7220322 ACTTTAGGGGTCAAAATAG-GATTTTAAGAAAGTTTA
1 AGTTT-GGGGTCAAAAT-GTAATTTTAA-AAAGTTTA
7220358 AGGACCTTCA
Statistics
Matches: 126, Mismatches: 20, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
58 30 0.24
59 85 0.67
60 11 0.09
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.35
Consensus pattern (57 bp):
AGTTTGGGGTCAAAATGTAATTTTAAAAAGTTTAGGGTCAAAATGTAATTTTGGAGA
Found at i:7221148 original size:68 final size:68
Alignment explanation
Indices: 7221078--7221205 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
7221068 CATATATATA
** * * *
7221078 AAAATAAAAT-AAAAAATGTATATCTATTTATATATATATATACTTACGTATATATATAAACAAA
1 AAAATAAAATCAAAAAATGTATATAAATATATATATACATATACATACGTATATATATAAACAAA
7221142 ACT
66 ACT
* * * * *
7221145 AAAATAAAATCAAGATATGTATTTAAATATATATATACATATACATGCTTATATATATAAA
1 AAAATAAAATCAAAAAATGTATATAAATATATATATACATATACATACGTATATATATAAA
7221206 AATAAAACCA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
67 10 0.20
68 40 0.80
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (68 bp):
AAAATAAAATCAAAAAATGTATATAAATATATATATACATATACATACGTATATATATAAACAAA
ACT
Found at i:7222282 original size:39 final size:39
Alignment explanation
Indices: 7222189--7222822 Score: 383
Period size: 39 Copynumber: 16.3 Consensus size: 39
7222179 GCTGATGGTG
* * ** **
7222189 ATCTACCCCAAGCTCGGGGTAAAAGATCGAATGGCTACA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * *
7222228 ATTTACCCCAAGCTCGGGGTAAAAGATCAGATGGTTGTA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
** * * * * * *
7222267 ATCTGCCTTAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * *
7222306 ATCTGCCACAAGCTCGGGGTAAAAGATCGGATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * * *
7222345 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * *
7222384 ATTTGCCCCAAGCTTGGGGTAAAAGATCGAATTACTGCA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * * *
7222423 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * *
7222462 ATCTG-CCCTAGATTCGGGGTAAAAGATTGAATGATTGTA
1 ATCTGCCCCAAG-CTCGGGGTAAAAGATCGGATGATTGTA
* * * *
7222501 ATATGCCCCAAGCTCGGGGTAAGAGAT-TGATTGATGGTGA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGA-TGATTGT-A
** ** * ** ** *
7222541 A-CTGCCTTAAGCTTAGGGTAAATGATCAAATGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * * *
7222579 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * **
7222618 ATCTGCCCCAAGCTCGGAGTAAAAGATCGGATGGTTACA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * *
7222657 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * **
7222696 ATCTGCCTCAAGCTCGGGATAAAAGATCGAATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * *
7222735 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
* * * * * * *
7222774 ATCTGTCCTAAGCTCAGAGTAAAAGATCGGATGACTATG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
7222813 ATCTGCCCCA
1 ATCTGCCCCA
7222823 TAATAGGGGT
Statistics
Matches: 425, Mismatches: 164, Indels: 12
0.71 0.27 0.02
Matches are distributed among these distances:
38 6 0.01
39 411 0.97
40 8 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGATTGTA
Found at i:7222305 original size:117 final size:117
Alignment explanation
Indices: 7222159--7222371 Score: 318
Period size: 117 Copynumber: 1.8 Consensus size: 117
7222149 AATTTGCCCA
* *
7222159 AGGCTCGATGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAGATCGAATGGC
1 AGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTACCACAAGCTCGGGGTAAAAGATCGAATGGC
*
7222224 TACAATTTACCCCAAGCTCGGGGTAAAAGATCAGATGGTTGTAATCTGCCTT
66 TACAATCTACCCCAAGCTCGGGGTAAAAGATCAGATGGTTGTAATCTGCCTT
* * * *
7222276 AGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCACAAGCTCGGGGTAAAAGATCGGATGGT
1 AGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTACCACAAGCTCGGGGTAAAAGATCGAATGGC
* * * * *
7222341 TGCAATCTGCCCTAGGCTCGGGGTAAGAGAT
66 TACAATCTACCCCAAGCTCGGGGTAAAAGAT
7222372 TGGCTGATGG
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 84 1.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (117 bp):
AGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTACCACAAGCTCGGGGTAAAAGATCGAATGGC
TACAATCTACCCCAAGCTCGGGGTAAAAGATCAGATGGTTGTAATCTGCCTT
Found at i:7222778 original size:78 final size:78
Alignment explanation
Indices: 7222236--7222802 Score: 699
Period size: 78 Copynumber: 7.3 Consensus size: 78
7222226 CAATTTACCC
* * **
7222236 CAAGCTCGGGGTAAAAGATC-AGATGGTTGTAATCTGCCTTAGGCTCGGGGTAAGAGATTGGCTG
1 CAAGCTCGGGGTAAAAGATCGA-ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTG
*
7222300 ATGGTGATCTGCCA
65 ATGGTGATCTGCCT
* * *
7222314 CAAGCTCGGGGTAAAAGATCGGATGGTTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGA
1 CAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA
* *
7222379 TGGTGATTTGCCC
66 TGGTGATCTGCCT
* ** * *
7222392 CAAGCTTGGGGTAAAAGATCGAATTACTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGA
1 CAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA
7222457 TGGTGATCTGCC-
66 TGGTGATCTGCCT
* * * ** * * * **
7222469 CTAGATTCGGGGTAAAAGATTGAATGATTGTAATATGCCCCAAGCTCGGGGTAAGAGATTGATTG
1 CAAG-CTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTG
*
7222534 ATGGTGAACTGCCT
65 ATGGTGATCTGCCT
* ** * * *
7222548 TAAGCTTAGGGTAAATGATCAAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGA
1 CAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA
*
7222613 TGGTGATCTGCCC
66 TGGTGATCTGCCT
* * * * * *
7222626 CAAGCTCGGAGTAAAAGATCGGATGGTTACAATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGA
1 CAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA
7222691 TGGTGATCTGCCT
66 TGGTGATCTGCCT
* *
7222704 CAAGCTCGGGATAAAAGATCGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA
1 CAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA
7222769 TGGTGATCTGTCCT
66 TGGTGATCTG-CCT
* *
7222783 -AAGCTCAGAGTAAAAGATCG
1 CAAGCTCGGGGTAAAAGATCG
7222803 GATGACTATG
Statistics
Matches: 419, Mismatches: 66, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
77 3 0.01
78 411 0.98
79 5 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (78 bp):
CAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA
TGGTGATCTGCCT
Found at i:7223284 original size:50 final size:49
Alignment explanation
Indices: 7223128--7223798 Score: 475
Period size: 50 Copynumber: 13.5 Consensus size: 49
7223118 TAAGGTGTTA
* * * * *
7223128 GGTTCACCGTTACGGCCTCAACCTTTCCCTTCATATCTTCAT-GATACCG
1 GGTTCACCGTTGCGGCCTCAACCTTTCCATT-ACATCTTCTTAGGTACCG
* ** * * * *
7223177 GATTCACCGTCACTGCCTTAATCTTTCCCTT-CATC-TCTTCATGGTACCG
1 GGTTCACCGTTGCGGCCTCAACCTTTCCATTACATCTTCTT-A-GGTACCG
* * * *
7223226 GATTCACCGTTACGGCTTCAACCTTTCTCGTTACATCTTCTTAGGTACCG
1 GGTTCACCGTTGCGGCCTCAACCTTTC-CATTACATCTTCTTAGGTACCG
* * *
7223276 GGTTCACCGTTGCGGCCTCAACCTTTCCCTT-CAT-ATCTTTATGGTACTG
1 GGTTCACCGTTGCGGCCTCAACCTTTCCATTACATCTTC-TTA-GGTACCG
* * * *
7223325 GGTTCGCCGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCG
1 GGTTCACCGTTGCGGCCTCAACCTTT-CCATTACATCTTCTTAGGTACCG
* * *
7223375 GATTCGCCGTCGCGGCCTCAATCC-TTCTC-TT-CATCTCTTCTTA-GTACCG
1 GGTTCACCGTTGCGGCCTCAA-CCTTTC-CATTACA--TCTTCTTAGGTACCG
*** * * * *
7223424 GGTTCGTTGTCGCGGCCTCAACCTTTCACATCACATCTTTTTAGGTATCG
1 GGTTCACCGTTGCGGCCTCAACCTTTC-CATTACATCTTCTTAGGTACCG
* * * * *
7223474 AGTTCGCCGTTGCGGCCTCAACCTTTCCTATCACATCTTCTAAGGTACCA
1 GGTTCACCGTTGCGGCCTCAACCTTTCC-ATTACATCTTCTTAGGTACCG
* * * * *
7223524 GATTCACCGTCGCGGCCTCAATCTTTCCCTT-CATC-TCTTCATGGTAACG
1 GGTTCACCGTTGCGGCCTCAACCTTTCCATTACATCTTCTT-A-GGTACCG
** * * * *
7223573 GGTTCGTCGTTACGGCCTCAACCTTTCCCATCAAATCTTCTTAGGTACCA
1 GGTTCACCGTTGCGGCCTCAACCTTT-CCATTACATCTTCTTAGGTACCG
* * * *
7223623 GGTTCACCGTTGCGGCCTCAACCTTCCCCATCACATCTTTTTAAGTACCG
1 GGTTCACCGTTGCGGCCTCAACCTT-TCCATTACATCTTCTTAGGTACCG
* * * *
7223673 GGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACTG
1 GGTTCACCGTTGCGGCCTCAACCTTT-CCATTACATCTTCTTAGGTACCG
** * * * *
7223723 GGTTTGCCGTTGTGACCTCAACCTTTCCCTTCACAT-TTTTTAAGGTACCG
1 GGTTCACCGTTGCGGCCTCAACCTTTCCATT-ACATCTTCTT-AGGTACCG
* * *
7223773 GATTCACCGTCGCAGCCTCAATCCTT
1 GGTTCACCGTTGCGGCCTCAA-CCTT
7223799 CCTTGTCAAA
Statistics
Matches: 495, Mismatches: 97, Indels: 58
0.76 0.15 0.09
Matches are distributed among these distances:
46 3 0.01
47 8 0.02
48 15 0.03
49 158 0.32
50 279 0.56
51 22 0.04
52 10 0.02
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (49 bp):
GGTTCACCGTTGCGGCCTCAACCTTTCCATTACATCTTCTTAGGTACCG
Found at i:7223320 original size:99 final size:99
Alignment explanation
Indices: 7223130--7223782 Score: 520
Period size: 99 Copynumber: 6.6 Consensus size: 99
7223120 AGGTGTTAGG
* * * * * * * * *
7223130 TTCACCGTTACGGCCTCAACCTTTCCCTTCATATCTTCAT-GATACCGGATTCACCGTCACTGCC
1 TTCACCGTTGCGGCCTCAACCTTT-CCATCACATCTTCTTAGGTACCGGGTTCGCCGTTACGGCC
* * *
7223194 TTAATCTTTCCCTTCATCTCTTC-ATGGTACCGGA
65 TCAACCTTTCCCTTCATATCTTCTATGGTACCGGA
* * * * * *
7223228 TTCACCGTTACGGCTTCAACCTTTCTCGTTACATCTTCTTAGGTACCGGGTTCACCGTTGCGGCC
1 TTCACCGTTGCGGCCTCAACCTTTC-CATCACATCTTCTTAGGTACCGGGTTCGCCGTTACGGCC
* *
7223293 TCAACCTTTCCCTTCATATCTT-TATGGTACTGGG
65 TCAACCTTTCCCTTCATATCTTCTATGGTACCGGA
* * * * **
7223327 TTCGCCGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCGCCGTCGCGGCC
1 TTCACCGTTGCGGCCTCAACCTTT-CCATCACATCTTCTTAGGTACCGGGTTCGCCGTTACGGCC
* * * *
7223392 TCAATCC-TTCTCTTCATCTCTTCT-TAGTACCGGG
65 TCAA-CCTTTCCCTTCATATCTTCTATGGTACCGGA
*** * * * * *
7223426 TTCGTTGTCGCGGCCTCAACCTTTCACATCACATCTTTTTAGGTATCGAGTTCGCCGTTGCGGCC
1 TTCACCGTTGCGGCCTCAACCTTTC-CATCACATCTTCTTAGGTACCGGGTTCGCCGTTACGGCC
* * *
7223491 TCAACCTTT-CCTATCACATCTTCTAAGGTACCAGA
65 TCAACCTTTCCCT-TCATATCTTCTATGGTACCGGA
* * * * * *
7223526 TTCACCGTCGCGGCCTCAATCTTTCCCT-TCATC-TCTTCATGGTAACGGGTTCGTCGTTACGGC
1 TTCACCGTTGCGGCCTCAACCTTTCCATCACATCTTCTT-A-GGTACCGGGTTCGCCGTTACGGC
* *
7223589 CTCAACCTTTCCCATCAAATCTTCT-TAGGTACCAGG-
64 CTCAACCTTTCCCTTCATATCTTCTAT-GGTACC-GGA
* * *
7223625 TTCACCGTTGCGGCCTCAACCTTCCCCATCACATCTTTTTAAGTACCGGGTTCGCCGTTACGGCC
1 TTCACCGTTGCGGCCTCAACCTT-TCCATCACATCTTCTTAGGTACCGGGTTCGCCGTTACGGCC
* * * *
7223690 TCAACCTTTCCCATCACATCTTCT-TAGGTACTGGG
65 TCAACCTTTCCCTTCATATCTTCTAT-GGTACCGGA
** * * * * * *
7223725 TTTGCCGTTGTGACCTCAACCTTTCCCTTCACAT-TTTTTAAGGTACCGGATTCACCGT
1 TTCACCGTTGCGGCCTCAACCTTT-CCATCACATCTTCTT-AGGTACCGGGTTCGCCGT
7223783 CGCAGCCTCA
Statistics
Matches: 453, Mismatches: 81, Indels: 40
0.79 0.14 0.07
Matches are distributed among these distances:
97 4 0.01
98 43 0.09
99 268 0.59
100 130 0.29
101 5 0.01
102 3 0.01
ACGTcount: A:0.17, C:0.33, G:0.16, T:0.34
Consensus pattern (99 bp):
TTCACCGTTGCGGCCTCAACCTTTCCATCACATCTTCTTAGGTACCGGGTTCGCCGTTACGGCCT
CAACCTTTCCCTTCATATCTTCTATGGTACCGGA
Found at i:7223494 original size:149 final size:147
Alignment explanation
Indices: 7223219--7223770 Score: 567
Period size: 149 Copynumber: 3.7 Consensus size: 147
7223209 ATCTCTTCAT
* * *
7223219 GGTACCGGATTCACCGTTACGGCTTCAACCTTTCTCGTT-A-CATCTTCTTAGGTACCGGGTTCA
1 GGTACCGGATTCACCGTCACGGCCTCAACC-TTCTC-TTCATC-TCTTCTTA-GTACCGGGTTCG
* * * * * *
7223282 CCGTTGCGGCCTCAACCTTTCCCTTCATATCTTTAT-GGTACTGGGTTCGCCGTTGCAGCCTCAA
62 TCGTTGCGGCCTCAACCTTTCCCATCAAATCTTTTTAGGTAC-GAGTTCGCCGTTGCGGCCTCAA
7223346 CCTTTCCCATCACATCTTCTAA
126 CCTTTCCCATCACATCTTCTAA
* * *
7223368 GGTACCGGATTCGCCGTCGCGGCCTCAATCCTTCTCTTCATCTCTTCTTAGTACCGGGTTCGTTG
1 GGTACCGGATTCACCGTCACGGCCTCAA-CCTTCTCTTCATCTCTTCTTAGTACCGGGTTCGTCG
* * *
7223433 TCGCGGCCTCAACCTTTCACATCACATCTTTTTAGGTATCGAGTTCGCCGTTGCGGCCTCAACCT
65 TTGCGGCCTCAACCTTTCCCATCAAATCTTTTTAGGTA-CGAGTTCGCCGTTGCGGCCTCAACCT
*
7223498 TTCCTATCACATCTTCTAA
129 TTCCCATCACATCTTCTAA
* * * * * * *
7223517 GGTACCAGATTCACCGTCGCGGCCTCAATCTTTCCCTTCATCTCTTCATGGTAACGGGTTCGTCG
1 GGTACCGGATTCACCGTCACGGCCTCAA-CCTTCTCTTCATCTCTTCTTAGTACCGGGTTCGTCG
* * * *
7223582 TTACGGCCTCAACCTTTCCCATCAAATCTTCTTAGGTACCAGGTTCACCGTTGCGGCCTCAACCT
65 TTGCGGCCTCAACCTTTCCCATCAAATCTTTTTAGGTACGA-GTTCGCCGTTGCGGCCTCAACCT
* *
7223647 TCCCCATCACATCTTTTTAA
129 TTCCCATCACATC-TTCTAA
* * * * * * * *
7223667 -GTACCGGGTTCGCCGTTACGGCCTCAACCTTTCCCATCA-CATCTTCTTAGGTACTGGGTTTGC
1 GGTACCGGATTCACCGTCACGGCCTCAACC-TTCTCTTCATC-TCTTCTTA-GTACCGGGTTCGT
* * * *
7223730 CGTTGTGACCTCAACCTTTCCCTTCACAT-TTTTTAAGGTAC
63 CGTTGCGGCCTCAACCTTTCCCATCAAATCTTTTT-AGGTAC
7223771 CGGATTCACC
Statistics
Matches: 340, Mismatches: 52, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
148 46 0.14
149 246 0.72
150 48 0.14
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (147 bp):
GGTACCGGATTCACCGTCACGGCCTCAACCTTCTCTTCATCTCTTCTTAGTACCGGGTTCGTCGT
TGCGGCCTCAACCTTTCCCATCAAATCTTTTTAGGTACGAGTTCGCCGTTGCGGCCTCAACCTTT
CCCATCACATCTTCTAA
Found at i:7223957 original size:35 final size:35
Alignment explanation
Indices: 7223913--7223979 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
7223903 AATGATGGAA
7223913 GCAAAAATGTCATCTCTGAGAATGATTATATTGAT
1 GCAAAAATGTCATCTCTGAGAATGATTATATTGAT
*
7223948 GCAAAAATGTCATCTCTGAGAATGATTTTATT
1 GCAAAAATGTCATCTCTGAGAATGATTATATT
7223980 TTTAGTCCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (35 bp):
GCAAAAATGTCATCTCTGAGAATGATTATATTGAT
Found at i:7224798 original size:22 final size:21
Alignment explanation
Indices: 7224753--7224820 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
7224743 TCTCATTTTC
7224753 TTTTCCTTTTTTTATTTTAT-
1 TTTTCCTTTTTTTATTTTATA
*
7224773 TTTTCCCTTTTTTTATTTTCTA
1 TTTT-CCTTTTTTTATTTTATA
* *
7224795 TTTTCCTTTTTTCTCTTTTTTA
1 TTTTCCTTTTTT-TATTTTATA
7224817 TTTT
1 TTTT
7224821 TCTTCTTCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 4 0.10
21 23 0.55
22 15 0.36
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCCTTTTTTTATTTTATA
Found at i:7224821 original size:15 final size:14
Alignment explanation
Indices: 7224767--7224869 Score: 53
Period size: 15 Copynumber: 6.9 Consensus size: 14
7224757 CCTTTTTTTA
* *
7224767 TTTTATTTTTCCCT
1 TTTTTTTTTTCTCT
*
7224781 TTTTTTATTTTCTAT
1 TTTTTT-TTTTCTCT
*
7224796 TTTCCTTTTTTCTCT
1 TTT-TTTTTTTCTCT
7224811 TTTTTATTTTTCTTCT
1 TTTTT-TTTTTC-TCT
* * * *
7224827 TCTTCTTCTTCTTT
1 TTTTTTTTTTCTCT
*
7224841 TTTCTTTATTTTTTCT
1 TTT-TTT-TTTTCTCT
*
7224857 TTATTTTTCTTCT
1 TT-TTTTTTTTCT
7224870 TCGAATCCAA
Statistics
Matches: 65, Mismatches: 17, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
14 10 0.15
15 36 0.55
16 18 0.28
17 1 0.02
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTTCTCT
Found at i:7224841 original size:37 final size:37
Alignment explanation
Indices: 7224800--7224871 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
7224790 TTCTATTTTC
*
7224800 CTTTTTTCTCTT-TTTTATT-TTTCTTCTTCTTCTTCTT
1 CTTTTTTCT-TTATTTT-TTCTTTATTCTTCTTCTTCTT
*
7224837 CTTTTTTCTTTATTTTTTCTTTATTTTTCTTCTTC
1 CTTTTTTCTTTATTTTTTCTTTATTCTTCTTCTTC
7224872 GAATCCAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.76
Consensus pattern (37 bp):
CTTTTTTCTTTATTTTTTCTTTATTCTTCTTCTTCTT
Found at i:7224854 original size:11 final size:11
Alignment explanation
Indices: 7224838--7224864 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7224828 CTTCTTCTTC
7224838 TTTTTTCTTTA
1 TTTTTTCTTTA
7224849 TTTTTTCTTTA
1 TTTTTTCTTTA
7224860 TTTTT
1 TTTTT
7224865 CTTCTTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCTTTA
Found at i:7227347 original size:36 final size:36
Alignment explanation
Indices: 7227306--7227377 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
7227296 ATCCTTGGGC
*
7227306 GATGGAGTGACGTATCATATTCTTCTATCTCATGTT
1 GATGGAGCGACGTATCATATTCTTCTATCTCATGTT
*
7227342 GATGGAGCGATGTATCATATTCTTCTATCTCATGTT
1 GATGGAGCGACGTATCATATTCTTCTATCTCATGTT
7227378 TCTGAAAGTG
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:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (36 bp):
GATGGAGCGACGTATCATATTCTTCTATCTCATGTT
Found at i:7229637 original size:30 final size:29
Alignment explanation
Indices: 7229596--7229919 Score: 241
Period size: 30 Copynumber: 11.0 Consensus size: 29
7229586 AGTTCGAGAT
7229596 TAAAATGTAATTTTAGAAAAGTTTAAGGG
1 TAAAATGTAATTTTAGAAAAGTTTAAGGG
*
7229625 TAAAACTGTAATTTTAG-GAAGTTT-AGGG
1 TAAAA-TGTAATTTTAGAAAAGTTTAAGGG
* * * *
7229653 TCAAAAATATGATTTT-GAAGGAGTTTGAGAGGT
1 T--AAAATGTAATTTTAGAA-AAGTTT-A-AGGG
** * **
7229686 TAAAATACAATTTTGGAAAAGTTTGGGGG
1 TAAAATGTAATTTTAGAAAAGTTTAAGGG
* * *
7229715 TCAAAATGTGATTTTAAAAAAGTTTAAAGGT
1 T-AAAATGTAATTTTAGAAAAGTTT-AAGGG
* **
7229746 TAAAATGTAATTTGA-AAAAGTTTGGGGG
1 TAAAATGTAATTTTAGAAAAGTTTAAGGG
7229774 TTAAAATGTAATTTT-GAAGAAGTTT-AGGG
1 -TAAAATGTAATTTTAGAA-AAGTTTAAGGG
* * *
7229803 TTAAATGTAATTTTAGAGAAGTTTGAGGG
1 TAAAATGTAATTTTAGAAAAGTTTAAGGG
*
7229832 TCAAAATGTAATTTTGGAAAAGTTTAA-GG
1 T-AAAATGTAATTTTAGAAAAGTTTAAGGG
* * *
7229861 TCAAAATGTAATTTTGGAGAAGTTTGAGGG
1 T-AAAATGTAATTTTAGAAAAGTTTAAGGG
**
7229891 TCAAAATGGGATTTT-GAGAAAGTTTAAGG
1 T-AAAATGTAATTTTAGA-AAAGTTTAAGG
7229920 ACTTTCAGTG
Statistics
Matches: 237, Mismatches: 39, Indels: 37
0.76 0.12 0.12
Matches are distributed among these distances:
28 27 0.11
29 83 0.35
30 101 0.43
31 19 0.08
32 3 0.01
33 4 0.02
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (29 bp):
TAAAATGTAATTTTAGAAAAGTTTAAGGG
Found at i:7229668 original size:59 final size:57
Alignment explanation
Indices: 7229597--7229919 Score: 303
Period size: 59 Copynumber: 5.5 Consensus size: 57
7229587 GTTCGAGATT
*
7229597 AAAATGTAATTTTAGAAAAGTTTAAGGGTAAAACTGTAATTTTAGGAAGTTT-AGGGTC
1 AAAATGTGATTTT-GAAAAGTTTAAGGGTAAAA-TGTAATTTTAGGAAGTTTGAGGGTC
* * * ** *
7229655 AAAAATATGATTTTGAAGGAGTTTGAGAGGTTAAAATACAATTTT-GGAAAAGTTTGGGGGTC
1 -AAAATGTGATTTTGAA-AAGTTT-A-AGGGTAAAATGTAATTTTAGG--AAGTTTGAGGGTC
* * * ** * *
7229717 AAAATGTGATTTTAAAAAAGTTTAAAGGTTAAAATGTAATTTGAAAAAGTTTGGGGGTT
1 AAAATGTGATTTT-GAAAAGTTT-AAGGGTAAAATGTAATTTTAGGAAGTTTGAGGGTC
* *
7229776 AAAATGTAATTTTGAAGAAGTTT-AGGGTTAAATGTAATTTTAGAGAAGTTTGAGGGTC
1 AAAATGTGATTTTGAA-AAGTTTAAGGGTAAAATGTAATTTTAG-GAAGTTTGAGGGTC
* *
7229834 AAAATGTAATTTTGGAAAAGTTTAA-GGTCAAAATGTAATTTTGGAGAAGTTTGAGGGTC
1 AAAATGTGATTTT-GAAAAGTTTAAGGGT-AAAATGTAATTTTAG-GAAGTTTGAGGGTC
*
7229893 AAAATGGGATTTTGAGAAAGTTTAAGG
1 AAAATGTGATTTTGA-AAAGTTTAAGG
7229920 ACTTTCAGTG
Statistics
Matches: 219, Mismatches: 30, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
57 16 0.07
58 40 0.18
59 100 0.46
60 24 0.11
61 32 0.15
62 7 0.03
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (57 bp):
AAAATGTGATTTTGAAAAGTTTAAGGGTAAAATGTAATTTTAGGAAGTTTGAGGGTC
Found at i:7230718 original size:125 final size:124
Alignment explanation
Indices: 7230572--7230839 Score: 428
Period size: 125 Copynumber: 2.1 Consensus size: 124
7230562 AATAAAACCA
* *
7230572 AAATATACTTATATATATATAGATGCGCATATATATAAAAATAAAATAAAAAATGTATATCTATT
1 AAATATA--TATATATATATAGATGCGCATATATATAAAAATAAAATAAAAAACGTAAATCTATT
7230637 TATAAAAAATGAACTTACGCATCTATATAAACAAAACTAAAATAAAACCAAAATATATATTT
64 TATAAAAAATGAACTTACGCATCTATATAAAC-AAACTAAAATAAAACCAAAATATATATTT
*
7230699 ATATATATATATATATATAGATGCGCATATATATAAAAATAAAATAAAAAACGTAAATCTATTTA
1 AAATATATATATATATATAGATGCGCATATATATAAAAATAAAATAAAAAACGTAAATCTATTTA
* * * * * *
7230764 TAAAAAATGTACTTACGTATGTATATAAACAAACTAAAATAAAATCAAGATATGTATTT
66 TAAAAAATGAACTTACGCATCTATATAAACAAACTAAAATAAAACCAAAATATATATTT
7230823 AAATATATATATATATA
1 AAATATATATATATATA
7230840 ATAAAACAAA
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
124 42 0.32
125 83 0.63
127 6 0.05
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.33
Consensus pattern (124 bp):
AAATATATATATATATATAGATGCGCATATATATAAAAATAAAATAAAAAACGTAAATCTATTTA
TAAAAAATGAACTTACGCATCTATATAAACAAACTAAAATAAAACCAAAATATATATTT
Found at i:7234081 original size:3 final size:3
Alignment explanation
Indices: 7234073--7234097 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7234063 GTACACTACA
7234073 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
7234098 GATGCAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:7236336 original size:18 final size:18
Alignment explanation
Indices: 7236310--7236344 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7236300 AAATTTTATT
*
7236310 CTTTGAAAGTTAATTTTA
1 CTTTGAAAGCTAATTTTA
*
7236328 CTTTTAAAGCTAATTTT
1 CTTTGAAAGCTAATTTT
7236345 CAATTCTGAA
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:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
CTTTGAAAGCTAATTTTA
Found at i:7237160 original size:38 final size:41
Alignment explanation
Indices: 7237098--7237186 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 41
7237088 TAAAAAGTAT
* *
7237098 TTATATTAAAAAACACTACTATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
* *
7237139 TTATATTAAAAAA-AC-A-AATAAATGTGATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
*
7237177 TTGTATTAAA
1 TTATATTAAA
7237187 TATAATTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 27 0.63
39 1 0.02
40 2 0.05
41 13 0.30
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:7238935 original size:5 final size:5
Alignment explanation
Indices: 7238925--7238957 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
7238915 TATACTTAGT
7238925 TTATA TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTA
7238958 ATAAAATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:7239517 original size:21 final size:22
Alignment explanation
Indices: 7239467--7239517 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
7239457 TTACATGAAA
*
7239467 ATATTAAAATTCAAAAACTTGT
1 ATATTAAAATTCAAAAACTTAT
*
7239489 A-ATAAAAATTCAAAAA-TTAT
1 ATATTAAAATTCAAAAACTTAT
7239509 ATATTAAAA
1 ATATTAAAA
7239518 AAGGTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 20 0.80
22 1 0.04
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATTAAAATTCAAAAACTTAT
Found at i:7245395 original size:15 final size:15
Alignment explanation
Indices: 7245375--7245426 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
7245365 AATATAAATC
7245375 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
7245390 ATTTATAATTGTAATATAT
1 ATTTATTA-T-T-A-ATAT
*
7245409 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
7245424 ATT
1 ATT
7245427 AATACAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 2 0.07
18 2 0.07
19 11 0.37
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:7245424 original size:19 final size:19
Alignment explanation
Indices: 7245386--7245425 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7245376 TTTATTATTA
**
7245386 ATATATTTATAATTGTAAT
1 ATATATTTATAATTAAAAT
*
7245405 ATATATTTATTATTAAAAT
1 ATATATTTATAATTAAAAT
7245424 AT
1 AT
7245426 TAATACAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATATATTTATAATTAAAAT
Found at i:7245778 original size:36 final size:38
Alignment explanation
Indices: 7245711--7245786 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 38
7245701 TATGTGTAAT
*
7245711 AATATTGAAAATTATAATATTTGATTTTAATATT-TTA
1 AATATTGAAAATTAAAATATTTGATTTTAATATTATTA
7245748 AATATT-AAAATTAAAATA-TT-ATTATATAATATTATTA
1 AATATTGAAAATTAAAATATTTGATT-T-TAATATTATTA
7245785 AA
1 AA
7245787 CTTAATTCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
34 3 0.09
35 3 0.09
36 18 0.51
37 11 0.31
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (38 bp):
AATATTGAAAATTAAAATATTTGATTTTAATATTATTA
Found at i:7246537 original size:58 final size:57
Alignment explanation
Indices: 7246460--7246585 Score: 171
Period size: 58 Copynumber: 2.2 Consensus size: 57
7246450 GATTATTGTT
* *
7246460 ATTAAATTTTAATAAAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
1 ATTAAATTTTAACAAAATTATTATTAAATACAATTTAAT-AAAATAATAAATAATTTA
* * * *
7246518 ATTATATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATGATTTA
1 ATTAAATTTTAACAAAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTA
*
7246575 ATAACAATTTT
1 ATTA-AATTTT
7246586 TAATATAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
57 19 0.32
58 40 0.68
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (57 bp):
ATTAAATTTTAACAAAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTA
Found at i:7246605 original size:30 final size:30
Alignment explanation
Indices: 7246524--7246607 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
7246514 TTTAATTATA
* *
7246524 TTTTAACATAATTAT-TATTAAAT-ACAAT
1 TTTTAAAATAATTATATATTTAATAACAAT
*
7246552 TTAATAAAATAA-TATATGATTTAATAACAAT
1 TT-TTAAAATAATTATAT-ATTTAATAACAAT
* *
7246583 TTTTAATATAATTATATTTTTAATA
1 TTTTAAAATAATTATATATTTAATA
7246608 CCCACGTCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
28 5 0.11
29 8 0.18
30 20 0.44
31 12 0.27
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.48
Consensus pattern (30 bp):
TTTTAAAATAATTATATATTTAATAACAAT
Found at i:7249561 original size:21 final size:21
Alignment explanation
Indices: 7249532--7249571 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7249522 AGGGAAGGAG
7249532 GTGGCGGCGTCACCGGCGGCA
1 GTGGCGGCGTCACCGGCGGCA
* **
7249553 GTGGTGGCGTTGCCGGCGG
1 GTGGCGGCGTCACCGGCGG
7249572 TGGAGGTGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.28, G:0.53, T:0.15
Consensus pattern (21 bp):
GTGGCGGCGTCACCGGCGGCA
Found at i:7255170 original size:24 final size:25
Alignment explanation
Indices: 7255124--7255170 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7255114 ACATTTTTAA
*
7255124 AAAAAATTTATTTTCAATTTATTGG
1 AAAAAATTTATTTTCAATATATTGG
*
7255149 AAAACATTTATTTT-AATATATT
1 AAAAAATTTATTTTCAATATATT
7255171 TAGTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (25 bp):
AAAAAATTTATTTTCAATATATTGG
Found at i:7255852 original size:30 final size:30
Alignment explanation
Indices: 7255816--7255877 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
7255806 CAACTTAACA
* *
7255816 AACAAATGCCTTTAAAATAGTAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
7255846 AACAAATGCCTCTAAAATAATAACAAATTT
1 AACAAATGCCTCTAAAATAATAACAAAATT
7255876 AA
1 AA
7255878 TAATAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.26
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:7255994 original size:21 final size:23
Alignment explanation
Indices: 7255957--7255998 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
7255947 TAGCAAGAAG
7255957 AAAACAACAAGAAAATAACATTA
1 AAAACAACAAGAAAATAACATTA
7255980 AAAACAA-AA-AAAATAACAT
1 AAAACAACAAGAAAATAACAT
7255999 ATTTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 2 0.11
23 7 0.37
ACGTcount: A:0.74, C:0.12, G:0.02, T:0.12
Consensus pattern (23 bp):
AAAACAACAAGAAAATAACATTA
Found at i:7259004 original size:31 final size:31
Alignment explanation
Indices: 7258942--7259005 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
7258932 ATAACTTAAA
* * * *
7258942 TTCAACTTTTAATTTTTTAGTACTTATTTTT
1 TTCAACATTTAATTTTTTAGCACATAATTTT
7258973 TTCAACATTT-ATTTTTTCAGCACATAATTTT
1 TTCAACATTTAATTTTTT-AGCACATAATTTT
7259004 TT
1 TT
7259006 AAGTTTATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.25, C:0.12, G:0.03, T:0.59
Consensus pattern (31 bp):
TTCAACATTTAATTTTTTAGCACATAATTTT
Found at i:7259418 original size:28 final size:26
Alignment explanation
Indices: 7259378--7259436 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
7259368 CATACTCTTT
7259378 TTTTTTTAAAATTATGAACTTTTATATA
1 TTTTTTTAAAATTATG-ACTTTTATA-A
* * *
7259406 TTTTTTTATAATTTTGATTTTTATAA
1 TTTTTTTAAAATTATGACTTTTATAA
7259432 TTTTT
1 TTTTT
7259437 AAATTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 8 0.29
28 14 0.50
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTTTTTAAAATTATGACTTTTATAA
Found at i:7259637 original size:17 final size:18
Alignment explanation
Indices: 7259602--7259639 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7259592 ATTAACAACT
* *
7259602 AAAATTAACTTGAGGAAA
1 AAAATTAAATTGAGCAAA
7259620 AAAATTAAATTGA-CAAA
1 AAAATTAAATTGAGCAAA
7259637 AAA
1 AAA
7259640 TATAAATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.21
Consensus pattern (18 bp):
AAAATTAAATTGAGCAAA
Found at i:7260359 original size:2 final size:2
Alignment explanation
Indices: 7260352--7260393 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
7260342 TTGCAGGATA
* * *
7260352 AT AT AT AT AT CT AT AT CT AT AT CT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7260394 GAGTAGGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7260372 original size:12 final size:12
Alignment explanation
Indices: 7260352--7260393 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
7260342 TTGCAGGATA
7260352 ATATATATATCT
1 ATATATATATCT
*
7260364 ATATCTATATCT
1 ATATATATATCT
*
7260376 ATATATATATAT
1 ATATATATATCT
7260388 ATATAT
1 ATATAT
7260394 GAGTAGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATATATATCT
Found at i:7271928 original size:23 final size:22
Alignment explanation
Indices: 7271882--7271984 Score: 63
Period size: 21 Copynumber: 4.7 Consensus size: 22
7271872 TTCTAAAAGT
*
7271882 TTAAAA-ATAATTTTTTATAAAAA
1 TTAAAATATAAATTTTTAT--AAA
*
7271905 TCTAAAATATAACTTTTTATAAA
1 T-TAAAATATAAATTTTTATAAA
* *
7271928 TTTAAAT-TAAATTTTTATATA
1 TTAAAATATAAATTTTTATAAA
* * *
7271949 TT--ATTTTAAATTTTTA-AAT
1 TTAAAATATAAATTTTTATAAA
*
7271968 TTAAAATTATATATTTT
1 TTAAAA-TATAAATTTT
7271985 AAAATTTTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
19 5 0.08
20 10 0.16
21 15 0.23
22 13 0.20
23 5 0.08
24 5 0.08
25 11 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAAAATATAAATTTTTATAAA
Found at i:7271944 original size:21 final size:21
Alignment explanation
Indices: 7271909--7271991 Score: 66
Period size: 22 Copynumber: 4.0 Consensus size: 21
7271899 TAAAAATCTA
*
7271909 AAATATAACTTTTTATAAATTT
1 AAAT-TAAATTTTTATAAATTT
*
7271931 AAATTAAATTTTTATATA-TT
1 AAATTAAATTTTTATAAATTT
**
7271951 ATTTTAAA-TTTT-TAAATTT
1 AAATTAAATTTTTATAAATTT
*
7271970 AAAATTATATATTTTA-AAATTT
1 -AAATTAAAT-TTTTATAAATTT
7271992 TATAATAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.06
19 6 0.12
20 13 0.27
21 12 0.25
22 14 0.29
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATTAAATTTTTATAAATTT
Found at i:7271995 original size:15 final size:15
Alignment explanation
Indices: 7271950--7271995 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
7271940 TTTTATATAT
*
7271950 TATTTTAAATTTTTA
1 TATTTTAAAATTTTA
* *
7271965 -AATTTAAAATTATA
1 TATTTTAAAATTTTA
7271979 TATTTTAAAATTTTA
1 TATTTTAAAATTTTA
7271994 TA
1 TA
7271996 ATAAAATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTTAAAATTTTA
Found at i:7272191 original size:15 final size:16
Alignment explanation
Indices: 7272171--7272200 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7272161 AAAAATCTTT
7272171 TTTAATATT-TAAATA
1 TTTAATATTATAAATA
7272186 TTTAATATTATAAAT
1 TTTAATATTATAAAT
7272201 TTCTATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAATATTATAAATA
Found at i:7272236 original size:19 final size:20
Alignment explanation
Indices: 7272191--7272239 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
7272181 AAATATTTAA
* *
7272191 TATTATAAATTTCTATTTTC
1 TATTTTAAATTTCAATTTTC
* *
7272211 TAATTTAAATTT-AATTTTT
1 TATTTTAAATTTCAATTTTC
7272230 TATTTTAAAT
1 TATTTTAAAT
7272240 AAATATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTTAAATTTCAATTTTC
Found at i:7298420 original size:23 final size:23
Alignment explanation
Indices: 7298376--7298438 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
7298366 ATAACATTCA
*
7298376 AACAGCCAAAATAACAACCAAAAC
1 AACAGCAAAAATAAC-ACCAAAAC
* * *
7298400 AGCAGTAAAAATAACATCAAAAC
1 AACAGCAAAAATAACACCAAAAC
*
7298423 AACAGCAAAAACAACA
1 AACAGCAAAAATAACA
7298439 AAATAGCAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.63, C:0.24, G:0.06, T:0.06
Consensus pattern (23 bp):
AACAGCAAAAATAACACCAAAAC
Found at i:7298468 original size:24 final size:24
Alignment explanation
Indices: 7298438--7298491 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
7298428 CAAAAACAAC
*
7298438 AAAATAGCAATAAAAACATTAACA
1 AAAATAGCAATAAAAACAATAACA
7298462 AAAATAGCAATAAAAACAATAACA
1 AAAATAGCAATAAAAACAATAACA
7298486 AAAATA
1 AAAATA
7298492 ACAGCATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.70, C:0.11, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAATAGCAATAAAAACAATAACA
Found at i:7298562 original size:19 final size:19
Alignment explanation
Indices: 7298540--7298615 Score: 93
Period size: 19 Copynumber: 3.9 Consensus size: 19
7298530 ATCAAAATTT
7298540 AAAACAGTAAAAAAATACC
1 AAAACAGTAAAAAAATACC
*
7298559 AAAACAGTAAAAAAA-ATC
1 AAAACAGTAAAAAAATACC
7298577 AAAACAGT-AAAAAATAACAATC
1 AAAACAGTAAAAAAAT-AC---C
7298599 AAAACAGTAAAAAAATA
1 AAAACAGTAAAAAAATA
7298616 ACACCAAAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.12
18 10 0.20
19 16 0.33
22 10 0.20
23 7 0.14
ACGTcount: A:0.71, C:0.12, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAACAGTAAAAAAATACC
Found at i:7298570 original size:18 final size:18
Alignment explanation
Indices: 7298540--7298612 Score: 83
Period size: 18 Copynumber: 3.8 Consensus size: 18
7298530 ATCAAAATTT
7298540 AAAACAGTAAAAAAATACC
1 AAAACAGT-AAAAAATACC
* *
7298559 AAAACAGTAAAAAAAATC
1 AAAACAGTAAAAAATACC
7298577 AAAACAGTAAAAAATAACAATC
1 AAAACAGTAAAAAAT-AC---C
7298599 AAAACAGTAAAAAA
1 AAAACAGTAAAAAA
7298613 ATAACACCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
18 22 0.48
19 9 0.20
22 15 0.33
ACGTcount: A:0.71, C:0.12, G:0.05, T:0.11
Consensus pattern (18 bp):
AAAACAGTAAAAAATACC
Found at i:7298599 original size:22 final size:22
Alignment explanation
Indices: 7298558--7298626 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
7298548 AAAAAAATAC
7298558 CAAAACAGT--AAAA-AA-AAT
1 CAAAACAGTAAAAAATAACAAT
7298576 CAAAACAGTAAAAAATAACAAT
1 CAAAACAGTAAAAAATAACAAT
*
7298598 CAAAACAGTAAAAAAATAAC-AC
1 CAAAACAGT-AAAAAATAACAAT
7298620 CAAAACA
1 CAAAACA
7298627 ACAATATAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
18 9 0.20
20 4 0.09
21 2 0.04
22 20 0.44
23 10 0.22
ACGTcount: A:0.70, C:0.16, G:0.04, T:0.10
Consensus pattern (22 bp):
CAAAACAGTAAAAAATAACAAT
Found at i:7301771 original size:14 final size:14
Alignment explanation
Indices: 7301752--7301783 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7301742 CATGTGACAC
7301752 TTTATTTATTTATT
1 TTTATTTATTTATT
7301766 TTTATTTATTTATT
1 TTTATTTATTTATT
7301780 TTTA
1 TTTA
7301784 AACAACTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:7302688 original size:30 final size:30
Alignment explanation
Indices: 7302611--7302688 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
7302601 CCACCTAAGG
* * *
7302611 TCTCATCTCGGTCTCACCTACACATATAAA
1 TCTCCTCTCTGTCTCACTTACACATATAAA
* *
7302641 TCTCCTCT-TGGTCTCACTTACGCATATAGA
1 TCTCCTCTCT-GTCTCACTTACACATATAAA
7302671 TCTCCTCTCTGTCTCACT
1 TCTCCTCTCTGTCTCACT
7302689 ATTCGGCACA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 40 0.98
31 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.36
Consensus pattern (30 bp):
TCTCCTCTCTGTCTCACTTACACATATAAA
Found at i:7303090 original size:5 final size:5
Alignment explanation
Indices: 7303066--7303109 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
7303056 AACAAAAACA
* *
7303066 AAAAG ACAAG AAAA- AGAAAG AAAAG AAGAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAAA
7303110 CCTAAACTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 1 0.03
5 31 0.94
6 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:7303091 original size:20 final size:20
Alignment explanation
Indices: 7303073--7303109 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7303063 ACAAAAAGAC
7303073 AAGA-AAAAG-AAAGAAAAG
1 AAGAGAAAAGAAAAGAAAAG
7303091 AAGAGAAAAGAAAAGAAAA
1 AAGAGAAAAGAAAAGAAAA
7303110 CCTAAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
AAGAGAAAAGAAAAGAAAAG
Found at i:7303378 original size:21 final size:21
Alignment explanation
Indices: 7303352--7303409 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
7303342 CTTGGGGTGT
* *
7303352 CTTGGTATCGCAATACCCATG
1 CTTGGTATCACAATACCCATA
*
7303373 CTTGGTATCACGATACCCATA
1 CTTGGTATCACAATACCCATA
*
7303394 CTTGGTATCACGATAC
1 CTTGGTATCACAATAC
7303410 TACTAGAGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (21 bp):
CTTGGTATCACAATACCCATA
Found at i:7304568 original size:31 final size:29
Alignment explanation
Indices: 7304533--7304633 Score: 76
Period size: 31 Copynumber: 3.3 Consensus size: 29
7304523 TATTCACATT
7304533 AATATTAAAATAATAAAATATTATCCAGATA
1 AATATTAAAATAATAAAATA-TAT-CAGATA
* ** * * *
7304564 AATATTAAATTAGATTTAATATCTCATATT
1 AATATTAAAATA-ATAAAATATATCAGATA
* * *
7304594 AATATTAAAATGATAAAACACTATTTAGATA
1 AATATTAAAATAATAAAATA-TA-TCAGATA
7304625 AATATTAAA
1 AATATTAAA
7304634 TTAAATTTAA
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
29 5 0.10
30 15 0.29
31 26 0.50
32 6 0.12
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (29 bp):
AATATTAAAATAATAAAATATATCAGATA
Found at i:7304610 original size:61 final size:61
Alignment explanation
Indices: 7304530--7304646 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 61
7304520 AATTATTCAC
* * *
7304530 ATTAATATTAAAATAATAAAATATTATCCAGATAAATATTAAATTAGATTTAATATCTCAT
1 ATTAATATTAAAATAATAAAACACTATCCAGATAAATATTAAATTAAATTTAATATCTCAT
* **
7304591 ATTAATATTAAAATGATAAAACACTATTTAGATAAATATTAAATTAAATTTAATAT
1 ATTAATATTAAAATAATAAAACACTATCCAGATAAATATTAAATTAAATTTAATAT
7304647 TTAATACTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.39
Consensus pattern (61 bp):
ATTAATATTAAAATAATAAAACACTATCCAGATAAATATTAAATTAAATTTAATATCTCAT
Found at i:7304658 original size:61 final size:61
Alignment explanation
Indices: 7304532--7304659 Score: 175
Period size: 61 Copynumber: 2.1 Consensus size: 61
7304522 TTATTCACAT
* * * * *
7304532 TAATATTAAAATAATAAAATATTATCCAGATAAATATTAAATTAGATTTAATATCTCATAT
1 TAATATTAAAATAATAAAACACTATCCAGATAAATATTAAATTAAATTTAATATCTAATAC
* ** *
7304593 TAATATTAAAATGATAAAACACTATTTAGATAAATATTAAATTAAATTTAATATTTAATAC
1 TAATATTAAAATAATAAAACACTATCCAGATAAATATTAAATTAAATTTAATATCTAATAC
7304654 TAATAT
1 TAATAT
7304660 CTAGATAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (61 bp):
TAATATTAAAATAATAAAACACTATCCAGATAAATATTAAATTAAATTTAATATCTAATAC
Done.