Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013611.1 Kokia drynarioides strain JFW-HI SEQ_128638, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 263036
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Warning! 109 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:622 original size:20 final size:20
Alignment explanation
Indices: 584--640 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
574 GCGGATGTTA
* * *
584 CACTTCTACTAGTAAAACTT
1 CACTTCTACCAATACAACTT
*
604 CACTTCTACCGATACAACTT
1 CACTTCTACCAATACAACTT
*
624 CAGTTCTACCAATACAA
1 CACTTCTACCAATACAA
641 GTATGCTTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (20 bp):
CACTTCTACCAATACAACTT
Found at i:11102 original size:169 final size:171
Alignment explanation
Indices: 10838--11156 Score: 413
Period size: 169 Copynumber: 1.9 Consensus size: 171
10828 AATTTTGAGA
* *
10838 GAAAATAAATAGGAGGAGTTAAATTTTGAAGGGAAAATATTCAAAAAAAATTGGGAGGGGGGAAT
1 GAAAATAAATAGGAGGAGTAAAATTTTGAAGGGAAAATATT-AAAAAAAATT--GAGGGGGGAAA
*
10903 TGGTTTGGGGTAGATGGAGGGTTGGATGGGAGG-GAAGTAAAAG-TTTTAGGAAGAAAGTGAG-A
63 TGGTTTGGGATAGATGGAGGGTTGGATGGGAGGAG-AGTAAAAGTTTTTAGG-AGAAAGTGAGAA
10965 GCGAATAAAAGTTTTGGGAGGAAATAAAGAGTTTTGATGGTTTTTGGG
126 G-GAATAAAAGTTTTGGG-GGAAATAAAGAGTTTTGATGGTTTTTGGG
* *
11013 GAAAATAAAT-GGGGGAGTAAAATTTTGGAGGGAAAATATT-AAAAAAATT-A-GGGGGAAATGA
1 GAAAATAAATAGGAGGAGTAAAATTTTGAAGGGAAAATATTAAAAAAAATTGAGGGGGGAAATG-
* *
11074 GTTTGGGATAGATGG-GGAG-TGTGATGGGAGGAGAGTAAAAGTTTTTAGGGGAAAGTGGGAAGG
65 GTTTGGGATAGATGGAGG-GTTG-GATGGGAGGAGAGTAAAAGTTTTTAGGAGAAAGTGAGAAGG
*
11137 AGTAAAAGTTTTGGGGGAAA
128 AATAAAAGTTTTGGGGGAAA
11157 AGTAAAAATG
Statistics
Matches: 130, Mismatches: 8, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
168 18 0.14
169 56 0.43
170 10 0.08
172 9 0.07
174 27 0.21
175 10 0.08
ACGTcount: A:0.38, C:0.01, G:0.37, T:0.24
Consensus pattern (171 bp):
GAAAATAAATAGGAGGAGTAAAATTTTGAAGGGAAAATATTAAAAAAAATTGAGGGGGGAAATGG
TTTGGGATAGATGGAGGGTTGGATGGGAGGAGAGTAAAAGTTTTTAGGAGAAAGTGAGAAGGAAT
AAAAGTTTTGGGGGAAATAAAGAGTTTTGATGGTTTTTGGG
Found at i:17996 original size:103 final size:103
Alignment explanation
Indices: 17846--18045 Score: 373
Period size: 103 Copynumber: 1.9 Consensus size: 103
17836 ATTTACATAC
17846 ATATATATATATATGTACGCATTTGTCAACATAACACGTTTTCCACAATCTCAAGTACATAAAGC
1 ATATATATATATATGTACGCATTTGTCAACATAACACGTTTTCCACAATCTCAAGTACATAAAGC
17911 AAAAGATAACATCATCCTAATACATGTCATATATATAT
66 AAAAGATAACATCATCCTAATACATGTCATATATATAT
* * *
17949 ATATATGTATATATGTACGTATTTGTCAACATAACACGTTTTCCACAATCTCAAGTAGATAAAGC
1 ATATATATATATATGTACGCATTTGTCAACATAACACGTTTTCCACAATCTCAAGTACATAAAGC
18014 AAAAGATAACATCATCCTAATACATGTCATAT
66 AAAAGATAACATCATCCTAATACATGTCATAT
18046 GATCGAGTGA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 94 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (103 bp):
ATATATATATATATGTACGCATTTGTCAACATAACACGTTTTCCACAATCTCAAGTACATAAAGC
AAAAGATAACATCATCCTAATACATGTCATATATATAT
Found at i:27690 original size:3 final size:3
Alignment explanation
Indices: 27682--27742 Score: 104
Period size: 3 Copynumber: 20.0 Consensus size: 3
27672 AGGACTTGCC
*
27682 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT TTT CCTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -CTT
27731 CTT CTT CTT CTT
1 CTT CTT CTT CTT
27743 TTTATATCCA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 53 0.96
4 2 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:39480 original size:40 final size:40
Alignment explanation
Indices: 39434--39533 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
39424 GAAAATGCCA
* * * * * *
39434 CAAAAGGTAAATCAATAGTGGCGTTTTTCGGTAAACGTCG
1 CAAAAGGTAAAGCAATAGCGGCATTTTTAGATAAACGCCG
*
39474 CAAAAGGTAAAGCAATAGCGGCATTTTTATATAAACGCCG
1 CAAAAGGTAAAGCAATAGCGGCATTTTTAGATAAACGCCG
39514 CAAAAGGTAAAGCAATAGCG
1 CAAAAGGTAAAGCAATAGCG
39534 ACGTTTATAG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (40 bp):
CAAAAGGTAAAGCAATAGCGGCATTTTTAGATAAACGCCG
Found at i:39679 original size:41 final size:41
Alignment explanation
Indices: 39625--39727 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
39615 CGGCGTTCGT
* *
39625 CATAAACGCCGCTAAAGGTCAAAGCATTAGC-AGTGCTTTC-C
1 CATAAGCGCCGCTAAAGGTCAAAGCATTAGCGA-CGC-TTCAC
* * * *
39666 CATAAGCGTCGCTAAAGATCAAGGTATTAGCGACGCTTCAC
1 CATAAGCGCCGCTAAAGGTCAAAGCATTAGCGACGCTTCAC
39707 CATAAGCGCCGCTAAAGGTCA
1 CATAAGCGCCGCTAAAGGTCA
39728 GGGCATTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
40 3 0.06
41 48 0.92
42 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (41 bp):
CATAAGCGCCGCTAAAGGTCAAAGCATTAGCGACGCTTCAC
Found at i:39802 original size:40 final size:42
Alignment explanation
Indices: 39751--39844 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
39741 GCTTTCTTAT
*
39751 AAACGCCGCTAATGCTCCGA-C-TTAGCGGCGTTTATTGTAG
1 AAACGCCGCTAATGCTCCGACCTTTAGCGGCGTTTATTGTAA
* * *
39791 AAGCGCCGCTAATGCTCTGACCTTTAGCGGCGTTTATTTTAA
1 AAACGCCGCTAATGCTCCGACCTTTAGCGGCGTTTATTGTAA
39833 AAACGCCGCTAA
1 AAACGCCGCTAA
39845 AGGTTAAGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 18 0.38
41 1 0.02
42 28 0.60
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (42 bp):
AAACGCCGCTAATGCTCCGACCTTTAGCGGCGTTTATTGTAA
Found at i:40914 original size:8 final size:8
Alignment explanation
Indices: 40903--40968 Score: 54
Period size: 8 Copynumber: 8.8 Consensus size: 8
40893 TATAAATCGA
40903 AATATATT
1 AATATATT
40911 AATATA--
1 AATATATT
**
40917 AATATAAA
1 AATATATT
40925 AATATATT
1 AATATATT
40933 AAT-TATT
1 AATATATT
40940 AATATA--
1 AATATATT
40946 AATATTATT
1 AATA-TATT
40955 AAT-TACTT
1 AATATA-TT
40963 AATATA
1 AATATA
40969 AAGATTATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
6 10 0.21
7 11 0.23
8 22 0.46
9 5 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (8 bp):
AATATATT
Found at i:40927 original size:22 final size:22
Alignment explanation
Indices: 40902--40990 Score: 108
Period size: 23 Copynumber: 3.9 Consensus size: 22
40892 TTATAAATCG
*
40902 AAATATATTAA-TATAAATATAA
1 AAAT-TATTAATTATTAATATAA
40924 AAATATATTAATTATTAATATAA
1 AAAT-TATTAATTATTAATATAA
*
40947 ATATTATTAATTACTTAATATAA
1 AAATTATTAATTA-TTAATATAA
*
40970 AGATTATTAATTACTTAATAT
1 AAATTATTAATTA-TTAATAT
40991 TAATAACAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
22 20 0.32
23 42 0.68
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (22 bp):
AAATTATTAATTATTAATATAA
Found at i:40952 original size:19 final size:23
Alignment explanation
Indices: 40917--40990 Score: 114
Period size: 23 Copynumber: 3.2 Consensus size: 23
40907 TATTAATATA
*
40917 AATATAAAAATATATTAATTA-TT
1 AATATAAAGAT-TATTAATTACTT
*
40940 AATATAAATATTATTAATTACTT
1 AATATAAAGATTATTAATTACTT
40963 AATATAAAGATTATTAATTACTT
1 AATATAAAGATTATTAATTACTT
40986 AATAT
1 AATAT
40991 TAATAACAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.19
23 39 0.81
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (23 bp):
AATATAAAGATTATTAATTACTT
Found at i:41125 original size:21 final size:21
Alignment explanation
Indices: 41098--41171 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
41088 AAATCCCCAA
41098 TCTCTTCTTCACGCAAGCCCT
1 TCTCTTCTTCACGCAAGCCCT
* * *
41119 TATCTTCTTCACACACGCCCT
1 TCTCTTCTTCACGCAAGCCCT
*
41140 TCTCTGT-TTCACGTACA-CCCT
1 TCTCT-TCTTCACGCA-AGCCCT
41161 TCTCTTCTTCA
1 TCTCTTCTTCA
41172 GTCTTATCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.15, C:0.41, G:0.07, T:0.38
Consensus pattern (21 bp):
TCTCTTCTTCACGCAAGCCCT
Found at i:43176 original size:13 final size:13
Alignment explanation
Indices: 43158--43202 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
43148 TGGTTTCTAT
43158 TATAAATTAATAA
1 TATAAATTAATAA
* *
43171 TATAAAATAATTTAT
1 TATAAATTAA--TAA
43186 TATAAATTAATAA
1 TATAAATTAATAA
43199 TATA
1 TATA
43203 TACAAATTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 15 0.58
15 11 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TATAAATTAATAA
Found at i:43204 original size:15 final size:15
Alignment explanation
Indices: 43158--43204 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
43148 TGGTTTCTAT
43158 TATAAATTAATAATA
1 TATAAATTAATAATA
*
43173 TA-AAA-TAAT-TTA
1 TATAAATTAATAATA
43185 TTATAAATTAATAATA
1 -TATAAATTAATAATA
43201 TATA
1 TATA
43205 CAAATTCCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 2 0.08
13 6 0.23
14 6 0.23
15 10 0.38
16 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAAATTAATAATA
Found at i:43317 original size:15 final size:16
Alignment explanation
Indices: 43299--43333 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
43289 TATTAGTTAA
43299 TTAAATATTTAA-TAT
1 TTAAATATTTAATTAT
*
43314 TTAATTATTTAATTAT
1 TTAAATATTTAATTAT
43330 TTAA
1 TTAA
43334 TTAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAATATTTAATTAT
Found at i:43334 original size:8 final size:8
Alignment explanation
Indices: 43299--43336 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
43289 TATTAGTTAA
*
43299 TTAAATAT
1 TTAATTAT
43307 TTAA-TAT
1 TTAATTAT
43314 TTAATTAT
1 TTAATTAT
43322 TTAATTAT
1 TTAATTAT
43330 TTAATTA
1 TTAATTA
43337 ATAAAAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TTAATTAT
Found at i:49371 original size:42 final size:42
Alignment explanation
Indices: 49207--49360 Score: 155
Period size: 43 Copynumber: 3.6 Consensus size: 42
49197 AGCGCTGCTG
* * * * * * *
49207 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGA
1 TCTTTTGCGACGTTT-TTGGAAAAGCACCACTAAAGACCATGT
* * * *
49250 TCTTTAGCGACATTTATGGAAGAAGCATCACTAAAGACCATGT
1 TCTTTTGCGACGTTTTTGGAA-AAGCACCACTAAAGACCATGT
* *
49293 TCTTTTGCGACGCTTGTGGGAAAAGCACCACTAAAGACCATGT
1 TCTTTTGCGACG-TTTTTGGAAAAGCACCACTAAAGACCATGT
*
49336 TTTTTTGCGACGTTTTTGGAAAAGC
1 TCTTTTGCGACGTTTTTGGAAAAGC
49361 GTCGCTAAAG
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 15 0.16
43 70 0.77
44 6 0.07
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (42 bp):
TCTTTTGCGACGTTTTTGGAAAAGCACCACTAAAGACCATGT
Found at i:59250 original size:3 final size:3
Alignment explanation
Indices: 59244--59270 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
59234 TTTTTTAGTT
59244 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
59271 AGAGTTCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:60456 original size:41 final size:42
Alignment explanation
Indices: 60358--60456 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 42
60348 ACTATTTTTA
* * * *
60358 AATTTTAATAATTTTTTTGTATAATCTTTTACAATTTTTAAT
1 AATTTTTATAATTTTTTTGTAAAATATTTTACAATTTCTAAT
** *
60400 AATGGTTATGATTTTTTT-TAAAATATTTTACAATTTCT-AT
1 AATTTTTATAATTTTTTTGTAAAATATTTTACAATTTCTAAT
*
60440 TATTTTTATAATTTTTT
1 AATTTTTATAATTTTTT
60457 ATACTTTTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
40 15 0.33
41 17 0.37
42 14 0.30
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (42 bp):
AATTTTTATAATTTTTTTGTAAAATATTTTACAATTTCTAAT
Found at i:60474 original size:18 final size:18
Alignment explanation
Indices: 60441--60485 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
60431 AATTTCTATT
* *
60441 ATTTTTATAATTTTTTATA
1 ATTTTTA-ATTTTTTTACA
*
60460 CTTTTTAATTTTTTTACA
1 ATTTTTAATTTTTTTACA
60478 ATTTTTAA
1 ATTTTTAA
60486 AAATTTTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTAATTTTTTTACA
Found at i:60492 original size:28 final size:28
Alignment explanation
Indices: 60384--60510 Score: 80
Period size: 28 Copynumber: 4.4 Consensus size: 28
60374 TTGTATAATC
* *
60384 TTTTACAATTTTTAATAATGGTTATGATTTT
1 TTTTACAATTTTTAATAAT--TT-TTAATTT
* * *
60415 TTTTAAAATATTTT-ACAATTTCT-ATTAT
1 TTTTACAAT-TTTTAATAATTTTTAATT-T
* * *
60443 TTTTATAATTTTTTATACTTTTTAATTT
1 TTTTACAATTTTTAATAATTTTTAATTT
* * *
60471 TTTTACAATTTTTAAAAATTTTAACATAT
1 TTTTACAATTTTTAATAATTTTTA-ATTT
60500 TTTTA-AATTTT
1 TTTTACAATTTT
60511 ATTTTTAAGA
Statistics
Matches: 76, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
27 6 0.08
28 41 0.54
29 13 0.17
31 12 0.16
32 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTTACAATTTTTAATAATTTTTAATTT
Found at i:60528 original size:16 final size:16
Alignment explanation
Indices: 60507--60537 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60497 TATTTTTAAA
60507 TTTTATTTTTAAGATT
1 TTTTATTTTTAAGATT
*
60523 TTTTATTTTTTAGAT
1 TTTTATTTTTAAGAT
60538 AATAACGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTATTTTTAAGATT
Found at i:61998 original size:22 final size:22
Alignment explanation
Indices: 61971--62030 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
61961 GATACAATAA
*
61971 AAAATTCAATAAATA-AAAAAT
1 AAAATTAAATAAATATAAAAAT
* * *
61992 ATAAATTTATTAAATATTAAAAT
1 A-AAATTAAATAAATATAAAAAT
*
62015 AAAATAAAATAAATAT
1 AAAATTAAATAAATAT
62031 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 1 0.03
22 24 0.77
23 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATTAAATAAATATAAAAAT
Found at i:62041 original size:21 final size:22
Alignment explanation
Indices: 62002--62050 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
61992 ATAAATTTAT
62002 TAAATATTAAAATAAAATAAAA
1 TAAATATTAAAATAAAATAAAA
*
62024 TAAATATTTAAA-AAAATAAAA
1 TAAATATTAAAATAAAATAAAA
*
62045 AAAATA
1 TAAATA
62051 ATATGGGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAATATTAAAATAAAATAAAA
Found at i:66088 original size:13 final size:14
Alignment explanation
Indices: 66058--66092 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
66048 GTTTGCATGT
66058 AAAATGATTTCCAA
1 AAAATGATTTCCAA
**
66072 AAAATGATTTCTGA
1 AAAATGATTTCCAA
66086 AAAATGA
1 AAAATGA
66093 GTTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (14 bp):
AAAATGATTTCCAA
Found at i:68653 original size:21 final size:20
Alignment explanation
Indices: 68621--68659 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
68611 TTAAAAGCTT
* *
68621 AAGACTTTATCATTCAAAAA
1 AAGACTTAATCATCCAAAAA
68641 AAGATCTTAATCATCCAAA
1 AAGA-CTTAATCATCCAAA
68660 TTCCACCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (20 bp):
AAGACTTAATCATCCAAAAA
Found at i:72006 original size:14 final size:13
Alignment explanation
Indices: 71982--72019 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
71972 TAAAATGTAC
71982 AATATAATTAAAT
1 AATATAATTAAAT
71995 AATATAAATTAAAT
1 AATAT-AATTAAAT
*
72009 AATTTAATTAA
1 AATATAATTAA
72020 CTATTTACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATAATTAAAT
Found at i:72898 original size:43 final size:43
Alignment explanation
Indices: 72748--72958 Score: 176
Period size: 43 Copynumber: 5.0 Consensus size: 43
72738 ACTACAGGAA
* * * *
72748 AACATGATCTTTAGCGACGCTTTTCCCACGAACGCTGCTAAAG
1 AACATGATCTTTAACGACGCTTTTACTACAAACGCTGCTAAAG
* * ** * * * **
72791 AACATGATCTTTAATGGCGCTTTCCCCACGAACACCACTAAAG
1 AACATGATCTTTAACGACGCTTTTACTACAAACGCTGCTAAAG
* **
72834 AACATGGTCTTTAACGGTGCTTTTACTACAAACGCTGCTAAAG
1 AACATGATCTTTAACGACGCTTTTACTACAAACGCTGCTAAAG
* * * * *
72877 AACATGGTCTTTAACGATGCTTTTA-TCACAAATGCCGCTATAG
1 AACATGATCTTTAACGACGCTTTTACT-ACAAACGCTGCTAAAG
* * *
72920 AAAATGTTCTTTAGCGACG-TTTT-CTACAAACGCTGCTAA
1 AACATGATCTTTAACGACGCTTTTACTACAAACGCTGCTAA
72959 CAGTAACAGA
Statistics
Matches: 138, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
41 11 0.08
42 6 0.04
43 121 0.88
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
AACATGATCTTTAACGACGCTTTTACTACAAACGCTGCTAAAG
Found at i:74227 original size:15 final size:16
Alignment explanation
Indices: 74207--74239 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
74197 GGCTTATATT
74207 TTTC-TTAAAGTAATC
1 TTTCTTTAAAGTAATC
*
74222 TTTCTTTAAAGTACTC
1 TTTCTTTAAAGTAATC
74238 TT
1 TT
74240 ATGGCTCTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTCTTTAAAGTAATC
Found at i:78737 original size:70 final size:70
Alignment explanation
Indices: 78646--78794 Score: 253
Period size: 70 Copynumber: 2.1 Consensus size: 70
78636 AAATATTTTG
* *
78646 AATTAAATATTTGAGTTTAGGGTTTACTAAATAACTAATTAAATAATTAAATATTTGGGTTGTTT
1 AATTAAATAGTTGAGTCTAGGGTTTACTAAATAACTAATTAAATAATTAAATATTTGGGTTGTTT
78711 TTAAT
66 TTAAT
* * *
78716 AATTAAATAGTTGGGTCTAGGGTTTATTAAATAACTAATTAAATATTTAAATATTTGGGTTGTTT
1 AATTAAATAGTTGAGTCTAGGGTTTACTAAATAACTAATTAAATAATTAAATATTTGGGTTGTTT
78781 TTAAT
66 TTAAT
78786 AATTAAATA
1 AATTAAATA
78795 TTTATTTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (70 bp):
AATTAAATAGTTGAGTCTAGGGTTTACTAAATAACTAATTAAATAATTAAATATTTGGGTTGTTT
TTAAT
Found at i:78808 original size:20 final size:21
Alignment explanation
Indices: 78783--78840 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
78773 GGTTGTTTTT
* *
78783 AATAATTAAATATTTATT-TA
1 AATAATTAAATAATTATTCAA
78803 AATAATTAAATAATTATTCAA
1 AATAATTAAATAATTATTCAA
78824 ATATAATTAAATAATTA
1 A-ATAATTAAATAATTA
78841 AATATTTGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 15 0.44
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATAATTAAATAATTATTCAA
Found at i:79008 original size:122 final size:121
Alignment explanation
Indices: 78754--79096 Score: 512
Period size: 122 Copynumber: 2.8 Consensus size: 121
78744 AAATAACTAA
*
78754 TTAAATATTTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTT-AA-ATAATTAAATAAT
1 TTAAATAATTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTTAAATATAATTAAAT-A-
* *
78817 TATTCAAATATAATTAAAT-AATTAAATATTTGGGTTTAGGGTTTAATAAATTACTAATTAAATA
64 -ATT-AAATAT--TT---TGAATTAAATATTT-GGTTTAGAGTTTAATAAATAACTAATTAAATA
78881 T
121 T
78882 TTAAATAATTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTTAAATATAATTAAATAAT
1 TTAAATAATTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTTAAATATAATTAAATAAT
78947 TAAATATTTTGAATTAAATAGTTTGGTTTAGAGTTTAATAAATAACTAATTAAATAT
66 TAAATATTTTGAATTAAATA-TTTGGTTTAGAGTTTAATAAATAACTAATTAAATAT
*
79004 TTAAATAATTAAATATTTGAGTTGTTTTTAATAATTAAATATTTATTTAAATATAATTAAATAAT
1 TTAAATAATTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTTAAATATAATTAAATAAT
*
79069 TAAATATTTTGAAATAAATATTTTGGTT
66 TAAATATTTTGAATTAAATA-TTTGGTT
79097 GCTTTTAATA
Statistics
Matches: 205, Mismatches: 6, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
121 1 0.00
122 130 0.63
123 3 0.01
124 2 0.01
126 6 0.03
127 3 0.01
128 47 0.23
129 3 0.01
130 10 0.05
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.48
Consensus pattern (121 bp):
TTAAATAATTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTTAAATATAATTAAATAAT
TAAATATTTTGAATTAAATATTTGGTTTAGAGTTTAATAAATAACTAATTAAATAT
Found at i:79085 original size:26 final size:26
Alignment explanation
Indices: 78998--79085 Score: 61
Period size: 26 Copynumber: 3.2 Consensus size: 26
78988 ATAACTAATT
*
78998 AAATATTTAAATAATTAAATA-TTTG
1 AAATAATTAAATAATTAAATATTTTG
** ** * *
79023 AGTTGTTTTTAATAATTAAATATTTATTTA
1 AAAT-AATTAAATAATTAAATA--T-TTTG
79053 AATATAATTAAATAATTAAATATTTTG
1 AA-ATAATTAAATAATTAAATATTTTG
79080 AAATAA
1 AAATAA
79086 ATATTTTGGT
Statistics
Matches: 46, Mismatches: 11, Indels: 11
0.68 0.16 0.16
Matches are distributed among these distances:
25 2 0.04
26 19 0.41
27 5 0.11
28 1 0.02
30 18 0.39
31 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (26 bp):
AAATAATTAAATAATTAAATATTTTG
Found at i:79119 original size:8 final size:8
Alignment explanation
Indices: 79103--79147 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
79093 GGTTGCTTTT
79103 AATAATTA
1 AATAATTA
*
79111 AATATTTA
1 AATAATTA
*
79119 AATAAGTA
1 AATAATTA
*
79127 AATATTTA
1 AATAATTA
79135 AATAATTA
1 AATAATTA
79143 AATAA
1 AATAA
79148 CTCGCATTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (8 bp):
AATAATTA
Found at i:79128 original size:16 final size:16
Alignment explanation
Indices: 79103--79146 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
79093 GGTTGCTTTT
79103 AATAATTAAATATTTA
1 AATAATTAAATATTTA
*
79119 AATAAGTAAATATTTA
1 AATAATTAAATATTTA
79135 AATAATTAAATA
1 AATAATTAAATA
79147 ACTCGCATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
AATAATTAAATATTTA
Found at i:79899 original size:41 final size:39
Alignment explanation
Indices: 79822--79901 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
79812 TCTTGTTTTA
*
79822 AGTTACATTGGACAATAAGTTTTCAATAGAAAATACTTG
1 AGTTACATTGGACAATAACTTTTCAATAGAAAATACTTG
* * *
79861 AGTTACATTGGATAGTAACCTTTATCTATAGAAAATACTTG
1 AGTTACATTGGACAATAA-CTTT-TCAATAGAAAATACTTG
79902 TAATTTCAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 16 0.46
40 3 0.09
41 16 0.46
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (39 bp):
AGTTACATTGGACAATAACTTTTCAATAGAAAATACTTG
Found at i:82764 original size:75 final size:75
Alignment explanation
Indices: 82674--82813 Score: 194
Period size: 75 Copynumber: 1.9 Consensus size: 75
82664 TTACTTACAT
* *
82674 TTTAATCTAGATACAACAAC-ATAACAT-CTCAATTATAGCTATCACCTCTTTTAATTTCATCTT
1 TTTAATCTAGATACAACAACGA-AACATCCT-AATTATAGCTATCACATCTTTTAATTTCAGCTT
82737 AATACATTAACA
64 AATACATTAACA
* * * *
82749 TTTAGTCTAGTTACAACAACGAAACATCCTAATTTTAGTTATCACATCTTTTAATTTCAGCTTAA
1 TTTAATCTAGATACAACAACGAAACATCCTAATTATAGCTATCACATCTTTTAATTTCAGCTTAA
82814 GGCATTAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
75 54 0.95
76 3 0.05
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (75 bp):
TTTAATCTAGATACAACAACGAAACATCCTAATTATAGCTATCACATCTTTTAATTTCAGCTTAA
TACATTAACA
Found at i:83693 original size:15 final size:16
Alignment explanation
Indices: 83662--83694 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
83652 TGATAGCAAT
83662 AATAAATAAACATTTA
1 AATAAATAAACATTTA
83678 AATAAATAAA-ATTTA
1 AATAAATAAACATTTA
83693 AA
1 AA
83695 GTATAGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAATAAACATTTA
Found at i:85961 original size:78 final size:79
Alignment explanation
Indices: 85754--86062 Score: 431
Period size: 79 Copynumber: 3.9 Consensus size: 79
85744 ACAATTATGT
* * * *
85754 CACCCAGTGCCTAGCGAATAAACCGCAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAATAT
1 CACCTAGTGCCTAGCGGATAAACCGCAATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATAT
* *
85819 CCGTCAATTACTGG
66 CCGTCAAATCCTGG
* * * *
85833 CACCTAGTGCCTAGCGGATAAACCGCAATTGTGAGTCCAGCTCTAATTGGATTAACTAATAATAT
1 CACCTAGTGCCTAGCGGATAAACCGCAATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATAT
* *
85898 ACGTCAAATCCTAG
66 CCGTCAAATCCTGG
* *
85912 CACCTAATGCC-AGCGGATAAACCGCAATTGTGAGCCTAGCTCTAGTTGGATTAACCAACAATAT
1 CACCTAGTGCCTAGCGGATAAACCGCAATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATAT
85976 CCGTCAAATCCTGG
66 CCGTCAAATCCTGG
* * * * *
85990 CACCCAGTGCATAGCGGATAAACCGCAATTATGAGCCCAGCTCTAGTTGGATTAACCAATAATGT
1 CACCTAGTGCCTAGCGGATAAACCGCAATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATAT
*
86055 CCATCAAA
66 CCGTCAAA
86063 CAACCAATTT
Statistics
Matches: 201, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
78 68 0.34
79 133 0.66
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (79 bp):
CACCTAGTGCCTAGCGGATAAACCGCAATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATAT
CCGTCAAATCCTGG
Found at i:86062 original size:157 final size:158
Alignment explanation
Indices: 85761--86062 Score: 462
Period size: 157 Copynumber: 1.9 Consensus size: 158
85751 TGTCACCCAG
85761 TGCCTAGCGAATAAACCGCAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAATATCCGTCAA
1 TGCCTAGCGAATAAACCGCAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAATATCCGTCAA
* * * * * *
85826 TTACTGGCACCTAGTGCCTAGCGGATAAACCGCAATTGTGAGTCCAGCTCTAATTGGATTAACTA
66 ATACTGGCACCCAGTGCATAGCGGATAAACCGCAATTATGAGCCCAGCTCTAATTGGATTAACCA
*
85891 ATAATATACGTCAAATCCTAGCACCTAA
131 ATAATATACATCAAATCCTAGCACCTAA
* * * *
85919 TGCC-AGCGGATAAACCGCAATTGTGAGCCTAGCTCTAGTTGGATTAACCAACAATATCCGTCAA
1 TGCCTAGCGAATAAACCGCAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAATATCCGTCAA
* *
85983 ATCCTGGCACCCAGTGCATAGCGGATAAACCGCAATTATGAGCCCAGCTCTAGTTGGATTAACCA
66 ATACTGGCACCCAGTGCATAGCGGATAAACCGCAATTATGAGCCCAGCTCTAATTGGATTAACCA
* *
86048 ATAATGTCCATCAAA
131 ATAATATACATCAAA
86063 CAACCAATTT
Statistics
Matches: 129, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
157 125 0.97
158 4 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (158 bp):
TGCCTAGCGAATAAACCGCAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAATATCCGTCAA
ATACTGGCACCCAGTGCATAGCGGATAAACCGCAATTATGAGCCCAGCTCTAATTGGATTAACCA
ATAATATACATCAAATCCTAGCACCTAA
Found at i:89899 original size:27 final size:27
Alignment explanation
Indices: 89869--89936 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
89859 GTGGTGGTAA
* *
89869 ATCTTGTGGCAGGACTGGAGGAATATT
1 ATCTTGTGGCAGCACTAGAGGAATATT
*
89896 ATCTTGTGGCAACACTAGAGGAATATT
1 ATCTTGTGGCAGCACTAGAGGAATATT
*
89923 ATCATGTGGCAGCA
1 ATCTTGTGGCAGCA
89937 ATGGTGGTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
ATCTTGTGGCAGCACTAGAGGAATATT
Found at i:102782 original size:13 final size:13
Alignment explanation
Indices: 102764--102788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102754 GCATTCACAT
102764 ATTTAATTTACCA
1 ATTTAATTTACCA
102777 ATTTAATTTACC
1 ATTTAATTTACC
102789 GAGGCTAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAATTTACCA
Found at i:102793 original size:49 final size:49
Alignment explanation
Indices: 102736--102835 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
102726 GTTTGGAGTG
* *
102736 TACCGAGGCTAAGATTAAGCATTCACATATTTAATTTACCAATTTAATT
1 TACCGAGGCTAAGACTAAGCATCCACATATTTAATTTACCAATTTAATT
* *
102785 TACCGAGGCTAAGACTAAGCATCCGCATATTTAATTTTCCAATTTAATT
1 TACCGAGGCTAAGACTAAGCATCCACATATTTAATTTACCAATTTAATT
102834 TA
1 TA
102836 AATTACTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (49 bp):
TACCGAGGCTAAGACTAAGCATCCACATATTTAATTTACCAATTTAATT
Found at i:107331 original size:23 final size:23
Alignment explanation
Indices: 107301--107348 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
107291 ACCTCGCGTC
*
107301 AAAGGATTTGAGTGACGAACTGA
1 AAAGGATTTGAGTGACGAACCGA
107324 AAAGGATTTGAGTGACGAACCGA
1 AAAGGATTTGAGTGACGAACCGA
107347 AA
1 AA
107349 CTTGCAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.29, T:0.19
Consensus pattern (23 bp):
AAAGGATTTGAGTGACGAACCGA
Found at i:110694 original size:48 final size:48
Alignment explanation
Indices: 110639--110783 Score: 229
Period size: 48 Copynumber: 3.0 Consensus size: 48
110629 GGATGTGTTA
* * *
110639 CACACTAGGCTTCTAGCTCACTCGTTTGTTTAATACGTTTCAAGTGGT
1 CACACTAGGCTTCTAGCTCACTCGTTTGTTTAATATGTTTTAGGTGGT
* *
110687 CACACTAGGCTTCTAACTCACTCGTTTATTTAATATGTTTTAGGTGGT
1 CACACTAGGCTTCTAGCTCACTCGTTTGTTTAATATGTTTTAGGTGGT
110735 CACACT-GAGCTTCTAGCTCACTCGTTTGTTTAATATGTTTTAGGTGGT
1 CACACTAG-GCTTCTAGCTCACTCGTTTGTTTAATATGTTTTAGGTGGT
110783 C
1 C
110784 TTCTAACTAA
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
47 1 0.01
48 88 0.99
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (48 bp):
CACACTAGGCTTCTAGCTCACTCGTTTGTTTAATATGTTTTAGGTGGT
Found at i:115206 original size:19 final size:19
Alignment explanation
Indices: 115184--115228 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
115174 AAAAAATAGG
*
115184 AAAATATATA-AAATTTTA
1 AAAATATATATAAATTATA
* *
115202 AAAAAACATATAAATTATA
1 AAAATATATATAAATTATA
115221 AAAATATA
1 AAAATATA
115229 ATTTACAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATATATATAAATTATA
Found at i:115708 original size:28 final size:28
Alignment explanation
Indices: 115668--115737 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
115658 TTTTTTTAAT
115668 AATATATATTATATTGATTAAAATGTAA
1 AATATATATTATATTGATTAAAATGTAA
115696 AATATATATTATATTGATTAAAATGTAA
1 AATATATATTATATTGATTAAAATGTAA
*
115724 AATATATATAATAT
1 AATATATATTATAT
115738 ATAAAATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (28 bp):
AATATATATTATATTGATTAAAATGTAA
Found at i:116094 original size:19 final size:18
Alignment explanation
Indices: 116036--116100 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
116026 AAATTTTTAA
* *
116036 TTTATATGTTTTTTTAGAT
1 TTTATATATTTTTTTA-TT
*
116055 TTTATATATTTTCTTGAATT
1 TTTATATATTTT-TT-TATT
116075 TTTATATATTTATTTTATT
1 TTTATATATTT-TTTTATT
116094 TTTATAT
1 TTTATAT
116101 TTTAATTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 21 0.54
20 16 0.41
21 2 0.05
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTATATATTTTTTTATT
Found at i:116121 original size:17 final size:16
Alignment explanation
Indices: 116074--116123 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
116064 TTTCTTGAAT
*
116074 TTTTATATATTTATTTTA
1 TTTTATATA--TATTTAA
116092 TTTT-TATAT-TTTAA
1 TTTTATATATATTTAA
116106 TTTGTATATATATTTAA
1 TTT-TATATATATTTAA
116123 T
1 T
116124 AAAAGAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.25
15 2 0.07
16 5 0.18
17 10 0.36
18 4 0.14
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTTATATATATTTAA
Found at i:118820 original size:2 final size:2
Alignment explanation
Indices: 118779--118803 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
118769 TTGAGATTTA
118779 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
118804 CTTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120366 original size:22 final size:22
Alignment explanation
Indices: 120328--120431 Score: 99
Period size: 21 Copynumber: 4.8 Consensus size: 22
120318 ATTATATTGT
120328 TATTTTGG-TG-TTGTTTTTTAC
1 TATTTTGGTTGCTT-TTTTTTAC
*
120349 TATTTTGGTTG-TTTTTTTTGC
1 TATTTTGGTTGCTTTTTTTTAC
* ** *
120370 TGTTTTGTGTTATTTTTTTTTAT
1 TATTTTG-GTTGCTTTTTTTTAC
*
120393 TGTTTTGG-TGCTTTTTTTTAC
1 TATTTTGGTTGCTTTTTTTTAC
*
120414 TATTTTGATTGCTTTTTT
1 TATTTTGGTTGCTTTTTT
120432 CGAGTTATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
21 37 0.54
22 17 0.25
23 15 0.22
ACGTcount: A:0.08, C:0.05, G:0.16, T:0.71
Consensus pattern (22 bp):
TATTTTGGTTGCTTTTTTTTAC
Found at i:120408 original size:23 final size:23
Alignment explanation
Indices: 120360--120411 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
120350 ATTTTGGTTG
* *
120360 TTTTTTTTGCTGTTTTGTGTTAT
1 TTTTTTTTACTGTTTTGTGCTAT
*
120383 TTTTTTTTATTGTTTTGGTGCT-T
1 TTTTTTTTACTGTTTT-GTGCTAT
120406 TTTTTT
1 TTTTTT
120412 ACTATTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.04, C:0.04, G:0.15, T:0.77
Consensus pattern (23 bp):
TTTTTTTTACTGTTTTGTGCTAT
Found at i:120449 original size:11 final size:11
Alignment explanation
Indices: 120435--120498 Score: 58
Period size: 12 Copynumber: 5.7 Consensus size: 11
120425 CTTTTTTCGA
*
120435 GTTATTTTGCT
1 GTTATTTTGTT
120446 GTTATTTTTGTT
1 GTTA-TTTTGTT
*
120458 GTTGTTTTGGTT
1 GTTATTTT-GTT
120470 GTTATTTT-TT
1 GTTATTTTGTT
* * *
120480 GTTGTTTGGAT
1 GTTATTTTGTT
120491 GTTATTTT
1 GTTATTTT
120499 TTATGCATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
10 8 0.19
11 15 0.36
12 19 0.45
ACGTcount: A:0.08, C:0.02, G:0.22, T:0.69
Consensus pattern (11 bp):
GTTATTTTGTT
Found at i:120454 original size:12 final size:12
Alignment explanation
Indices: 120435--120485 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
120425 CTTTTTTCGA
*
120435 GTTA-TTTTGCT
1 GTTATTTTTGTT
120446 GTTATTTTTGTT
1 GTTATTTTTGTT
* *
120458 GTTGTTTTGGTT
1 GTTATTTTTGTT
120470 GTTATTTTTTGTT
1 GTTA-TTTTTGTT
120483 GTT
1 GTT
120486 TGGATGTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
11 4 0.12
12 19 0.58
13 10 0.30
ACGTcount: A:0.06, C:0.02, G:0.22, T:0.71
Consensus pattern (12 bp):
GTTATTTTTGTT
Found at i:120454 original size:65 final size:67
Alignment explanation
Indices: 120330--120479 Score: 164
Period size: 65 Copynumber: 2.3 Consensus size: 67
120320 TATATTGTTA
* * * * *
120330 TTTTGGTGTTGTTTTTTACTATTTTGGTTGTTTTTTTTGCTGTTTTGTGTTATT-TTTTT-TTAT
1 TTTTGGTGTTGTTTTTTACTATTTTGATTGCTTTTTTCGCAGTTTTGTGCTATTATTTTTGTTAT
120393 TG
66 TG
* *
120395 TTTTGGTGCTT-TTTTTTACTATTTTGATTGCTTTTTTCG-AGTTATTTTGCTGTTATTTTTGTT
1 TTTTGGTG-TTGTTTTTTACTATTTTGATTGCTTTTTTCGCAGTT-TTGTGCTATTATTTTTGTT
*
120458 GTTG
64 ATTG
*
120462 TTTTGGTTGTTATTTTTT
1 TTTTGG-TGTTGTTTTTT
120480 GTTGTTTGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 3 0.04
65 40 0.56
66 7 0.10
67 13 0.18
68 8 0.11
ACGTcount: A:0.07, C:0.05, G:0.18, T:0.70
Consensus pattern (67 bp):
TTTTGGTGTTGTTTTTTACTATTTTGATTGCTTTTTTCGCAGTTTTGTGCTATTATTTTTGTTAT
TG
Found at i:120484 original size:22 final size:21
Alignment explanation
Indices: 120324--120500 Score: 90
Period size: 21 Copynumber: 8.1 Consensus size: 21
120314 AAAAATTATA
120324 TTGTTATTTTGG-TGTTGTTTT
1 TTGTTATTTTGGTTGTT-TTTT
**
120345 TTACTATTTTGGTTGTTTTTT
1 TTGTTATTTTGGTTGTTTTTT
* * *
120366 TTGCTGTTTTGTGTTATTTTTTT
1 TTGTTATTTTG-GTT-GTTTTTT
* *
120389 TTATTGTTTTGG-TGCTTTTTT
1 TTGTTATTTTGGTTG-TTTTTT
** *
120410 TTACTATTTTGATTGCTTTTTT
1 TTGTTATTTTGGTTG-TTTTTT
** * *
120432 CGAGTTATTTTGCTGTTATTTTTG
1 -TTGTTATTTTG--GTTGTTTTTT
*
120456 TTGTTGTTTTGGTTGTTATTTT
1 TTGTTATTTTGGTTGTT-TTTT
* *
120478 TTGTT-GTTTGGATGTTATTTT
1 TTGTTATTTTGGTTGTT-TTTT
120499 TT
1 TT
120501 ATGCATTTTT
Statistics
Matches: 122, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
21 60 0.49
22 25 0.20
23 30 0.25
24 5 0.04
25 2 0.02
ACGTcount: A:0.08, C:0.04, G:0.19, T:0.69
Consensus pattern (21 bp):
TTGTTATTTTGGTTGTTTTTT
Found at i:120696 original size:38 final size:38
Alignment explanation
Indices: 120616--120697 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 38
120606 ATATAAAAAA
* * *
120616 TTTTAATGTTTTTTAAATTTATTTATTTTTAATGTTTG
1 TTTTAATGTTTTTTAAATGTATTTATTATTAATGATTG
120654 TTTTAATG-TTTTTAAATGTATTTGATATATTATAT-ATT-
1 TTTTAATGTTTTTTAAATGTATTT-AT-TATTA-ATGATTG
120692 TTTTAA
1 TTTTAA
120698 ATTTGTTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
37 14 0.37
38 16 0.42
39 6 0.16
40 2 0.05
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (38 bp):
TTTTAATGTTTTTTAAATGTATTTATTATTAATGATTG
Found at i:122184 original size:28 final size:28
Alignment explanation
Indices: 122144--122402 Score: 268
Period size: 28 Copynumber: 9.2 Consensus size: 28
122134 GTAGAATAAT
122144 GCTCTACCCGAGCAAGATTCAGAGTAAC
1 GCTCTACCCGAGCAAGATTCAGAGTAAC
* *
122172 GCTCTACCCGAGCTAGAATT-AGAATAAC
1 GCTCTACCCGAGCAAG-ATTCAGAGTAAC
* * * *
122200 GCTTTACTCGAGAAAGATTCAGAGTAAT
1 GCTCTACCCGAGCAAGATTCAGAGTAAC
* * * * *
122228 GCTCTACTCGAGCTAGAATCAAAATAAC
1 GCTCTACCCGAGCAAGATTCAGAGTAAC
* *
122256 GCTCTACACGAGCAAGATTTAGAGTAAC
1 GCTCTACCCGAGCAAGATTCAGAGTAAC
* * * * *
122284 GCTATACCCAAGCTAGAATCAGAATAAC
1 GCTCTACCCGAGCAAGATTCAGAGTAAC
*
122312 GCTCTACCCGAGTAAGATTCAGAGTAAC
1 GCTCTACCCGAGCAAGATTCAGAGTAAC
* * * * * *
122340 ACTATATCCGAGCTAGAATCAGAATAAC
1 GCTCTACCCGAGCAAGATTCAGAGTAAC
*
122368 GCTCTACCCGAGCAAGATTCAAAGTAAC
1 GCTCTACCCGAGCAAGATTCAGAGTAAC
122396 GCTCTAC
1 GCTCTAC
122403 TTGAGCTAGA
Statistics
Matches: 181, Mismatches: 48, Indels: 4
0.78 0.21 0.02
Matches are distributed among these distances:
27 3 0.02
28 175 0.97
29 3 0.02
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (28 bp):
GCTCTACCCGAGCAAGATTCAGAGTAAC
Found at i:122205 original size:84 final size:82
Alignment explanation
Indices: 122084--122375 Score: 264
Period size: 84 Copynumber: 3.5 Consensus size: 82
122074 AGTTACAAAA
** * * * *
122084 TAACGCTCTTTCCGAGCCAGAAATATATTAACGCTTTATCCAAGCCAAAAGT-AGAATAATGCTC
1 TAACGCTCTACCCGAGCTAGAATTAGAATAACGCTTTA-CCAAG-CAAAA-TCAGAATAATGCTC
122148 TACCCGAGCAAGATTCAGAG
63 TACCCGAGCAAGATTCAGAG
* *
122168 TAACGCTCTACCCGAGCTAGAATTAGAATAACGCTTTACTCGAG-AAAGATTCAGAGTAATGCTC
1 TAACGCTCTACCCGAGCTAGAATTAGAATAACGCTTTAC-CAAGCAAA-A-TCAGAATAATGCTC
* * * * *
122232 TACTCGAGCTAGAATCAAAA
63 TACCCGAGCAAGATTCAGAG
* * * * * * *
122252 TAACGCTCTACACGAGCAAGATTTAGAGTAACGCTATACCCAAGCTAGAATCAGAATAACGCTCT
1 TAACGCTCTACCCGAGCTAGAATTAGAATAACGCTTTA-CCAAGC-AAAATCAGAATAATGCTCT
*
122317 ACCCGAGTAAGATTCAGAG
64 ACCCGAGCAAGATTCAGAG
* * * * *
122336 TAACACTATATCCGAGCTAGAATCAGAATAACGCTCTACC
1 TAACGCTCTACCCGAGCTAGAATTAGAATAACGCTTTACC
122376 CGAGCAAGAT
Statistics
Matches: 164, Mismatches: 38, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
82 3 0.02
83 5 0.03
84 152 0.93
85 2 0.01
86 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.23
Consensus pattern (82 bp):
TAACGCTCTACCCGAGCTAGAATTAGAATAACGCTTTACCAAGCAAAATCAGAATAATGCTCTAC
CCGAGCAAGATTCAGAG
Found at i:122427 original size:28 final size:27
Alignment explanation
Indices: 122349--122464 Score: 97
Period size: 28 Copynumber: 4.1 Consensus size: 27
122339 CACTATATCC
* * **
122349 GAGCTAGAATCAGAATAACGCTCTACCC
1 GAGCTAGAATCAAAATATCGCTCTA-TT
* * * *
122377 GAGCAAGATTCAAAGTAACGCTCTACTT
1 GAGCTAGAATCAAAATATCGCTCTA-TT
* *
122405 GAGCTAGAATTAAAATATTGCTCTATCT
1 GAGCTAGAATCAAAATATCGCTCTAT-T
*
122433 GAGCTAGAATCATAATATCGCTCTATTT
1 GAGCTAGAATCAAAATATCGCTCTA-TT
122461 GAGC
1 GAGC
122465 CTTCCATTTG
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
27 1 0.01
28 69 0.97
29 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (27 bp):
GAGCTAGAATCAAAATATCGCTCTATT
Found at i:122429 original size:56 final size:56
Alignment explanation
Indices: 122136--122414 Score: 380
Period size: 56 Copynumber: 5.0 Consensus size: 56
122126 AGCCAAAAGT
* * *
122136 AGAATAATGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACCCGAGCTAGAATT
1 AGAATAACGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACTCGAGCTAGAATC
* * * *
122192 AGAATAACGCTTTACTCGAGAAAGATTCAGAGTAATGCTCTACTCGAGCTAGAATC
1 AGAATAACGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACTCGAGCTAGAATC
* * * * * *
122248 AAAATAACGCTCTACACGAGCAAGATTTAGAGTAACGCTATACCCAAGCTAGAATC
1 AGAATAACGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACTCGAGCTAGAATC
* * *
122304 AGAATAACGCTCTACCCGAGTAAGATTCAGAGTAACACTATA-TCCGAGCTAGAATC
1 AGAATAACGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACT-CGAGCTAGAATC
* *
122360 AGAATAACGCTCTACCCGAGCAAGATTCAAAGTAACGCTCTACTTGAGCTAGAAT
1 AGAATAACGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACTCGAGCTAGAAT
122415 TAAAATATTG
Statistics
Matches: 193, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
56 192 0.99
57 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (56 bp):
AGAATAACGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACTCGAGCTAGAATC
Found at i:124137 original size:127 final size:128
Alignment explanation
Indices: 123910--124158 Score: 333
Period size: 127 Copynumber: 2.0 Consensus size: 128
123900 ATTCATTTAA
* * *
123910 GTGCAGACAAGCTGTCGTTTGGTTTGAGGATCCACAATCTGTTACAGATAAAAACTGTTAGAGAA
1 GTGCAGACAAGCTGTCGTATGGTTTGAGGATCCACAATCTCTTACAGATAAAAACTGTAAGAGAA
* * * * **
123975 AATTGTGGATGTTCTGTTTGTTTAGTGGTAGTTGGAATCTACTAAGCTATGAGTACATAGAGG
66 AATCGTGGATGCTCAGTTCGTTTAGTCATAGTTGGAATCTACTAAGCTATGAGTACATAGAGG
* * *
124038 GTGCAGACAAGCTGTTGTATGG-TTGAGGATCCATAATC-CTT-CGTAGATAAAAGCTGTAAGAG
1 GTGCAGACAAGCTGTCGTATGGTTTGAGGATCCACAATCTCTTAC--AGATAAAAACTGTAAGAG
* *
124100 AAAATCGTGGATGCTCAGTTCGTTTAGTCATAGTTGGAATCTACTAAGTTGTGAGTACA
64 AAAATCGTGGATGCTCAGTTCGTTTAGTCATAGTTGGAATCTACTAAGCTATGAGTACA
124159 AAGTGAACAT
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
125 1 0.01
126 2 0.02
127 82 0.78
128 20 0.19
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (128 bp):
GTGCAGACAAGCTGTCGTATGGTTTGAGGATCCACAATCTCTTACAGATAAAAACTGTAAGAGAA
AATCGTGGATGCTCAGTTCGTTTAGTCATAGTTGGAATCTACTAAGCTATGAGTACATAGAGG
Found at i:131910 original size:80 final size:80
Alignment explanation
Indices: 131777--131935 Score: 266
Period size: 80 Copynumber: 2.0 Consensus size: 80
131767 GCAAATGTGA
*
131777 GGATTAACCAACAAATATCCGTCAAATACTGGCACCCAATGCCTAGCAGATAAA-TCGCAAATGT
1 GGATTAACCAACAAATATCCGTCAAATAATGGCACCCAATGCCTAGCAGATAAACT-GCAAATGT
*
131841 AAGCTCAGCTCTAGTT
65 AAGCTCAACTCTAGTT
* *
131857 GGATTAACCAACAAATATCCGTCAAATAATGGCACCCAGTGCCTAGCGGATAAACTGCAAATGTA
1 GGATTAACCAACAAATATCCGTCAAATAATGGCACCCAATGCCTAGCAGATAAACTGCAAATGTA
131922 AGCTCAACTCTAGT
66 AGCTCAACTCTAGT
131936 CAATTAAACT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
80 73 0.99
81 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (80 bp):
GGATTAACCAACAAATATCCGTCAAATAATGGCACCCAATGCCTAGCAGATAAACTGCAAATGTA
AGCTCAACTCTAGTT
Found at i:150469 original size:19 final size:18
Alignment explanation
Indices: 150445--150515 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
150435 TATTTTAAAA
150445 ATTTTTATGAACTTTTAAT
1 ATTTTTAT-AACTTTTAAT
* *
150464 ATTTTTTTTAATTTTTAAT
1 A-TTTTTATAACTTTTAAT
* *
150483 TTTTTTAT-TCTTTTGAAT
1 ATTTTTATAACTTTT-AAT
150501 ATTTTTATAACTTTT
1 ATTTTTATAACTTTT
150516 TTAATTATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
17 4 0.10
18 16 0.39
19 15 0.37
20 6 0.15
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTTATAACTTTTAAT
Found at i:150507 original size:18 final size:18
Alignment explanation
Indices: 150445--150515 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
150435 TATTTTAAAA
*
150445 ATTTTTATGAACTTTTAAT
1 ATTTTTAT-TACTTTTAAT
* *
150464 ATTTTTTTTAATTTTTAAT
1 ATTTTTATT-ACTTTTAAT
*
150483 TTTTTTATT-CTTTTGAAT
1 ATTTTTATTACTTTT-AAT
*
150501 ATTTTTATAACTTTT
1 ATTTTTATTACTTTT
150516 TTAATTATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
17 4 0.10
18 10 0.24
19 27 0.66
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTTATTACTTTTAAT
Found at i:150977 original size:28 final size:29
Alignment explanation
Indices: 150918--150987 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
150908 CTAAACTACA
* *
150918 CACTAAATTATGAACAAGTTTTTATTTGGGT
1 CACTAAATTA--AAAAAGTTTTAATTTGGGT
* *
150949 CATTTAATTAAAAAAGTTTTAATTT-GGT
1 CACTAAATTAAAAAAGTTTTAATTTGGGT
150977 CACTAAATTAA
1 CACTAAATTAA
150988 TTTAAAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 12 0.36
29 13 0.39
31 8 0.24
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (29 bp):
CACTAAATTAAAAAAGTTTTAATTTGGGT
Found at i:151357 original size:31 final size:31
Alignment explanation
Indices: 151315--151373 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
151305 GCCTAACGAT
151315 TTAAATAAAAACTTTTAAATAGTTCAGTGAC
1 TTAAATAAAAACTTTTAAATAGTTCAGTGAC
*
151346 TTAAATGAAAACTTTTAAATAGTTCAGT
1 TTAAATAAAAACTTTTAAATAGTTCAGT
151374 AACAAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.37
Consensus pattern (31 bp):
TTAAATAAAAACTTTTAAATAGTTCAGTGAC
Found at i:157276 original size:117 final size:117
Alignment explanation
Indices: 157070--157310 Score: 421
Period size: 117 Copynumber: 2.1 Consensus size: 117
157060 GAAAAGGAAC
*
157070 AAAATCCTCAATATAGCTTCCATTCTAAAGGACATGCATAATAGGAGTAGTAACACACTACATTA
1 AAAATCCTCAATATAGCTTCCATTCTAAAGGACATGCATAATAAGAGTAGTAACACACTACATTA
* *
157135 TAAGCCTCACCAAGCTACTAGAAATCTGAGCCT-TTTTCAGAGAATCTTTAAT
66 TAAGCCTCACCAAGCTACTAGAAATCTGAGCCTCTTCT-AAAGAATCTTTAAT
*
157187 AAAATCCTCAGTATAGCTTCCATTCTAAAGGACATGCATAATAAGAGTAGTAACACACTACATTA
1 AAAATCCTCAATATAGCTTCCATTCTAAAGGACATGCATAATAAGAGTAGTAACACACTACATTA
*
157252 TAAGCCTCACTAAGCTACTAGAAATCTGAGCCTCTTCTAAAGAATCTTTAAT
66 TAAGCCTCACCAAGCTACTAGAAATCTGAGCCTCTTCTAAAGAATCTTTAAT
157304 AAAATCC
1 AAAATCC
157311 CAACGTAGCC
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
117 115 0.97
118 3 0.03
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.28
Consensus pattern (117 bp):
AAAATCCTCAATATAGCTTCCATTCTAAAGGACATGCATAATAAGAGTAGTAACACACTACATTA
TAAGCCTCACCAAGCTACTAGAAATCTGAGCCTCTTCTAAAGAATCTTTAAT
Found at i:164624 original size:17 final size:19
Alignment explanation
Indices: 164593--164631 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
164583 TTTTTTAGGG
164593 TTTTCTTAGGGTTTA-TTA
1 TTTTCTTAGGGTTTATTTA
*
164611 TTTT-TTAGGTTTTATTTA
1 TTTTCTTAGGGTTTATTTA
164629 TTT
1 TTT
164632 ATAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.15, C:0.03, G:0.13, T:0.69
Consensus pattern (19 bp):
TTTTCTTAGGGTTTATTTA
Found at i:164905 original size:3 final size:3
Alignment explanation
Indices: 164897--164925 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
164887 CTTCTAGACT
164897 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
164926 GTCATTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:167813 original size:3 final size:3
Alignment explanation
Indices: 167805--167833 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
167795 TAATAGAATA
167805 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
167834 ATTCCTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:169468 original size:80 final size:80
Alignment explanation
Indices: 169335--169542 Score: 398
Period size: 80 Copynumber: 2.6 Consensus size: 80
169325 AGTTTAACTG
*
169335 ACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCAAGGAATTGACAGTTAT
1 ACTAGAGTTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCAAGGAATTGACAGTTAT
169400 TCGTTTGTTAATCCA
66 TCGTTTGTTAATCCA
169415 ACTAGAGTTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCAAGGAATTGACAGTTAT
1 ACTAGAGTTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCAAGGAATTGACAGTTAT
169480 TCGTTTGTTAATCCA
66 TCGTTTGTTAATCCA
*
169495 ACTAGAGTTGGGTTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGC
1 ACTAGAGTTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGC
169543 CATAATTGTC
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 126 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (80 bp):
ACTAGAGTTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCAAGGAATTGACAGTTAT
TCGTTTGTTAATCCA
Found at i:169712 original size:182 final size:181
Alignment explanation
Indices: 169401--169733 Score: 440
Period size: 182 Copynumber: 1.8 Consensus size: 181
169391 GACAGTTATT
* * * *
169401 CGTTTGTTAATCCAACTAGAGTTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCAAG
1 CGTTGGTTAATCCAACTAGAGTTGGGCTCACTATCGCGGTTTATCCACTAGGCACTGGGTGCAAG
* * * * *
169466 GAATTGACAGTTATTCGTTTGTTAATCCAACTAGAGTTGGGTTCACTTTTGCGGTTTATCCGCTA
66 GAATTGACAG-TATTCGTTGGTTAATCCAACCAGAGTTGGGTTCACTATCGCGGTATATCCGCTA
**
169531 GGCACTGGGTGCCAT-AATTGTCGATTTATCCGACTAGCGCTGGGCACAAAC
130 GGCACCAGGTGCCATGAATTGTCGATTTATCCGACTAGCGCTGGGCACAAAC
* * *
169582 CGTTGGTTAATCCAACTAGAGTTGGGCTCACATATCGCGGTTTATTCACTAGGCATTGGGTGCCA
1 CGTTGGTTAATCCAACTAGAGTTGGGCTCAC-TATCGCGGTTTATCCACTAGGCACTGGGTGCAA
* *
169647 TGAATTGACAG-ACTTCGTTGGTTAATCCAGCCA-ATGTTGGGCTCTCA-TATCGCGGTATATCC
65 GGAATTGACAGTA-TTCGTTGGTTAATCCAACCAGA-GTTGGG-T-TCACTATCGCGGTATATCC
169709 GCTAGGCACCAGGTGCCATGAATTG
126 GCTAGGCACCAGGTGCCATGAATTG
169734 ACGAGAAACA
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
180 2 0.02
181 53 0.41
182 67 0.52
183 8 0.06
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (181 bp):
CGTTGGTTAATCCAACTAGAGTTGGGCTCACTATCGCGGTTTATCCACTAGGCACTGGGTGCAAG
GAATTGACAGTATTCGTTGGTTAATCCAACCAGAGTTGGGTTCACTATCGCGGTATATCCGCTAG
GCACCAGGTGCCATGAATTGTCGATTTATCCGACTAGCGCTGGGCACAAAC
Found at i:169715 original size:80 final size:80
Alignment explanation
Indices: 169582--169735 Score: 211
Period size: 80 Copynumber: 1.9 Consensus size: 80
169572 GGGCACAAAC
* * * ***
169582 CGTTGGTTAATCCAACTAGAGTTGGGCTCACATATCGCGGTTTATTCACTAGGCATTGGGTGCCA
1 CGTTGGTTAATCCAACCAGAGTTGGGCTCACATATCGCGGTATATCCACTAGGCACCAGGTGCCA
169647 TGAATTGACAGACTT
66 TGAATTGACAGACTT
* * *
169662 CGTTGGTTAATCCAGCCA-ATGTTGGGCTCTCATATCGCGGTATATCCGCTAGGCACCAGGTGCC
1 CGTTGGTTAATCCAACCAGA-GTTGGGCTCACATATCGCGGTATATCCACTAGGCACCAGGTGCC
169726 ATGAATTGAC
65 ATGAATTGAC
169736 GAGAAACAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.02
80 63 0.98
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (80 bp):
CGTTGGTTAATCCAACCAGAGTTGGGCTCACATATCGCGGTATATCCACTAGGCACCAGGTGCCA
TGAATTGACAGACTT
Found at i:171116 original size:22 final size:22
Alignment explanation
Indices: 171071--171117 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
171061 CATTTTAAGT
*
171071 ATTAAAATGGCTAATAGATCAA
1 ATTAAAATGGCTAATAGATAAA
*
171093 ATTAAAATGGCTTAA-ATATAAA
1 ATTAAAATGGC-TAATAGATAAA
171115 ATT
1 ATT
171118 GGTACCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (22 bp):
ATTAAAATGGCTAATAGATAAA
Found at i:171622 original size:17 final size:17
Alignment explanation
Indices: 171602--171679 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 17
171592 AATGGACCCA
*
171602 ATTTTAAATTTTAATTT
1 ATTTTAAATTTGAATTT
171619 ATTTT-AATTTGAATTT
1 ATTTTAAATTTGAATTT
* * *
171635 ACTTTAAATTTAAAACTT
1 ATTTTAAATTT-GAATTT
* *
171653 ATTTTGAGTTTGAATTT
1 ATTTTAAATTTGAATTT
171670 ATTTTAAATT
1 ATTTTAAATT
171680 AAATTTGAAC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
16 14 0.29
17 22 0.46
18 12 0.25
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (17 bp):
ATTTTAAATTTGAATTT
Found at i:171716 original size:15 final size:16
Alignment explanation
Indices: 171693--171725 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
171683 TTTGAACTTT
171693 AAAAGTACAAA-TACA
1 AAAAGTACAAATTACA
*
171708 AAAATTACAAATTACA
1 AAAAGTACAAATTACA
171724 AA
1 AA
171726 TTTTTGGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.67, C:0.12, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAGTACAAATTACA
Found at i:173505 original size:59 final size:59
Alignment explanation
Indices: 173431--173595 Score: 165
Period size: 59 Copynumber: 2.8 Consensus size: 59
173421 AAAATGTCCC
* *
173431 TAAACTTT-TCAAAAATTATATTTTAACCCTTAAACTTCTTAAAAATCATATTTT-AACCG
1 TAAACTTTCT-AAAAATTATATTTTTACCCTTAAACTTCTCAAAAAT-ATATTTTGAACCG
* * * * * *
173490 TAAACTTTCTAAAAATTACATTTTTGCCCCTAAACTTCCTGAAAAATATATTTTGACCCT
1 TAAACTTTCTAAAAATTATATTTTTACCCTTAAACTT-CTCAAAAATATATTTTGAACCG
** * *
173550 TGCACTTTCCAAAAATT-TCATTTTTACCCTTTAACTTCTCAAAAAT
1 TAAACTTTCTAAAAATTAT-ATTTTTACCCTTAAACTTCTCAAAAAT
173596 TACATTTTTA
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
59 46 0.53
60 41 0.47
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (59 bp):
TAAACTTTCTAAAAATTATATTTTTACCCTTAAACTTCTCAAAAATATATTTTGAACCG
Found at i:173604 original size:30 final size:30
Alignment explanation
Indices: 173431--173667 Score: 175
Period size: 30 Copynumber: 8.0 Consensus size: 30
173421 AAAATGTCCC
* * *
173431 TAAACTTTTCAAAAATTATATTTTAACCCT
1 TAAACTTCTCAAAAATTACATTTTTACCCT
* * *
173461 TAAACTTCTTAAAAA-T-CATATTTTAACCG
1 TAAACTTCTCAAAAATTACAT-TTTTACCCT
* *
173490 TAAACTT-TCTAAAAATTACATTTTTGCCCC
1 TAAACTTCTC-AAAAATTACATTTTTACCCT
* * *
173520 TAAACTTCCTGAAAAA-TATATTTTGACCCT
1 TAAACTT-CTCAAAAATTACATTTTTACCCT
** *
173550 TGCACTT-TCCAAAAATTTCATTTTTACCCT
1 TAAACTTCT-CAAAAATTACATTTTTACCCT
*
173580 TTAACTTCTCAAAAATTACATTTTTA-CCT
1 TAAACTTCTCAAAAATTACATTTTTACCCT
** * * *
173609 CGAACTTC-CAAAAATCACATTTGTACCCC
1 TAAACTTCTCAAAAATTACATTTTTACCCT
* * *
173638 CAAATTTC-CAAAAATTACATTTTTTCCCT
1 TAAACTTCTCAAAAATTACATTTTTACCCT
173667 T
1 T
173668 GGACATCTAA
Statistics
Matches: 161, Mismatches: 36, Indels: 21
0.74 0.17 0.10
Matches are distributed among these distances:
28 19 0.12
29 58 0.36
30 74 0.46
31 9 0.06
32 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (30 bp):
TAAACTTCTCAAAAATTACATTTTTACCCT
Found at i:173614 original size:29 final size:29
Alignment explanation
Indices: 173559--173661 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
173549 TTGCACTTTC
* **
173559 CAAAAATTTCATTTTTACCCTTTAACTTCT
1 CAAAAATTACATTTTTA-CCTCCAACTTCT
*
173589 CAAAAATTACATTTTTACCTCGAACTTC-
1 CAAAAATTACATTTTTACCTCCAACTTCT
* * * *
173617 CAAAAATCACATTTGTACCCCCAAATT-T
1 CAAAAATTACATTTTTACCTCCAACTTCT
173645 CCAAAAATTACATTTTT
1 -CAAAAATTACATTTTT
173662 TCCCTTGGAC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 22 0.36
29 23 0.38
30 16 0.26
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (29 bp):
CAAAAATTACATTTTTACCTCCAACTTCT
Found at i:174193 original size:98 final size:97
Alignment explanation
Indices: 174026--174217 Score: 296
Period size: 98 Copynumber: 2.0 Consensus size: 97
174016 AAAATATTTA
* ** * *
174026 AAATCGAGGTAATATTCCTTTATTTTGAGTTTTGAAAATTTGTGCCTTAGCTTACTAAGCGCGAT
1 AAATCGAGGCAATATTCCTTTATTTCAAGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGCGAC
174091 TTTTCTTCAAACCAGGATAATCGAATACCTTT
66 TTTTCTTCAAACCAGGATAATCGAATACCTTT
*
174123 AAATTGAGGCAATATTCCTTTATTTCAAGTTTTTGAAAATTTGTGCCTTAACTTAC-AACGCGCG
1 AAATCGAGGCAATATTCCTTTATTTCAAG-TTTTGAAAATTTGTGCCTTAACTTACTAA-GCGCG
*
174187 ACTTTTCTTCAAACCGGGATAATCGAATACC
64 ACTTTTCTTCAAACCAGGATAATCGAATACC
174218 CTTTTTCAAG
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
97 27 0.31
98 59 0.69
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (97 bp):
AAATCGAGGCAATATTCCTTTATTTCAAGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGCGAC
TTTTCTTCAAACCAGGATAATCGAATACCTTT
Found at i:178641 original size:11 final size:11
Alignment explanation
Indices: 178622--178699 Score: 58
Period size: 11 Copynumber: 7.2 Consensus size: 11
178612 GGATTCAATG
*
178622 AAGAAAAAATA
1 AAGAAAAAAGA
*
178633 AATAAAAAAGA
1 AAGAAAAAAGA
178644 AAG--AAAA-A
1 AAGAAAAAAGA
178652 AAGAAAAAAGA
1 AAGAAAAAAGA
178663 AA-AAAAGAGGAGA
1 AAGAAAA-A--AGA
*
178676 AA-AAAAGAAAA
1 AAGAAAA-AAGA
178687 AAGAAAAAAGA
1 AAGAAAAAAGA
178698 AA
1 AA
178700 ATAGAAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 4 0.07
9 4 0.07
10 8 0.15
11 24 0.44
12 4 0.07
13 11 0.20
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:178660 original size:7 final size:7
Alignment explanation
Indices: 178622--178709 Score: 81
Period size: 7 Copynumber: 12.3 Consensus size: 7
178612 GGATTCAATG
178622 AAGAAAA
1 AAGAAAA
*
178629 AATAAATA
1 AAGAAA-A
178637 AA-AAAGA
1 AAGAAA-A
178644 AAGAAAAA
1 AAG-AAAA
178652 AAGAAAA
1 AAGAAAA
178659 AAGAAAA
1 AAGAAAA
* *
178666 AA-AGAG
1 AAGAAAA
*
178672 GAGAAAAA
1 AAG-AAAA
178680 AAGAAAA
1 AAGAAAA
178687 AAGAAAA
1 AAGAAAA
178694 AAGAAAA
1 AAGAAAA
*
178701 TAGAAAA
1 AAGAAAA
178708 AA
1 AA
178710 CGGGAAAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
6 3 0.05
7 49 0.74
8 11 0.17
9 3 0.05
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (7 bp):
AAGAAAA
Found at i:178663 original size:15 final size:15
Alignment explanation
Indices: 178622--178709 Score: 94
Period size: 15 Copynumber: 6.1 Consensus size: 15
178612 GGATTCAATG
*
178622 AAGAAAAAATAAATAA
1 AAGAAAAAAGAAA-AA
*
178638 AA-AAGAAAGAAAAA
1 AAGAAAAAAGAAAAA
178652 AAGAAAAAAGAAAAA
1 AAGAAAAAAGAAAAA
**
178667 AAG--AGGAGAAAAA
1 AAGAAAAAAGAAAAA
178680 AAGAAAAAAG-AAAA
1 AAGAAAAAAGAAAAA
*
178694 AAGAAAATAGAAAAA
1 AAGAAAAAAGAAAAA
178709 A
1 A
178710 CGGGAAAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
13 11 0.18
14 17 0.28
15 30 0.50
16 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAGAAAAAAGAAAAA
Found at i:178668 original size:28 final size:28
Alignment explanation
Indices: 178622--178709 Score: 99
Period size: 28 Copynumber: 3.0 Consensus size: 28
178612 GGATTCAATG
*
178622 AAGAAAAAATAAATAAAAAAGAAAGAAAAA
1 AAGAAAAAA-GAA-AAAAAAGAAAGAAAAA
*
178652 AAGAAAAAAG-AAAAAAAGAGGAGAAAAA
1 AAGAAAAAAGAAAAAAAAGA-AAGAAAAA
178680 AAGAAAAAAGAAAAAAGAA-AATAGAAAAA
1 AAGAAAAAAGAAAAAA-AAGAA-AGAAAAA
178709 A
1 A
178710 CGGGAAAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
27 8 0.16
28 18 0.35
29 14 0.27
30 11 0.22
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (28 bp):
AAGAAAAAAGAAAAAAAAGAAAGAAAAA
Found at i:178696 original size:27 final size:27
Alignment explanation
Indices: 178636--178709 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 27
178626 AAAAATAAAT
178636 AAAAAAGAAAGAAAAAAAGAAAAAAGA
1 AAAAAAGAAAGAAAAAAAGAAAAAAGA
*
178663 AAAAAAGAGGAGAAAAAAAGAAAAAAGA
1 AAAAAAGA-AAGAAAAAAAGAAAAAAGA
*
178691 AAAAAGAAAATAGAAAAAA
1 AAAAA-AGAA-AGAAAAAA
178710 CGGGAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 8 0.20
28 23 0.56
29 10 0.24
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (27 bp):
AAAAAAGAAAGAAAAAAAGAAAAAAGA
Found at i:179937 original size:147 final size:147
Alignment explanation
Indices: 179661--180573 Score: 565
Period size: 147 Copynumber: 6.2 Consensus size: 147
179651 CTGAGAAAAA
* * * ** * *
179661 CATGAAGATTTGAAGGGAAAGGTTGAGACCACAACGGTAAACACGGTACCTTAGAAGATATGATG
1 CATGAA-ATGTGAAGGGAAAGGTTGAGACCACAACGGTAAACCCGATACCCAAGAAGATTTGAAG
* * * * * *
179726 GGAAAGATTGA-GACCGCAACGGCGAATCC-AGTACC-ATGAAATGTGATGAGAAAGGTTGAGGC
65 GGAAAGGTTGATG-CCGCAACGGC-AAACCTGGTACCTAAGAAATGTGATGGGAAAGATTGAGGC
*
179788 CGCAACGGTAAACTCGATAC
128 CGCAACGGTAAACTCGGTAC
* * * ** * * *
179808 CATGAAGATTTGAAGGGAAAGATTGAGGCCACAACGACAAACCCGGTACCCAAAAAGATTTTAAG
1 CATGAA-ATGTGAAGGGAAAGGTTGAGACCACAACGGTAAACCCGATACCCAAGAAGATTTGAAG
* * *
179873 GGAAAGGTTGATGCCGTAACGGCAAACTTGGTACCTAAGAAATGTGATGGGAAA-ATTGATGCCG
65 GGAAAGGTTGATGCCGCAACGGCAAACCTGGTACCTAAGAAATGTGATGGGAAAGATTGAGGCCG
*
179937 CAACGACG-AATC-CGGTAC
130 CAACG--GTAAACTCGGTAC
* ** * *
179955 CATGAAATGTGATA-AGAAAGGTTGAGACCGTAACGGTAAACCCGATACCTAAGAAGATTTTAAG
1 CATGAAATGTGA-AGGGAAAGGTTGAGACCACAACGGTAAACCCGATACCCAAGAAGATTTGAAG
* * *
180019 GGAAAGGTTGATTCCGCAACGACGAACCTGGTACCTCAA-AAATGTGATGGGAAAGATTGAGGCC
65 GGAAAGGTTGATGCCGCAACGGCAAACCTGGTACCT-AAGAAATGTGATGGGAAAGATTGAGGCC
* *
180083 GCAACGGTGAATTCGGTAC
129 GCAACGGTAAACTCGGTAC
* * * *
180102 CATGAAATGTGATGGGAAAGGTTGAGGCCATAACGGTAAACCCGATA-CCATGAAGATTTGAAGG
1 CATGAAATGTGAAGGGAAAGGTTGAGACCACAACGGTAAACCCGATACCCAAGAAGATTTGAAGG
* * * * * * * **
180166 GAAAGGTTAAGGCCGCAATGGTAAACCTGGTACCTAAGAAGATTTGAAGGGAAAGGTTGATTCCG
66 GAAAGGTTGATGCCGCAACGGCAAACCTGGTACCTAAGAA-ATGTGATGGGAAAGATTGAGGCCG
* *
180231 TAACGGTGAAC-CTGGTAC
130 CAACGGTAAACTC-GGTAC
* * * ** ** * ** * * * * *
180249 C-TCAGAAATGTGATGGGAAAGATTAAGGTCGTAACAGCGAATCCGGTA-CCATGAA-ATGTGAT
1 CAT--GAAATGTGAAGGGAAAGGTTGAGACCACAACGGTAAACCCGATACCCAAGAAGATTTGAA
* * * * * * * *
180311 GGGAAAGGTTGAGGTCACAATGGCAAA-CTCGATACCCT--GAAGATTTGAAGGGAAAGGTTGAG
64 GGGAAAGGTTGATGCCGCAACGGCAAACCT-GGTA-CCTAAGAA-ATGTGATGGGAAAGATTGAG
* * * * *
180373 GCCACAAAGGTGAACCCTGTAC
126 GCCGCAACGGTAAACTCGGTAC
** * * * ** * * *
180395 CTAAAAAGATTTGAAGGGAAAGGTTGATG-TCGCAACGGCGAACCTGGTACCTCAA-AA-ATGTG
1 C-ATGAA-ATGTGAAGGGAAAGGTTGA-GACCACAACGGTAAACCCGATACC-CAAGAAGATTTG
* * * * * * *
180457 ATA-GGAAAGATTGAGGTCGCAACGGCGAA-TTCGGTACC-ATGAAATGTGATGGGAAAGGTTGA
62 A-AGGGAAAGGTTGATGCCGCAACGGCAAACCT-GGTACCTAAGAAATGTGATGGGAAAGATTGA
* * *
180519 TGCCGCCACGGTAAACCCGGTAC
125 GGCCGCAACGGTAAACTCGGTAC
* *
180542 CATGAAGATTTGAAGGGAAAGGTTGAGGCCAC
1 CATGAA-ATGTGAAGGGAAAGGTTGAGACCAC
180574 GATGGCGAAT
Statistics
Matches: 622, Mismatches: 115, Indels: 59
0.78 0.14 0.07
Matches are distributed among these distances:
145 4 0.01
146 209 0.34
147 301 0.48
148 105 0.17
149 3 0.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (147 bp):
CATGAAATGTGAAGGGAAAGGTTGAGACCACAACGGTAAACCCGATACCCAAGAAGATTTGAAGG
GAAAGGTTGATGCCGCAACGGCAAACCTGGTACCTAAGAAATGTGATGGGAAAGATTGAGGCCGC
AACGGTAAACTCGGTAC
Found at i:180003 original size:195 final size:196
Alignment explanation
Indices: 179665--180225 Score: 584
Period size: 195 Copynumber: 2.9 Consensus size: 196
179655 GAAAAACATG
* ** * *
179665 AAGATTTGAAGGGAAAGGTTGAGACCACAACGGTAAACACGGTACCTTAGAAGATATGATGGGAA
1 AAGATTTGAAGGGAAAGGTTGAG-CCGCAACGGTAAACTTGGTACCTAAGAA-ATGTGATGGGAA
* * *
179730 AGATTGAGACCGCAACGGCGAATCCAGTACCATGAAATGTGATGAGAAAGGTTGAGGCCGCAACG
64 AGATTGAGACCGCAACGACGAATCCAGTACCATGAAATGTGATAAGAAAGGTTGAGACCGCAACG
* *
179795 GTAAACTCGATACC-ATGAAGATTTGAAGGGAAAGATTGAGGCCACAACGACAAACCCGGTACC-
129 GTAAACCCGATACCTAAGAAGATTTGAAGGGAAAGATTGAGGCCACAACGACAAACCCGGTACCT
179858 CAAA
194 C-AA
* * *
179862 AAGATTTTAAGGGAAAGGTTGATGCCGTAACGGCAAACTTGGTACCTAAGAAATGTGATGGGAAA
1 AAGATTTGAAGGGAAAGGTTGA-GCCGCAACGGTAAACTTGGTACCTAAGAAATGTGATGGGAAA
* *
179927 -ATTGATG-CCGCAACGACGAATCCGGTACCATGAAATGTGATAAGAAAGGTTGAGACCGTAACG
65 GATTGA-GACCGCAACGACGAATCCAGTACCATGAAATGTGATAAGAAAGGTTGAGACCGCAACG
* * ** * * *
179990 GTAAACCCGATACCTAAGAAGATTTTAAGGGAAAGGTTGATTCCGCAACGACGAACCTGGTACCT
129 GTAAACCCGATACCTAAGAAGATTTGAAGGGAAAGATTGAGGCCACAACGACAAACCCGGTACCT
180055 CAA
194 CAA
* * * * *
180058 AA-ATGTGATGGGAAAGATTGAGGCCGCAACGGTGAA-TTCGGTACC-ATGAAATGTGATGGGAA
1 AAGATTTGAAGGGAAAGGTTGA-GCCGCAACGGTAAACTT-GGTACCTAAGAAATGTGATGGGAA
* * ** * * * * * *
180120 AGGTTGAGGCCATAACG--GTAAACCCGATACCATGAAGATTTGA-AGGGAAAGGTTAAGGCCGC
64 AGATTGAGACCGCAACGACG-AATCCAG-TACCATGAA-ATGTGATA-AGAAAGGTTGAGACCGC
* * * *
180182 AATGGTAAACCTGGTACCTAAGAAGATTTGAAGGGAAAGGTTGA
125 AACGGTAAACCCGATACCTAAGAAGATTTGAAGGGAAAGATTGA
180226 TTCCGTAACG
Statistics
Matches: 308, Mismatches: 45, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
193 1 0.00
194 25 0.08
195 121 0.39
196 116 0.38
197 44 0.14
198 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.19
Consensus pattern (196 bp):
AAGATTTGAAGGGAAAGGTTGAGCCGCAACGGTAAACTTGGTACCTAAGAAATGTGATGGGAAAG
ATTGAGACCGCAACGACGAATCCAGTACCATGAAATGTGATAAGAAAGGTTGAGACCGCAACGGT
AAACCCGATACCTAAGAAGATTTGAAGGGAAAGATTGAGGCCACAACGACAAACCCGGTACCTCA
A
Found at i:180191 original size:196 final size:196
Alignment explanation
Indices: 179721--180571 Score: 948
Period size: 196 Copynumber: 4.4 Consensus size: 196
179711 TTAGAAGATA
* * * * * * * *
179721 TGATGGGAAAGATTGAGACCGCAACGGCGAATCC-AGTACCATGAA-ATGTGATGAGAAAGGTTG
1 TGATGGGAAAGGTTGAGGCCACAACGGCAAACCCGA-TACCATGAAGATTTGAAGGGAAAGGTTG
* * * ** * *
179784 AGGCCGCAACGGTAAACTCGATACC-ATGAAGATTTGAAGGGAAAGATTGAGGCCACAACGACAA
65 AGGCCGCAACGGTAAACCCGATACCTAAGAAGATTTGAAGGGAAAGGTTGATTCCGCAACGACGA
* * * * * * * * *
179848 ACCCGGTACC-CAAAAAGATTTTAAGGGAAAGGTTGATGCCGTAACGGCAAACTT-GGTACCTAA
130 ACCTGGTACCTC-AAAA-ATGTGATGGGAAAGATTGAGGCCGCAACGGCGAA-TTCGGTACC-AT
179911 GAAATG
191 GAAATG
* * * * * * * * *
179917 TGATGGGAAA-ATTGATGCCGCAACGACGAATCCGGTACCATGAA-ATGTGATA-AGAAAGGTTG
1 TGATGGGAAAGGTTGAGGCCACAACGGCAAACCCGATACCATGAAGATTTGA-AGGGAAAGGTTG
* * *
179979 AGACCGTAACGGTAAACCCGATACCTAAGAAGATTTTAAGGGAAAGGTTGATTCCGCAACGACGA
65 AGGCCGCAACGGTAAACCCGATACCTAAGAAGATTTGAAGGGAAAGGTTGATTCCGCAACGACGA
*
180044 ACCTGGTACCTCAAAAATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATTCGGTACCATGAAA
130 ACCTGGTACCTCAAAAATGTGATGGGAAAGATTGAGGCCGCAACGGCGAATTCGGTACCATGAAA
180109 TG
195 TG
* * *
180111 TGATGGGAAAGGTTGAGGCCATAACGGTAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTAA
1 TGATGGGAAAGGTTGAGGCCACAACGGCAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGA
* * * * **
180176 GGCCGCAATGGTAAACCTGGTACCTAAGAAGATTTGAAGGGAAAGGTTGATTCCGTAACGGTGAA
66 GGCCGCAACGGTAAACCCGATACCTAAGAAGATTTGAAGGGAAAGGTTGATTCCGCAACGACGAA
* * * * * *
180241 CCTGGTACCTCAGAAATGTGATGGGAAAGATTAAGGTCGTAACAGCGAATCCGGTACCATGAAAT
131 CCTGGTACCTCAAAAATGTGATGGGAAAGATTGAGGCCGCAACGGCGAATTCGGTACCATGAAAT
180306 G
196 G
* * * *
180307 TGATGGGAAAGGTTGAGGTCACAATGGCAAACTCGATACCCTGAAGATTTGAAGGGAAAGGTTGA
1 TGATGGGAAAGGTTGAGGCCACAACGGCAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGA
* * * * *
180372 GGCCACAAAGGTGAACCCTG-TACCTAAAAAGATTTGAAGGGAAAGGTTGATGT-CGCAACGGCG
66 GGCCGCAACGGTAAACCC-GATACCTAAGAAGATTTGAAGGGAAAGGTTGAT-TCCGCAACGACG
* *
180435 AACCTGGTACCTCAAAAATGTGATAGGAAAGATTGAGGTCGCAACGGCGAATTCGGTACCATGAA
129 AACCTGGTACCTCAAAAATGTGATGGGAAAGATTGAGGCCGCAACGGCGAATTCGGTACCATGAA
180500 ATG
194 ATG
* * * * *
180503 TGATGGGAAAGGTTGATGCCGCCACGGTAAACCCGGTACCATGAAGATTTGAAGGGAAAGGTTGA
1 TGATGGGAAAGGTTGAGGCCACAACGGCAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGA
180568 GGCC
66 GGCC
180572 ACGATGGCGA
Statistics
Matches: 563, Mismatches: 82, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
194 19 0.03
195 125 0.22
196 416 0.74
197 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.20
Consensus pattern (196 bp):
TGATGGGAAAGGTTGAGGCCACAACGGCAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGA
GGCCGCAACGGTAAACCCGATACCTAAGAAGATTTGAAGGGAAAGGTTGATTCCGCAACGACGAA
CCTGGTACCTCAAAAATGTGATGGGAAAGATTGAGGCCGCAACGGCGAATTCGGTACCATGAAAT
G
Found at i:180639 original size:99 final size:98
Alignment explanation
Indices: 180532--180865 Score: 330
Period size: 99 Copynumber: 3.4 Consensus size: 98
180522 CGCCACGGTA
* * * * *
180532 AACCCGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCCACGATGGCGAATTCAGTTCCTAAGA
1 AACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGCGACGACGAATTCAGTACCTAAGA
* * *
180597 AGATGTGATAGGAAAGGTTGAGGTCGTAATACCG
66 AGATGTGATGGGAAATGTTGAGGTCGTAA-AACG
* * * * * * * * *
180631 AACCCGGTACCATGAAGATGTAAAGGGAAAGGTTGAGGTCGCAACAACGAA-CCCGATACCTAAA
1 AACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGCGACGACGAATTCAG-TACCTAAG
*
180695 AAGATGTGATGGGAAATGTTGAGGTCGTAAAAGTG
65 AAGATGTGATGGGAAATGTTGAGGTCGTAAAA-CG
** * * * * *
180730 AACCCGATACCATGAAGAGATGAAGAGAAAGATTGAGGCCGTGACGACGAATTCGGTACCTTAGA
1 AACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGCGACGACGAATTCAGTACCTAAGA
* * * *
180795 AGATGTGATGGGAAATATTGAGGCCGCAACGACG
66 AGATGTGATGGGAAATGTTGAGGTCGTAA-AACG
* * *
180829 AATCCGATACCATGAA-ATTCGATGGGAAAGGTTGAGG
1 AACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGG
180866 ACGTAACGAA
Statistics
Matches: 189, Mismatches: 42, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
98 18 0.10
99 168 0.89
100 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (98 bp):
AACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGCGACGACGAATTCAGTACCTAAGA
AGATGTGATGGGAAATGTTGAGGTCGTAAAACG
Found at i:180660 original size:49 final size:49
Alignment explanation
Indices: 180607--180747 Score: 165
Period size: 50 Copynumber: 2.9 Consensus size: 49
180597 AGATGTGATA
* * *
180607 GGAAAGGTTGAGGTCGTAATACCGAACCCGGTACCATGAAGATGTAAAG
1 GGAAAGGTTGAGGTCGTAAAAACGAACCCGATACCATGAAGATGTAAAG
* * ** * *
180656 GGAAAGGTTGAGGTCGCAACAACGAACCCGATACCTAAAAAGATGTGATG
1 GGAAAGGTTGAGGTCGTAAAAACGAACCCGATACC-ATGAAGATGTAAAG
* **
180706 GGAAATGTTGAGGTCGTAAAAGTGAACCCGATACCATGAAGA
1 GGAAAGGTTGAGGTCGTAAAAACGAACCCGATACCATGAAGA
180748 GATGAAGAGA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
49 36 0.47
50 40 0.53
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (49 bp):
GGAAAGGTTGAGGTCGTAAAAACGAACCCGATACCATGAAGATGTAAAG
Found at i:180669 original size:196 final size:193
Alignment explanation
Indices: 180000--180769 Score: 781
Period size: 196 Copynumber: 3.9 Consensus size: 193
179990 GTAAACCCGA
* * * * * *
180000 TACCTAAGAAGATTTTAAGGGAAAGGTTGATTCCGCAACGACGAACCTGGTACCTCAAAAATGTG
1 TACCTAAGAAGATTTGAAGGGAAAGGTTGAGT-CGTAACGGCGAACCTGGTACCTC-GAAATGTA
* * *
180065 ATGGGAAAGATTGAGGCCGCAACGGTGAATTCGGTACCATGAAATGTGATGGGAAAGGTTGAGGC
64 AAGGGAAAGATTGAGGTCGCAACGGCGAATTCGGTACCATGAAATGTGATGGGAAAGGTTGAGGC
* * * * *
180130 CATAACGGTAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTAAGGCCGCAATGGTAAACCTG
129 CACAACGGTAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCACAATGGGAAACC-A
180195 G
193 G
* * *
180196 TACCTAAGAAGATTTGAAGGGAAAGGTTGATTCCGTAACGGTGAACCTGGTACCTCAGAAATGTG
1 TACCTAAGAAGATTTGAAGGGAAAGGTTGAGT-CGTAACGGCGAACCTGGTACCTC-GAAATGTA
* * * * * *
180261 ATGGGAAAGATTAAGGTCGTAACAGCGAATCCGGTACCATGAAATGTGATGGGAAAGGTTGAGGT
64 AAGGGAAAGATTGAGGTCGCAACGGCGAATTCGGTACCATGAAATGTGATGGGAAAGGTTGAGGC
* * * * * * *
180326 CACAATGGCAAACTCGATACCCTGAAGATTTGAAGGGAAAGGTTGAGGCCACAAAGGTGAACCCT
129 CACAACGGTAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCACAATGG-GAAACCA
180391 G
193 G
* * *
180392 TACCTAAAAAGATTTGAAGGGAAAGGTTGATGTCGCAACGGCGAACCTGGTACCTCAAAAATGTG
1 TACCTAAGAAGATTTGAAGGGAAAGGTTGA-GTCGTAACGGCGAACCTGGTACCTC-GAAATGT-
* *
180457 ATA-GGAAAGATTGAGGTCGCAACGGCGAATTCGGTACCATGAAATGTGATGGGAAAGGTTGATG
63 AAAGGGAAAGATTGAGGTCGCAACGGCGAATTCGGTACCATGAAATGTGATGGGAAAGGTTGAGG
* * * * **
180521 CCGCCACGGTAAACCCGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCCACGATGGCGAATTC
128 CCACAACGGTAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCACAATGG-GAAACC
180586 AG
192 AG
* * *** *
180588 TTCCTAAGAAGATGTGATA-GGAAAGGTTGAGGTCGTAATACCGAACCCGGTACCAT-GAAGATG
1 TACCTAAGAAGATTTGA-AGGGAAAGGTTGA-GTCGTAACGGCGAACCTGGTACC-TCGAA-ATG
* ** ** * ** *
180651 TAAAGGGAAAGGTTGAGGTCGCAACAACGAACCCGATACCTAAAAAGATGTGATGGGAAATGTTG
62 TAAAGGGAAAGATTGAGGTCGCAACGGCGAATTCGGTACC-ATGAA-ATGTGATGGGAAAGGTTG
* ** ** * ** * *
180716 AGGTCGTAAAAGTGAACCCGATACCATGAAGAGATGAAGAGAAAGATTGAGGCC
125 AGGCCACAACGGTAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCC
180770 GTGACGACGA
Statistics
Matches: 483, Mismatches: 82, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
195 4 0.01
196 410 0.85
197 10 0.02
198 59 0.12
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (193 bp):
TACCTAAGAAGATTTGAAGGGAAAGGTTGAGTCGTAACGGCGAACCTGGTACCTCGAAATGTAAA
GGGAAAGATTGAGGTCGCAACGGCGAATTCGGTACCATGAAATGTGATGGGAAAGGTTGAGGCCA
CAACGGTAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCACAATGGGAAACCAG
Found at i:180720 original size:50 final size:50
Alignment explanation
Indices: 179904--180872 Score: 254
Period size: 49 Copynumber: 19.8 Consensus size: 50
179894 GCAAACTTGG
* * * * * * *
179904 TACCTAAGAA-ATGTGATGGGAAA-ATTGATGCCGCAACGACGAATCCGG
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* ** ** ****
179952 TACC-ATGAA-ATGTGATAAGAAAGGTTGAGACCGTAACGGTAAACCCGA
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * * * * * * *
180000 TACCTAAGAAGATTTTAAGGGAAAGGTTGA-TTCCGCAACGACGAACCTGG
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGT-CGTAACAACGAACCCGA
* * * *** ** *
180050 TACCTCAA-AA-ATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATTCGG
1 TACCT-AAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * * ****
180099 TACC-ATGAA-ATGTGATGGGAAAGGTTGAGGCCATAACGGTAAACCCGA
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * * * * * ***** * *
180147 TACC-ATGAAGATTTGAAGGGAAAGGTTAAGGCCGCAATGGTAAACCTGG
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * * *** * *
180196 TACCTAAGAAGATTTGAAGGGAAAGGTTGA-TTCCGTAACGGTGAACCTGG
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGT-CGTAACAACGAACCCGA
* * * * * *
180246 TACCTCAGAA-ATGTGATGGGAAAGATTAAGGTCGTAACAGCGAATCCGG
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* ** *** * *
180295 TACC-ATGAA-ATGTGATGGGAAAGGTTGAGGTCACAATGGCAAACTCGA
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * * ** **
180343 TACCCT--GAAGATTTGAAGGGAAAGGTTGAGGCCACAA-AGGTGAACCCTG-
1 TA-CCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACA-ACGAACCC-GA
* * * * * ** * *
180392 TACCTAAAAAGATTTGAAGGGAAAGGTTGATGTCGCAACGGCGAACCTGG
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * * ** ** *
180442 TACCTCAA-AA-ATGTGATAGGAAAGATTGAGGTCGCAACGGCGAATTCGG
1 TACCT-AAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * * ** **** *
180491 TACC-ATGAA-ATGTGATGGGAAAGGTTGATGCCGCCACGGTAAACCCGG
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * * * *** *** **
180539 TACC-ATGAAGATTTGAAGGGAAAGGTTGAGGCCACGATGGCGAATTC-A
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * * * *
180587 GTTCCTAAGAAGATGTGATAGGAAAGGTTGAGGTCGTAATACCGAACCCGG
1 -TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * * *
180638 TACC-ATGAAGATGTAAAGGGAAAGGTTGAGGTCGCAACAACGAACCCGA
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* * *
180687 TACCTAAAAAGATGTGATGGGAAATGTTGAGGTCGTAA-AAGTGAACCCGA
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAA-CGAACCCGA
* * * * * * * ** *
180737 TACC-ATGAAGA-GATGAAGAGAAAGATTGAGGCCGTGACGACGAATTCGG
1 TACCTAAGAAGATG-TGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* ** * * * *
180786 TACCTTAGAAGATGTGATGGGAAATATTGAGGCCGCAACGACGAATCCGA
1 TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
* *
180836 TACC-ATGAA-AT-TCGATGGGAAAGGTTGAGGACGTAAC
1 TACCTAAGAAGATGT-GATGGGAAAGGTTGAGGTCGTAAC
180873 GAAAAACCCA
Statistics
Matches: 705, Mismatches: 183, Indels: 66
0.74 0.19 0.07
Matches are distributed among these distances:
47 18 0.03
48 171 0.24
49 279 0.40
50 232 0.33
51 5 0.01
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (50 bp):
TACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAACGAACCCGA
Found at i:180895 original size:147 final size:145
Alignment explanation
Indices: 180635--181012 Score: 406
Period size: 147 Copynumber: 2.6 Consensus size: 145
180625 ATACCGAACC
* * * * * * * **
180635 CGGTACCAT-GAAGATGTAAAGGGAAAGGTTGAGGTCGCAACAACGAACCCGATACCTAAAAAGA
1 CGGTACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGACGAATCCGATACC-ATGAA-A
* * * *
180699 TGTGATGGGAAATGTTGAGGTCGTAAAAGTGAACCCGATACCATGAAGAGATG-AAGAGAAAGAT
64 TGTGATGGGAAAGGTTGAGGACGTAAAAG-AAACCCAATACCATGAAGAGATGAAAG-GAAAGAT
180763 TGAGGCCGT-GACGACGAATT
127 TGAGGCC-TCGACGACGAA-T
*
180783 CGGTACCTTAGAAGATGTGATGGGAAATATTGAGGCCGCAACGACGAATCCGATACCATGAAAT-
1 CGGTACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGACGAATCCGATACCATGAAATG
*
180847 TCGATGGGAAAGGTTGAGGACGTAACGAA-AAACCCAATACCATGAAGAGATGAAAGGAAGGATT
66 T-GATGGGAAAGGTTGAGGACGTAA--AAGAAACCCAATACCATGAAGAGATGAAAGGAAAGATT
* * *
180911 GAGGTCTCGATGGCGAAT
128 GAGGCCTCGACGACGAAT
* * * **
180929 CTGATACCTTAAAAAATGTGATGGGAAAGATTGAGGCCGCAACGACGAATTTGATACCATGAAAT
1 C-GGTACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGACGAATCCGATACCATGAAAT
**
180994 GTGATAAGAAAGGTTGAGG
65 GTGATGGGAAAGGTTGAGG
181013 GCTCAATGAC
Statistics
Matches: 196, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
146 4 0.02
147 135 0.69
148 15 0.08
149 42 0.21
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.19
Consensus pattern (145 bp):
CGGTACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGACGAATCCGATACCATGAAATG
TGATGGGAAAGGTTGAGGACGTAAAAGAAACCCAATACCATGAAGAGATGAAAGGAAAGATTGAG
GCCTCGACGACGAAT
Found at i:181056 original size:51 final size:49
Alignment explanation
Indices: 180931--181075 Score: 148
Period size: 48 Copynumber: 2.9 Consensus size: 49
180921 TGGCGAATCT
* * *
180931 GATACCTTAAAAAATGTGATGGGAAAGATTGAGGCCGCAACGACGAATTT
1 GATACCTT-AAAAATGTGATGAGAAAGGTTGAGGCCGCAACGACGAATTG
* * * * * *
180981 GATACCAT-GAAATGTGATAAGAAAGGTTGAGGGCTCAATGACGAACTTG
1 GATACCTTAAAAATGTGATGAGAAAGGTTGAGGCCGCAACGACGAA-TTG
* **
181030 GATACCTTAAAAGATGTGACGAGAAAGGTTGAGGCAACAACGACGA
1 GATACCTTAAAA-ATGTGATGAGAAAGGTTGAGGCCGCAACGACGA
181076 GCCAGATACT
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
48 30 0.40
49 9 0.12
50 9 0.12
51 27 0.36
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.20
Consensus pattern (49 bp):
GATACCTTAAAAATGTGATGAGAAAGGTTGAGGCCGCAACGACGAATTG
Found at i:181394 original size:41 final size:41
Alignment explanation
Indices: 181327--181421 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
181317 CATCATCATT
* * *
181327 CAGTCTTTTACCCTTAGTCAAAAAGGGTAGATTAAAGATTC
1 CAGTCTTTTACCCTTAATCAAAAAGGGCAGAATAAAGATTC
* * *
181368 CAGTCTTTTACCCTTAATCAAGAAGGGCAGAATGAATATTC
1 CAGTCTTTTACCCTTAATCAAAAAGGGCAGAATAAAGATTC
181409 C-GATCTTTTACCC
1 CAG-TCTTTTACCC
181422 CGAGCTTGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.02
41 46 0.98
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (41 bp):
CAGTCTTTTACCCTTAATCAAAAAGGGCAGAATAAAGATTC
Found at i:181498 original size:78 final size:78
Alignment explanation
Indices: 181410--181576 Score: 192
Period size: 78 Copynumber: 2.1 Consensus size: 78
181400 TGAATATTCC
* * * * ** * * *
181410 GATCTTTTACCCCGAGCTTGAGGCAGATCACCATTAGTCAATCTCTTAC-CCTGAGCTTGGGGGA
1 GATCTTTTACCCCAAGCCTGAGGCAAATCACCATCAACCAATCTATTACTCC-GAGCCTGGGGCA
*
181474 GATTGCAACCATTT
65 GATTGCAACCATCT
* *
181488 GATCTTTTACCCCAAGCCTGGGGCAAATCGCCATCAACCAATCTATTACTCCGAGCCTGGGGCAG
1 GATCTTTTACCCCAAGCCTGAGGCAAATCACCATCAACCAATCTATTACTCCGAGCCTGGGGCAG
*
181553 ATTGCAATCATCT
66 ATTGCAACCATCT
*
181566 GACCTTTTACC
1 GATCTTTTACC
181577 TCGACCATGG
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 72 0.97
79 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (78 bp):
GATCTTTTACCCCAAGCCTGAGGCAAATCACCATCAACCAATCTATTACTCCGAGCCTGGGGCAG
ATTGCAACCATCT
Found at i:181981 original size:209 final size:208
Alignment explanation
Indices: 181622--182574 Score: 1117
Period size: 209 Copynumber: 4.6 Consensus size: 208
181612 AAAGCTATTA
* * * * * * *
181622 TCTTCTTGATGAGATATAGAGAAGTGGATCAAAACAA-CGAGGCGATCATCTTCTTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAGTGATGCGATCATTTTC-TGATGAGATA
* * * *
181686 TTGAGAAGTAGACCAAATCAATAAAACAAAGCTCAATGTGAGCGAAACATCGAACCCCAGCTTCC
65 CTAAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCC
* * *
181751 TGATAAGATACTAAGAAGTAGGTCGAAGCAATAAAATGGTCAACTTCTTGATGAGATATAGAGAA
130 TGATAAGATACTAAGAAGTAGGTCGAAGCAATAAAATGGTCATCTTCCTGATGAGATACAGAGAA
*
181816 GTGGACCAAATTCG
195 GTGGACCAAATCCG
* *
181830 TCTTCTTGATGAGATACAGAGAAGCGGATTAAAACAAGTGATGTGATCATATTTCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAGTGATGCGATCAT-TTTCTGATGAGATA
* ** * * ** * *
181895 CTAAAAAACAGACCGAATCAATGAAACAAAGTTGGATATGAGCGAAACTTTGAACCCCAGCTTCC
65 CTAAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCC
* * * *
181960 TGATAAGATATTAAGAAGTAGGTCGAAGCAATAAAATGGTCGTCTTCCTGATTAGATACAAAGAA
130 TGATAAGATACTAAGAAGTAGGTCGAAGCAATAAAATGGTCATCTTCCTGATGAGATACAGAGAA
182025 GTGGACCAAATCCG
195 GTGGACCAAATCCG
* ** * * *
182039 TCTTCCTGATGAGATTCAGAGAAGCGGATTAAAATGAGTGAGGCGGTCATCTTCTTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAGTGATGCGATCATTTTC-TGATGAGATA
* * * *
182104 C-AGAGAAGTATAACAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCAAACCTCAGCTTC
65 CTA-AGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTC
* * * * * *
182168 CTGATGAGGTACTGAGAAGCAGGTCGAAGTAATAAAAT-GACAGTCTTCCTGATGAGATACAGAG
129 CTGATAAGATACTAAGAAGTAGGTCGAAGCAATAAAATGGTCA-TCTTCCTGATGAGATACAGAG
182232 AAGTGGACCAAATCCG
193 AAGTGGACCAAATCCG
* * * * * *
182248 TTTTCCTGATGAGATACAAAAAAGCGGATTAAAATAGGTGATGCGATCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAGTGATGCGATCAT-TTTCTGATGAGATA
* * * * * *
182313 C-AGAGAAGCATG-TCAAATCAATGAAACAAAGCTTAATGTGAGCAAAACTTCGAATCCCAACTT
65 CTA-AGAAGTA-GACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTT
* * * * ** *
182376 CCTGATGAGATATTGAGAAGTAGGTCGAAGCAATAAAGTGGTTGTCTTCCTGATGAGATATAGAG
128 CCTGATAAGATACTAAGAAGTAGGTCGAAGCAATAAAATGGTCATCTTCCTGATGAGATACAGAG
* * **
182441 AAGAGAACCAAATTTG
193 AAGTGGACCAAATCCG
* * * *
182457 TCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGTGATGTGGTCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAGTGATGCGATCAT-TTTCTGATGAGATA
*
182522 CTAAGAAGTAGACCAAATCAA-GGAACAAAGCTCAATGTGAGCGAAACTTCGAA
65 CTAAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAA
182575 TACAGAGAAG
Statistics
Matches: 631, Mismatches: 104, Indels: 20
0.84 0.14 0.03
Matches are distributed among these distances:
208 70 0.11
209 554 0.88
210 7 0.01
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (208 bp):
TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAGTGATGCGATCATTTTCTGATGAGATAC
TAAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCT
GATAAGATACTAAGAAGTAGGTCGAAGCAATAAAATGGTCATCTTCCTGATGAGATACAGAGAAG
TGGACCAAATCCG
Found at i:182453 original size:418 final size:418
Alignment explanation
Indices: 181622--182571 Score: 1239
Period size: 418 Copynumber: 2.3 Consensus size: 418
181612 AAAGCTATTA
* * ** * * *
181622 TCTTCTTGATGAGATATAGAGAAGTGGATCAAAACAA-CGAGGCGATCATCTTCTTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGTGAGGCGGTCATCTTCTTGATGAGATA
** * * *
181686 TTGAGAAGTAGACCAAATCAATAAAACAAAGCTCAATGTGAGCGAAACATCGAACCCCAGCTTCC
66 CAGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCAAACCCCAGCTTCC
* * * *
181751 TGATAAGATACTAAGAAGTAGGTCGAAGCAATAAAATGGTCAACTTCTTGATGAGATATAGAGAA
131 TGATAAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGACAACTTCCTGATGAGATACAGAGAA
* * * * *
181816 GTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGGATTAAAACAAGTGATGTGATCATA
196 GTGGACCAAATCCGTCTTCCTGATGAGATACAAAAAAGCGGATTAAAACAAGTGATGCGATCATA
* * * * *
181881 TTTCTGATGAGATACTAAAAAACAGACCGAATCAATGAAACAAAGTTGGATATGAGCGAAACTTT
261 TTCCTGATGAGATACTAAAAAACAGACCAAATCAATGAAACAAAGTTGAATATGAGCAAAACTTC
*
181946 GAACCCCAGCTTCCTGATAAGATATTAAGAAGTAGGTCGAAGCAATAAAATGGTCGTCTTCCTGA
326 GAACCCCAACTTCCTGATAAGATATTAAGAAGTAGGTCGAAGCAATAAAATGGTCGTCTTCCTGA
* * *
182011 TTAGATACAAAGAAGTGGACCAAATCCG
391 TGAGATACAAAGAAGAGAACCAAATCCG
* * **
182039 TCTTCCTGATGAGATTCAGAGAAGCGGATTAAAATGAGTGAGGCGGTCATCTTCTTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGTGAGGCGGTCATCTTCTTGATGAGATA
* * *
182104 CAGAGAAGTATAACAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCAAACCTCAGCTTCC
66 CAGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCAAACCCCAGCTTCC
* * * * *
182169 TGATGAGGTACTGAGAAGCAGGTCGAAGTAATAAAAT-GACAGTCTTCCTGATGAGATACAGAGA
131 TGATAAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGACA-ACTTCCTGATGAGATACAGAGA
* * *
182233 AGTGGACCAAATCCGTTTTCCTGATGAGATACAAAAAAGCGGATTAAAATAGGTGATGCGATCAT
195 AGTGGACCAAATCCGTCTTCCTGATGAGATACAAAAAAGCGGATTAAAACAAGTGATGCGATCAT
* * * * *
182298 CTTCCTGATGAGATAC-AGAGAAGCATG-TCAAATCAATGAAACAAAGCTT-AATGTGAGCAAAA
260 ATTCCTGATGAGATACTA-AAAAACA-GACCAAATCAATGAAACAAAG-TTGAATATGAGCAAAA
* * * * *
182360 CTTCGAATCCCAACTTCCTGATGAGATATTGAGAAGTAGGTCGAAGCAATAAAGTGGTTGTCTTC
322 CTTCGAACCCCAACTTCCTGATAAGATATTAAGAAGTAGGTCGAAGCAATAAAATGGTCGTCTTC
* * **
182425 CTGATGAGATATAGAGAAGAGAACCAAATTTG
387 CTGATGAGATACAAAGAAGAGAACCAAATCCG
* * *
182457 TCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGTGATGTGGTCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGTGAGGCGGTCATCTTCTTGATGAGATA
*
182522 CTA-AGAAGTAGACCAAATCAA-GGAACAAAGCTCAATGTGAGCGAAACTTC
66 C-AGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTC
182572 GAATACAGAG
Statistics
Matches: 460, Mismatches: 67, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
417 62 0.13
418 394 0.86
419 4 0.01
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (418 bp):
TCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGTGAGGCGGTCATCTTCTTGATGAGATA
CAGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCAAACCCCAGCTTCC
TGATAAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGACAACTTCCTGATGAGATACAGAGAA
GTGGACCAAATCCGTCTTCCTGATGAGATACAAAAAAGCGGATTAAAACAAGTGATGCGATCATA
TTCCTGATGAGATACTAAAAAACAGACCAAATCAATGAAACAAAGTTGAATATGAGCAAAACTTC
GAACCCCAACTTCCTGATAAGATATTAAGAAGTAGGTCGAAGCAATAAAATGGTCGTCTTCCTGA
TGAGATACAAAGAAGAGAACCAAATCCG
Found at i:183102 original size:17 final size:17
Alignment explanation
Indices: 183082--183183 Score: 118
Period size: 17 Copynumber: 6.1 Consensus size: 17
183072 AATGGACCCA
*
183082 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
183099 A-TTTAAATTTGAATTT
1 ATTTTAAATTTAAATTT
* *
183115 ACTTTAAATTTAAAACTT
1 ATTTTAAATTT-AAATTT
* * *
183133 ATTTTGAGTTTGAATTT
1 ATTTTAAATTTAAATTT
183150 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
183167 ATTTTAAA-TTAAATTT
1 ATTTTAAATTTAAATTT
183183 A
1 A
183184 AACTTTAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
16 24 0.33
17 36 0.50
18 12 0.17
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:183149 original size:35 final size:34
Alignment explanation
Indices: 183084--183171 Score: 106
Period size: 35 Copynumber: 2.6 Consensus size: 34
183074 TGGACCCAAT
* * * *
183084 TTTAAATTTTAATTTA-TTTAAATTTGAATTTAC
1 TTTAAATTTAAACTTATTTTGAGTTTGAATTTAC
*
183117 TTTAAATTTAAAACTTATTTTGAGTTTGAATTTAT
1 TTTAAATTT-AAACTTATTTTGAGTTTGAATTTAC
*
183152 TTTAAATTTAAATTTATTTT
1 TTTAAATTTAAACTTATTTT
183172 AAATTAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 9 0.19
34 15 0.32
35 23 0.49
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (34 bp):
TTTAAATTTAAACTTATTTTGAGTTTGAATTTAC
Found at i:183192 original size:7 final size:6
Alignment explanation
Indices: 183084--183192 Score: 61
Period size: 6 Copynumber: 19.0 Consensus size: 6
183074 TGGACCCAAT
* * *
183084 TTTAAA TTTTAA TTT--A TTTAAA TTTGAA TTT-AC TTTAAA TTTAAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA
* * * * * * *
183130 CTT-AT TTTGAG TTTGAA TTT-AT TTTAAA TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
183175 -TTAAA TTTAAA CTTTAAA
1 TTTAAA TTTAAA -TTTAAA
183193 AGTCCAAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
4 4 0.05
5 20 0.25
6 46 0.57
7 11 0.14
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:184966 original size:30 final size:29
Alignment explanation
Indices: 184930--185192 Score: 250
Period size: 30 Copynumber: 8.9 Consensus size: 29
184920 AAAGGTCCTT
* * *
184930 AAACTTTCCAAAAAATATATTTTGACCCCC
1 AAACTTTCCAAAAATTACATTTT-ACCCTC
* *
184960 AAACTTTCCAAAAATCACATTTTAACACTC
1 AAACTTTCCAAAAATTACATTTT-ACCCTC
*
184990 AAACTTACCAAAAATTACATTTTTACCCTC
1 AAACTTTCCAAAAATTACA-TTTTACCCTC
* * *
185020 GAACTTTCCAAAAATTATATTTTGACCCTT
1 AAACTTTCCAAAAATTACATTTT-ACCCTC
* * *
185050 AAACTTTCAAAAAATTATATTTTTCCCTC
1 AAACTTTCCAAAAATTACATTTTACCCTC
* *
185079 GAA-TTTCTTAAAAATTACATTTTACCCTC
1 AAACTTTC-CAAAAATTACATTTTACCCTC
185108 AAAC-TTCCAAAAATTACATTTTTACCC-C
1 AAACTTTCCAAAAATTACA-TTTTACCCTC
*
185136 TAAAC-TTCCAAAAATTACACTTTCACCAC-C
1 -AAACTTTCCAAAAATTACA-TTTTACC-CTC
*
185166 AAAC-TTCCAAAAATCACATTTGTACCC
1 AAACTTTCCAAAAATTACATTT-TACCC
185193 CTAAAATTTC
Statistics
Matches: 198, Mismatches: 27, Indels: 18
0.81 0.11 0.07
Matches are distributed among these distances:
28 19 0.10
29 85 0.43
30 90 0.45
31 4 0.02
ACGTcount: A:0.39, C:0.26, G:0.02, T:0.33
Consensus pattern (29 bp):
AAACTTTCCAAAAATTACATTTTACCCTC
Found at i:185745 original size:98 final size:97
Alignment explanation
Indices: 185575--185769 Score: 291
Period size: 98 Copynumber: 2.0 Consensus size: 97
185565 CTCCAAAATA
* * *
185575 TTTAAATCGAGGTAATATTCCTTTATTTCGGGTTTTGAAAATTCGTGCCTTAACTTACTAGGCGC
1 TTTAAATCGAGGCAATATTCATTTATTTCGGGTTTTGAAAATTCGTGCCTTAACTTACTAGGCGA
* **
185640 GATTTTTCTTCAAATTGGGATAATCGAATACC
66 GACTTTTCTTCAAACCGGGATAATCGAATACC
* * *
185672 TTTAAATCGAGGCAATATTCATTTATTTCGAGTTTTTGAAAATTTGTGCCTTAACTTACTAGGTG
1 TTTAAATCGAGGCAATATTCATTTATTTCG-GGTTTTGAAAATTCGTGCCTTAACTTACTAGGCG
*
185737 AGACTTTTCTTCAAACCGGGATGATCGAATACC
65 AGACTTTTCTTCAAACCGGGATAATCGAATACC
185770 CTTTTTCAAG
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
97 28 0.32
98 59 0.68
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (97 bp):
TTTAAATCGAGGCAATATTCATTTATTTCGGGTTTTGAAAATTCGTGCCTTAACTTACTAGGCGA
GACTTTTCTTCAAACCGGGATAATCGAATACC
Found at i:188472 original size:17 final size:17
Alignment explanation
Indices: 188450--188483 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
188440 CAAAATTAAC
188450 GATAAATCTTACCAAAT
1 GATAAATCTTACCAAAT
*
188467 GATAAATCTTACGAAAT
1 GATAAATCTTACCAAAT
188484 CCCTGTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (17 bp):
GATAAATCTTACCAAAT
Found at i:188899 original size:109 final size:109
Alignment explanation
Indices: 188703--188983 Score: 255
Period size: 109 Copynumber: 2.6 Consensus size: 109
188693 TATGTCACCT
* * * * * *
188703 GCTCACGATGCTGCTCATACAAGCTATTA-AGAATCTGCAACATATGC-AGAATCTCAGCCATCT
1 GCTCACGATGTTGCTCACACAAGCTA-TACAAAATCCGCAACATATGCAAG-ATCTCAACCATCG
* * * * * * * * * *
188766 TAACGGTGTATATCATTAGAACATAGTATCC-ATTCAATATTCACT-G
64 CAACGATTTGTATCACTGGTACATAATA-CCTATTAAATAATC-CTCG
* * * * * * *
188812 GCTCGCGATGTTGTTCACACAAGTTGTAGATAATCCGCAACATATGCAAGATCTCAACTATCGCA
1 GCTCACGATGTTGCTCACACAAGCTATACAAAATCCGCAACATATGCAAGATCTCAACCATCGCA
*
188877 ACGATTTGTATCACTGGTACATAATACCTATTAAATAATCGTCG
66 ACGATTTGTATCACTGGTACATAATACCTATTAAATAATCCTCG
* * *
188921 TCTCACGATGTTGCTCACACAAGCTATACAAAATCCGTAACATATGTAAGATCTCAACCATCG
1 GCTCACGATGTTGCTCACACAAGCTATACAAAATCCGCAACATATGCAAGATCTCAACCATCG
188984 TTACTGTCTG
Statistics
Matches: 136, Mismatches: 32, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
108 5 0.04
109 129 0.95
110 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (109 bp):
GCTCACGATGTTGCTCACACAAGCTATACAAAATCCGCAACATATGCAAGATCTCAACCATCGCA
ACGATTTGTATCACTGGTACATAATACCTATTAAATAATCCTCG
Found at i:189034 original size:25 final size:25
Alignment explanation
Indices: 189006--189091 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
188996 TCACTAGCTT
*
189006 AAAGCCTAATAGATAACACTGACAC
1 AAAGCCTAATAGATAACACCGACAC
** * *
189031 AAAGCCTGGTTGATAACACCGACAA
1 AAAGCCTAATAGATAACACCGACAC
* * *
189056 AAAGCTTGATAGATATCACCGACAC
1 AAAGCCTAATAGATAACACCGACAC
*
189081 AAAGTCTAATA
1 AAAGCCTAATA
189092 TTCGGGAGCA
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (25 bp):
AAAGCCTAATAGATAACACCGACAC
Found at i:195959 original size:14 final size:14
Alignment explanation
Indices: 195940--195970 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
195930 TGGACTGATT
*
195940 TGGGTTTTGGGATA
1 TGGGTTTTGGGACA
195954 TGGGTTTTGGGACA
1 TGGGTTTTGGGACA
195968 TGG
1 TGG
195971 TTCCTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.45, T:0.39
Consensus pattern (14 bp):
TGGGTTTTGGGACA
Found at i:197373 original size:21 final size:23
Alignment explanation
Indices: 197331--197374 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
197321 GAGCTTGTAC
*
197331 ATGATGTGTAATTGAGTTATATG
1 ATGATGTGTAATTGAATTATATG
197354 ATGATGTG-AA-TGAATTATATG
1 ATGATGTGTAATTGAATTATATG
197375 CAACAATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 2 0.10
23 8 0.40
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (23 bp):
ATGATGTGTAATTGAATTATATG
Found at i:197825 original size:89 final size:89
Alignment explanation
Indices: 197674--197851 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
197664 ATTTACATGG
197674 AAGCTTACTAAGTATTTCTTCAGCGGATTAGGGAGTTGCAAGTTGATTATCCAAAGTTGTTAGCC
1 AAGCTTACTAAGTATTTCTTCAGCGGATTAGGGAGTTGCAAGTTGATTATCCAAAGTTGTTAGCC
197739 AAACGAGAGCAAATCCAGAATAAT
66 AAACGAGAGCAAATCCAGAATAAT
197763 AAGCTTACTAAGTATTTCTTCAGCGGATTAGGGAGTTGCAAGTTGATTATCCAAAGTTGTTAGCC
1 AAGCTTACTAAGTATTTCTTCAGCGGATTAGGGAGTTGCAAGTTGATTATCCAAAGTTGTTAGCC
197828 AAACGAGAGCAAATCCAGAATAAT
66 AAACGAGAGCAAATCCAGAATAAT
197852 TTGACTACGG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (89 bp):
AAGCTTACTAAGTATTTCTTCAGCGGATTAGGGAGTTGCAAGTTGATTATCCAAAGTTGTTAGCC
AAACGAGAGCAAATCCAGAATAAT
Found at i:200752 original size:13 final size:13
Alignment explanation
Indices: 200734--200759 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
200724 AATTATGAAT
200734 CAGAAAAAGAAAA
1 CAGAAAAAGAAAA
200747 CAGAAAAAGAAAA
1 CAGAAAAAGAAAA
200760 AGTAAAGTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (13 bp):
CAGAAAAAGAAAA
Found at i:201730 original size:13 final size:13
Alignment explanation
Indices: 201712--201741 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
201702 ATCACCTAAC
201712 ATCTTACTTGGGT
1 ATCTTACTTGGGT
201725 ATCTTACTTGGGT
1 ATCTTACTTGGGT
201738 ATCT
1 ATCT
201742 ATACATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.47
Consensus pattern (13 bp):
ATCTTACTTGGGT
Found at i:209046 original size:26 final size:24
Alignment explanation
Indices: 208988--209050 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
208978 TCACTACTTT
208988 TATTA-AAAAATAAAAAATTACAA
1 TATTATAAAAATAAAAAATTACAA
* *
209011 TATCACATAAAAATAAAAAAAGTTACAG
1 TAT--TATAAAAAT-AAAAAA-TTACAA
209039 TATTATAAAAAT
1 TATTATAAAAAT
209051 TTCCGAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 3 0.09
25 1 0.03
26 14 0.44
27 6 0.19
28 8 0.25
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.27
Consensus pattern (24 bp):
TATTATAAAAATAAAAAATTACAA
Found at i:211221 original size:40 final size:38
Alignment explanation
Indices: 211177--211280 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 38
211167 TACATTGAAA
*
211177 TAGAAACCATAGTTGATAGTCCATAGTCCATGGTCCACCT
1 TAGAAACC-TAG-TGATAGTCCATGGTCCATGGTCCACCT
211217 TAGAAACC----G-TAGTCCATGGTCCATGGTCCACCT
1 TAGAAACCTAGTGATAGTCCATGGTCCATGGTCCACCT
* *
211250 TAGAAACCGTAGTCCATGGTCCATGGTCCAT
1 TAGAAACC-TAGT-GATAGTCCATGGTCCAT
211281 AGTTGATATA
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
33 31 0.57
34 1 0.02
40 22 0.41
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (38 bp):
TAGAAACCTAGTGATAGTCCATGGTCCATGGTCCACCT
Found at i:211239 original size:33 final size:33
Alignment explanation
Indices: 211193--211279 Score: 165
Period size: 33 Copynumber: 2.6 Consensus size: 33
211183 CCATAGTTGA
*
211193 TAGTCCATAGTCCATGGTCCACCTTAGAAACCG
1 TAGTCCATGGTCCATGGTCCACCTTAGAAACCG
211226 TAGTCCATGGTCCATGGTCCACCTTAGAAACCG
1 TAGTCCATGGTCCATGGTCCACCTTAGAAACCG
211259 TAGTCCATGGTCCATGGTCCA
1 TAGTCCATGGTCCATGGTCCA
211280 TAGTTGATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (33 bp):
TAGTCCATGGTCCATGGTCCACCTTAGAAACCG
Found at i:216241 original size:17 final size:16
Alignment explanation
Indices: 216207--216241 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
216197 GAGACGAAAA
*
216207 TAAAATTTTAATTAAT
1 TAAAATTTTAAATAAT
216223 TAAAATTTTAAAATAAT
1 TAAAATTTT-AAATAAT
216240 TA
1 TA
216242 CAATGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAAATTTTAAATAAT
Found at i:217501 original size:19 final size:19
Alignment explanation
Indices: 217479--217518 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
217469 AATATAGCAG
* *
217479 AAAAATAACAAAATTAAAA
1 AAAAATAAAAAAACTAAAA
*
217498 AAAATTAAAAAAACTAAAA
1 AAAAATAAAAAAACTAAAA
217517 AA
1 AA
217519 CGAAATATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAATAAAAAAACTAAAA
Found at i:222423 original size:3 final size:3
Alignment explanation
Indices: 222415--222457 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
222405 TTTACGTGCA
*
222415 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
222458 GAGTTTGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:229483 original size:38 final size:38
Alignment explanation
Indices: 229432--229547 Score: 232
Period size: 38 Copynumber: 3.1 Consensus size: 38
229422 CTCACAATGC
229432 TACGTTACTCCAAGCTTGGGTGTGAGTTTGGATACAGA
1 TACGTTACTCCAAGCTTGGGTGTGAGTTTGGATACAGA
229470 TACGTTACTCCAAGCTTGGGTGTGAGTTTGGATACAGA
1 TACGTTACTCCAAGCTTGGGTGTGAGTTTGGATACAGA
229508 TACGTTACTCCAAGCTTGGGTGTGAGTTTGGATACAGA
1 TACGTTACTCCAAGCTTGGGTGTGAGTTTGGATACAGA
229546 TA
1 TA
229548 TGTGGCAGAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 78 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (38 bp):
TACGTTACTCCAAGCTTGGGTGTGAGTTTGGATACAGA
Found at i:238037 original size:23 final size:23
Alignment explanation
Indices: 238006--238055 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
237996 AAAATTTACT
*
238006 AAAATATTA-AAAATAAAATTATA
1 AAAAAATTACAAAA-AAAATTATA
* *
238029 AAAAAATTACGAAAAAAATTGTA
1 AAAAAATTACAAAAAAAATTATA
238052 AAAA
1 AAAA
238056 TTATGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (23 bp):
AAAAAATTACAAAAAAAATTATA
Found at i:238065 original size:11 final size:11
Alignment explanation
Indices: 238020--238074 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
238010 TATTAAAAAT
*
238020 AAAATTATAAA
1 AAAATTATGAA
*
238031 AAAATTACGAA
1 AAAATTATGAA
* *
238042 AAAAAT-TGTA
1 AAAATTATGAA
238052 AAAATTATG-A
1 AAAATTATGAA
*
238062 AAAATTATTAA
1 AAAATTATGAA
238073 AA
1 AA
238075 TGACAATACT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
10 16 0.46
11 19 0.54
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (11 bp):
AAAATTATGAA
Done.