Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 29 of 333
Found at i:8137682 original size:5 final size:5
Alignment explanation
Indices: 8137672--8137703 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
8137662 AATTTGTGAA
8137672 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
8137704 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:8144822 original size:16 final size:16
Alignment explanation
Indices: 8144803--8144858 Score: 71
Period size: 15 Copynumber: 3.6 Consensus size: 16
8144793 AATAAAAATG
*
8144803 TTTTAGATAATTTCTA
1 TTTTAGATCATTTCTA
*
8144819 TTTT-GGTCATTTCTA
1 TTTTAGATCATTTCTA
*
8144834 TTTTAGATCATTTATA
1 TTTTAGATCATTTCTA
8144850 TTTT-GATCA
1 TTTTAGATCA
8144859 CTCTTCGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 18 0.51
16 17 0.49
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.57
Consensus pattern (16 bp):
TTTTAGATCATTTCTA
Found at i:8146244 original size:16 final size:16
Alignment explanation
Indices: 8146220--8146253 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8146210 CATTATTCCA
8146220 AACAAGAGTTGTTCTC
1 AACAAGAGTTGTTCTC
*
8146236 AACAGGAGTTGTTCTC
1 AACAAGAGTTGTTCTC
8146252 AA
1 AA
8146254 GTAATAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (16 bp):
AACAAGAGTTGTTCTC
Found at i:8152637 original size:17 final size:18
Alignment explanation
Indices: 8152615--8152658 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
8152605 TAATAAGAGT
8152615 TAATATTAAAT-TTAATC
1 TAATATTAAATATTAATC
* *
8152632 TAATATT-TATATTAATT
1 TAATATTAAATATTAATC
8152649 TAATATTAAA
1 TAATATTAAA
8152659 ATGATTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 19 0.86
18 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTAAATATTAATC
Found at i:8174084 original size:13 final size:14
Alignment explanation
Indices: 8174057--8174085 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8174047 CTTCTTTGAG
8174057 AAAAATTTCTATAA
1 AAAAATTTCTATAA
8174071 AAAAATTTCT-TAA
1 AAAAATTTCTATAA
8174084 AA
1 AA
8174086 TTTTAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAATTTCTATAA
Found at i:8175427 original size:19 final size:19
Alignment explanation
Indices: 8175403--8175439 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8175393 ATCCCAAGAG
8175403 TGAGAACAATAGAAAAATT
1 TGAGAACAATAGAAAAATT
8175422 TGAGAACAATAGAAAAAT
1 TGAGAACAATAGAAAAAT
8175440 CAAAATTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.19
Consensus pattern (19 bp):
TGAGAACAATAGAAAAATT
Found at i:8180779 original size:11 final size:11
Alignment explanation
Indices: 8180763--8180816 Score: 83
Period size: 11 Copynumber: 5.0 Consensus size: 11
8180753 TAGAATATAT
8180763 CCCATACCTTG
1 CCCATACCTTG
8180774 CCCATACCTTG
1 CCCATACCTTG
*
8180785 CCCATACCTTT
1 CCCATACCTTG
*
8180796 CCCATACC-TA
1 CCCATACCTTG
8180806 CCCATACCTTG
1 CCCATACCTTG
8180817 GAAAGGTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
10 9 0.23
11 30 0.77
ACGTcount: A:0.20, C:0.46, G:0.06, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:8181375 original size:18 final size:18
Alignment explanation
Indices: 8181348--8181440 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
8181338 TACGACCGTT
8181348 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8181366 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8181384 TATGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
**
8181402 TACGAAACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8181420 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
8181438 TAC
1 TAC
8181441 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:8185503 original size:11 final size:11
Alignment explanation
Indices: 8185487--8185540 Score: 83
Period size: 11 Copynumber: 5.0 Consensus size: 11
8185477 TAGAATATAT
8185487 CCCATACCTTG
1 CCCATACCTTG
8185498 CCCATACCTTG
1 CCCATACCTTG
*
8185509 CCCATACCTTT
1 CCCATACCTTG
*
8185520 CCCATACC-TA
1 CCCATACCTTG
8185530 CCCATACCTTG
1 CCCATACCTTG
8185541 GAAAGGTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
10 9 0.23
11 30 0.77
ACGTcount: A:0.20, C:0.46, G:0.06, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:8192610 original size:17 final size:18
Alignment explanation
Indices: 8192572--8192610 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8192562 TTAATAAATT
*
8192572 AATTTAAAAATATATATT
1 AATTTAAAAATATATATA
*
8192590 AATTTAAAAA-ATCTATA
1 AATTTAAAAATATATATA
8192607 AATT
1 AATT
8192611 AAACAACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAAAAATATATATA
Found at i:8194319 original size:19 final size:19
Alignment explanation
Indices: 8194281--8194343 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
8194271 TAAATTAATC
***
8194281 ATATATTTATTTTGGATAA
1 ATATATTTATTTTATTTAA
8194300 ATATATTTATTTTATTTAAA
1 ATATATTTATTTTATTT-AA
* ** *
8194320 ATAAATAAATATTATTTAA
1 ATATATTTATTTTATTTAA
8194339 ATATA
1 ATATA
8194344 AATAGATTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATATATTTATTTTATTTAA
Found at i:8198047 original size:26 final size:27
Alignment explanation
Indices: 8198018--8198078 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
8198008 AACAGTTTTA
* *
8198018 AAAAAAAACTAAGTAAC-AAATAAATT
1 AAAAAAAACTAAATAACTAAATAAACT
* *
8198044 AAAAGAAA-TAAATAACTACATAAACT
1 AAAAAAAACTAAATAACTAAATAAACT
*
8198070 AAAATAAAC
1 AAAAAAAAC
8198079 AAACTCAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (27 bp):
AAAAAAAACTAAATAACTAAATAAACT
Found at i:8205448 original size:56 final size:56
Alignment explanation
Indices: 8205362--8205474 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
8205352 GAAAAATAGA
*
8205362 TAGCTATCTATTTTTCCTCCGAAATCTCTAAGAAGAAGATGTCGAGTGGAGAGCCC
1 TAGCTATCTATTTTTCCTCCGAAATCTCTAAGAAGAAGACGTCGAGTGGAGAGCCC
*
8205418 TAGCTATCTATTTTTCCTTCGAAATCTCTAAGAAGAAGACGTCGAGTGGAGAGCCC
1 TAGCTATCTATTTTTCCTCCGAAATCTCTAAGAAGAAGACGTCGAGTGGAGAGCCC
8205474 T
1 T
8205475 TTGGATGGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (56 bp):
TAGCTATCTATTTTTCCTCCGAAATCTCTAAGAAGAAGACGTCGAGTGGAGAGCCC
Found at i:8210127 original size:17 final size:17
Alignment explanation
Indices: 8210105--8210138 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8210095 TTTATTTCCC
*
8210105 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
8210122 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
8210139 GATTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:8210457 original size:26 final size:27
Alignment explanation
Indices: 8210428--8210484 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
8210418 TTTAAACTCC
*
8210428 TTTACATATTATTTATTTTAAA-TATT
1 TTTACATATTATTTACTTTAAACTATT
* *
8210454 TTTATATGTTATTTACTTTAAACTATT
1 TTTACATATTATTTACTTTAAACTATT
8210481 TTTA
1 TTTA
8210485 TTATATGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTACATATTATTTACTTTAAACTATT
Found at i:8210774 original size:25 final size:24
Alignment explanation
Indices: 8210736--8210798 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
8210726 ATATTATTTT
8210736 ATTGTTTTAAATATTAATGATTTTTAA
1 ATTGTTTT--ATATTAATGA-TTTTAA
* *
8210763 ATTGTTTTATATTATTTATTTTAA
1 ATTGTTTTATATTAATGATTTTAA
8210787 ATTGCTTTTATA
1 ATTG-TTTTATA
8210799 GTATCTATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 10 0.30
25 15 0.45
27 8 0.24
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (24 bp):
ATTGTTTTATATTAATGATTTTAA
Found at i:8210789 original size:24 final size:25
Alignment explanation
Indices: 8210757--8210812 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
8210747 TATTAATGAT
* *
8210757 TTTTAAATTG-TTTTATATTATTTA
1 TTTTAAATTGCTTTTATAGTATCTA
8210781 TTTTAAATTGCTTTTATAGTATCTA
1 TTTTAAATTGCTTTTATAGTATCTA
*
8210806 TTCTAAA
1 TTTTAAA
8210813 CCTTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (25 bp):
TTTTAAATTGCTTTTATAGTATCTA
Found at i:8212874 original size:15 final size:16
Alignment explanation
Indices: 8212854--8212886 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8212844 CTTCCTTTCT
*
8212854 TTTGCATTTCAT-GCA
1 TTTGCATTGCATCGCA
8212869 TTTGCATTGCATCGCA
1 TTTGCATTGCATCGCA
8212885 TT
1 TT
8212887 ATTTGCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (16 bp):
TTTGCATTGCATCGCA
Found at i:8215551 original size:5 final size:5
Alignment explanation
Indices: 8215543--8215627 Score: 59
Period size: 5 Copynumber: 16.8 Consensus size: 5
8215533 TAAAAAAACA
* * * *
8215543 AAAAG AAAAG AAAAG AAAAG AAAAC ACAA- AAAA- AAAAC AACAAA AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG
* *
8215592 -AAGG AAAAAG AAACAAA AAAAG AAAAG AAAAG AAAA
1 AAAAG -AAAAG -AA-AAG AAAAG AAAAG AAAAG AAAA
8215628 AGGAGAGGCC
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
4 10 0.15
5 42 0.64
6 12 0.18
7 2 0.03
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:8215561 original size:22 final size:21
Alignment explanation
Indices: 8215536--8215628 Score: 82
Period size: 22 Copynumber: 4.2 Consensus size: 21
8215526 TTCACCTTAA
8215536 AAAAACAAAAAGAAAAGAAAAG
1 AAAAA-AAAAAGAAAAGAAAAG
* *
8215558 AAAAGAAAACACA-AAAAAAAAAC
1 AAAA-AAAA-A-AGAAAAGAAAAG
* *
8215581 AACAAAAAAAG-AAGGAAAAAG
1 AAAAAAAAAAGAAAAG-AAAAG
8215602 AAACAAAAAAAGAAAAGAAAAG
1 AAA-AAAAAAAGAAAAGAAAAG
8215624 AAAAA
1 AAAAA
8215629 GGAGAGGCCA
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
20 3 0.05
21 9 0.16
22 27 0.48
23 16 0.29
24 1 0.02
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAGAAAAG
Found at i:8215591 original size:39 final size:37
Alignment explanation
Indices: 8215534--8215627 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 37
8215524 TATTCACCTT
8215534 AAAAAAACAAAAAGAAAAGAAA-AGAAAAGAAAACACAAA
1 AAAAAAACAAAAAGAAAAGAAAGA-AAAAG-AAACA-AAA
*
8215573 AAAAAAACAACAAA-AAAAGAAGGAAAAAGAAACAAAA
1 AAAAAAACAA-AAAGAAAAGAAAGAAAAAGAAACAAAA
*
8215610 AAAGAAAA-GAAAAGAAAA
1 AAA-AAAACAAAAAGAAAA
8215628 AGGAGAGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
36 3 0.06
37 11 0.22
38 9 0.18
39 22 0.45
40 4 0.08
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (37 bp):
AAAAAAACAAAAAGAAAAGAAAGAAAAAGAAACAAAA
Found at i:8217946 original size:9 final size:9
Alignment explanation
Indices: 8217934--8217966 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
8217924 TTTTGTTCTT
8217934 TTGTTGCTA
1 TTGTTGCTA
8217943 TTGTTGCTA
1 TTGTTGCTA
*
8217952 TTGTTGCTG
1 TTGTTGCTA
8217961 TTGTTG
1 TTGTTG
8217967 TTGTCCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.06, C:0.09, G:0.27, T:0.58
Consensus pattern (9 bp):
TTGTTGCTA
Found at i:8223003 original size:18 final size:18
Alignment explanation
Indices: 8222980--8223020 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8222970 TTTTGAAATC
*
8222980 AAAATCAGATTGGGCTTT
1 AAAATCAGATTGGACTTT
* *
8222998 AAAATCAGTTTGGATTTT
1 AAAATCAGATTGGACTTT
8223016 AAAAT
1 AAAAT
8223021 TTGCTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (18 bp):
AAAATCAGATTGGACTTT
Found at i:8223526 original size:20 final size:21
Alignment explanation
Indices: 8223495--8223536 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
8223485 CTTGAGCACC
8223495 AAAAATTAAAAAATAATTTTA
1 AAAAATTAAAAAATAATTTTA
8223516 AAAAATTAAAAAATAATTTTA
1 AAAAATTAAAAAATAATTTTA
8223537 TCTAGTGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATTAAAAAATAATTTTA
Found at i:8228136 original size:24 final size:24
Alignment explanation
Indices: 8228104--8228149 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
8228094 CCTTGTTAAC
8228104 CATCTTAACCACTAGACCAGCACA
1 CATCTTAACCACTAGACCAGCACA
8228128 CATCTTAACCACTAGACCAGCA
1 CATCTTAACCACTAGACCAGCA
8228150 GACCCATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.37, G:0.09, T:0.17
Consensus pattern (24 bp):
CATCTTAACCACTAGACCAGCACA
Found at i:8229223 original size:18 final size:18
Alignment explanation
Indices: 8229200--8229234 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8229190 GGAATAACCA
8229200 CCACA-TTTGCTTCTATTC
1 CCACATTTTGC-TCTATTC
8229218 CCACATTTTGCTCTATT
1 CCACATTTTGCTCTATT
8229235 TTCACTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.17, C:0.31, G:0.06, T:0.46
Consensus pattern (18 bp):
CCACATTTTGCTCTATTC
Found at i:8231133 original size:6 final size:6
Alignment explanation
Indices: 8231124--8231156 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
8231114 TTTATTCTGT
*
8231124 TTTTTA TTTTTA TTTCT- TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
8231157 ATTATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:8231145 original size:17 final size:17
Alignment explanation
Indices: 8231123--8231155 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8231113 ATTTATTCTG
8231123 TTTTTTATTTTTATTTC
1 TTTTTTATTTTTATTTC
8231140 TTTTTTATTTTTATTT
1 TTTTTTATTTTTATTT
8231156 TATTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTATTTTTATTTC
Found at i:8231166 original size:10 final size:10
Alignment explanation
Indices: 8231090--8231168 Score: 54
Period size: 11 Copynumber: 7.6 Consensus size: 10
8231080 AAAAAATTTC
8231090 TTTTATTATA
1 TTTTATTATA
8231100 TATTTATATATA
1 T-TTTAT-TATA
* *
8231112 TATTTATTCTG
1 T-TTTATTATA
8231123 TTTT-TTAT-
1 TTTTATTATA
* *
8231131 TTTTATTTCTT
1 TTTTA-TTATA
*
8231142 TTTTATTTTTA
1 TTTTA-TTATA
8231153 TTTTATTATA
1 TTTTATTATA
8231163 TTTTAT
1 TTTTAT
8231169 ATGTAAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 17 0.30
11 22 0.39
12 11 0.19
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (10 bp):
TTTTATTATA
Found at i:8235068 original size:15 final size:15
Alignment explanation
Indices: 8235032--8235081 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
8235022 CGATGTCCTT
8235032 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
8235046 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
8235062 TTT-CATCGCAT-CA
1 TTTGCATCTCATGCA
8235075 TTTGCAT
1 TTTGCAT
8235082 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:8243401 original size:86 final size:85
Alignment explanation
Indices: 8243301--8243751 Score: 343
Period size: 86 Copynumber: 5.2 Consensus size: 85
8243291 TCTCACACCA
* *
8243301 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAAATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCAACGGAGA-CAGATACATAGCAGATCT
8243366 AACCTTCAGATGTTTATACTG
65 AACCTTCAGATGTTTATACTG
* * * *
8243387 AAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTACAA-GGA-ACATATCGAAGACATAG
1 AAGCAGATCCAAGATAACAGATCTGGCA-TC-TCTATTT-CAACGGAGAC--A--G-ATACATAG
* * * * * *
8243446 CAGATTTGACTTTCGGATGTTCTCACACCG
58 CAGATCTAACCTTCAGATGTT-T-ATACTG
* *
8243476 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCAACGGAGA-CAGATACATAGCAGATCT
8243541 AACCTTCAGATGTTTATACTG
65 AACCTTCAGATGTTTATACTG
* * * * *
8243562 AAGCAGATCCAAGAT----GATTTGGAATTCTTGTGTTTACAA-GGA-ACAAATCGAAGACATAG
1 AAGCAGATCCAAGATAACAGATCTGGCA-TC-TCTATTT-CAACGGAGAC--A--G-ATACATAG
* * * * * *
8243621 CAGATTTGACTTTCGGATGTTCTCACACCG
58 CAGATCTAACCTTCAGATGTT-T-ATACTG
** *
8243651 AAGCAGATTTAAGATAACAGATCTGGCATCTCTATTTCGACGGAGCACAGATACATAGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCAACGGAG-ACAGATACATAGCAGATCT
8243716 AACCTTCAGATGATTT-TACTG
65 AACCTTCAGATG-TTTATACTG
8243737 AAGCAGATCCAAGAT
1 AAGCAGATCCAAGAT
8243752 GATTTGGCAT
Statistics
Matches: 277, Mismatches: 53, Indels: 70
0.69 0.13 0.17
Matches are distributed among these distances:
82 17 0.06
83 6 0.02
84 16 0.06
85 5 0.02
86 52 0.19
87 48 0.17
88 49 0.18
89 40 0.14
90 4 0.01
91 17 0.06
92 5 0.02
93 18 0.06
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (85 bp):
AAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCAACGGAGACAGATACATAGCAGATCTA
ACCTTCAGATGTTTATACTG
Found at i:8243482 original size:175 final size:175
Alignment explanation
Indices: 8243173--8243809 Score: 1035
Period size: 175 Copynumber: 3.6 Consensus size: 175
8243163 AGGAGCAAAT
* * *
8243173 CAGACACATAGAAAATCTAACCTTCAGTTGTTTATACTGAAGCAGATCCAAGATGATTTGGCATT
1 CAGATACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATT
* * *
8243238 CTTGTGTTTACAAGGAACAAATCGAATACATCGCAGATTTGACTTTCGGATGTTCTCACACCAAA
66 CTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCGAA
*
8243303 GCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAG
131 GCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAG
8243348 CAGATACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATT
1 CAGATACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATT
*
8243413 CTTGTGTTTACAAGGAACATATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCGAA
66 CTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCGAA
8243478 GCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAG
131 GCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAG
* *
8243523 CAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGAATT
1 CAGATACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATT
8243588 CTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCGAA
66 CTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCGAA
** *
8243653 GCAGATTTAAGATAACAGATCTGGCATCTCTATTTCGACGGAGCA-
131 GCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAG-AG
*
8243698 CAGATACATAGCAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCAT
1 CAGATACATAGCAAATCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCAT
* * * ** * * * *
8243762 CCTTGTGTTCACAAAGAGGAAATCAAAGACACAGTAGATTTGGCTTTC
65 TCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTC
8243810 ACGTATTACG
Statistics
Matches: 436, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
175 432 0.99
176 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (175 bp):
CAGATACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATT
CTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCGAA
GCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAG
Found at i:8245614 original size:6 final size:6
Alignment explanation
Indices: 8245605--8245637 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
8245595 TTTATTCTGT
*
8245605 TTTTTA TTTTTA TTTCT- TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
8245638 ATTATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:8245626 original size:17 final size:17
Alignment explanation
Indices: 8245604--8245636 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8245594 ATTTATTCTG
8245604 TTTTTTATTTTTATTTC
1 TTTTTTATTTTTATTTC
8245621 TTTTTTATTTTTATTT
1 TTTTTTATTTTTATTT
8245637 TATTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTATTTTTATTTC
Found at i:8246391 original size:16 final size:15
Alignment explanation
Indices: 8246365--8246399 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
8246355 TGATGTGAAT
8246365 AATATAAAATATTAA
1 AATATAAAATATTAA
*
8246380 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
8246396 AATA
1 AATA
8246400 ATAATAATTA
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:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:8246667 original size:25 final size:25
Alignment explanation
Indices: 8246548--8246762 Score: 112
Period size: 25 Copynumber: 8.9 Consensus size: 25
8246538 AACGTGATAA
* *
8246548 TATTAAAAATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * *
8246573 T-GTAAACAATACATACATAATATA-
1 TATTAAA-GATATATACATAATATAG
* *
8246597 -ATTAAA-ATATATACATAAGATAA
1 TATTAAAGATATATACATAATATAG
* * *
8246620 CATGTAAAAATATATATAAATAATATAG
1 TAT-T--AAAGATATATACATAATATAG
*
8246648 TATTAAAGATATATACATAAAATAG
1 TATTAAAGATATATACATAATATAG
* *
8246673 TA-TAATATATATATACGTAATATAG
1 TATTAA-AGATATATACATAATATAG
* * * *
8246698 AATT-TAGA-ATAAACCTAATATA-
1 TATTAAAGATATATACATAATATAG
* * *
8246720 T-TAAAAGA-ATATATATAATATAA
1 TATTAAAGATATATACATAATATAG
*
8246743 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
8246763 ACAAAAAAAA
Statistics
Matches: 148, Mismatches: 28, Indels: 30
0.72 0.14 0.15
Matches are distributed among these distances:
21 1 0.01
22 28 0.19
23 23 0.16
24 21 0.14
25 54 0.36
26 1 0.01
27 4 0.03
28 16 0.11
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:8247333 original size:30 final size:30
Alignment explanation
Indices: 8247243--8247338 Score: 147
Period size: 30 Copynumber: 3.2 Consensus size: 30
8247233 TAGGTACAAG
8247243 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* **
8247273 AGGTATTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
8247303 TGGTGGTGGAGCAATTGTGACTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
8247333 TGGTGG
1 TGGTGG
8247339 CGGCAAAGGC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.19, C:0.06, G:0.47, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:8248146 original size:87 final size:86
Alignment explanation
Indices: 8247994--8248292 Score: 252
Period size: 87 Copynumber: 3.4 Consensus size: 86
8247984 ATGTGATTGT
* * * ** * * * *
8247994 GAGG-TCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAATATACA-TTAAAATAGA-AAT
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAAGCATAAATTTAAAAAACATTAT
*
8248056 TGAAAATAGCTCAGCACGTGAGCC
65 TGAAAATA-CTCAGCA-GTGACCC
* * * *
8248080 AAGGCTCAACTCACTTCTCGCAAAATGAGTTGATTTTTAAAA-CA-AAATTTGTAAAACAGATT-
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAGCATAAA-TT-TAAAAAACATTA
* *
8248142 TTGAAAATACCTCGGTATGTGACCC
64 TTGAAAATA-CTCAGCA-GTGACCC
* * *
8248167 GAGGCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATAAATTTAAAAAACATTAA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATT-TTTAAAAGCATAAATTTAAAAAACATT-A
* *
8248232 TTGAAAATACTTTAGCA-TGCCCC
64 TTGAAAATAC-TCAGCAGTGACCC
* *
8248255 GAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTTT
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
8248293 TTGAAAAACA
Statistics
Matches: 172, Mismatches: 30, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
84 2 0.01
85 1 0.01
86 12 0.07
87 86 0.50
88 51 0.30
89 5 0.03
90 15 0.09
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (86 bp):
GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAGCATAAATTTAAAAAACATTATT
GAAAATACTCAGCAGTGACCC
Found at i:8248444 original size:150 final size:151
Alignment explanation
Indices: 8248253--8248845 Score: 624
Period size: 150 Copynumber: 3.9 Consensus size: 151
8248243 TTAGCATGCC
* * *
8248253 CCGAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTTTTTGAAAAACATAAATTGAAAACACT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAACACC
**
8248318 TCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACAGAAAT
66 TCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAAT
*
8248383 T-AAAACTACCTCAACGTGT-
131 TGAAAAATACCTCAACGTGTA
* * *
8248402 CCTGAGGCTCAATTCACCTCTCGCAACATGAGTTGATTTTTTTGAAAAACAGAAGTTGAAAACAC
1 CC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAACAC
*
8248467 CTCAACGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGA
65 CTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAGA
*
8248532 AATTGAAAAATACCTCAGCGTGTAA
128 AATTGAAAAATACCTCAACGTGT-A
*
8248557 GCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-AAAAACAGAAATTGAAAACAC
1 -CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAACAC
* * *
8248620 CTCAGCATGT-----GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA
65 CTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA
* *
8248680 TTGAGCACAAATTGAAAATACCTTAACGGGT-
130 TT--G-----A---AAAATACCTCAACGTGTA
* * ** * *
8248711 CTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTTG---ATGATAAATTGAAAATAC
1 C-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAACAC
* * ** * * *
8248772 CTCA--ATGTTACTTGAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAATTAAAACA
65 CTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-A--CAAACA
8248835 GAAATTGAAAA
126 GAAATTGAAAA
8248846 TAGAAATGGA
Statistics
Matches: 384, Mismatches: 32, Indels: 56
0.81 0.07 0.12
Matches are distributed among these distances:
146 17 0.04
148 34 0.09
149 5 0.01
150 107 0.28
152 36 0.09
153 46 0.12
154 43 0.11
155 61 0.16
156 22 0.06
157 2 0.01
159 11 0.03
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (151 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAACACC
TCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAAT
TGAAAAATACCTCAACGTGTA
Found at i:8248471 original size:75 final size:75
Alignment explanation
Indices: 8248252--8248845 Score: 595
Period size: 77 Copynumber: 7.8 Consensus size: 75
8248242 TTTAGCATGC
* *
8248252 CCCGAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTTTTTGAAAAACATAAATTGAAAACAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAACAC
*
8248317 TTCAGCGTGTGA
65 CTCAGCGTGT-A
**
8248329 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGATGAACAGAAATT-AAAACTAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAC-AC
*
8248392 CTCAACGTGT-
65 CTCAGCGTGTA
* * * *
8248402 CCTGAGGCTCAATTCACCTCTCGCAACATGAGTTGATTTTTTTGAAAAACAGAAGTTGAAAACAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAACAC
*
8248467 CTCAACGTGTGA
65 CTCAGCGTGT-A
* *
8248479 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAATA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTG-AAAACA
8248544 CCTCAGCGTGTAA
64 CCTCAGCGTGT-A
* *
8248557 GCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-AAAAACAGAAATTGAAAACACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACC
*
8248621 TCAGCATGT-
66 TCAGCGTGTA
8248630 ---GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAGCACAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC--------AG---AAA
* * * *
8248691 TTGAAAATACCTTAACGGGT-
55 TTGAAAACACCTCAGCGTGTA
** * ** * *
8248711 CTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTG---ATGATAAATTGAAAATACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACC
**
8248773 TCAATGT-TA
66 TCAGCGTGTA
** * *
8248782 CTTGAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAATTAAAACAGAAATTGAAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-A--AAAACAGAAATTGAAAA
8248846 TAGAAATGGA
Statistics
Matches: 443, Mismatches: 44, Indels: 60
0.81 0.08 0.11
Matches are distributed among these distances:
69 5 0.01
70 39 0.09
71 58 0.13
73 33 0.07
74 6 0.01
75 69 0.16
76 18 0.04
77 106 0.24
78 52 0.12
81 18 0.04
82 1 0.00
84 32 0.07
85 6 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (75 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACC
TCAGCGTGTA
Found at i:8248804 original size:71 final size:71
Alignment explanation
Indices: 8248688--8248825 Score: 206
Period size: 71 Copynumber: 1.9 Consensus size: 71
8248678 AATTGAGCAC
* * *
8248688 AAATTGAAAATACCTTAACGGGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTT
8248753 GATGAT
66 GATGAT
* * *
8248759 AAATTGAAAATACCTCAA-TGTTACTTGAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTT
1 AAATTGAAAATACCTCAACGGGT-CTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTT
8248823 TGA
65 TGA
8248826 ATTAAAACAG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 2 0.03
71 58 0.97
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTT
GATGAT
Found at i:8248898 original size:159 final size:152
Alignment explanation
Indices: 8248561--8248914 Score: 417
Period size: 159 Copynumber: 2.3 Consensus size: 152
8248551 GTGTAAGCCA
*
8248561 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAACACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT--GAACAGAAATTGAAAACACCTCAGC
* * *
8248626 ATGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAGCACAAA
64 ATGTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTGAACACAAA
* * *
8248691 TTGAAAATACCTTAACGGGTCTTG
129 TGGAAAACACCTTAACGCGTCTTG
* ** * *
8248715 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTGATGATAAATTGAAAATACCTCAATGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAGAAATTGAAAACACCTC-A-G-
* *
8248780 TACT-TGAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAATTAAAACAGAAATTGAA
63 CA-TGTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTG-A--AAAACAGAAATTG--
* *
8248844 AATAGAAATGGAAAACACCTT-A-GCGTCTTG
121 AACACAAATGGAAAACACCTTAACGCGTCTTG
* *
8248874 AGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
8248915 TTAAAACAGA
Statistics
Matches: 170, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
152 17 0.10
153 1 0.01
154 38 0.22
155 33 0.19
156 7 0.04
157 1 0.01
159 56 0.33
160 1 0.01
161 16 0.09
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (152 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAGAAATTGAAAACACCTCAGCAT
GTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTGAACACAAATG
GAAAACACCTTAACGCGTCTTG
Found at i:8248934 original size:88 final size:88
Alignment explanation
Indices: 8248782--8248999 Score: 400
Period size: 88 Copynumber: 2.5 Consensus size: 88
8248772 CTCAATGTTA
* * *
8248782 CTTGAGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAATTAAAACAGAAATTGAAAAT
1 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAATTAAAACAGAAATTAAAAAT
*
8248847 AGAAATGGAAAACACCTTAGCGT
66 AGAAATGGAAAACACCTCAGCGT
8248870 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAATTAAAACAGAAATTAAAAAT
1 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAATTAAAACAGAAATTAAAAAT
8248935 AGAAATGGAAAACACCTCAGCGT
66 AGAAATGGAAAACACCTCAGCGT
8248958 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
8249000 TGAAACACAT
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 126 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (88 bp):
CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAATTAAAACAGAAATTAAAAAT
AGAAATGGAAAACACCTCAGCGT
Found at i:8249223 original size:77 final size:74
Alignment explanation
Indices: 8249066--8249335 Score: 352
Period size: 77 Copynumber: 3.6 Consensus size: 74
8249056 TGGCTCTAGA
* **
8249066 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATA-AAATTGAAAATACCTCAGCG
*
8249131 TGTCCCGAGG
65 TGTCCTGAGG
*
8249141 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATAAAATAAAATTTGAAAATATCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGA-AAAATAAAA-TTGAAAATACCTCAG
8249206 CGTGTCCTGAGG
63 CGTGTCCTGAGG
*
8249218 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACA-AAAATTGAAATTACCTCA--
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAA-ATAAAATTGAAAATACCTCAGC
* *
8249278 GTATCTTGAGG
64 GTGTCCTGAGG
* *
8249289 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAATAAA
8249336 TTAAAAAAAC
Statistics
Matches: 175, Mismatches: 12, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
71 37 0.21
72 1 0.01
73 17 0.10
74 21 0.12
75 30 0.17
76 11 0.06
77 58 0.33
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (74 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAAAATTGAAAATACCTCAGCGT
GTCCTGAGG
Found at i:8249511 original size:99 final size:100
Alignment explanation
Indices: 8249340--8249717 Score: 566
Period size: 99 Copynumber: 3.8 Consensus size: 100
8249330 CATAAATTAA
*
8249340 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
8249404 TGA-TTTGAAAAGCAGAATTTGTAAGGAAAAAATTG
65 TGATTTTGAAAAGCAGAATTTGTAAGGAAAAAATTG
*
8249439 AAAAACAGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
8249504 GA-TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
66 GATTTTGAAAAGCAGAATTTGTAAGGAAAAAATTG
*
8249538 AAAAACAGAAATTGAAAATACGTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * * * *
8249603 GATTTTTGAAAAACAAAAATT-AAAAGTAGAAATTG
66 GA-TTTTGAAAAGCAGAATTTGTAAGGAAAAAATTG
* * * *
8249638 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
8249703 GATTTTTGAAAAGCA
66 GA-TTTTGAAAAGCA
8249718 TAAATTGAAA
Statistics
Matches: 258, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
99 159 0.62
100 85 0.33
101 14 0.05
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (100 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTGAAAAGCAGAATTTGTAAGGAAAAAATTG
Found at i:8249647 original size:14 final size:13
Alignment explanation
Indices: 8249611--8249655 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
8249601 TTGATTTTTG
*
8249611 AAAAACAAAAATT
1 AAAAACAGAAATT
**
8249624 AAAAGTAGAAATT
1 AAAAACAGAAATT
8249637 GAAAAACAGAAATT
1 -AAAAACAGAAATT
8249651 AAAAA
1 AAAAA
8249656 TACCTCGGCG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:8249703 original size:199 final size:199
Alignment explanation
Indices: 8249340--8249717 Score: 573
Period size: 199 Copynumber: 1.9 Consensus size: 199
8249330 CATAAATTAA
*
8249340 AAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACGAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * * * *
8249405 GATTTGAAAAGCAGAATTTGTAAGGAAAAAATTGAAAAACAGAAATTGAAAATACCTCAGTGTGC
66 GATTTGAAAAACAAAAATTGAAAAGAAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTGC
*
8249470 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTGAAAAGCAGAATTTGTAAGGCAAAA
131 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGCAGAATTTGTAAGGCAAAA
8249534 ATTG
196 ATTG
*
8249538 AAAAAC-AGAAATTGAAAATACGTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACGA-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
8249602 TGATTTTTGAAAAACAAAAATT-AAAAGTAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCG
65 TGA--TTTGAAAAACAAAAATTGAAAAGAAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCG
*
8249666 TGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCA
128 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAGCA
8249718 TAAATTGAAA
Statistics
Matches: 161, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
197 1 0.01
198 63 0.39
199 72 0.45
200 14 0.09
201 11 0.07
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (199 bp):
AAAAACGAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTGAAAAACAAAAATTGAAAAGAAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTGC
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGCAGAATTTGTAAGGCAAAA
ATTG
Found at i:8249733 original size:73 final size:74
Alignment explanation
Indices: 8249635--8249801 Score: 230
Period size: 73 Copynumber: 2.3 Consensus size: 74
8249625 AAAGTAGAAA
* * * * * *
8249635 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
8249700 GTTGA-TTT
66 GTTGATTTT
* * * *
8249708 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCACAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
8249773 GTTGATTTT
66 GTTGATTTT
8249782 TTGAAAAGCAT-AATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
8249802 AATGGAAATT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
73 68 0.83
74 14 0.17
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTT
Found at i:8249892 original size:90 final size:88
Alignment explanation
Indices: 8249719--8249892 Score: 235
Period size: 90 Copynumber: 2.0 Consensus size: 88
8249709 TGAAAAGCAT
* * *
8249719 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCACAATATGAGTTGATTTTTT
* *
8249784 GAAAAGCATAATTGAAAAAATGG
66 GAAAAGCAGAAATGAAAAAATGG
* *
8249807 AAATTGAAAATACCTCAGCGTGTGACTTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCCCAACTCACCTCTCACAATATGAGTTGA-TTT
8249872 TTTG-AAAGACAGAAAT-AAAAA
63 TTTGAAAAG-CAGAAATGAAAAA
8249893 CATTAAAATA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 22 0.29
90 41 0.55
91 12 0.16
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (88 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCACAATATGAGTTGATTTTTT
GAAAAGCAGAAATGAAAAAATGG
Found at i:8259866 original size:16 final size:15
Alignment explanation
Indices: 8259840--8259907 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
8259830 TGATGTGAAT
8259840 AATATAAAATATTAA
1 AATATAAAATATTAA
*
8259855 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
8259871 AATAATAATTAATATTGAA
1 AAT-ATAA--AATATT-AA
* *
8259890 AA-ATAAAAAAATAA
1 AATATAAAATATTAA
8259904 AATA
1 AATA
8259908 GAAATAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
14 4 0.09
15 10 0.23
16 14 0.33
17 6 0.14
18 6 0.14
19 3 0.07
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:8260041 original size:20 final size:20
Alignment explanation
Indices: 8259984--8260043 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
8259974 AATACTACAT
8259984 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
8260003 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
8260026 AAATATGTACATAATATA
1 AAATATGTACATAATATA
8260044 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:8260052 original size:25 final size:25
Alignment explanation
Indices: 8260024--8260165 Score: 116
Period size: 25 Copynumber: 5.8 Consensus size: 25
8260014 TGATAATATT
*
8260024 AAAAATATGTACATAATATAGTGTA
1 AAAAATATATACATAATATAGTGTA
* *
8260049 AAAAATACATACATAATATAAT-T-
1 AAAAATATATACATAATATAGTGTA
* *
8260072 -AAAATATATACATAAGATAACATGTA
1 AAAAATATATACATAATAT-A-GTGTA
* * *
8260098 AAAAATATATAAATAATATAGTATT
1 AAAAATATATACATAATATAGTGTA
*
8260123 AAAGATATATACATAA-ATA--GTA
1 AAAAATATATACATAATATAGTGTA
* * *
8260145 TAATATATATACGTAATATAG
1 AAAAATATATACATAATATAG
8260166 AATTTAGAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
22 30 0.32
23 4 0.04
24 6 0.06
25 36 0.39
26 1 0.01
27 16 0.17
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (25 bp):
AAAAATATATACATAATATAGTGTA
Found at i:8260228 original size:23 final size:25
Alignment explanation
Indices: 8260185--8260230 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8260175 TATACCTAAT
8260185 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
8260210 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
8260231 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:8260230 original size:45 final size:45
Alignment explanation
Indices: 8260016--8260230 Score: 131
Period size: 47 Copynumber: 4.6 Consensus size: 45
8260006 TAAATACGTG
*
8260016 ATAATATTAA-AAATATGTACATAATATAGTGTAAAAAATACATACATAAT
1 ATAATATTAAGAAATA--TACATAATATA--GTAAAAAAT--ATATATAAT
*
8260066 AT-A-ATTAA-AATATATACATAAGATAACATGTAAAAAATATATAAATAAT
1 ATAATATTAAGAA-ATATACAT-A-AT-ATA-GTAAAAAATATAT--ATAAT
* * * *
8260115 ATAGTATTAAAGATATATACATAA-ATAGTATAATATATATACGTAAT
1 ATAATATT-AAGAAATATACATAATATAGTAAAAAATATATA--TAAT
* * *
8260162 ATAGA-ATTTAG-AATATACCTAATATATTAAAAGAATATATATAAT
1 ATA-ATATTAAGAAATATACATAATATAGTAAAA-AATATATATAAT
8260207 ATAATATTAAGAAATATA-ATAATA
1 ATAATATTAAGAAATATACATAATA
8260231 ACAAAAAAAG
Statistics
Matches: 132, Mismatches: 16, Indels: 39
0.71 0.09 0.21
Matches are distributed among these distances:
44 1 0.01
45 27 0.20
46 15 0.11
47 36 0.27
48 10 0.08
49 23 0.17
50 5 0.04
51 4 0.03
52 10 0.08
53 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (45 bp):
ATAATATTAAGAAATATACATAATATAGTAAAAAATATATATAAT
Found at i:8260735 original size:30 final size:30
Alignment explanation
Indices: 8260698--8260796 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
8260688 TAGGTACAAG
* * *
8260698 TGGTGGTGAAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAATTGTGGCTAGTGGAGT
*
8260728 AGGTGGTGGAGCAATTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAATTGTGGCTAGTGGAGT
8260758 TGGTGGTGGAGCAATTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAATTGTGGCTAGTGGAGT
8260788 TGGTGGTGG
1 TGGTGGTGG
8260797 CAAAGGCTAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.18, C:0.06, G:0.47, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAATTGTGGCTAGTGGAGT
Found at i:8260756 original size:18 final size:18
Alignment explanation
Indices: 8260733--8260786 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
8260723 GGAGTAGGTG
8260733 GTGGAGCAATTGTGGCTA
1 GTGGAGCAATTGTGGCTA
*
8260751 GTGGAG----T-TGG-TG
1 GTGGAGCAATTGTGGCTA
8260763 GTGGAGCAATTGTGGCTA
1 GTGGAGCAATTGTGGCTA
8260781 GTGGAG
1 GTGGAG
8260787 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.19, C:0.07, G:0.46, T:0.28
Consensus pattern (18 bp):
GTGGAGCAATTGTGGCTA
Found at i:8266279 original size:62 final size:62
Alignment explanation
Indices: 8266193--8266366 Score: 260
Period size: 62 Copynumber: 2.8 Consensus size: 62
8266183 CTATACTTTG
* * *
8266193 AAAATGTCCAACGTGTTATATGAACTATCAATTTGTGTATTATTTGGTATGTATACTTTCAT
1 AAAATGTTCAATGTGATATATGAACTATCAATTTGTGTATTATTTGGTATGTATACTTTCAT
8266255 AAAATGTTCAATGTGATATATGAACTATCAATTTGTGTATTATTTGGTATGTATACTTTCAT
1 AAAATGTTCAATGTGATATATGAACTATCAATTTGTGTATTATTTGGTATGTATACTTTCAT
* * * *
8266317 AAAATGTTCAATCTGCTACT-TGAACTGTCAATTTGTGTACTATTATGGTA
1 AAAATGTTCAATGTGATA-TATGAACTATCAATTTGTGTATTATT-TGGTA
8266367 CCAGGAGTTA
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
62 97 0.94
63 6 0.06
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (62 bp):
AAAATGTTCAATGTGATATATGAACTATCAATTTGTGTATTATTTGGTATGTATACTTTCAT
Found at i:8268707 original size:24 final size:24
Alignment explanation
Indices: 8268672--8268725 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
8268662 TTACATTATA
*
8268672 CAATCCAA-TTCAT-ATATCATTT
1 CAATTCAATTTCATAATATCATTT
*
8268694 CACATTCAATTTCATAATCTCATTT
1 CA-ATTCAATTTCATAATATCATTT
8268719 CAATTCA
1 CAATTCA
8268726 TCATCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.07
23 5 0.19
24 10 0.37
25 10 0.37
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (24 bp):
CAATTCAATTTCATAATATCATTT
Found at i:8269832 original size:15 final size:15
Alignment explanation
Indices: 8269812--8269863 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
8269802 ACTACAAAAC
8269812 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
8269827 ATTTATAATTTTAATAAAT
1 ATTTAT--TATTAAT--AT
*
8269846 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
8269861 ATT
1 ATT
8269864 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
17 11 0.37
19 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:8269984 original size:22 final size:22
Alignment explanation
Indices: 8269944--8269999 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
8269934 AATAAAATTG
*
8269944 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
8269964 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
8269986 TATTAATAATTTAT
1 AAATAATAAATTAT
8270000 TATATGAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:8269999 original size:16 final size:16
Alignment explanation
Indices: 8269978--8270010 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8269968 AATAAATTAT
*
8269978 ATTTATTATATTAATA
1 ATTTATTATATGAATA
8269994 ATTTATTATATGAATA
1 ATTTATTATATGAATA
8270010 A
1 A
8270011 ATATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:8272285 original size:30 final size:31
Alignment explanation
Indices: 8272232--8272292 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
8272222 TGGTCATAAG
* *
8272232 AATTGTTCAACTAGAGAATTTGATTAAAGAA
1 AATTGGTCAAATAGAGAATTTGATTAAAGAA
*
8272263 AATTGGTCAAATAGATAA-TTGATTAAAGAA
1 AATTGGTCAAATAGAGAATTTGATTAAAGAA
8272293 TTTTCTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.31
Consensus pattern (31 bp):
AATTGGTCAAATAGAGAATTTGATTAAAGAA
Found at i:8272842 original size:24 final size:25
Alignment explanation
Indices: 8272801--8272847 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
8272791 AATATTAAAT
8272801 TTAATCTAATACTTAAGT-ATTATA
1 TTAATCTAATACTTAAGTGATTATA
*
8272825 TTAATTTAATA-TTAAAGTGATTA
1 TTAATCTAATACTT-AAGTGATTA
8272848 AATTTGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.70
25 4 0.20
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (25 bp):
TTAATCTAATACTTAAGTGATTATA
Found at i:8279161 original size:20 final size:21
Alignment explanation
Indices: 8279114--8279162 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
8279104 ATATGCATAG
*
8279114 CGTATAT-ATAAAAACGTATA
1 CGTATATAATAAAAACATATA
*
8279134 CGTAATATAATAAAAATATATA
1 CGT-ATATAATAAAAACATATA
8279156 -GTATATA
1 CGTATATA
8279163 CATACATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 6 0.24
22 11 0.44
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (21 bp):
CGTATATAATAAAAACATATA
Found at i:8281250 original size:42 final size:41
Alignment explanation
Indices: 8281126--8281250 Score: 178
Period size: 42 Copynumber: 3.0 Consensus size: 41
8281116 CGTGACTTCA
* *
8281126 ATCAATCCTATTGAAACTTCAAGGAGATCTTGCTGTGGCTTCG
1 ATCAATCC-ACTGAAACTTCAAGGAGATC-TGCTGTGGCTTTG
* * *
8281169 ATTAATCCACTAAAACTTCAAGGAGATCTGCTGTAGCTTTG
1 ATCAATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTG
8281210 ATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTT
1 ATCAA-TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTT
8281251 TAGCTGCTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
41 15 0.21
42 51 0.70
43 7 0.10
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (41 bp):
ATCAATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTG
Found at i:8281435 original size:43 final size:42
Alignment explanation
Indices: 8281341--8281447 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
8281331 CATCATTGAT
* *
8281341 CTGTTTCCCTACTGCTTAGGGGTTTAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGTTTAGATCTGAAAATTCAAC
* * ***
8281383 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGAAAATTTGGC
1 CTGTTACCCTACTGCTTAGGGGTTT-AGATCTGAAAATTCAAC
* *
8281426 TTGTTACCCTATTGCTTAGGGG
1 CTGTTACCCTACTGCTTAGGGG
8281448 GTTGAAGCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
42 24 0.44
43 31 0.56
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGTTTAGATCTGAAAATTCAAC
Found at i:8281846 original size:43 final size:43
Alignment explanation
Indices: 8281778--8281868 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
8281768 TACATTTAGC
* *
8281778 CTGCTCCACTGCGACTTCAAGGAGATGAGACTTGTAACTTCAGT
1 CTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTCA-T
* * *
8281822 CTGCTCCACTGC-ACTTCAGGGAGATAAGGCTAGTGACTTCAT
1 CTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTCAT
8281864 CTGCT
1 CTGCT
8281869 TCGCTGAGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 6 0.14
43 24 0.57
44 12 0.29
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (43 bp):
CTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTCAT
Found at i:8294001 original size:20 final size:21
Alignment explanation
Indices: 8293954--8294002 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
8293944 ATATGCATAG
*
8293954 CGTATAT-ATAAAAACGTATA
1 CGTATATAATAAAAACATATA
*
8293974 CGTAATATAATAAAAATATATA
1 CGT-ATATAATAAAAACATATA
8293996 -GTATATA
1 CGTATATA
8294003 CATACATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 6 0.24
22 11 0.44
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (21 bp):
CGTATATAATAAAAACATATA
Found at i:8302506 original size:10 final size:10
Alignment explanation
Indices: 8302479--8302542 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
8302469 ATATTGATAA
8302479 AAATTTTCTA-
1 AAATTTT-TAT
8302489 AAAGTTTTTAT
1 AAA-TTTTTAT
*
8302500 AAATTTTTTT
1 AAATTTTTAT
8302510 AAAATTTTT-T
1 -AAATTTTTAT
*
8302520 --ATTTTTTT
1 AAATTTTTAT
8302528 AAATTTTTAT
1 AAATTTTTAT
8302538 AAATT
1 AAATT
8302543 ATACGTGGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
7 6 0.13
8 1 0.02
10 24 0.52
11 15 0.33
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (10 bp):
AAATTTTTAT
Found at i:8302525 original size:18 final size:17
Alignment explanation
Indices: 8302502--8302535 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
8302492 GTTTTTATAA
8302502 ATTTTTTTAAAATTTTTT
1 ATTTTTTT-AAATTTTTT
8302520 ATTTTTTTAAATTTTT
1 ATTTTTTTAAATTTTT
8302536 ATAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTTAAATTTTTT
Found at i:8306213 original size:49 final size:49
Alignment explanation
Indices: 8306116--8306241 Score: 182
Period size: 49 Copynumber: 2.6 Consensus size: 49
8306106 AGATGCCGAC
*
8306116 GCCATGTCCCAGACATAGTCTTACACTGGCTTTCATATAGCGAGGTCGAT
1 GCCATGTCCCAGACA-AGTCTTACACTGGCTCTCATATAGCGAGGTCGAT
* * *
8306166 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGAT
1 GCCATGTCCCAGACAAGTCTTACACTGGCTCTCATATAGCGAG-GTCGAT
*
8306215 GCCATGTCCAAGACAAGTCTTACACTG
1 GCCATGTCCCAGACAAGTCTTACACTG
8306242 ACACACAACA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.01
49 53 0.77
50 15 0.22
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAAGTCTTACACTGGCTCTCATATAGCGAGGTCGAT
Found at i:8306369 original size:46 final size:45
Alignment explanation
Indices: 8306309--8306427 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 45
8306299 GAAGCTGATG
* *
8306309 CATGTCCTAGACATGTCTTACACTAGCTCTCGT-CTCAATGCCGT-TA
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATGCT--ATGCC-TATA
* * * *
8306355 CATGTCCCAGACATGTCTTACACTGGCTCTCATGCTGTGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATGCTATGCCT-ATA
8306401 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
8306428 GCACGTATCA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
44 1 0.02
45 3 0.05
46 57 0.90
47 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATGCTATGCCTATA
Found at i:8315869 original size:33 final size:33
Alignment explanation
Indices: 8315831--8315922 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
8315821 GAAGTGTACA
8315831 TTCCTTTCCAAGTGGTATACACAAAGTATACCT
1 TTCCTTTCCAAGTGGTATACACAAAGTATACCT
* *
8315864 TTCCTTTTCATA-TGGTATACACAAAATATACCT
1 TTCCTTTCCA-AGTGGTATACACAAAGTATACCT
** *
8315897 AACCTTTCCAAGT-GTACACACAAAGT
1 TTCCTTTCCAAGTGGTATACACAAAGT
8315923 GTACATAGCC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 12 0.24
33 37 0.74
34 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.33
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTATACACAAAGTATACCT
Found at i:8315935 original size:32 final size:33
Alignment explanation
Indices: 8315822--8315935 Score: 108
Period size: 33 Copynumber: 3.5 Consensus size: 33
8315812 TGTACACTTG
*
8315822 AAGTGTACAT-TCCTTTCCAAGTGGTATACACA
1 AAGTATACATATCCTTTCCAAGTGGTATACACA
* * *
8315854 AAGTATACCTTTCCTTTTCATA-TGGTATACACA
1 AAGTATACATATCCTTTCCA-AGTGGTATACACA
* * * *
8315887 AAATATACCTAACCTTTCCAAGT-GTACACACA
1 AAGTATACATATCCTTTCCAAGTGGTATACACA
* *
8315919 AAGTGTACATAGCCTTT
1 AAGTATACATATCCTTT
8315936 TCAAATTGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
32 30 0.45
33 36 0.54
34 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (33 bp):
AAGTATACATATCCTTTCCAAGTGGTATACACA
Found at i:8316668 original size:20 final size:22
Alignment explanation
Indices: 8316626--8316673 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
8316616 TGTATAAGTG
*
8316626 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
8316648 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
8316668 AATTTA
1 -ATTTA
8316674 CAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:8317144 original size:13 final size:13
Alignment explanation
Indices: 8317126--8317151 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8317116 ACACATAATT
8317126 GATAAAATTTTTC
1 GATAAAATTTTTC
8317139 GATAAAATTTTTC
1 GATAAAATTTTTC
8317152 ATGCAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
GATAAAATTTTTC
Found at i:8323426 original size:33 final size:33
Alignment explanation
Indices: 8323387--8323495 Score: 157
Period size: 33 Copynumber: 3.3 Consensus size: 33
8323377 GAAGTGTACA
8323387 TTCCTTTCCA-AGTGGTATACATAAAGTATACCT
1 TTCCTTTCCATA-TGGTATACATAAAGTATACCT
*
8323420 TTCCTTTTCATATGGTATACATAAAGTATACCT
1 TTCCTTTCCATATGGTATACATAAAGTATACCT
* *
8323453 TTCCTTTTCATATGGTATACACAAAGTATACCT
1 TTCCTTTCCATATGGTATACATAAAGTATACCT
**
8323486 AACCTTTCCA
1 TTCCTTTCCA
8323496 AGTGTACACA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
33 69 0.99
34 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (33 bp):
TTCCTTTCCATATGGTATACATAAAGTATACCT
Found at i:8324256 original size:20 final size:22
Alignment explanation
Indices: 8324214--8324261 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
8324204 TGTATAAGTG
*
8324214 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
8324236 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
8324256 AATTTA
1 -ATTTA
8324262 CAGCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:8331195 original size:43 final size:43
Alignment explanation
Indices: 8331104--8331204 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
8331094 AGCGAGATGT
* * * * *
8331104 GATTACATGTAAGACCATGTCTGGAACATTGGCATTGTATTGC
1 GATTACGTGTAAGACCATGTCTGGAACATCGACATCGTAATGC
* *
8331147 AATTACGTGTAAGACCATGTCTGGGACATCGACATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGAACATCGACATCG-TAATGC
8331190 GATTACGTGTAAGAC
1 GATTACGTGTAAGAC
8331205 TGTAACAGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 46 0.94
44 3 0.06
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGAACATCGACATCGTAATGC
Found at i:8334455 original size:186 final size:186
Alignment explanation
Indices: 8334141--8334515 Score: 732
Period size: 186 Copynumber: 2.0 Consensus size: 186
8334131 TTACTGGTCA
8334141 TATATATATAAGTTCGCAAATTTGTATAAATCATTTATATTAGTCGAATGGACTAGAAAATGAAA
1 TATATATATAAGTTCGCAAATTTGTATAAATCATTTATATTAGTCGAATGGACTAGAAAATGAAA
8334206 TGAGTTTATTTATAACCGAAAGTTAATATTATTTGGTAATGATGTGTGATATATATATTAAAGAT
66 TGAGTTTATTTATAACCGAAAGTTAATATTATTTGGTAATGATGTGTGATATATATATTAAAGAT
8334271 TCGTATAAATTGTTATTTTACTAGTGTCGCATATATGAAATTGTTCTTGTGATATG
131 TCGTATAAATTGTTATTTTACTAGTGTCGCATATATGAAATTGTTCTTGTGATATG
*
8334327 TATATATATAAGTTCGTAAATTTGTATAAATCATTTATATTAGTCGAATGGACTAGAAAATGAAA
1 TATATATATAAGTTCGCAAATTTGTATAAATCATTTATATTAGTCGAATGGACTAGAAAATGAAA
*
8334392 TGAGTTTATTTATAATCGAAAGTTAATATTATTTGGTAATGATGTGTGATATATATATTAAAGAT
66 TGAGTTTATTTATAACCGAAAGTTAATATTATTTGGTAATGATGTGTGATATATATATTAAAGAT
8334457 TCGTATAAATTGTTATTTTACTAGTGTCGCATATATGAAATTGTTCTTGTGATATG
131 TCGTATAAATTGTTATTTTACTAGTGTCGCATATATGAAATTGTTCTTGTGATATG
8334513 TAT
1 TAT
8334516 GCTATTAATG
Statistics
Matches: 187, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 187 1.00
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (186 bp):
TATATATATAAGTTCGCAAATTTGTATAAATCATTTATATTAGTCGAATGGACTAGAAAATGAAA
TGAGTTTATTTATAACCGAAAGTTAATATTATTTGGTAATGATGTGTGATATATATATTAAAGAT
TCGTATAAATTGTTATTTTACTAGTGTCGCATATATGAAATTGTTCTTGTGATATG
Found at i:8340521 original size:53 final size:52
Alignment explanation
Indices: 8340368--8340521 Score: 143
Period size: 53 Copynumber: 2.9 Consensus size: 52
8340358 GATAAGCGAT
* * * * * * *
8340368 ATCCGTATAAGAACATAACTGGGCTATGGCATCTGAAAACAA-AAGATAAGTG
1 ATCCGTATAAGACCATAGCTGGGCTATGGTATC-GAGAATAATGATATAAGTG
* *
8340420 ATTTCCGTATAAGACCATAGCTGGGCTATGGCT-TCG-GATTAGTGTGATATAAGTG
1 A--TCCGTATAAGACCATAGCTGGGCTATGG-TATCGAGAATA--ATGATATAAGTG
8340475 ATCCGTATAAGACCATAGCTGGGCTATGGTATCAGAGAATAATGATA
1 ATCCGTATAAGACCATAGCTGGGCTATGGTATC-GAGAATAATGATA
8340522 AGTGCTCCCA
Statistics
Matches: 82, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
52 4 0.05
53 36 0.44
54 29 0.35
55 13 0.16
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (52 bp):
ATCCGTATAAGACCATAGCTGGGCTATGGTATCGAGAATAATGATATAAGTG
Found at i:8341485 original size:13 final size:13
Alignment explanation
Indices: 8341467--8341494 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8341457 ACATGGGCGA
8341467 GTGCCCAGGCCGT
1 GTGCCCAGGCCGT
8341480 GTGCCCAGGCCGT
1 GTGCCCAGGCCGT
8341493 GT
1 GT
8341495 ACCCCTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.36, G:0.39, T:0.18
Consensus pattern (13 bp):
GTGCCCAGGCCGT
Found at i:8348078 original size:52 final size:52
Alignment explanation
Indices: 8347940--8348090 Score: 162
Period size: 53 Copynumber: 2.8 Consensus size: 52
8347930 ATAAGTGATT
* * *
8347940 TCCGTATAAGACCATAGCTGGGCTATGGCTTCGGATTAATGTGATACAAGTGA
1 TCCGTATAAGACCATAGCTGGGCTATGGCATCGGATGAATATGATA-AAGTGA
* * *
8347993 TCCGTATAAAACCATAGCTGGGCTATGGTATCGGA-GAATAATGAT-AAGTGC
1 TCCGTATAAGACCATAGCTGGGCTATGGCATCGGATGAAT-ATGATAAAGTGA
* * *
8348044 TCCCGTGTAAGACCATATCTGGGATATGGCATCGGTATGATATATGA
1 T-CCGTATAAGACCATAGCTGGGCTATGGCATCGG-ATGA-ATATGA
8348091 CTCGTGTAAG
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
51 6 0.07
52 31 0.38
53 37 0.45
54 6 0.07
55 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (52 bp):
TCCGTATAAGACCATAGCTGGGCTATGGCATCGGATGAATATGATAAAGTGA
Found at i:8362146 original size:16 final size:16
Alignment explanation
Indices: 8362125--8362164 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8362115 TAGAGTTTAG
8362125 ATAATTTTAAATTCGA
1 ATAATTTTAAATTCGA
* *
8362141 ATAATTATAAATTTGA
1 ATAATTTTAAATTCGA
8362157 ATAATTTT
1 ATAATTTT
8362165 TTAACTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (16 bp):
ATAATTTTAAATTCGA
Found at i:8368383 original size:14 final size:14
Alignment explanation
Indices: 8368364--8368405 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
8368354 GCTTACCTAA
8368364 TTGTGCAAGTTGTG
1 TTGTGCAAGTTGTG
**
8368378 TTGTGCAAGTTGCA
1 TTGTGCAAGTTGTG
*
8368392 ATGTGCAAGTTGTG
1 TTGTGCAAGTTGTG
8368406 CAAGTTGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.19, C:0.10, G:0.33, T:0.38
Consensus pattern (14 bp):
TTGTGCAAGTTGTG
Found at i:8375617 original size:14 final size:14
Alignment explanation
Indices: 8375598--8375624 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8375588 TATTAAAGCA
8375598 ATAATTAAGAACAC
1 ATAATTAAGAACAC
8375612 ATAATTAAGAACA
1 ATAATTAAGAACA
8375625 AATCAAGTAT
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:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:8378155 original size:26 final size:27
Alignment explanation
Indices: 8378117--8378169 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
8378107 AAAGTAATTT
*
8378117 AAAAAAAAGATAAATAA-AGATAAAAG
1 AAAAAAAAGATAAATAATAAATAAAAG
8378143 AAAAAAATA-ATAAATAATAAATAAAAG
1 AAAAAAA-AGATAAATAATAAATAAAAG
8378170 TCTTCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (27 bp):
AAAAAAAAGATAAATAATAAATAAAAG
Found at i:8390955 original size:13 final size:13
Alignment explanation
Indices: 8390937--8390962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8390927 GCATCAAGAC
8390937 AAATAATATCATA
1 AAATAATATCATA
8390950 AAATAATATCATA
1 AAATAATATCATA
8390963 CCCCTGCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATAATATCATA
Found at i:8403822 original size:1 final size:1
Alignment explanation
Indices: 8403790--8403815 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8403780 CACTGCATAG
8403790 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
8403816 AGTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8415826 original size:26 final size:25
Alignment explanation
Indices: 8415772--8415822 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8415762 GAACTATGAG
8415772 TAAATTTTTATTTTGGTCACTTAAT
1 TAAATTTTTATTTTGGTCACTTAAT
8415797 TAAATTTTTATTTTGGTCACTTAAT
1 TAAATTTTTATTTTGGTCACTTAAT
8415822 T
1 T
8415823 TAAAAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (25 bp):
TAAATTTTTATTTTGGTCACTTAAT
Found at i:8422678 original size:19 final size:20
Alignment explanation
Indices: 8422654--8422698 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
8422644 TAAATCTAAG
8422654 AAATAACTAAAAAG-AAATA
1 AAATAACTAAAAAGAAAATA
* **
8422673 AAATAATTATTAAGAAAATA
1 AAATAACTAAAAAGAAAATA
8422693 AAATAA
1 AAATAA
8422699 GCAACTAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (20 bp):
AAATAACTAAAAAGAAAATA
Found at i:8425103 original size:3 final size:3
Alignment explanation
Indices: 8425089--8425156 Score: 50
Period size: 3 Copynumber: 22.3 Consensus size: 3
8425079 TTCAATTTTG
* **
8425089 TAT TAT TCAT TAT TAT TGT TAT TAT TAT TAT TGC TAT T-T ATAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* *
8425135 CAT T-T TCAT CAT TAT TAT TAT T
1 TAT TAT T-AT TAT TAT TAT TAT T
8425157 GTTCATGCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
2 3 0.06
3 42 0.84
4 5 0.10
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:8425169 original size:19 final size:17
Alignment explanation
Indices: 8425128--8425175 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
8425118 ATTGCTATTT
8425128 ATATTATCATTTTCATC
1 ATATTATCATTTTCATC
*
8425145 ATTATTATTATTGTTCATGC
1 A-TATTATCATT-TTCAT-C
*
8425165 ATATTAACATT
1 ATATTATCATT
8425176 ATGATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 9 0.36
19 13 0.52
20 2 0.08
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.52
Consensus pattern (17 bp):
ATATTATCATTTTCATC
Found at i:8429169 original size:3 final size:3
Alignment explanation
Indices: 8429161--8429188 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8429151 ACTAATGTAC
8429161 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8429189 TTGAAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8429678 original size:11 final size:12
Alignment explanation
Indices: 8429664--8429699 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
8429654 AAGAAAAAAA
8429664 GAAGAGAG-AGG
1 GAAGAGAGAAGG
8429675 GAAGAGAGAAGG
1 GAAGAGAGAAGG
8429687 G-AGAGAGAAGG
1 GAAGAGAGAAGG
8429698 GA
1 GA
8429700 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:8430252 original size:35 final size:35
Alignment explanation
Indices: 8430207--8430275 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
8430197 GGGTGTGTGA
8430207 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
8430242 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
8430276 AGAGGCAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.12, G:0.51, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:8437416 original size:13 final size:13
Alignment explanation
Indices: 8437398--8437465 Score: 75
Period size: 13 Copynumber: 5.2 Consensus size: 13
8437388 CCAGTTTGGC
8437398 AATGCTTTTGAGA
1 AATGCTTTTGAGA
8437411 AATGCTTTTGAGA
1 AATGCTTTTGAGA
* * *
8437424 AGTGCTGTGGA-A
1 AATGCTTTTGAGA
8437436 AAGTGCTTTTGAGA
1 AA-TGCTTTTGAGA
* *
8437450 AGTGCTTTTGAAA
1 AATGCTTTTGAGA
8437463 AAT
1 AAT
8437466 TTAAGTGTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (13 bp):
AATGCTTTTGAGA
Found at i:8437429 original size:26 final size:25
Alignment explanation
Indices: 8437400--8437463 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 25
8437390 AGTTTGGCAA
8437400 TGCTTTTGAGAAATGCTTTTGAGAAG
1 TGCTTTTGA-AAATGCTTTTGAGAAG
* *
8437426 TGCTGTGGAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAA-TGCTTTTGAGAAG
8437452 TGCTTTTGAAAA
1 TGCTTTTGAAAA
8437464 ATTTAAGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 3 0.09
26 30 0.91
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (25 bp):
TGCTTTTGAAAATGCTTTTGAGAAG
Found at i:8441705 original size:12 final size:11
Alignment explanation
Indices: 8441684--8441722 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
8441674 TTAATACATG
8441684 ATATAAAAATA
1 ATATAAAAATA
8441695 ATATCAAAAATA
1 ATAT-AAAAATA
*
8441707 ATATGAAAATA
1 ATATAAAAATA
8441718 ATATA
1 ATATA
8441723 TTTTAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:8441747 original size:18 final size:16
Alignment explanation
Indices: 8441715--8441760 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
8441705 TAATATGAAA
8441715 ATAATATATTTTAATT
1 ATAATATATTTTAATT
*
8441731 ATAATATA-TTTAATA
1 ATAATATATTTTAATT
*
8441746 ATAAT-TATGTTAATT
1 ATAATATATTTTAATT
8441761 TATATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 2 0.08
15 16 0.62
16 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATAATATATTTTAATT
Found at i:8441842 original size:37 final size:39
Alignment explanation
Indices: 8441794--8442081 Score: 114
Period size: 38 Copynumber: 7.3 Consensus size: 39
8441784 ATTATTTGAG
8441794 TAAATTCATATAAGAATAT-TAAT-TATTAAGAATTTTAT
1 TAAATT-ATATAAGAATATATAATATATTAAGAATTTTAT
** * *
8441832 TAAATTATATATTTTAAT-TATAATATATTTAATAATAATTAT
1 TAAATTATATA--AGAATATATAATATA-TTAAGAAT-TTTAT
* *** * * * *
8441874 GTTAATT-TATATTTATAGTATCATATATTATG-ATTTCAG
1 -TAAATTATATAAGAATA-TATAATATATTAAGAATTTTAT
*
8441913 TAAATTCATATAAGAATAT-T-ATTTATTAAGAATTTTAT
1 TAAATT-ATATAAGAATATATAATATATTAAGAATTTTAT
** * *
8441951 TAAATTATATATTTTAAT-TATAATATATTTAATAATAATTAT
1 TAAATTATATA--AGAATATATAATATA-TTAAGAAT-TTTAT
* *** * * * *
8441993 GTTAATT-TATATTTTATAGTATCATATATTATG-ATTTCAG
1 -TAAATTATATA-AGAATA-TATAATATATTAAGAATTTTAT
*
8442033 TAAATTCATATAAGAATAT-T-ATTTATTAAGAATTTTAT
1 TAAATT-ATATAAGAATATATAATATATTAAGAATTTTAT
8442071 TAAATTATATA
1 TAAATTATATA
8442082 TTTTAATTAT
Statistics
Matches: 185, Mismatches: 41, Indels: 49
0.67 0.15 0.18
Matches are distributed among these distances:
37 31 0.17
38 37 0.20
39 20 0.11
40 24 0.13
41 28 0.15
42 27 0.15
43 18 0.10
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (39 bp):
TAAATTATATAAGAATATATAATATATTAAGAATTTTAT
Found at i:8441864 original size:15 final size:15
Alignment explanation
Indices: 8441829--8441880 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
8441819 TTAAGAATTT
*
8441829 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8441843 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8441857 TATTTAATAATAAT-
1 TATTTAATTATAATA
8441871 TATGTTAATT
1 TAT-TTAATT
8441881 TATATTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:8441983 original size:15 final size:15
Alignment explanation
Indices: 8441948--8441999 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
8441938 TTAAGAATTT
*
8441948 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8441962 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8441976 TATTTAATAATAAT-
1 TATTTAATTATAATA
8441990 TATGTTAATT
1 TAT-TTAATT
8442000 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:8442076 original size:120 final size:120
Alignment explanation
Indices: 8441713--8442115 Score: 763
Period size: 120 Copynumber: 3.4 Consensus size: 120
8441703 AATAATATGA
*
8441713 AAATAATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
* * *
8441778 TATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
66 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
8441833 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATA-TTTATAGTATCA
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
8441897 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
66 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
8441952 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
8442017 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
66 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
8442072 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
8442116 TAAATATGAT
Statistics
Matches: 278, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
119 116 0.42
120 162 0.58
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
Found at i:8442081 original size:61 final size:61
Alignment explanation
Indices: 8441896--8442083 Score: 210
Period size: 61 Copynumber: 3.1 Consensus size: 61
8441886 TTATAGTATC
8441896 ATATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATT
* * * * * * *
8441957 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTCAGTAAAT-TCATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
*
8442015 C
61 T
8442016 ATATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATT
8442077 ATATATT
1 ATATATT
8442084 TTAATTATAA
Statistics
Matches: 99, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
57 11 0.11
58 9 0.09
59 18 0.18
60 16 0.16
61 25 0.25
62 9 0.09
63 11 0.11
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (61 bp):
ATATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAATT
Found at i:8442098 original size:16 final size:16
Alignment explanation
Indices: 8442077--8442118 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8442067 TTATTAAATT
*
8442077 ATATATTTTAATTATA
1 ATATATTTTAATAATA
8442093 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
8442108 AT-TATGTTTAA
1 ATATAT-TTTAA
8442119 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:8442103 original size:15 final size:15
Alignment explanation
Indices: 8442068--8442109 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8442058 TTAAGAATTT
*
8442068 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8442082 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8442096 TATTTAATAATAAT
1 TATTTAATTATAAT
8442110 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:8442377 original size:16 final size:16
Alignment explanation
Indices: 8442345--8442396 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
8442335 ATACCTCTAA
8442345 TCCATTAC-ACTTCTAT
1 TCCATTACGACTT-TAT
*
8442361 TCCATTACGCCTTTAT
1 TCCATTACGACTTTAT
* *
8442377 TCCATTACGTCTCTAT
1 TCCATTACGACTTTAT
8442393 TCCA
1 TCCA
8442397 ATACAGCGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 29 0.91
17 3 0.09
ACGTcount: A:0.21, C:0.33, G:0.04, T:0.42
Consensus pattern (16 bp):
TCCATTACGACTTTAT
Found at i:8443811 original size:3 final size:3
Alignment explanation
Indices: 8443796--8443830 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
8443786 CTCAATTTGT
*
8443796 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8443831 TTAACTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8446074 original size:24 final size:24
Alignment explanation
Indices: 8446014--8446074 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
8446004 AAATTAGTAT
8446014 ATTATTTACAAATATCATTATATTAA
1 ATTATTTA-AAATATCATTATATT-A
8446040 ATTATTT-AAATATCATTTATCATT-
1 ATTATTTAAAATATCA-TTAT-ATTA
8446064 A-TATTTAAAAT
1 ATTATTTAAAAT
8446075 TTTAAACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
23 5 0.16
24 13 0.41
25 4 0.12
26 10 0.31
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTATTTAAAATATCATTATATTA
Found at i:8456406 original size:21 final size:21
Alignment explanation
Indices: 8456377--8456416 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8456367 AGTCGCATAA
*
8456377 TTTATAGTTAATATTGAAAAT
1 TTTACAGTTAATATTGAAAAT
8456398 TTTACAGTTAATATTGAAA
1 TTTACAGTTAATATTGAAA
8456417 TTAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (21 bp):
TTTACAGTTAATATTGAAAAT
Found at i:8456576 original size:18 final size:18
Alignment explanation
Indices: 8456553--8456612 Score: 72
Period size: 17 Copynumber: 3.4 Consensus size: 18
8456543 ATAAATTGTA
*
8456553 ATTGTAATTATATAATTT
1 ATTGTAATAATATAATTT
*
8456571 ATTGTAA-AATATAGTTT
1 ATTGTAATAATATAATTT
8456588 ATT-TAATAATATATATTT
1 ATTGTAATAATATA-ATTT
8456606 -TTGTAAT
1 ATTGTAAT
8456613 CTAATTCCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 3 0.08
17 19 0.53
18 14 0.39
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
ATTGTAATAATATAATTT
Found at i:8458641 original size:29 final size:29
Alignment explanation
Indices: 8458609--8458665 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
8458599 ACACCCTAGT
8458609 AAGGACTAGGGTTTGTCTCCCCTCACACC
1 AAGGACTAGGGTTTGTCTCCCCTCACACC
8458638 AAGGACTAGGGTTTGTCTCCCCTCACAC
1 AAGGACTAGGGTTTGTCTCCCCTCACAC
8458666 GACGGGATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (29 bp):
AAGGACTAGGGTTTGTCTCCCCTCACACC
Found at i:8464213 original size:23 final size:24
Alignment explanation
Indices: 8464185--8464241 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
8464175 AATACTCTTA
8464185 AAAACCCAA-AC-CTATTAAAATTT
1 AAAACCCAATACTC-ATTAAAATTT
*
8464208 AAAACCCAATACTCATTAATATTT
1 AAAACCCAATACTCATTAAAATTT
8464232 AAAACCCAAT
1 AAAACCCAAT
8464242 TTGATGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 9 0.29
24 21 0.68
25 1 0.03
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAACCCAATACTCATTAAAATTT
Found at i:8465119 original size:23 final size:21
Alignment explanation
Indices: 8465064--8465141 Score: 111
Period size: 21 Copynumber: 3.6 Consensus size: 21
8465054 ACATAAGTGT
*
8465064 CTGAAACGACACACGAGGTGC
1 CTGATACGACACACGAGGTGC
* *
8465085 TTGATATGACACACGAGGTGC
1 CTGATACGACACACGAGGTGC
8465106 CTGATACGACACACGAGGTGC
1 CTGATACGACACACGAGGTGC
8465127 CTGAAATACGACACA
1 CTG--ATACGACACA
8465142 TAAAGTGCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
21 40 0.80
23 10 0.20
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (21 bp):
CTGATACGACACACGAGGTGC
Found at i:8465149 original size:23 final size:22
Alignment explanation
Indices: 8465052--8465153 Score: 75
Period size: 21 Copynumber: 4.7 Consensus size: 22
8465042 TCAGTATACA
*
8465052 ACACATAAGTGTCTGAA-ACGAC
1 ACACA-AAGTGCCTGAATACGAC
* * * *
8465074 ACACGAGGTGCTTG-ATATGAC
1 ACACAAAGTGCCTGAATACGAC
* *
8465095 ACACGAGGTGCCTG-ATACGAC
1 ACACAAAGTGCCTGAATACGAC
* *
8465116 ACACGAGGTGCCTGAAATACGAC
1 ACACAAAGTGCCTG-AATACGAC
*
8465139 ACATAAAGTGCCTGA
1 ACACAAAGTGCCTGA
8465154 TCGGCAAAGC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
20 1 0.01
21 43 0.64
22 5 0.07
23 18 0.27
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.18
Consensus pattern (22 bp):
ACACAAAGTGCCTGAATACGAC
Found at i:8465473 original size:44 final size:44
Alignment explanation
Indices: 8465420--8465511 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
8465410 CAGAAGTAAC
* * * *
8465420 AGTAGCAGTACGACTCACATGGTGCCTCATCGATTCGAA-GTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTC-AAGGTCGA
**
8465464 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
8465508 AGTA
1 AGTA
8465512 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:8466822 original size:25 final size:25
Alignment explanation
Indices: 8466794--8466845 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
8466784 TTTGGCTTGA
**
8466794 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
8466819 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
8466844 CA
1 CA
8466846 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:8469574 original size:20 final size:20
Alignment explanation
Indices: 8469537--8469577 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8469527 TTTTTAAGTC
** *
8469537 ATTTTAAAGGAAATTTTAAA
1 ATTTTAAAACAAAGTTTAAA
8469557 ATTTTAAAACAAAGTTTAAA
1 ATTTTAAAACAAAGTTTAAA
8469577 A
1 A
8469578 ATAAAAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (20 bp):
ATTTTAAAACAAAGTTTAAA
Found at i:8469582 original size:64 final size:64
Alignment explanation
Indices: 8469510--8469633 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 64
8469500 TAGATTCCGA
*
8469510 AAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGGAAATTTTAAAATTTTAAAACAAAGTTT
1 AAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTT
* *
8469574 AAAAATAAAAATCTGTTTTTTTAAGTTATTTTAAAGGAAAGTTTAAAATTTTAAAACAAA
1 AAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAA
8469634 ATTTTAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (64 bp):
AAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTT
Done.