Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 168 of 189
Found at i:50092699 original size:20 final size:20
Alignment explanation
Indices: 50092663--50092700 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50092653 ATGAGATTTG
*
50092663 TAAAATAATATAAATATGTT
1 TAAAATAATAAAAATATGTT
50092683 TAAAA-AATAAAATATATG
1 TAAAATAATAAAA-ATATG
50092701 CCATAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
TAAAATAATAAAAATATGTT
Found at i:50093099 original size:14 final size:14
Alignment explanation
Indices: 50093076--50093110 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
50093066 ATTAAAAGAT
50093076 TTAATTATGTT-AA
1 TTAATTATGTTAAA
50093089 TTAACTTATGTTAAA
1 TTAA-TTATGTTAAA
50093104 TTAATTA
1 TTAATTA
50093111 ATCTAAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 10 0.50
15 6 0.30
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (14 bp):
TTAATTATGTTAAA
Found at i:50093851 original size:4 final size:4
Alignment explanation
Indices: 50093842--50093908 Score: 93
Period size: 4 Copynumber: 17.2 Consensus size: 4
50093832 TGATTTCTTT
* * *
50093842 TGTA TGTA TGTA TG-- TGTG TGTG TGTG TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
50093888 TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA T
50093909 TGGCATGAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
2 2 0.03
4 58 0.97
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:50094423 original size:21 final size:21
Alignment explanation
Indices: 50094397--50094446 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
50094387 ATAAAGTAGG
50094397 TTATATATTAT-TTTTATAAT
1 TTATATATTATATTTTATAAT
*
50094417 ATTATATATTATAATTTTTTAAT
1 -TTATATATTAT-ATTTTATAAT
50094440 TTATATA
1 TTATATA
50094447 ATAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
22 7 0.27
23 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATATATTATATTTTATAAT
Found at i:50094434 original size:23 final size:22
Alignment explanation
Indices: 50094397--50094455 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
50094387 ATAAAGTAGG
50094397 TTATATATTAT--TTTTATAAT
1 TTATATATTATAATTTTATAAT
*
50094417 ATTATATATTATAATTTTTTAAT
1 -TTATATATTATAATTTTATAAT
*
50094440 TTATATAATAATAATT
1 TTATAT-ATTATAATT
50094456 ATATTAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.33
22 6 0.18
23 16 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATATATTATAATTTTATAAT
Found at i:50094458 original size:57 final size:56
Alignment explanation
Indices: 50094410--50094560 Score: 137
Period size: 57 Copynumber: 2.6 Consensus size: 56
50094400 TATATTATTT
*
50094410 TTATAATATTATATATTATAATTT-TTTAATT-TATATAATAATAATTATATTAAGAATG
1 TTATAA-ATTATATATTAT--TTTATTAAATTATATATAATAATAATTATA-TAAGAATG
* * *
50094468 TTATTAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAA-AATA
1 TTATAAATTATATATTATTTTATTAAATTATATATAATAATAATTATA-TAAGAATG
* * *
50094524 TGATTAAATTATTTATTTTTATTTTATTAAAATATAT
1 TTA-TAAATTA--TA-TATTATTTTATTAAATTATAT
50094561 TTCACCATAA
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
55 3 0.04
56 11 0.14
57 39 0.49
58 5 0.06
59 2 0.03
60 19 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (56 bp):
TTATAAATTATATATTATTTTATTAAATTATATATAATAATAATTATATAAGAATG
Found at i:50094530 original size:26 final size:25
Alignment explanation
Indices: 50094441--50094530 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 25
50094431 TTTTTTAATT
50094441 TATA-TAATAATAATTATATTAAGAA
1 TATATTAATAATAATTATATTAA-AA
* * *
50094466 TGTTATTAATTATATATTATTTTATTAAAT
1 T-ATATTAA-TA-ATA--ATTATATTAAAA
50094496 TATATTTAATAATAATTATATTAAAA
1 TATA-TTAATAATAATTATATTAAAA
50094522 TATGATTAA
1 TAT-ATTAA
50094531 ATTATTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
25 1 0.02
26 19 0.37
27 4 0.08
28 5 0.10
29 7 0.14
30 6 0.12
31 9 0.18
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
TATATTAATAATAATTATATTAAAA
Found at i:50094552 original size:60 final size:58
Alignment explanation
Indices: 50094417--50094582 Score: 169
Period size: 60 Copynumber: 2.8 Consensus size: 58
50094407 TTTTTATAAT
* * *
50094417 ATTATATATTATAATTT-TTTAATT-TATATAATAATAATTATATTAAGA-ATGTTATTA
1 ATTATATATTAT--TTTATTAAATTATATTTAATAATAATTATATTAAAATATGTTATTA
50094474 ATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAATTA
1 ATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATG-TT--ATTA
* * * * ** *
50094535 TTTAT-TTTTATTTTATTAAAATATATTTCACCATAATTTTATTAAAAT
1 ATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAAT
50094583 TTAATAACCA
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
55 3 0.03
56 6 0.06
57 34 0.37
58 3 0.03
59 2 0.02
60 37 0.40
61 8 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (58 bp):
ATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGTTATTA
Found at i:50096057 original size:97 final size:96
Alignment explanation
Indices: 50095882--50096170 Score: 365
Period size: 97 Copynumber: 3.0 Consensus size: 96
50095872 AAATAAGGGT
* * * * * *
50095882 TTAGTGTTTAAGGTTTCTTAATTAAATTAATTATAAATTTTT-CAAAATTAGA-TAAGGGTTTCG
1 TTAGAGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAA-GGTTTAG
* *
50095945 TGTTTATGGTTTTTAAGGAAAAATTAAATAAA
65 TGTTTAGGGTTTTTAAGGAAAAATAAAATAAA
*
50095977 TTAGAGTTTAGGGTTACTTAAGTAAATTGATTATAAATTTTTTAAAAAATTAGATTAAGGTTTAG
1 TTAGAGTTTAGGGTTACTTAAGTAAATTAATTATAAA-TTTTTAAAAAATTAGATTAAGGTTTAG
*
50096042 TGTTAAGGGTTTTTAAGGAAAAATAAAATAAA
65 TGTTTAGGGTTTTTAAGGAAAAATAAAATAAA
* * *
50096074 TTA-AGGTTTAGGGTTACTTGAGTAAATTAATTATAAA---TTAAAAAAATAGATTAGGGTTTAG
1 TTAGA-GTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAAGGTTTAG
* *
50096135 TATTTAGGGTTTTTAAGGAAAAAATCAAATAAA
65 TGTTTAGGGTTTTTAAGG-AAAAATAAAATAAA
50096168 TTA
1 TTA
50096171 AGGTTTGGGG
Statistics
Matches: 172, Mismatches: 17, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
93 38 0.22
94 16 0.09
95 32 0.19
96 6 0.03
97 77 0.45
98 3 0.02
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (96 bp):
TTAGAGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAAGGTTTAGT
GTTTAGGGTTTTTAAGGAAAAATAAAATAAA
Found at i:50096445 original size:126 final size:126
Alignment explanation
Indices: 50096219--50096510 Score: 415
Period size: 126 Copynumber: 2.3 Consensus size: 126
50096209 TAATTTAAAA
* * * *
50096219 AAGCTCTCACGTGGAAGCTCTTTTGCTATAGTAGCTCCTAAAAAAATAATTTGGAGAAGACGTTC
1 AAGCTCCCACATGGAAGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTGGAGAAGACGTTC
* * *
50096284 CTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGTTTTATCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAATACTGAAAG
* * * * * * *
50096345 AAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAGATAATTTTGAGAAGATGTTT
1 AAGCTCCCACATGGAAGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTGGAGAAGACGTTC
*
50096410 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAATACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAATACTGAAAG
* *
50096471 AAACTCCCA-AGTGGAAGCTCTTTTGTTACAGTAGTTCCTA
1 AAGCTCCCACA-TGGAAGCTCTTTTGCTACAGTAGTTCCTA
50096511 TTTGGCCTGA
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
125 1 0.01
126 144 0.99
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (126 bp):
AAGCTCCCACATGGAAGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTGGAGAAGACGTTC
CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAATACTGAAAG
Found at i:50097680 original size:18 final size:18
Alignment explanation
Indices: 50097654--50097696 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
50097644 GACTAGAAAA
* * *
50097654 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
50097672 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
50097690 AGGATAC
1 AGGATAC
50097697 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:50098312 original size:7 final size:7
Alignment explanation
Indices: 50098302--50098326 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50098292 TTATATACAT
50098302 AATACTA
1 AATACTA
50098309 AATACTA
1 AATACTA
50098316 AATACTA
1 AATACTA
50098323 AATA
1 AATA
50098327 TGTAATGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:50098903 original size:19 final size:19
Alignment explanation
Indices: 50098881--50098921 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
50098871 ATGAAATAAA
50098881 AGAATAG-AAAAAGAGAAAC
1 AGAATAGCAAAAA-AGAAAC
*
50098900 AGAATAGCTAAAAAGAAAC
1 AGAATAGCAAAAAAGAAAC
50098919 AGA
1 AGA
50098922 GAACAGACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.66, C:0.07, G:0.20, T:0.07
Consensus pattern (19 bp):
AGAATAGCAAAAAAGAAAC
Found at i:50099426 original size:21 final size:20
Alignment explanation
Indices: 50099400--50099460 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
50099390 GCTTTGCCGA
50099400 TCAGGCACTTTATGTGTCGTT
1 TCAGGCAC-TTATGTGTCGTT
**
50099421 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCA-CTTATGTGTCGTT
*
50099442 ACAGGCACTTATGTGTCGT
1 TCAGGCACTTATGTGTCGT
50099461 ATATTGATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 10 0.29
21 23 0.68
22 1 0.03
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (20 bp):
TCAGGCACTTATGTGTCGTT
Found at i:50101543 original size:14 final size:13
Alignment explanation
Indices: 50101510--50101540 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
50101500 TGAAATTTTT
*
50101510 ATAATTTTAAAAA
1 ATAAATTTAAAAA
50101523 ATAAATTTAAAAA
1 ATAAATTTAAAAA
50101536 ATAAA
1 ATAAA
50101541 ATTAGAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAAATTTAAAAA
Found at i:50101591 original size:11 final size:11
Alignment explanation
Indices: 50101577--50101606 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
50101567 GAGAGCTTTG
50101577 AGAGAAATTTT
1 AGAGAAATTTT
50101588 AGAGAAATTTT
1 AGAGAAATTTT
50101599 AGAGAAAT
1 AGAGAAAT
50101607 ATGAGAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (11 bp):
AGAGAAATTTT
Found at i:50101613 original size:11 final size:11
Alignment explanation
Indices: 50101573--50101615 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
50101563 TAAAGAGAGC
50101573 TTTGAGAGAAA
1 TTTGAGAGAAA
*
50101584 TTTTAGAGAAA
1 TTTGAGAGAAA
*
50101595 TTTTAGAGAAA
1 TTTGAGAGAAA
*
50101606 TATGAGAGAA
1 TTTGAGAGAA
50101616 TATTGAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:50102616 original size:5 final size:5
Alignment explanation
Indices: 50102606--50102643 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
50102596 ATACAATGAA
*
50102606 AATAT AATAT AATAT AATAA AATAT AA-A- AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
50102644 CAACATAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 2 0.07
4 2 0.07
5 25 0.86
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:50103172 original size:24 final size:24
Alignment explanation
Indices: 50103144--50103195 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
50103134 TTTCTAGAAC
*
50103144 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
*
50103168 ATTTAGTATTTATTAGCATAATTT
1 ATTTAGTATTTATTAGCATAATAT
50103192 ATTT
1 ATTT
50103196 GACCTATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:50112679 original size:21 final size:21
Alignment explanation
Indices: 50112653--50112703 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
50112643 AGCGGTGGCG
*
50112653 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
50112674 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
50112695 GTGAGATTA
1 GTGAGATTA
50112704 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:50115693 original size:9 final size:10
Alignment explanation
Indices: 50115669--50115718 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
50115659 GTATTTTACT
*
50115669 AAAATAATAC
1 AAAAAAATAC
50115679 AAAAAAATA-
1 AAAAAAATAC
50115688 AAAAAAATATC
1 AAAAAAATA-C
50115699 AAAATAATATAC
1 AAAA-AA-ATAC
50115711 AAAAAAAT
1 AAAAAAAT
50115719 TTATTTACCT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
9 9 0.26
10 10 0.29
11 6 0.17
12 7 0.20
13 3 0.09
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:50116230 original size:152 final size:151
Alignment explanation
Indices: 50115819--50116635 Score: 1064
Period size: 149 Copynumber: 5.4 Consensus size: 151
50115809 AACATGTTCG
* * **
50115819 TATTTCAGCCCTTTATTCGTATTTTTTTCTTGAATTTTATTACTTTAA-AAAATATATTATTTTC
1 TATTTC-GGCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAATAAAA-ATA-TATTTTC
*
50115883 TAA-TTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
63 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
**
50115947 TATTTAAA-TT--AAAAAAACCCT
128 TAAATAAATTTAAAAAAAAACCCT
* * *
50115968 TATTTTGGCCCTTTGTTCGTATTTTTTTTCC-AGATTTTATTATTTTTAATAAAAATATATTATT
1 TATTTCGG-CCTTTGTTCGTATTTTTTTCCCGA-ATTTTATTA-CTTTAATAAAAATATATT-TT
* * *
50116032 TTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
62 CT-A-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
*
50116097 TTTTAAATAAATTTAAAAAAAAACTCT
125 TTTTAAATAAATTTAAAAAAAAACCCT
* * *
50116124 TATTTTGGCGCTTTGTTCGTATTTTTTCCCCGAATTTTATTACTTTAA-AAAAACACTATTTTCT
1 TATTTCGGC-CTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAATAAAAATA-TATTTTCT
50116188 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
64 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
* * *
50116253 ATATAAAATT-AAAAAAAATCCT
129 AAATAAATTTAAAAAAAAACCCT
*
50116275 TATTTCGGTCCTTTGTTCGTATTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGG-CCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTT-AATAAAAATATA-T-TTT
* * * * *
50116340 GTGTATTTTATTATTTTACATTATTTTATTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
62 CT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTT
**
50116405 TTTAAATAAATTTAGTAAAAAACCCT
126 TTTAAATAAATTTAAAAAAAAACCCT
* * *
50116431 TATTTCGGCCCTCTGTTCGTATTTTTTT--CGGATTTTATTA-TTTTA-AAAAATACTATTTTCT
1 TATTTCGG-CCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAATAAAAATA-TATTTTCT
50116492 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
64 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
50116557 AAATAAATTTAGAAAAAAAACCCT
129 AAATAAATTTA-AAAAAAAACCCT
* *
50116581 TATTTCGGCCATTTGTTCGTATTTTTTTACCGGATTTTATTACTTTCAATAAAAA
1 TATTTCGGCC-TTTGTTCGTATTTTTTTCCCGAATTTTATTACTTT-AATAAAAA
50116636 ACACACTAAA
Statistics
Matches: 586, Mismatches: 53, Indels: 52
0.85 0.08 0.08
Matches are distributed among these distances:
148 2 0.00
149 110 0.19
150 49 0.08
151 64 0.11
152 91 0.16
153 78 0.13
154 26 0.04
155 84 0.14
156 81 0.14
157 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (151 bp):
TATTTCGGCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAATAAAAATATATTTTCTAA
TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAA
ATAAATTTAAAAAAAAACCCT
Found at i:50116386 original size:307 final size:305
Alignment explanation
Indices: 50115819--50116635 Score: 1259
Period size: 307 Copynumber: 2.7 Consensus size: 305
50115809 AACATGTTCG
* * * *
50115819 TATTTCAGCCCTTTATTCGTATTTTTTTCTTGAATTTTATTACTTTAAAAAATATATTATTTTCT
1 TATTTCGGCCCTTTGTTCGTA-TTTTTTCTCGAATTTTATTACTTTAAAAAA-ATACTATTTTCT
*
50115884 AA-TTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
64 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
* * * *
50115948 AT-TTAAATT-AAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTTTTCCAGATTTTATTAT
129 ATATAAAATTAAAAAAAACCCTTATTTCGG-CCTTTGTTCGTATTTTTTTACCAGATTTTATTAC
*
50116011 TTTTAATAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
193 TTTCAATAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
*
50116076 AATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAAAACTCT
258 AATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAAAACCCT
* * * *
50116124 TATTTTGGCGCTTTGTTCGTATTTTTTCCCCGAATTTTATTACTTTAAAAAAACACTATTTTCTA
1 TATTTCGGCCCTTTGTTCGTATTTTTT-CTCGAATTTTATTACTTTAAAAAAATACTATTTTCTA
50116189 ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTA
65 ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTA
* * *
50116254 TATAAAATTAAAAAAAATCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCAAATTTTATTACT
130 TATAAAATTAAAAAAAACCCTTATTTCGG-CCTTTGTTCGTATTTTTTTACCAGATTTTATTACT
* *
50116319 TTCAATAAAAATATATTATTTGT-GTATTTTATTATTTTACATTATTTTATTACATTATGTTTGA
194 TTCAATAAAAATATATTATTT-TCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
**
50116383 AATGTATTAATTTACTGTGTTTTTTAAATAAATTTAGTAAAAAACCCT
258 AATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAAAACCCT
* * *
50116431 TATTTCGGCCCTCTGTTCGTATTTTTT-TCGGATTTTATTA-TTTTAAAAAATACTATTTTCTAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTCTCGAATTTTATTACTTTAAAAAAATACTATTTTCTAA
*
50116494 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAA
66 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAT
* *
50116559 ATAAATTTAGAAAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTACCGGATTTTATTAC
131 ATAAAATT--AAAAAAAACCCTTATTTCGGCC-TTTGTTCGTATTTTTTTACCAGATTTTATTAC
50116624 TTTCAATAAAAA
193 TTTCAATAAAAA
50116636 ACACACTAAA
Statistics
Matches: 469, Mismatches: 35, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
304 110 0.23
305 115 0.25
306 66 0.14
307 177 0.38
308 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (305 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTCTCGAATTTTATTACTTTAAAAAAATACTATTTTCTAA
TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAT
ATAAAATTAAAAAAAACCCTTATTTCGGCCTTTGTTCGTATTTTTTTACCAGATTTTATTACTTT
CAATAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
GTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAAAACCCT
Found at i:50116893 original size:20 final size:20
Alignment explanation
Indices: 50116868--50116909 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
50116858 TAAATAAACT
50116868 TTTTTTATATTATTTTGGTA
1 TTTTTTATATTATTTTGGTA
* * *
50116888 TTTTTTTTATTTTTTTTGTA
1 TTTTTTATATTATTTTGGTA
50116908 TT
1 TT
50116910 ACTTTAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (20 bp):
TTTTTTATATTATTTTGGTA
Found at i:50128609 original size:40 final size:39
Alignment explanation
Indices: 50128486--50128630 Score: 148
Period size: 40 Copynumber: 3.7 Consensus size: 39
50128476 GCGGTATTTT
*
50128486 TAGCGGCG-TTTGATAAAAAACGCCGCTATAGATCGAGCA
1 TAGCGGCGCTTT-TTAAAAAACGCCGCTATAGATCGAGCA
* * * *
50128525 TAGCGGCACTTATTAAAAAAGGCCGCTATAGATCAAGCA
1 TAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGAGCA
* * * * *
50128564 TTAGCGGCGCTTTTTCAGAAACGCCGCTATAGGTTGACCA
1 -TAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGAGCA
* *
50128604 CTAGCGGCGCCTTTTAAAAAACACCGC
1 -TAGCGGCGCTTTTTAAAAAACGCCGC
50128631 AAAAAGATTA
Statistics
Matches: 85, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
39 31 0.36
40 54 0.64
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (39 bp):
TAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGAGCA
Found at i:50128713 original size:40 final size:40
Alignment explanation
Indices: 50128658--50128739 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
50128648 CGCTTTAGTG
50128658 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
* * *
50128698 GCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
50128738 GC
1 GC
50128740 TTTATGGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
Found at i:50128809 original size:21 final size:21
Alignment explanation
Indices: 50128762--50128806 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50128752 GGTTTTATGG
* *
50128762 TTTATGATTTAAGGGTTGAGA
1 TTTAAGATTTAAGGGTTAAGA
*
50128783 TTTAAGATTTAGGGGTTAAAGA
1 TTTAAGATTTAAGGGTT-AAGA
50128805 TT
1 TT
50128807 AAGGGTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (21 bp):
TTTAAGATTTAAGGGTTAAGA
Found at i:50128835 original size:43 final size:43
Alignment explanation
Indices: 50128783--50128864 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
50128773 AGGGTTGAGA
*
50128783 TTTAAGATTTAGGGGTTAA-AGATTAAGGGTTTATGGTTTTTGT
1 TTTAAGATTTAGGGGTTAAGAGA-TAAGGGTTTAGGGTTTTTGT
* * *
50128826 TTTATGATTTAGGGTTTAAGGGATAAGGGTTTAGGGTTT
1 TTTAAGATTTAGGGGTTAAGAGATAAGGGTTTAGGGTTT
50128865 AGATTAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 32 0.94
44 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (43 bp):
TTTAAGATTTAGGGGTTAAGAGATAAGGGTTTAGGGTTTTTGT
Found at i:50128999 original size:14 final size:14
Alignment explanation
Indices: 50128961--50128987 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50128951 TAATTATCAT
50128961 TATAGTTTAGGGTA
1 TATAGTTTAGGGTA
50128975 TATAGTTTAGGGT
1 TATAGTTTAGGGT
50128988 TTAAGATTTA
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:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (14 bp):
TATAGTTTAGGGTA
Found at i:50129034 original size:15 final size:14
Alignment explanation
Indices: 50129014--50129062 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
50129004 ACTATTTTAA
50129014 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
50129028 GGGTTTAGGGATTAT
1 -GGTTTATGGATTAT
* *
50129043 GATTTATGGTTTAT
1 GGTTTATGGATTAT
50129057 GGTTTA
1 GGTTTA
50129063 AGGGTTGGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:50129059 original size:7 final size:7
Alignment explanation
Indices: 50129009--50129062 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
50128999 GAGTTACTAT
*
50129009 TTTAAGG
1 TTTATGG
50129016 TTTATGG
1 TTTATGG
*
50129023 ATTATGGG
1 TTTAT-GG
*
50129031 TTTAGGG
1 TTTATGG
* *
50129038 ATTATGA
1 TTTATGG
50129045 TTTATGG
1 TTTATGG
50129052 TTTATGG
1 TTTATGG
50129059 TTTA
1 TTTA
50129063 AGGGTTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:50129074 original size:14 final size:15
Alignment explanation
Indices: 50129057--50129092 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
50129047 TATGGTTTAT
50129057 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
50129071 GGTTTAAGGGTTAGG
1 GGTTTAAGGGTTAGG
50129086 GGTTTAA
1 GGTTTAA
50129093 AATTTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:50129088 original size:21 final size:21
Alignment explanation
Indices: 50129050--50129089 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50129040 TATGATTTAT
* *
50129050 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGGTTAAGGGTTGG
*
50129071 GGTTTAAGGGTTAGGGGTT
1 GGTTTAAGGGTTAAGGGTT
50129090 TAAAATTTAT
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:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGGTTAAGGGTTGG
Found at i:50129745 original size:41 final size:41
Alignment explanation
Indices: 50129656--50129766 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 41
50129646 TGAAAAAAAG
* * ** *
50129656 GCCGCAAAAGGTA-AGCAATAGCGGTGTTTTT--CACAAAC
1 GCCGCAAAAAGTAGAGCAATAGTGACGTTTTTGGCCCAAAC
*
50129694 GCCGCAAAAAGTTGAGCAATAGTGACGTTTTTGGCCCAAAC
1 GCCGCAAAAAGTAGAGCAATAGTGACGTTTTTGGCCCAAAC
*
50129735 GCCGCTAAAAGTAGAGCAATAGTGACGTTTTT
1 GCCGCAAAAAGTAGAGCAATAGTGACGTTTTT
50129767 TTCCAAACGC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 11 0.18
39 15 0.24
41 36 0.58
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (41 bp):
GCCGCAAAAAGTAGAGCAATAGTGACGTTTTTGGCCCAAAC
Found at i:50130308 original size:11 final size:11
Alignment explanation
Indices: 50130286--50130332 Score: 76
Period size: 11 Copynumber: 4.2 Consensus size: 11
50130276 AACTAATCCT
50130286 CTCTCAAATTTC
1 CTCTC-AATTTC
50130298 CTCTCAATTTC
1 CTCTCAATTTC
*
50130309 CTCTAAATTTC
1 CTCTCAATTTC
50130320 CTCTCAATTTC
1 CTCTCAATTTC
50130331 CT
1 CT
50130333 TTTAAATTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
11 28 0.85
12 5 0.15
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:50130319 original size:22 final size:23
Alignment explanation
Indices: 50130286--50130361 Score: 88
Period size: 22 Copynumber: 3.4 Consensus size: 23
50130276 AACTAATCCT
50130286 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
50130309 CTCT-AAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
* *
50130331 CTTTTAAA-TTCCT-TCCAAATTT-
1 CTCTCAAATTTCCTCT-C-AATTTC
50130353 CTCTCAAAT
1 CTCTCAAAT
50130362 CCATATTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.02
22 33 0.72
23 12 0.26
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:50130331 original size:33 final size:33
Alignment explanation
Indices: 50130285--50130359 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
50130275 AAACTAATCC
* *
50130285 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
* *
50130318 TCCTCTCAATTTCCTTTTAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
50130352 TCTCTCAA
1 TCTCTCAA
50130360 ATCCATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 23 0.64
34 13 0.36
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:50130360 original size:11 final size:11
Alignment explanation
Indices: 50130285--50130361 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
50130275 AAACTAATCC
50130285 TCTCTCAAATT
1 TCTCTCAAATT
50130296 TCCTCTC-AATT
1 T-CTCTCAAATT
50130307 TC-CTCTAAATT
1 TCTCTC-AAATT
50130318 TCCTCTC-AATT
1 T-CTCTCAAATT
* *
50130329 TCCTTTTAAATT
1 T-CTCTCAAATT
*
50130341 CCT-TCCAAATT
1 TCTCT-CAAATT
50130352 TCTCTCAAAT
1 TCTCTCAAAT
50130362 CCATATTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
9 3 0.06
10 2 0.04
11 34 0.64
12 11 0.21
13 3 0.06
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:50130446 original size:11 final size:10
Alignment explanation
Indices: 50130415--50130455 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
50130405 CTTAACTCCC
50130415 TTTTTTTAAA
1 TTTTTTTAAA
**
50130425 TAATTTTAAA
1 TTTTTTTAAA
50130435 TTTTTTTAAAA
1 TTTTTTT-AAA
50130446 TTTTTTTAAA
1 TTTTTTTAAA
50130456 CCATAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:50132853 original size:27 final size:27
Alignment explanation
Indices: 50132823--50132999 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50132813 ATATTAAGTC
* * *
50132823 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
50132850 CGCACACTTAGTGC-ACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
50132877 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
50132904 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
50132931 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
50132958 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
50132985 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50133000 GTACAATTTA
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 7 0.05
27 116 0.89
28 8 0.06
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:50132961 original size:81 final size:81
Alignment explanation
Indices: 50132844--50132998 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 81
50132834 TGCTATATAA
* *
50132844 TCAACTCGCACACTTAGTGCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCAC
1 TCAACTCGCACACTTAGTGCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCAC
50132909 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
50132925 TCAATTCGCACACTTAGTGCATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
50132989 CACTTAGTGC
65 CACTTAGTGC
50132999 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 61 0.91
82 6 0.09
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50140985 original size:27 final size:27
Alignment explanation
Indices: 50140955--50141132 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50140945 ATATTAAGTC
* * *
50140955 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
50140982 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
50141010 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
50141037 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
50141064 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
50141091 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
50141118 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50141133 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:50141039 original size:55 final size:54
Alignment explanation
Indices: 50140955--50141132 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
50140945 ATATTAAGTC
* * *
50140955 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
50141010 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
50141064 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
50141118 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50141133 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:50141121 original size:81 final size:82
Alignment explanation
Indices: 50140976--50141131 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
50140966 TGCTATATAA
* *
50140976 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
50141041 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
50141058 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
50141121 ACACTTAGTGC
65 ACACTTAGTGC
50141132 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:50142644 original size:18 final size:18
Alignment explanation
Indices: 50142617--50142655 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
50142607 CAGGTGCATT
*
50142617 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
50142635 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
50142653 TCC
1 TCC
50142656 CTTTCCGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:50146530 original size:125 final size:125
Alignment explanation
Indices: 50146308--50146560 Score: 434
Period size: 125 Copynumber: 2.0 Consensus size: 125
50146298 CCCAAATATG
* * *
50146308 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGCTTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGC
* *
50146373 TAGAAGTGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* *
50146433 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGC
*
50146498 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCTAGGAC
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
50146558 CTA
1 CTA
50146561 AAACCCTAGA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 120 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGC
TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:50147322 original size:58 final size:59
Alignment explanation
Indices: 50147222--50147340 Score: 163
Period size: 58 Copynumber: 2.0 Consensus size: 59
50147212 TAACAGAATC
* * *
50147222 AAGTGTATTTTAAGCAGTTTCTGATTTTCTGCTGTAAACTCGAAGGTTCTT-TGTAGTTT
1 AAGTGTATATTAAGCAATTTCTGATTTTCTGCTGTAAACTCGAAGGTT-TTATGGAGTTT
*
50147281 AAGTGTATATTAAGTAATTT-TGATATTTC-GCTGTAAACTCGAAGGTTTTATGGAGTTT
1 AAGTGTATATTAAGCAATTTCTGAT-TTTCTGCTGTAAACTCGAAGGTTTTATGGAGTTT
50147339 AA
1 AA
50147341 CTAATTTCAA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
57 2 0.04
58 31 0.57
59 21 0.39
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (59 bp):
AAGTGTATATTAAGCAATTTCTGATTTTCTGCTGTAAACTCGAAGGTTTTATGGAGTTT
Found at i:50149571 original size:9 final size:9
Alignment explanation
Indices: 50149557--50149596 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
50149547 TTTGGTTAAA
50149557 AATTAACCG
1 AATTAACCG
50149566 AATTAACCG
1 AATTAACCG
*
50149575 AATTACCCG
1 AATTAACCG
50149584 AATTAACCG
1 AATTAACCG
50149593 AATT
1 AATT
50149597 GAATCACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:50150355 original size:23 final size:23
Alignment explanation
Indices: 50150321--50150387 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
50150311 ACCCATATGA
50150321 CTGCAAATTGAAGCGTTTAAA-TG
1 CTGCAAATTGAAGCG-TTAAAGTG
* *
50150344 CTGTAAATTGAAGTGTTAAAGTG
1 CTGCAAATTGAAGCGTTAAAGTG
*
50150367 CTGCAAATTGAAGTGTTAAAG
1 CTGCAAATTGAAGCGTTAAAG
50150388 GGCAAACATC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 5 0.12
23 35 0.88
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (23 bp):
CTGCAAATTGAAGCGTTAAAGTG
Found at i:50153365 original size:18 final size:17
Alignment explanation
Indices: 50153332--50153365 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50153322 ATATTTTCAA
*
50153332 TTTAAATTATAATTATT
1 TTTAAATTAAAATTATT
50153349 TTTAAATTTAAAATTAT
1 TTTAAA-TTAAAATTAT
50153366 CATAGTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATTAAAATTATT
Found at i:50154463 original size:58 final size:59
Alignment explanation
Indices: 50154360--50154501 Score: 200
Period size: 58 Copynumber: 2.4 Consensus size: 59
50154350 TTTTCAAAGA
* *
50154360 CTAACTTGGACAAAAAAAA-TTGCAAGTCCTAATGTGAGAACAATTGTCAAGTTCAGGGC
1 CTAACTTGGACAAAAAAAAGTT-CAAGTCCCAATGTGAGAACAATTGCCAAGTTCAGGGC
* *
50154419 CTAACTTGGA-AAAAAAAAGTT-AAGGTCCCAATTTGGGAACAATTGCCAAGTTCAGGGC
1 CTAACTTGGACAAAAAAAAGTTCAA-GTCCCAATGTGAGAACAATTGCCAAGTTCAGGGC
50154477 CTAACTTGGACAAACAAAAAGTTCA
1 CTAACTTGGACAAA-AAAAAGTTCA
50154502 GGCTCCAACA
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
57 2 0.03
58 48 0.65
59 15 0.20
60 8 0.11
61 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (59 bp):
CTAACTTGGACAAAAAAAAGTTCAAGTCCCAATGTGAGAACAATTGCCAAGTTCAGGGC
Found at i:50159111 original size:19 final size:17
Alignment explanation
Indices: 50159087--50159130 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
50159077 CAATGCATCA
*
50159087 AATAATTATGCATATTACC
1 AATAATAATGCA-ATT-CC
*
50159106 AATAATAATTCAATTCC
1 AATAATAATGCAATTCC
50159123 AATAATAA
1 AATAATAA
50159131 AACACACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 3 0.13
19 10 0.43
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (17 bp):
AATAATAATGCAATTCC
Found at i:50165325 original size:16 final size:17
Alignment explanation
Indices: 50165296--50165350 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 17
50165286 GAACTCAAAG
50165296 GGAAAG-AGACAAAGAAA
1 GGAAAGAAGA-AAAGAAA
50165313 -GAAAGAAGAAAAGGAAA
1 GGAAAGAAGAAAA-GAAA
50165330 GGAAA-AA-AAAAGAAA
1 GGAAAGAAGAAAAGAAA
50165345 TGGAAA
1 -GGAAA
50165351 AGCAGGGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.12
16 17 0.50
17 9 0.26
18 4 0.12
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (17 bp):
GGAAAGAAGAAAAGAAA
Found at i:50165342 original size:21 final size:22
Alignment explanation
Indices: 50165309--50165350 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
50165299 AAGAGACAAA
*
50165309 GAAAGAAAGAAGAAAAGGAAAG
1 GAAAGAAAAAAGAAAAGGAAAG
*
50165331 GAAA-AAAAAAGAAATGGAAA
1 GAAAGAAAAAAGAAAAGGAAA
50165351 AGCAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (22 bp):
GAAAGAAAAAAGAAAAGGAAAG
Found at i:50174092 original size:19 final size:20
Alignment explanation
Indices: 50174051--50174092 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
50174041 TTTAACATTT
**
50174051 ATAATATATTTATAATTGTA
1 ATAATATATTTATAATTAAA
*
50174071 ATAA-ATATTTATTATTAAA
1 ATAATATATTTATAATTAAA
50174090 ATA
1 ATA
50174093 TTAATATTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATAATATATTTATAATTAAA
Found at i:50174593 original size:36 final size:35
Alignment explanation
Indices: 50174553--50174674 Score: 95
Period size: 36 Copynumber: 3.4 Consensus size: 35
50174543 AGAACGCCTC
50174553 CTATTCATTTTTGTCTTTGCTATGCAAGGGATCTCA
1 CTATTCATTTTTGTCTTTGCTATGC-AGGGATCTCA
* * * * * *
50174589 CTATTCATTCTTG--GTTGCTTTTGCCAGTGAATCACT
1 CTATTCATTTTTGTCTTTGC-TATG-CAG-GGATCTCA
* * *
50174625 CTTGTTCATTTCTGTCTTTGCTCTGCAGGGAATCTCA
1 C-TATTCATTTTTGTCTTTGCTATGCAGGG-ATCTCA
50174662 CTATTCATTTTTG
1 CTATTCATTTTTG
50174675 GTTGCATTTG
Statistics
Matches: 63, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
34 4 0.06
35 5 0.08
36 30 0.48
37 17 0.27
38 3 0.05
39 4 0.06
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.46
Consensus pattern (35 bp):
CTATTCATTTTTGTCTTTGCTATGCAGGGATCTCA
Found at i:50174641 original size:73 final size:73
Alignment explanation
Indices: 50174550--50174733 Score: 244
Period size: 73 Copynumber: 2.5 Consensus size: 73
50174540 CAGAGAACGC
* *
50174550 CTCCTATTCATTTTTGTCTTTGCTATGCAAGGG-ATCTCACTATTCATTCTTGGTTGCTTTTGCC
1 CTCCTGTTCATTTTTGTCTTTGCTATGC-AGGGAATCTCACTATTCATTCTTGGTTGCATTTGCC
*
50174614 AGTGAATCA
65 AGGGAATCA
* * * * *
50174623 CTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGAATCTCACTATTCATTTTTGGTTGCATTTGGCA
1 CTCCTGTTCATTTTTGTCTTTGCTATGCAGGGAATCTCACTATTCATTCTTGGTTGCATTTGCCA
*
50174688 GGGAATCG
66 GGGAATCA
* * *
50174696 CTCCTGTTCATTTTTGTCTTTGCTCTGTAGAGAATCTC
1 CTCCTGTTCATTTTTGTCTTTGCTATGCAGGGAATCTC
50174734 CCTTGTTCAT
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
72 4 0.04
73 93 0.96
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (73 bp):
CTCCTGTTCATTTTTGTCTTTGCTATGCAGGGAATCTCACTATTCATTCTTGGTTGCATTTGCCA
GGGAATCA
Found at i:50174658 original size:37 final size:36
Alignment explanation
Indices: 50174617--50174743 Score: 105
Period size: 37 Copynumber: 3.5 Consensus size: 36
50174607 TTTTGCCAGT
*
50174617 GAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGG
1 GAATCTCTCTTGTTCATTT-TGTCTTTGCTCTGCAGG
* * ** *
50174654 GAATCTCAC-TATTCATTTT-TGGTTGCATTTGGCAGG
1 GAATCTCTCTTGTTCATTTTGTCTTTGC-TCT-GCAGG
* * * *
50174690 GAATCGCTCCTGTTCATTTTTGTCTTTGCTCTGTAGA
1 GAATCTCTCTTGTTCA-TTTTGTCTTTGCTCTGCAGG
*
50174727 GAATCTCCCTTGTTCAT
1 GAATCTCTCTTGTTCAT
50174744 CTTTTGTTTT
Statistics
Matches: 68, Mismatches: 17, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
34 5 0.07
35 3 0.04
36 21 0.31
37 28 0.41
38 6 0.09
39 5 0.07
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (36 bp):
GAATCTCTCTTGTTCATTTTGTCTTTGCTCTGCAGG
Found at i:50174689 original size:36 final size:35
Alignment explanation
Indices: 50174553--50174711 Score: 92
Period size: 36 Copynumber: 4.4 Consensus size: 35
50174543 AGAACGCCTC
* *
50174553 CTATTCATTTTTGTCTTTGCTAT-GCAAGGG-ATCTCA
1 CTATTCATTTTTG--GTTGCTTTGGC-AGGGAATCTCA
* * * * *
50174589 CTATTCATTCTTGGTTGCTTTTGCCAGTGAATCACT
1 CTATTCATTTTTGGTTGC-TTTGGCAGGGAATCTCA
* ** *
50174625 CTTGTTCATTTCTGTCTTTGCTCT-GCAGGGAATCTCA
1 C-TATTCATTT-T-TGGTTGCTTTGGCAGGGAATCTCA
50174662 CTATTCATTTTTGGTTGCATTTGGCAGGGAATCGCTC-
1 CTATTCATTTTTGGTTGC-TTTGGCAGGGAAT--CTCA
*
50174699 CTGTTCATTTTTG
1 CTATTCATTTTTG
50174712 TCTTTGCTCT
Statistics
Matches: 92, Mismatches: 21, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
34 9 0.10
35 8 0.09
36 35 0.38
37 29 0.32
38 6 0.07
39 5 0.05
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.45
Consensus pattern (35 bp):
CTATTCATTTTTGGTTGCTTTGGCAGGGAATCTCA
Found at i:50175678 original size:5 final size:6
Alignment explanation
Indices: 50175662--50175686 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50175652 TTAAATATTT
50175662 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
50175687 TATTAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:50183833 original size:19 final size:19
Alignment explanation
Indices: 50183790--50183833 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
50183780 AGATAGAGTG
*
50183790 TTAATTTTTTTTATTTTCA
1 TTAATTTTTTCTATTTTCA
*
50183809 TT-ATTTTTTCTATTTTTA
1 TTAATTTTTTCTATTTTCA
50183827 TTAATTT
1 TTAATTT
50183834 AAATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (19 bp):
TTAATTTTTTCTATTTTCA
Found at i:50186836 original size:21 final size:24
Alignment explanation
Indices: 50186796--50186838 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
50186786 GAGAGGTCCA
50186796 TTCTACTTAAAGTAGAATATTATT
1 TTCTACTTAAAGTAGAATATTATT
50186820 TTCTA-TTAAA-TA-AATATTA
1 TTCTACTTAAAGTAGAATATTA
50186839 CTTGCGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 5 0.26
24 5 0.26
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (24 bp):
TTCTACTTAAAGTAGAATATTATT
Found at i:50193634 original size:31 final size:31
Alignment explanation
Indices: 50193577--50193635 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
50193567 GTGATTTGAC
* * *
50193577 AAAAAATATAAATTTAAGTGTTAAATAAGGT
1 AAAAAAAATAAATTTAAGGGTAAAATAAGGT
50193608 AAAAAAAATAAA-TTAAGGGCTAAAATAA
1 AAAAAAAATAAATTTAAGGG-TAAAATAA
50193636 CTTTTATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (31 bp):
AAAAAAAATAAATTTAAGGGTAAAATAAGGT
Found at i:50193944 original size:28 final size:27
Alignment explanation
Indices: 50193902--50193954 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
50193892 AAAAAAATAA
50193902 AAAAAAATTGATTTCACT-ATTTTCACT
1 AAAAAAATTGATTTCA-TAATTTTCACT
*
50193929 AAAAAAATTGTTTTTCATAATTTTCA
1 AAAAAAATTG-ATTTCATAATTTTCA
50193955 GTTAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (27 bp):
AAAAAAATTGATTTCATAATTTTCACT
Found at i:50199773 original size:21 final size:21
Alignment explanation
Indices: 50199714--50199767 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
50199704 TAAAGGCTGA
* *
50199714 ACAGAATGCCATAAATGCCAT
1 ACAGAATGCCACAAAGGCCAT
* *
50199735 ATAGAATGTCACAAAGGCCAT
1 ACAGAATGCCACAAAGGCCAT
50199756 ACAGAATGCCAC
1 ACAGAATGCCAC
50199768 CTAGGCACCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.17
Consensus pattern (21 bp):
ACAGAATGCCACAAAGGCCAT
Found at i:50201953 original size:68 final size:68
Alignment explanation
Indices: 50201876--50202075 Score: 222
Period size: 68 Copynumber: 3.0 Consensus size: 68
50201866 TATTTTAATA
* *
50201876 TATTCAATATTAAATTAAATTTAATATTTATCTTAAT-AATATTTTATTAATTTAATATTAAAGT
1 TATTTAATATTAAATTAAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGT
50201940 GAT
66 GAT
* *
50201943 TATCTTAATATTAAATTAAATTTAATGTTTATCTTGTATATAAATATTCTATTAA-TTAA-ATT-
1 TAT-TTAATATTAAATTAAATTTAATATTTATC-T-TA-ATAAATATTATATTAATTTAATATTA
50202005 -A--G--
62 AAGTGAT
* * * *
50202007 -ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATCATATTAATTTAATATTAAAGT
1 TATTTAATATTAAATTAAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGT
50202071 GAT
66 GAT
50202074 TA
1 TA
50202076 AGTTTAATTA
Statistics
Matches: 110, Mismatches: 9, Indels: 27
0.75 0.06 0.18
Matches are distributed among these distances:
59 14 0.13
60 5 0.05
61 4 0.04
62 26 0.24
63 3 0.03
65 1 0.01
66 1 0.01
67 3 0.03
68 29 0.26
69 1 0.01
70 5 0.05
71 6 0.05
72 12 0.11
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (68 bp):
TATTTAATATTAAATTAAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGT
GAT
Found at i:50201955 original size:31 final size:29
Alignment explanation
Indices: 50201920--50201977 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
50201910 AATAATATTT
*
50201920 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
50201951 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
50201978 GTATATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:50203856 original size:20 final size:20
Alignment explanation
Indices: 50203831--50203873 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
50203821 CCAATGCTGA
* *
50203831 TAGCATATCCCACGAGCTAC
1 TAGCATATCACACAAGCTAC
*
50203851 TAGCATATCACTCAAGCTAC
1 TAGCATATCACACAAGCTAC
50203871 TAG
1 TAG
50203874 TTTTCTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (20 bp):
TAGCATATCACACAAGCTAC
Found at i:50207217 original size:18 final size:18
Alignment explanation
Indices: 50207196--50207244 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
50207186 GCATTTAATT
50207196 AATTTTAAAAATTTTAAA
1 AATTTTAAAAATTTTAAA
*
50207214 AATTTTAAAAA-TCTAAA
1 AATTTTAAAAATTTTAAA
*
50207231 AACTTTAAAAATTT
1 AATTTTAAAAATTT
50207245 ATTTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTTAAAAATTTTAAA
Found at i:50207245 original size:8 final size:9
Alignment explanation
Indices: 50207196--50207244 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
50207186 GCATTTAATT
50207196 AATTTTAAA
1 AATTTTAAA
50207205 AATTTTAAA
1 AATTTTAAA
50207214 AATTTTAAA
1 AATTTTAAA
*
50207223 AA-TCTAAA
1 AATTTTAAA
*
50207231 AACTTTAAA
1 AATTTTAAA
50207240 AATTT
1 AATTT
50207245 ATTTTTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
8 7 0.19
9 29 0.81
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTTTAAA
Found at i:50207257 original size:32 final size:34
Alignment explanation
Indices: 50207216--50207288 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 34
50207206 ATTTTAAAAA
* *
50207216 TTTTAAAAATCTAAAAA-CTTTAAAAAT-T-TATT
1 TTTTAAAAAT-AAAAAATCATTAAAAATATATATT
50207248 TTTTAAAAATAAAAAATCATTAAAAATATATATT
1 TTTTAAAAATAAAAAATCATTAAAAATATATATT
50207282 TTTTAAA
1 TTTTAAA
50207289 TTAATTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 5 0.14
32 19 0.53
33 1 0.03
34 11 0.31
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (34 bp):
TTTTAAAAATAAAAAATCATTAAAAATATATATT
Found at i:50214782 original size:18 final size:17
Alignment explanation
Indices: 50214759--50214793 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
50214749 ATTAAGAATG
50214759 TTATTAAATTATACTTTA
1 TTATTAAATTATA-TTTA
50214777 TTATTAAATTATATTTA
1 TTATTAAATTATATTTA
50214794 ATAATAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTAAATTATATTTA
Found at i:50214994 original size:16 final size:16
Alignment explanation
Indices: 50214973--50215028 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
50214963 TGAATCCCTG
50214973 ATTACAACTCTATTTC
1 ATTACAACTCTATTTC
* * *
50214989 ATTACAATTTTATTCC
1 ATTACAACTCTATTTC
* *
50215005 ATTACAGCCCTATTTC
1 ATTACAACTCTATTTC
50215021 ATTACAAC
1 ATTACAAC
50215029 CCTACTCCAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACAACTCTATTTC
Found at i:50215038 original size:32 final size:32
Alignment explanation
Indices: 50214973--50215039 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
50214963 TGAATCCCTG
* *** *
50214973 ATTACAACTCTATTTCATTACAATTTTATTCC
1 ATTACAACCCTATTTCATTACAACCCTACTCC
*
50215005 ATTACAGCCCTATTTCATTACAACCCTACTCC
1 ATTACAACCCTATTTCATTACAACCCTACTCC
50215037 ATT
1 ATT
50215040 CCAGTAAACC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.01, T:0.40
Consensus pattern (32 bp):
ATTACAACCCTATTTCATTACAACCCTACTCC
Found at i:50216964 original size:16 final size:16
Alignment explanation
Indices: 50216943--50216974 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50216933 ACATAATCGA
50216943 ACAAAATAGATTAAAT
1 ACAAAATAGATTAAAT
50216959 ACAAAATAGATTAAAT
1 ACAAAATAGATTAAAT
50216975 GTAAAGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (16 bp):
ACAAAATAGATTAAAT
Found at i:50217173 original size:41 final size:40
Alignment explanation
Indices: 50217117--50217253 Score: 134
Period size: 41 Copynumber: 3.5 Consensus size: 40
50217107 CGTTTGGATA
* * *
50217117 AAAAAACGTCACTAAAAATCAAGCATTAGTGGCGCTTTTAT
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT-T
** * * *
50217158 AAAAAACGCCGCTAAAGGTCGAGAATTAGCGGCGCATTTT
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTT
* * * *
50217198 GAAAAACACCGCTAAAAAT-AGGCATTAGCGGCGTTTTTT
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTT
*
50217237 AAAAAGCGCCGC-AAAAA
1 AAAAAACGCCGCTAAAAA
50217254 GCCTAAGCCC
Statistics
Matches: 76, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
38 5 0.07
39 24 0.32
40 16 0.21
41 31 0.41
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTT
Found at i:50217351 original size:41 final size:41
Alignment explanation
Indices: 50217294--50217653 Score: 418
Period size: 41 Copynumber: 8.8 Consensus size: 41
50217284 TTTTGGGGCA
* *
50217294 TTTAGTGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGTCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTCC
* * *
50217335 TTTAGTGGCGTTTTTGAAAATGCGCCACTAATGCTCGGTCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTCC
*
50217376 TTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGCTC-GTGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT-CC
* * *
50217417 TTTAGCGGCGTTTTTGAGATAGCGCCGCTAATGCTCTGTCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTCC
* * * *
50217458 TTTAGCGGCATTTTTGAGAAGGCGCCGCTAATGCTCTGG-CA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-GGTCC
* * * * **
50217499 TTTAGCGGCGTTTTTGAGATAGAGCCGTTAATGCTTAGTCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTCC
* * * *
50217540 TTTAGCAGCGTTTTTGAGAAAGTGCCGCTAATGCTCGGGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTCC
* * * ***
50217581 TTTAGAGGCGTTTTTGGAGAAGCGCCGCTAATGCTCGGAAA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTCC
*
50217622 TTTAGCGGCGTTTTTGAAAAAGCACCGCTAAT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
50217654 AATAATAAAA
Statistics
Matches: 274, Mismatches: 41, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
40 3 0.01
41 268 0.98
42 3 0.01
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTCC
Found at i:50218327 original size:7 final size:8
Alignment explanation
Indices: 50218310--50218338 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
50218300 GGGTTAAGAG
50218310 TTAGGGAT
1 TTAGGGAT
50218318 TTAGGG-T
1 TTAGGGAT
50218325 TTAGGGAT
1 TTAGGGAT
50218333 TTAGGG
1 TTAGGG
50218339 GTCGAGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (8 bp):
TTAGGGAT
Found at i:50218330 original size:15 final size:15
Alignment explanation
Indices: 50218310--50218338 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50218300 GGGTTAAGAG
50218310 TTAGGGATTTAGGGT
1 TTAGGGATTTAGGGT
50218325 TTAGGGATTTAGGG
1 TTAGGGATTTAGGG
50218339 GTCGAGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
TTAGGGATTTAGGGT
Found at i:50218844 original size:15 final size:15
Alignment explanation
Indices: 50218787--50218852 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
50218777 GAGTTCATAT
50218787 TTTAAGGTTTAGGGAA
1 TTTAAGGTTTAGGG-A
*
50218803 TATGAA--TTTAGGGA
1 T-TTAAGGTTTAGGGA
* *
50218817 -TTATGGATTAGGGA
1 TTTAAGGTTTAGGGA
50218831 TTTAAGGTTTAGGGA
1 TTTAAGGTTTAGGGA
*
50218846 TTCAAGG
1 TTTAAGG
50218853 GTCGGGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
12 2 0.05
14 8 0.21
15 25 0.64
16 1 0.03
17 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (15 bp):
TTTAAGGTTTAGGGA
Found at i:50218846 original size:22 final size:22
Alignment explanation
Indices: 50218787--50218847 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
50218777 GAGTTCATAT
* *
50218787 TTTAAGGTTTAGGGAATATGAA
1 TTTAAGGTTTAGGGATTAGGAA
* * * *
50218809 TTTAGGGATTATGGATTAGGGA
1 TTTAAGGTTTAGGGATTAGGAA
50218831 TTTAAGGTTTAGGGATT
1 TTTAAGGTTTAGGGATT
50218848 CAAGGGTCGG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.31, T:0.39
Consensus pattern (22 bp):
TTTAAGGTTTAGGGATTAGGAA
Found at i:50221762 original size:31 final size:33
Alignment explanation
Indices: 50221721--50221788 Score: 95
Period size: 35 Copynumber: 2.1 Consensus size: 33
50221711 TATTTTAAGT
*
50221721 ATATATTACATTAC-T-TACATTACTTACTAAA
1 ATATAGTACATTACTTATACATTACTTACTAAA
50221752 ATATAGTACATTACTTAAATACATTACTTACTAAA
1 ATATAGTACATTACTT--ATACATTACTTACTAAA
50221787 AT
1 AT
50221789 TTACTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 13 0.41
32 1 0.03
35 18 0.56
ACGTcount: A:0.44, C:0.15, G:0.01, T:0.40
Consensus pattern (33 bp):
ATATAGTACATTACTTATACATTACTTACTAAA
Found at i:50221765 original size:18 final size:17
Alignment explanation
Indices: 50221736--50221788 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
50221726 TTACATTACT
*
50221736 TACATTACTTACTAAAA
1 TACAGTACTTACTAAAA
* *
50221753 TATAGTACATTACTTAAA
1 TACAGTAC-TTACTAAAA
*
50221771 TACATTACTTACTAAAA
1 TACAGTACTTACTAAAA
50221788 T
1 T
50221789 TTACTTAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (17 bp):
TACAGTACTTACTAAAA
Found at i:50221776 original size:13 final size:13
Alignment explanation
Indices: 50221758--50221821 Score: 69
Period size: 13 Copynumber: 4.8 Consensus size: 13
50221748 TAAAATATAG
50221758 TACATTACTTAAA
1 TACATTACTTAAA
50221771 TACATTACTTACTAA
1 TACATTACTTA--AA
50221786 -A-ATTTACTTAAA
1 TACA-TTACTTAAA
*
50221798 TATATTACTTAAA
1 TACATTACTTAAA
*
50221811 TACATGACTTA
1 TACATTACTTA
50221822 CTAAAATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
12 2 0.05
13 31 0.70
14 9 0.20
15 2 0.05
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (13 bp):
TACATTACTTAAA
Found at i:50221879 original size:18 final size:18
Alignment explanation
Indices: 50221853--50221943 Score: 105
Period size: 18 Copynumber: 4.9 Consensus size: 18
50221843 CATTACTTAC
50221853 ATTAC-TTACTAAAATAT
1 ATTACATTACTAAAATAT
*
50221870 ATTACATTACTTAAATAT
1 ATTACATTACTAAAATAT
50221888 ATTACA-TACTAAAATTTAT
1 ATTACATTACTAAAA--TAT
*
50221907 AACTTACATTACTTAAATAT
1 -A-TTACATTACTAAAATAT
50221927 ATTACATTACTTAAAAT
1 ATTACATTAC-TAAAAT
50221944 TTATATATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
17 12 0.19
18 26 0.41
19 9 0.14
20 4 0.06
21 5 0.08
22 7 0.11
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTACATTACTAAAATAT
Found at i:50221879 original size:114 final size:115
Alignment explanation
Indices: 50221714--50221955 Score: 366
Period size: 114 Copynumber: 2.1 Consensus size: 115
50221704 AAATATATAT
50221714 TTTAAGTATATATTACATTACTTACATTACTTACTAAAATATAGTACATTACTTAAATACATTAC
1 TTTAAGTATATATTACATTACTTACATTACTTACTAAAATATAGTACATTACTTAAATACATTAC
* *
50221779 TTACTAAAATTTACTTAA-ATATATTACTTAAATACATGAC-TTAC-TAAAA
66 ATACTAAAATTTA--TAACATACATTACTTAAATACATGACATTACTTAAAA
* *
50221828 TTTAAGTATATATTACATTACTTACATTACTTACTAAAATATATTACATTACTTAAATATATTAC
1 TTTAAGTATATATTACATTACTTACATTACTTACTAAAATATAGTACATTACTTAAATACATTAC
* * *
50221893 ATACTAAAATTTATAACTTACATTACTTAAATATATTACATTACTTAAAA
66 ATACTAAAATTTATAACATACATTACTTAAATACATGACATTACTTAAAA
50221943 TTTATA-TATATAT
1 TTTA-AGTATATAT
50221956 ATATTTAAAA
Statistics
Matches: 117, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
112 3 0.03
113 18 0.15
114 79 0.68
115 16 0.14
116 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (115 bp):
TTTAAGTATATATTACATTACTTACATTACTTACTAAAATATAGTACATTACTTAAATACATTAC
ATACTAAAATTTATAACATACATTACTTAAATACATGACATTACTTAAAA
Found at i:50221915 original size:39 final size:38
Alignment explanation
Indices: 50221736--50221948 Score: 215
Period size: 39 Copynumber: 5.6 Consensus size: 38
50221726 TTACATTACT
*
50221736 TACATTACTTACTAAAA--TAT-AGTACATTACTTAAA
1 TACATTACTTACTAAAATTTATAATTACATTACTTAAA
* *
50221771 TACATTACTTACTAAAATTTACTTAAATATATTACTTAAA
1 TACATTACTTACTAAAATTTA--TAATTACATTACTTAAA
* * * **
50221811 TACATGACTTACTAAAATTTA-AGTATATATTACATTACT
1 TACATTACTTACTAAAATTTATAAT-TACATTAC-TTAAA
50221850 TACATTACTTACTAAAA--TAT-ATTACATTACTTAAA
1 TACATTACTTACTAAAATTTATAATTACATTACTTAAA
* *
50221885 TATATTACATACTAAAATTTATAACTTACATTACTTAAA
1 TACATTACTTACTAAAATTTATAA-TTACATTACTTAAA
*
50221924 TATATTACATTACTTAAAATTTATA
1 TACATTAC-TTAC-TAAAATTTATA
50221949 TATATATATA
Statistics
Matches: 149, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
35 35 0.23
36 7 0.05
37 9 0.06
38 9 0.06
39 42 0.28
40 36 0.24
41 11 0.07
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (38 bp):
TACATTACTTACTAAAATTTATAATTACATTACTTAAA
Found at i:50221949 original size:23 final size:23
Alignment explanation
Indices: 50221866--50221974 Score: 75
Period size: 18 Copynumber: 5.3 Consensus size: 23
50221856 ACTTACTAAA
50221866 ATATATTACATTACTT--AA---
1 ATATATTACATTACTTAAAATTT
50221884 ATATATTACA-TAC-TAAAATTT
1 ATATATTACATTACTTAAAATTT
50221905 ATA-ACTTACATTACTT--AA---
1 ATATA-TTACATTACTTAAAATTT
50221923 ATATATTACATTACTTAAAATTT
1 ATATATTACATTACTTAAAATTT
* *
50221946 ATATA-TATATATATTTAAAATTT
1 ATATATTACAT-TACTTAAAATTT
*
50221969 TTATAT
1 ATATAT
50221975 ATGGTATGGA
Statistics
Matches: 72, Mismatches: 3, Indels: 26
0.71 0.03 0.26
Matches are distributed among these distances:
16 1 0.01
17 3 0.04
18 26 0.36
19 1 0.01
20 3 0.04
21 10 0.14
22 7 0.10
23 21 0.29
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATTACATTACTTAAAATTT
Found at i:50222045 original size:12 final size:12
Alignment explanation
Indices: 50222028--50222056 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
50222018 AATAAATTTT
50222028 ATAATTTTAAAA
1 ATAATTTTAAAA
50222040 ATAATTTTAAAA
1 ATAATTTTAAAA
50222052 ATAAT
1 ATAAT
50222057 AACTTACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAATTTTAAAA
Found at i:50222080 original size:9 final size:9
Alignment explanation
Indices: 50222055--50222548 Score: 189
Period size: 9 Copynumber: 57.7 Consensus size: 9
50222045 TTTAAAAATA
50222055 ATAACTTAC
1 ATAACTTAC
50222064 ATAA--TAC
1 ATAACTTAC
*
50222071 ACAACTTAC
1 ATAACTTAC
*
50222080 ATAACTTAA
1 ATAACTTAC
50222089 ATAACTTAC
1 ATAACTTAC
50222098 ATAA--TAC
1 ATAACTTAC
**
50222105 ATAACTTTG
1 ATAACTTAC
*
50222114 ATAACTAAC
1 ATAACTTAC
*
50222123 ATTA--TAC
1 ATAACTTAC
*
50222130 ACAACTTAC
1 ATAACTTAC
*
50222139 ATAACTTATAT
1 ATAAC-T-TAC
*
50222150 ATAAACTTGTAT
1 AT-AAC-T-TAC
*
50222162 ATAAACTTGC
1 AT-AACTTAC
* *
50222172 ACAAGTTAC
1 ATAACTTAC
*
50222181 ATAA-TAATATA
1 ATAACT--TA-C
50222192 ATAACTTAC
1 ATAACTTAC
**
50222201 ATAATACACAAC
1 AT-A-AC-TTAC
* *
50222213 ATACCTTAA
1 ATAACTTAC
50222222 ATAACTTAC
1 ATAACTTAC
50222231 ATAA--TAC
1 ATAACTTAC
* **
50222238 ATAAATTTG
1 ATAACTTAC
*
50222247 ATAACTAAC
1 ATAACTTAC
*
50222256 ATTA--TAC
1 ATAACTTAC
*
50222263 ACAACTTAC
1 ATAACTTAC
50222272 ATAA--TAC
1 ATAACTTAC
***
50222279 ATTTTTTAC
1 ATAACTTAC
50222288 ATAACTTAC
1 ATAACTTAC
50222297 ATAA--TAC
1 ATAACTTAC
*
50222304 ACAACTTAC
1 ATAACTTAC
*
50222313 ---A-TTAA
1 ATAACTTAC
50222318 ATAACTTAC
1 ATAACTTAC
50222327 ATAA--TAC
1 ATAACTTAC
**
50222334 ATAACTTTG
1 ATAACTTAC
*
50222343 ATAACTAAC
1 ATAACTTAC
*
50222352 ATTA--TAC
1 ATAACTTAC
*
50222359 ACAACTTAC
1 ATAACTTAC
50222368 ATAA--TAC
1 ATAACTTAC
**
50222375 ATTTCTTAC
1 ATAACTTAC
*
50222384 ACAACTTAC
1 ATAACTTAC
50222393 ATAA--TAC
1 ATAACTTAC
*
50222400 ACAACTTAC
1 ATAACTTAC
*
50222409 ATAACTTAA
1 ATAACTTAC
50222418 ATAACTTAC
1 ATAACTTAC
50222427 ATAA--TAC
1 ATAACTTAC
**
50222434 ATTTCTTAC
1 ATAACTTAC
50222443 ATAACTTAC
1 ATAACTTAC
50222452 ATAA--TAC
1 ATAACTTAC
*
50222459 ACAACTTAC
1 ATAACTTAC
*
50222468 ATAACTTAA
1 ATAACTTAC
50222477 ATAACTTAC
1 ATAACTTAC
50222486 ATAA--TAC
1 ATAACTTAC
**
50222493 ATTTCTTAC
1 ATAACTTAC
50222502 ATAACTTAC
1 ATAACTTAC
* *
50222511 ATTA--GAC
1 ATAACTTAC
*
50222518 ACAACTTAC
1 ATAACTTAC
50222527 ATAA--TAC
1 ATAACTTAC
*
50222534 ACAACTTAC
1 ATAACTTAC
50222543 ATAACT
1 ATAACT
50222549 CATTTATAGA
Statistics
Matches: 348, Mismatches: 91, Indels: 92
0.66 0.17 0.17
Matches are distributed among these distances:
5 3 0.01
6 1 0.00
7 87 0.25
8 2 0.01
9 215 0.62
10 9 0.03
11 12 0.03
12 19 0.05
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:50222094 original size:34 final size:34
Alignment explanation
Indices: 50222054--50222509 Score: 176
Period size: 34 Copynumber: 14.0 Consensus size: 34
50222044 TTTTAAAAAT
50222054 AATAACTTACATAATACACAACTTACATAACTTA
1 AATAACTTACATAATACACAACTTACATAACTTA
* **
50222088 AATAACTTACATAATACATAACTTTGATAAC-TA
1 AATAACTTACATAATACACAACTTACATAACTTA
* * * *
50222121 ACATTA--TACACAACTTACATAACTTATATATAAACTTGTA
1 A-ATAACTTACATAA--TACACAAC-T-TACAT-AAC-T-TA
* * *
50222161 TATAA---AC-T--TGCACAAGTTACATAA-TAATA
1 AATAACTTACATAATACACAACTTACATAACT--TA
*
50222190 TAATAACTTACATAATACAC-A---ACATACCTTA
1 -AATAACTTACATAATACACAACTTACATAACTTA
* * **
50222221 AATAACTTACATAATACATAAATTTGATAAC-TA
1 AATAACTTACATAATACACAACTTACATAACTTA
* * * ***
50222254 ACATTA--TACACAACTTACATAA--TACATTTTTTA
1 A-ATAACTTACATAA--TACACAACTTACATAACTTA
*
50222287 CATAACTTACATAATACACAACTTAC---A-TTA
1 AATAACTTACATAATACACAACTTACATAACTTA
* **
50222317 AATAACTTACATAATACATAACTTTGATAAC-TA
1 AATAACTTACATAATACACAACTTACATAACTTA
* * * **
50222350 ACATTA--TACACAACTTACATAA--TACATTTCTTA
1 A-ATAACTTACATAA--TACACAACTTACATAACTTA
* *
50222383 CACAACTTACATAATACACAACTTACATAACTTA
1 AATAACTTACATAATACACAACTTACATAACTTA
50222417 AATAACTTACATAAT--AC-A-TT---T--CTTA
1 AATAACTTACATAATACACAACTTACATAACTTA
*
50222442 CATAACTTACATAATACACAACTTACATAACTTA
1 AATAACTTACATAATACACAACTTACATAACTTA
***
50222476 AATAACTTACATAATACATTTCTTACATAACTTA
1 AATAACTTACATAATACACAACTTACATAACTTA
50222510 CATTAGACAC
Statistics
Matches: 313, Mismatches: 58, Indels: 102
0.66 0.12 0.22
Matches are distributed among these distances:
25 18 0.06
27 3 0.01
28 2 0.01
29 4 0.01
30 51 0.16
31 8 0.03
32 51 0.16
33 22 0.07
34 135 0.43
35 2 0.01
36 7 0.02
37 3 0.01
38 2 0.01
39 3 0.01
40 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (34 bp):
AATAACTTACATAATACACAACTTACATAACTTA
Found at i:50222105 original size:25 final size:25
Alignment explanation
Indices: 50222051--50222548 Score: 196
Period size: 25 Copynumber: 19.8 Consensus size: 25
50222041 TAATTTTAAA
*
50222051 AATA-ATAACTTACATAA--TACAC
1 AATACATAACTTACATAACTTACAT
*
50222073 AACTTACATAACTTAAATAACTTACAT
1 AA--TACATAACTTACATAACTTACAT
** *
50222100 AATACATAACTTTGATAACTAACAT
1 AATACATAACTTACATAACTTACAT
* *
50222125 TATACACAACTTACATAACTT--AT
1 AATACATAACTTACATAACTTACAT
* * * *
50222148 -ATATA-AACTTGTATATAAACTTGCAC
1 AATACATAAC-T-TACAT-AACTTACAT
*
50222174 AAGTTACATAA-TAATATAATAACTTACAT
1 AA--TACATAACT--TA-CATAACTTACAT
* *
50222203 AATACACAACATACCTTAAATAACTTACAT
1 AAT-----ACATAACTTACATAACTTACAT
* ** *
50222233 AATACATAAATTTGATAACTAACAT
1 AATACATAACTTACATAACTTACAT
* *
50222258 TATACACAACTTACATAA--TACATTT
1 AATACATAACTTACATAACTTACA--T
**
50222283 TTTACATAACTTACATAA--TACA-
1 AATACATAACTTACATAACTTACAT
* * *
50222305 CA-AC-TTACATTAAATAACTTACAT
1 AATACATAAC-TTACATAACTTACAT
** *
50222329 AATACATAACTTTGATAACTAACAT
1 AATACATAACTTACATAACTTACAT
* *
50222354 TATACACAACTTACATAA--TACATTT
1 AATACATAACTTACATAACTTACA--T
** * *
50222379 CTTACACAACTTACATAA--TACAC
1 AATACATAACTTACATAACTTACAT
*
50222402 AACTTACATAACTTAAATAACTTACAT
1 AA--TACATAACTTACATAACTTACAT
**
50222429 AATACATTTCTTACATAACTTACAT
1 AATACATAACTTACATAACTTACAT
* *
50222454 AATACACAACTTACATAACTTAAAT
1 AATACATAACTTACATAACTTACAT
**
50222479 AACTTACATAA--TACATTTCTTACAT
1 AA--TACATAACTTACATAACTTACAT
* * *
50222504 AACTTACATTA--GACACAACTTACAT
1 AA--TACATAACTTACATAACTTACAT
*
50222529 AATACACAACTTACATAACT
1 AATACATAACTTACATAACT
50222549 CATTTATAGA
Statistics
Matches: 362, Mismatches: 74, Indels: 77
0.71 0.14 0.15
Matches are distributed among these distances:
20 3 0.01
21 12 0.03
22 7 0.02
23 21 0.06
24 8 0.02
25 245 0.68
26 4 0.01
27 20 0.06
28 1 0.00
29 14 0.04
30 19 0.05
31 2 0.01
32 5 0.01
33 1 0.00
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (25 bp):
AATACATAACTTACATAACTTACAT
Found at i:50222162 original size:12 final size:12
Alignment explanation
Indices: 50222141--50222170 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50222131 CAACTTACAT
*
50222141 AACTTATATATA
1 AACTTGTATATA
50222153 AACTTGTATATA
1 AACTTGTATATA
50222165 AACTTG
1 AACTTG
50222171 CACAAGTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (12 bp):
AACTTGTATATA
Found at i:50222271 original size:41 final size:41
Alignment explanation
Indices: 50222224--50222489 Score: 148
Period size: 41 Copynumber: 6.7 Consensus size: 41
50222214 TACCTTAAAT
* *
50222224 AACTTACATAATACATAAATTT-GATAACTAACATTATACAC
1 AACTTACATAATACAT-AATTTACATAACTAACATAATACAC
** *
50222265 AACTTACATAATACATTTTTTACATAACTTACATAATACAC
1 AACTTACATAATACATAATTTACATAACTAACATAATACAC
* * ** *
50222306 AACTTACAT--TAAATAACTTACATAA-T-ACATAACTTTGAT
1 AACTTACATAATACATAATTTACATAACTAACATAA--TACAC
* * * * **
50222345 AACTAACATTATACACAACTTACATAA-T-ACATTTCTTACAC
1 AACTTACATAATACATAATTTACATAACTAACA--TAATACAC
* * *
50222386 AACTTACATAATACACAACTTACATAACT----T-A-A-AT
1 AACTTACATAATACATAATTTACATAACTAACATAATACAC
* *
50222420 AACTTACATAATACAT-TTCTTACATAACTTACATAATACAC
1 AACTTACATAATACATAAT-TTACATAACTAACATAATACAC
* *
50222461 AACTTACATAACTTAAATAACTTACATAA
1 AACTTACATAA--TACATAATTTACATAA
50222490 TACATTTCTT
Statistics
Matches: 175, Mismatches: 31, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
34 26 0.15
35 1 0.01
37 7 0.04
38 2 0.01
39 23 0.13
40 4 0.02
41 98 0.56
42 1 0.01
43 13 0.07
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.33
Consensus pattern (41 bp):
AACTTACATAATACATAATTTACATAACTAACATAATACAC
Found at i:50222298 original size:96 final size:96
Alignment explanation
Indices: 50222192--50222471 Score: 416
Period size: 96 Copynumber: 2.9 Consensus size: 96
50222182 TAATAATATA
*
50222192 ATAACTTACATAATACACAACATACCTTAAATAACTTACATAATACATAAATTTGATAACTAACA
1 ATAACTTACATAATACACAACATACCTTAAATAACTTACATAATACATAACTTTGATAACTAACA
*
50222257 TTATACACAACTTACATAATACATTTTTTAC
66 TTATACACAACTTACATAATACATTTCTTAC
* *
50222288 ATAACTTACATAATACACAACTTACATTAAATAACTTACATAATACATAACTTTGATAACTAACA
1 ATAACTTACATAATACACAACATACCTTAAATAACTTACATAATACATAACTTTGATAACTAACA
50222353 TTATACACAACTTACATAATACATTTCTTAC
66 TTATACACAACTTACATAATACATTTCTTAC
* * ** **
50222384 ACAACTTACATAATACACAACTTACATAACTTAAATAACTTACATAATACATTTCTTACATAACT
1 ATAACTTACATAATACAC-A---ACATACCTTAAATAACTTACATAATACATAACTTTGATAACT
* *
50222449 TACATAATACACAACTTACATAA
62 AACATTATACACAACTTACATAA
50222472 CTTAAATAAC
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
96 109 0.66
97 1 0.01
100 56 0.34
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.33
Consensus pattern (96 bp):
ATAACTTACATAATACACAACATACCTTAAATAACTTACATAATACATAACTTTGATAACTAACA
TTATACACAACTTACATAATACATTTCTTAC
Found at i:50222333 original size:55 final size:55
Alignment explanation
Indices: 50222265--50222369 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 55
50222255 CATTATACAC
** *
50222265 AACTTACATAATACAT-TTTTTACATAACTTACATAATACACAACTTACATTAAAT
1 AACTTACATAATACATAACTTT-CATAACTAACATAATACACAACTTACATTAAAT
* *
50222320 AACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACAT
1 AACTTACATAATACATAACTTTCATAACTAACATAATACACAACTTACAT
50222370 AATACATTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 41 0.93
56 3 0.07
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (55 bp):
AACTTACATAATACATAACTTTCATAACTAACATAATACACAACTTACATTAAAT
Found at i:50222335 original size:133 final size:129
Alignment explanation
Indices: 50222189--50222530 Score: 161
Period size: 118 Copynumber: 2.7 Consensus size: 129
50222179 ACATAATAAT
*
50222189 ATAATAACTTACATAATAC----A-CAACATACCTTAAATAACTTACATAATACATAAATTTGAT
1 ATAATAACTTACATAATACATAAACCAACATAACTTAAATAACTTACATAATACATAAATTTGAT
* *
50222249 AACTAACATTATACACAACTTACATAATACATTTTTTACATAAC-T-TACAT-AA-TACACAACT
66 AACTAACATTATACACAACTTACAT-A-AC-TTATATACA-AACTTGTACATAAACTACACAACT
50222310 TAC
127 TAC
* *
50222313 ATTAAATAACTTACATAATACAT-AACTTTGATA-ACTAACATTATACACAACTTACATAATACA
1 A-T-AATAACTTACATAATACATAAAC---CA-ACA-TAAC-TTA-A-ATAACTTACATAATACA
*** ** * * * *
50222376 TTTCTTACACAACTTACATAATACACAACTTACATAACTTA-A-A-TAAC-T-TACAT-AA-TAC
56 TAAATTTGATAACTAACATTATACACAACTTACATAACTTATATACAAACTTGTACATAAACTAC
***
50222434 ATTTCTTAC
121 ACAACTTAC
* ** *** **
50222443 ---ATAACTTACATAATACA-CAACTTACATAACTTAAATAACTTACATAATACATTTCTTACAT
1 ATAATAACTTACATAATACATAAACCAACATAACTTAAATAACTTACATAATACATAAATTTGAT
* *
50222504 AACTTACATTAGACACAACTTACATAA
66 AACTAACATTATACACAACTTACATAA
50222531 TACACAACTT
Statistics
Matches: 179, Mismatches: 23, Indels: 38
0.75 0.10 0.16
Matches are distributed among these distances:
118 50 0.28
119 1 0.01
120 3 0.02
121 5 0.03
122 1 0.01
124 1 0.01
125 21 0.12
126 17 0.09
129 1 0.01
130 20 0.11
132 1 0.01
133 2 0.01
134 6 0.03
135 5 0.03
136 2 0.01
137 43 0.24
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (129 bp):
ATAATAACTTACATAATACATAAACCAACATAACTTAAATAACTTACATAATACATAAATTTGAT
AACTAACATTATACACAACTTACATAACTTATATACAAACTTGTACATAAACTACACAACTTAC
Found at i:50222424 original size:59 final size:59
Alignment explanation
Indices: 50222361--50222546 Score: 313
Period size: 59 Copynumber: 3.2 Consensus size: 59
50222351 CATTATACAC
*
50222361 AACTTACATAATACATTTCTTACACAACTTACATAATACACAACTTACATAACTTAAAT
1 AACTTACATAATACATTTCTTACATAACTTACATAATACACAACTTACATAACTTAAAT
50222420 AACTTACATAATACATTTCTTACATAACTTACATAATACACAACTTACATAACTTAAAT
1 AACTTACATAATACATTTCTTACATAACTTACATAATACACAACTTACATAACTTAAAT
* * * *
50222479 AACTTACATAATACATTTCTTACATAACTTACATTAGACACAACTTACATAA--TACAC
1 AACTTACATAATACATTTCTTACATAACTTACATAATACACAACTTACATAACTTAAAT
50222536 AACTTACATAA
1 AACTTACATAA
50222547 CTCATTTATA
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
57 14 0.11
59 108 0.89
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.32
Consensus pattern (59 bp):
AACTTACATAATACATTTCTTACATAACTTACATAATACACAACTTACATAACTTAAAT
Found at i:50227733 original size:19 final size:19
Alignment explanation
Indices: 50227709--50227746 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
50227699 GTAAATATTT
*
50227709 TTATCATTTTGACTTTTAA
1 TTATCATTTTAACTTTTAA
50227728 TTATCATTTTAACTTTTAA
1 TTATCATTTTAACTTTTAA
50227747 CATTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATCATTTTAACTTTTAA
Found at i:50227794 original size:11 final size:11
Alignment explanation
Indices: 50227778--50227804 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50227768 AATTTTATTT
50227778 TATTTATTATA
1 TATTTATTATA
50227789 TATTTATTATA
1 TATTTATTATA
50227800 TATTT
1 TATTT
50227805 TTCGTTTCAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTATTATA
Found at i:50228006 original size:43 final size:42
Alignment explanation
Indices: 50227954--50228219 Score: 257
Period size: 43 Copynumber: 6.3 Consensus size: 42
50227944 AAAAAAGCAT
*
50227954 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAATGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTT-TGGAAAAAGTGC
* ** * * * *
50227997 CGCGAAAGGTCACCGTCTTTCGCGACGTTTTTGAGAAAAGCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTTGGA-AAAAGTGC
* * * *
50228040 CGCTAAAGGTCACGGTCTTTAGCGGCATTTTTGAGAAA-TCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTTGGAAAAAGT-GC
* ** *
50228082 CGTTAAATATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGTGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTT-TGGAAAAAGTGC
* *
50228125 CGCTAAAGGTCAGGGTCTTTAGCGGCGTTTGTGGGAAAAGTGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTT-TGGAAAAAGTGC
* * * * * *
50228168 CGCTAAAGATCATGTTCTTTAGTGGTGTTTTGG-AAAAGCGT
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTTGGAAAAAGTGC
50228209 CGCTAAAGGTC
1 CGCTAAAGGTC
50228220 GTTGCCTTTA
Statistics
Matches: 184, Mismatches: 35, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
41 16 0.09
42 36 0.20
43 131 0.71
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (42 bp):
CGCTAAAGGTCATGGTCTTTAGCGGCGTTTTGGAAAAAGTGC
Found at i:50228130 original size:85 final size:85
Alignment explanation
Indices: 50227954--50228219 Score: 279
Period size: 85 Copynumber: 3.1 Consensus size: 85
50227944 AAAAAAGCAT
* * * * * ** *
50227954 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTG-GAAAAAATGCCGCGAAAGGTCACCGTCTTTC
1 CGCTAAAGGTCACGGTCTTTAGCGGCATTTGTGAG-AAAAGTGCCGCTAAAGATCATGGTCTTTA
* *
50228018 GCGACGTTTTTGAGAAAAGCGC
65 GCGGCG-TTTTGGGAAAAGCGC
* * *
50228040 CGCTAAAGGTCACGGTCTTTAGCGGCATTTTTGAG-AAA-TCGCCGTTAAATATCATGGTCTTTA
1 CGCTAAAGGTCACGGTCTTTAGCGGCATTTGTGAGAAAAGT-GCCGCTAAAGATCATGGTCTTTA
*
50228103 GCGGCGTTTGTGGGAAAAGTGC
65 GCGGCGTTT-TGGGAAAAGCGC
* * * *
50228125 CGCTAAAGGTCAGGGTCTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGATCATGTTCTTTAG
1 CGCTAAAGGTCACGGTCTTTAGCGGCATTTGTGAGAAAAGTGCCGCTAAAGATCATGGTCTTTAG
* * *
50228190 TGGTGTTTT-GGAAAAGCGT
66 CGGCGTTTTGGGAAAAGCGC
50228209 CGCTAAAGGTC
1 CGCTAAAGGTC
50228220 GTTGCCTTTA
Statistics
Matches: 151, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
84 23 0.15
85 66 0.44
86 60 0.40
87 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (85 bp):
CGCTAAAGGTCACGGTCTTTAGCGGCATTTGTGAGAAAAGTGCCGCTAAAGATCATGGTCTTTAG
CGGCGTTTTGGGAAAAGCGC
Found at i:50228245 original size:128 final size:127
Alignment explanation
Indices: 50227946--50228246 Score: 332
Period size: 128 Copynumber: 2.4 Consensus size: 127
50227936 GTTTTTTCAA
* *
50227946 AAAAGCATCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAATGCCGCGAAAGGTCACC
1 AAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAATGCCGCGAAAGGTCACC
* * * *
50228011 GTCTTTCGCGACGTTTTTGAGAAAAGCGCCGCTAAAGGTCACGGTCTTTAGCGGCATTTTTG
66 GTCTTTAGCGACGTTTGTGAGAAAAGCGCCGCTAAAGATCACGGTCTTTAGCGGCATTTTGG
* * * ** * * *
50228073 AGAAATCGCCGTTAAATATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCAG
1 A-AAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAATGCCGCGAAAGGTCAC
* * * * * * * **
50228138 GGTCTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGATCATGTTCTTTAGTGGTGTTTTGG
65 CGTCTTTAGCGACGTTTGTGAGAAAAGCGCCGCTAAAGATCACGGTCTTTAGCGGCATTTTGG
* * * **
50228201 AAAAGCGTCGCTAAAGGTCGTTGCCTTTAGCAACGTTTGTTGGGAA
1 AAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTG-TGGGAA
50228247 TGCGCTGCTA
Statistics
Matches: 139, Mismatches: 33, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
127 29 0.21
128 110 0.79
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (127 bp):
AAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAATGCCGCGAAAGGTCACC
GTCTTTAGCGACGTTTGTGAGAAAAGCGCCGCTAAAGATCACGGTCTTTAGCGGCATTTTGG
Found at i:50228257 original size:84 final size:86
Alignment explanation
Indices: 50227954--50228280 Score: 225
Period size: 85 Copynumber: 3.8 Consensus size: 86
50227944 AAAAAAGCAT
* * ** * ** * * ** *
50227954 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAATGCCGCGAAAGGTCACCGTCTTTCG
1 CGCTAAAGGTCAGGGCCTTTAGCAACGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTCTTTAG
* * *
50228019 CGACGTTTTTGAGAAAAGCGC
66 CGGCGTTTGTGGGAAAAGCGC
* * ** * * * * * *
50228040 CGCTAAAGGTCACGGTCTTTAGCGGCATTTTTGAG-AAATCGCCGTTAAATATCATGGTCTTTAG
1 CGCTAAAGGTCAGGGCCTTTAGCAACGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTCTTTAG
*
50228104 CGGCGTTTGTGGGAAAAGTGC
66 CGGCGTTTGTGGGAAAAGCGC
* ** * *
50228125 CGCTAAAGGTCAGGGTCTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGATCATGTTCTTTAG
1 CGCTAAAGGTCAGGGCCTTTAGCAACGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTCTTTAG
* * *
50228190 TGGTGTTT-T-GGAAAAGCGT
66 CGGCGTTTGTGGGAAAAGCGC
* * * ***
50228209 CGCTAAAGGTC-GTTGCCTTTAGCAACGTTTGTTGGG-AATGCGCTGCTAAA-AGTCATAACCTT
1 CGCTAAAGGTCAG-GGCCTTTAGCAACGTTTG-TGGGAAAAGCGCCGCTAAAGA-TCATGGTCTT
50228271 TAGCGGCGTT
63 TAGCGGCGTT
50228281 ATTTAAAAAA
Statistics
Matches: 194, Mismatches: 43, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
83 2 0.01
84 59 0.30
85 73 0.38
86 60 0.31
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (86 bp):
CGCTAAAGGTCAGGGCCTTTAGCAACGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTCTTTAG
CGGCGTTTGTGGGAAAAGCGC
Found at i:50230074 original size:165 final size:165
Alignment explanation
Indices: 50229796--50230123 Score: 557
Period size: 165 Copynumber: 2.0 Consensus size: 165
50229786 TTTTAACCAA
* * * *
50229796 TTTTATATTTAAAACCAAGTTTCATGCATATTTAAGCATAATCATAAGTTTGTTCAGTTTCAAAC
1 TTTTATATTAAAAACCAAGTTTCATGCATATTTAAGCATAATCATAAATTTATCCAGTTTCAAAC
50229861 GTTTTTGCATGTAAAGCAAACTAAAACCAACCAAAAATAACCCATGCCACAGTCCAAATAAATTA
66 GTTTTTGCATGTAAAGCAAACTAAAACCAACCAAAAATAACCCATGCCACAGTCCAAATAAATTA
*
50229926 TTACAATCCCCAAATAGAAATTGATAAATTAAATT
131 TTACAACCCCCAAATAGAAATTGATAAATTAAATT
*
50229961 TTTTATATTAAAAACCAGGTTTCATGCATATTTAAGCATAATCATAAATTTATCCAGTTTCAAAC
1 TTTTATATTAAAAACCAAGTTTCATGCATATTTAAGCATAATCATAAATTTATCCAGTTTCAAAC
* * *
50230026 GTTTTTGCATGTAATGCAAACTAAAACCAACCAAAAATAACTCATGCCATAGTCCAAATAAATTA
66 GTTTTTGCATGTAAAGCAAACTAAAACCAACCAAAAATAACCCATGCCACAGTCCAAATAAATTA
* *
50230091 TTATAGCCCCCAAATAGAAATTGATAAATTAAA
131 TTACAACCCCCAAATAGAAATTGATAAATTAAA
50230124 GTAAAAATAC
Statistics
Matches: 152, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
165 152 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (165 bp):
TTTTATATTAAAAACCAAGTTTCATGCATATTTAAGCATAATCATAAATTTATCCAGTTTCAAAC
GTTTTTGCATGTAAAGCAAACTAAAACCAACCAAAAATAACCCATGCCACAGTCCAAATAAATTA
TTACAACCCCCAAATAGAAATTGATAAATTAAATT
Found at i:50237221 original size:15 final size:15
Alignment explanation
Indices: 50237201--50237235 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50237191 GTTAATTTAG
50237201 ATTAAAAATTAGTTA
1 ATTAAAAATTAGTTA
**
50237216 ATTAAACTTTAGTTA
1 ATTAAAAATTAGTTA
50237231 ATTAA
1 ATTAA
50237236 TTGAGATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (15 bp):
ATTAAAAATTAGTTA
Found at i:50238525 original size:42 final size:42
Alignment explanation
Indices: 50238463--50238568 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
50238453 CCACCAGTAT
* *
50238463 TTGCAAATAAACTACTAGAAATATGTGGATAAATCACCAAAA
1 TTGCAAATAAACTACCAGAAATATGTGGATAAACCACCAAAA
* * * *
50238505 TTGTAGATAAATTGCCAGAAATATGTGGATAAACCACCAAAA
1 TTGCAAATAAACTACCAGAAATATGTGGATAAACCACCAAAA
50238547 TTGCAAATAAACTACCAGAAAT
1 TTGCAAATAAACTACCAGAAAT
50238569 TTTCTCCTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (42 bp):
TTGCAAATAAACTACCAGAAATATGTGGATAAACCACCAAAA
Found at i:50238536 original size:22 final size:22
Alignment explanation
Indices: 50238479--50238547 Score: 81
Period size: 20 Copynumber: 3.3 Consensus size: 22
50238469 ATAAACTACT
50238479 AGAAATATGTGGATAAATCACC
1 AGAAATATGTGGATAAATCACC
* **
50238501 A-AAAT-TGTAGATAAATTGCC
1 AGAAATATGTGGATAAATCACC
*
50238521 AGAAATATGTGGATAAACCACC
1 AGAAATATGTGGATAAATCACC
50238543 A-AAAT
1 AGAAAT
50238548 TGCAAATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 13 0.34
21 12 0.32
22 13 0.34
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (22 bp):
AGAAATATGTGGATAAATCACC
Found at i:50248350 original size:42 final size:42
Alignment explanation
Indices: 50248253--50248412 Score: 257
Period size: 43 Copynumber: 3.8 Consensus size: 42
50248243 GCTGAAGAAC
*
50248253 GCGCTCAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCG
1 GCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCG
*
50248295 GCGCTTAGAAAAAAAACGCCTCTAAAGACCATGTTCTTTAGCG
1 GCGCTTAG-AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCG
*
50248338 GCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCGTTAGCG
1 GCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCG
* *
50248380 GCGCTTAGAGAAAAAGCGCCGCTAAAGAACATG
1 GCGCTTAGA-AAAAAACGCCGCTAAAGACCATG
50248413 AGAAATAATG
Statistics
Matches: 110, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
42 48 0.44
43 62 0.56
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.19
Consensus pattern (42 bp):
GCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCG
Found at i:50248405 original size:85 final size:85
Alignment explanation
Indices: 50248253--50248412 Score: 266
Period size: 85 Copynumber: 1.9 Consensus size: 85
50248243 GCTGAAGAAC
* *
50248253 GCGCTCAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCTCT
1 GCGCTCAGAAAAAAACGCCGCTAAAGACCATGTTCGTTAGCGGCGCTTAGAAAAAAAACGCCGCT
*
50248318 AAAGACCATGTTCTTTAGCG
66 AAAGAACATGTTCTTTAGCG
* * *
50248338 GCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCGTTAGCGGCGCTTAGAGAAAAAGCGCCGCT
1 GCGCTCAGAAAAAAACGCCGCTAAAGACCATGTTCGTTAGCGGCGCTTAGAAAAAAAACGCCGCT
50248403 AAAGAACATG
66 AAAGAACATG
50248413 AGAAATAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.19
Consensus pattern (85 bp):
GCGCTCAGAAAAAAACGCCGCTAAAGACCATGTTCGTTAGCGGCGCTTAGAAAAAAAACGCCGCT
AAAGAACATGTTCTTTAGCG
Found at i:50248812 original size:21 final size:21
Alignment explanation
Indices: 50248786--50248835 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
50248776 TTTTGGTCTG
*
50248786 CTCTGCTTCCTTCGCTG-CGGC
1 CTCTGCTTCCCTCGCTGTC-GC
50248807 CTCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
50248828 CTCTGCTT
1 CTCTGCTT
50248836 TAATTTGTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.00, C:0.44, G:0.20, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:50254323 original size:9 final size:9
Alignment explanation
Indices: 50254309--50254393 Score: 79
Period size: 9 Copynumber: 9.9 Consensus size: 9
50254299 AAGTTATACA
50254309 TTATGTAAG
1 TTATGTAAG
50254318 TTATGTAAG
1 TTATGTAAG
50254327 TTATGTAAG
1 TTATGTAAG
*
50254336 TTGTGTAAG
1 TTATGTAAG
*
50254345 TTGTGT-A-
1 TTATGTAAG
* *
50254352 TTATGAAAC
1 TTATGTAAG
50254361 TTATGTAAG
1 TTATGTAAG
**
50254370 TTGCGTAAG
1 TTATGTAAG
*
50254379 TTGTGT-A-
1 TTATGTAAG
50254386 TTATGTAA
1 TTATGTAA
50254394 CTTACCCTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
7 9 0.14
8 4 0.06
9 51 0.80
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:50254356 original size:34 final size:34
Alignment explanation
Indices: 50254318--50254397 Score: 133
Period size: 34 Copynumber: 2.4 Consensus size: 34
50254308 ATTATGTAAG
* *
50254318 TTATGTAAGTTATGTAAGTTGTGTAAGTTGTGTA
1 TTATGTAACTTATGTAAGTTGCGTAAGTTGTGTA
*
50254352 TTATGAAACTTATGTAAGTTGCGTAAGTTGTGTA
1 TTATGTAACTTATGTAAGTTGCGTAAGTTGTGTA
50254386 TTATGTAACTTA
1 TTATGTAACTTA
50254398 CCCTTGACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.45
Consensus pattern (34 bp):
TTATGTAACTTATGTAAGTTGCGTAAGTTGTGTA
Found at i:50254512 original size:9 final size:9
Alignment explanation
Indices: 50254498--50254899 Score: 163
Period size: 9 Copynumber: 46.9 Consensus size: 9
50254488 AAGTTATACA
50254498 TTATGTAAG
1 TTATGTAAG
50254507 TTATGTAAG
1 TTATGTAAG
*
50254516 TTGTGT-A-
1 TTATGTAAG
* *
50254523 TTATGAAAC
1 TTATGTAAG
50254532 TTATGTAAG
1 TTATGTAAG
**
50254541 TTGCGTAAG
1 TTATGTAAG
*
50254550 TTGTGT-A-
1 TTATGTAAG
*
50254557 TTATGTAAC
1 TTATGTAAG
* *
50254566 TTATTTAAC
1 TTATGTAAG
*
50254575 TTATGTAGG
1 TTATGTAAG
*
50254584 GTATGTATTA-
1 TTATGTA--AG
*
50254594 TTATGTAAC
1 TTATGTAAG
* *
50254603 TTATTTAAA
1 TTATGTAAG
*
50254612 TTATGTAGG
1 TTATGTAAG
*
50254621 GTATGTAAG
1 TTATGTAAG
50254630 TTATGTAAG
1 TTATGTAAG
*
50254639 TTCTGT-A-
1 TTATGTAAG
*
50254646 TTATTTACA-
1 TTATGTA-AG
*
50254655 -CATGTAAG
1 TTATGTAAG
*
50254663 TTATGT--C
1 TTATGTAAG
50254670 TTATGTAAG
1 TTATGTAAG
**
50254679 TTGCGTAAG
1 TTATGTAAG
*
50254688 TTGTGT-A-
1 TTATGTAAG
* *
50254695 TTATGAAAC
1 TTATGTAAG
50254704 TTATGTAAG
1 TTATGTAAG
**
50254713 TTGCGTAAG
1 TTATGTAAG
*
50254722 TTGTGT-A-
1 TTATGTAAG
*
50254729 TTATGTAAC
1 TTATGTAAG
* *
50254738 TTATTTAAT
1 TTATGTAAG
*
50254747 TTATGTAGG
1 TTATGTAAG
*
50254756 GTATGTATTA-
1 TTATGTA--AG
*
50254766 TTATGTAAC
1 TTATGTAAG
* *
50254775 TTATTTAAT
1 TTATGTAAG
*
50254784 TTATGTAGG
1 TTATGTAAG
*
50254793 GTATGTAAG
1 TTATGTAAG
50254802 TTATGTAAG
1 TTATGTAAG
*
50254811 TTCTGT-A-
1 TTATGTAAG
*
50254818 TTATTTACA-
1 TTATGTA-AG
*
50254827 -CATGTAAG
1 TTATGTAAG
*
50254835 TTGTGT-A-
1 TTATGTAAG
50254842 TTATGTAAG
1 TTATGTAAG
*
50254851 TTATGCAAG
1 TTATGTAAG
50254860 TTATGT-A-
1 TTATGTAAG
* *
50254867 TTAAGTAGG
1 TTATGTAAG
50254876 TTATGTAAG
1 TTATGTAAG
50254885 TTATGT--G
1 TTATGTAAG
50254892 TTATGTAA
1 TTATGTAA
50254900 ATGAATATAT
Statistics
Matches: 290, Mismatches: 73, Indels: 60
0.69 0.17 0.14
Matches are distributed among these distances:
7 51 0.18
8 23 0.08
9 204 0.70
10 12 0.04
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:50254516 original size:25 final size:25
Alignment explanation
Indices: 50254487--50254542 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
50254477 GATTTAGGAA
* *
50254487 TAAGTTATACATTATGTAAGTTATG
1 TAAGTTATACATTATGAAACTTATG
* **
50254512 TAAGTTGTGTATTATGAAACTTATG
1 TAAGTTATACATTATGAAACTTATG
50254537 TAAGTT
1 TAAGTT
50254543 GCGTAAGTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.45
Consensus pattern (25 bp):
TAAGTTATACATTATGAAACTTATG
Found at i:50254541 original size:34 final size:34
Alignment explanation
Indices: 50254498--50254866 Score: 208
Period size: 34 Copynumber: 10.5 Consensus size: 34
50254488 AAGTTATACA
*
50254498 TTATGTAAGTTATGTAAGTTGTGTATTATGAAAC
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAAC
**
50254532 TTATGTAAGTTGCGTAAGTTGTGTATTATGTAAC
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAAC
* * * *
50254566 TTATTTAACTTATGTAGGGTATGTATTATTATGTAAC
1 TTATGTAAGTTATGTA-AGT-TGT-GTATTATGTAAC
* * * * * *
50254603 TTATTTAAATTATGTAGGGTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAGTTGTGT-A-TTATGTAAC
* * ** *
50254639 TTCTGT-A-TTATTTACACATGT-AAGTTATGT--C
1 TTATGTAAGTTATGTA-AGTTGTGTA-TTATGTAAC
** *
50254670 TTATGTAAGTTGCGTAAGTTGTGTATTATGAAAC
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAAC
**
50254704 TTATGTAAGTTGCGTAAGTTGTGTATTATGTAAC
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAAC
* * * *
50254738 TTATTTAATTTATGTAGGGTATGTATTATTATGTAAC
1 TTATGTAAGTTATGTA-AGT-TGT-GTATTATGTAAC
* * * * * *
50254775 TTATTTAATTTATGTAGGGTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAGTTGTGT-A-TTATGTAAC
* * *
50254811 TTCTGTATTATTTACACATGTAAGTTGTGTATTATGTAAG
1 TTATGTA--AGTT----ATGTAAGTTGTGTATTATGTAAC
*
50254851 TTATGCAAGTTATGTA
1 TTATGTAAGTTATGTA
50254867 TTAAGTAGGT
Statistics
Matches: 263, Mismatches: 50, Indels: 44
0.74 0.14 0.12
Matches are distributed among these distances:
31 5 0.02
32 10 0.04
33 13 0.05
34 102 0.39
35 13 0.05
36 35 0.13
37 53 0.20
38 7 0.03
40 14 0.05
41 1 0.00
42 10 0.04
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.46
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTGTGTATTATGTAAC
Found at i:50254603 original size:37 final size:37
Alignment explanation
Indices: 50254555--50254799 Score: 169
Period size: 37 Copynumber: 7.0 Consensus size: 37
50254545 GTAAGTTGTG
*
50254555 TATTATGTAACTTATTTAACTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAAGTTATGTAGGGTATGTAT
*
50254592 TATTATGTAACTTATTTAAATTATGTAGGGTATGTA-
1 TATTATGTAACTTATTTAAGTTATGTAGGGTATGTAT
* * * * ***
50254628 -AGTTATGTAAGTTCTGT-A-TTATTTA-CACATGTA-
1 TA-TTATGTAACTTATTTAAGTTATGTAGGGTATGTAT
* ** * *
50254661 -AGTTATGT--CTTATGTAAGTTGCGTA-AGT-TGT-G
1 TA-TTATGTAACTTATTTAAGTTATGTAGGGTATGTAT
* * ** * *
50254693 TATTATGAAACTTATGTAAGTTGCGTA-AGT-TGT-G
1 TATTATGTAACTTATTTAAGTTATGTAGGGTATGTAT
*
50254727 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAAGTTATGTAGGGTATGTAT
*
50254764 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TATTATGTAACTTATTTAAGTTATGTAGGGTATGTA
50254800 AGTTATGTAA
Statistics
Matches: 174, Mismatches: 24, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
31 5 0.03
32 9 0.05
33 18 0.10
34 52 0.30
35 4 0.02
36 15 0.09
37 71 0.41
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.47
Consensus pattern (37 bp):
TATTATGTAACTTATTTAAGTTATGTAGGGTATGTAT
Found at i:50254711 original size:25 final size:25
Alignment explanation
Indices: 50254630--50254715 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 25
50254620 GGTATGTAAG
* * *
50254630 TTATGTAAGTTCTGTATTATTTACAC
1 TTATGTAAGTTGTGTATTA-TGAAAC
* * * *
50254656 --ATGTAAGTTATGTCTTATGTAAG
1 TTATGTAAGTTGTGTATTATGAAAC
**
50254679 TTGCGTAAGTTGTGTATTATGAAAC
1 TTATGTAAGTTGTGTATTATGAAAC
50254704 TTATGTAAGTTG
1 TTATGTAAGTTG
50254716 CGTAAGTTGT
Statistics
Matches: 44, Mismatches: 14, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
23 2 0.05
24 15 0.34
25 27 0.61
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTAAGTTGTGTATTATGAAAC
Found at i:50254878 original size:25 final size:25
Alignment explanation
Indices: 50254832--50254899 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
50254822 TTACACATGT
* *
50254832 AAGTTGTGTATTATGTAAGTTATGC
1 AAGTTATGTATTAAGTAAGTTATGC
* *
50254857 AAGTTATGTATTAAGTAGGTTATGT
1 AAGTTATGTATTAAGTAAGTTATGC
* *
50254882 AAGTTATGTGTTATGTAA
1 AAGTTATGTATTAAGTAA
50254900 ATGAATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (25 bp):
AAGTTATGTATTAAGTAAGTTATGC
Found at i:50254886 original size:172 final size:172
Alignment explanation
Indices: 50254487--50254869 Score: 676
Period size: 172 Copynumber: 2.2 Consensus size: 172
50254477 GATTTAGGAA
**
50254487 TAAGTTATACATTATGTAAGTTATGTAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTT
1 TAAGTTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTT
50254552 GTGTATTATGTAACTTATTTAACTTATGTAGGGTATGTATTATTATGTAACTTATTTAAATTATG
66 GTGTATTATGTAACTTATTTAACTTATGTAGGGTATGTATTATTATGTAACTTATTTAAATTATG
50254617 TAGGGTATGTAAGTTATGTAAGTTCTGTATTATTTACACATG
131 TAGGGTATGTAAGTTATGTAAGTTCTGTATTATTTACACATG
* **
50254659 TAAGTTATGTCTTATGTAAGTTGCGTAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTT
1 TAAGTTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTT
* *
50254724 GTGTATTATGTAACTTATTTAATTTATGTAGGGTATGTATTATTATGTAACTTATTTAATTTATG
66 GTGTATTATGTAACTTATTTAACTTATGTAGGGTATGTATTATTATGTAACTTATTTAAATTATG
50254789 TAGGGTATGTAAGTTATGTAAGTTCTGTATTATTTACACATG
131 TAGGGTATGTAAGTTATGTAAGTTCTGTATTATTTACACATG
* * *
50254831 TAAGTTGTGTATTATGTAAGTTATGCAAGTTATGTATTA
1 TAAGTTATGTATTATGTAAGTTATGTAAGTTGTGTATTA
50254870 AGTAGGTTAT
Statistics
Matches: 198, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
172 198 1.00
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (172 bp):
TAAGTTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTT
GTGTATTATGTAACTTATTTAACTTATGTAGGGTATGTATTATTATGTAACTTATTTAAATTATG
TAGGGTATGTAAGTTATGTAAGTTCTGTATTATTTACACATG
Done.