Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003522.1 Hibiscus syriacus cultivar Beakdansim tig00007443_pilon, 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: 129609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2406 original size:11 final size:12
Alignment explanation
Indices: 2380--2446 Score: 81
Period size: 11 Copynumber: 5.9 Consensus size: 12
2370 ATATTTAATA
2380 TTAAT-ATATAT
1 TTAATAATATAT
*
2391 CTAATAATAT-T
1 TTAATAATATAT
2402 TTAATAAATATAT
1 TTAAT-AATATAT
2415 TTAA-AATATAT
1 TTAATAATATAT
2426 TTAATAATAT-T
1 TTAATAATATAT
2437 TTAA-AATATA
1 TTAATAATATA
2447 ATATAACACT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
10 5 0.10
11 25 0.51
12 14 0.29
13 5 0.10
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (12 bp):
TTAATAATATAT
Found at i:2452 original size:20 final size:21
Alignment explanation
Indices: 2403--2452 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
2393 AATAATATTT
2403 TAATA-AATATATTTAAAATA
1 TAATATAATATATTTAAAATA
*
2423 T-ATTTAATAATATTTTAAAATA
1 TAATATAAT-ATA-TTTAAAATA
2445 TAATATAA
1 TAATATAA
2453 CACTATTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 4 0.17
21 3 0.12
22 10 0.42
23 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATATAATATATTTAAAATA
Found at i:2752 original size:34 final size:35
Alignment explanation
Indices: 2693--2767 Score: 107
Period size: 34 Copynumber: 2.1 Consensus size: 35
2683 CAAACATCAT
* *
2693 AAAACGTTTTCGAGAAAAATGTAATTCATTTTACGG
1 AAAACGTTTTCCAG-AAAATGTAATTCATTTTACAG
*
2729 AAAACGTTTTCCAG-AAATGTAATTCATTTTCCAG
1 AAAACGTTTTCCAGAAAATGTAATTCATTTTACAG
2763 AAAAC
1 AAAAC
2768 CAATTACAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 23 0.64
36 13 0.36
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (35 bp):
AAAACGTTTTCCAGAAAATGTAATTCATTTTACAG
Found at i:6630 original size:29 final size:28
Alignment explanation
Indices: 6593--6648 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
6583 TGCTCGTTGA
* * *
6593 TTCATTTATATTACTGAATTTTTAGTTTT
1 TTCAATTATAGTA-TGAAATTTTAGTTTT
*
6622 TTCAATTATAGTATTAAATTTTAGTTT
1 TTCAATTATAGTATGAAATTTTAGTTT
6649 AACATTCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (28 bp):
TTCAATTATAGTATGAAATTTTAGTTTT
Found at i:8154 original size:14 final size:11
Alignment explanation
Indices: 8122--8147 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8112 AACCAAAATT
8122 TATAAATAAGA
1 TATAAATAAGA
8133 TATAAATAAGA
1 TATAAATAAGA
8144 TATA
1 TATA
8148 TTAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (11 bp):
TATAAATAAGA
Found at i:10453 original size:10 final size:11
Alignment explanation
Indices: 10434--10458 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10424 TAAAAAATTT
10434 AAAATAAAAAA
1 AAAATAAAAAA
10445 AAAATAAAAAA
1 AAAATAAAAAA
10456 AAA
1 AAA
10459 CAATAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:16299 original size:7 final size:7
Alignment explanation
Indices: 16284--16315 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
16274 ATAAATGTAA
16284 TGGGTAG
1 TGGGTAG
*
16291 TGGGCAG
1 TGGGTAG
16298 TGGGTAG
1 TGGGTAG
16305 TGGGTAG
1 TGGGTAG
16312 TGGG
1 TGGG
16316 CACCCGTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.12, C:0.03, G:0.59, T:0.25
Consensus pattern (7 bp):
TGGGTAG
Found at i:18296 original size:27 final size:26
Alignment explanation
Indices: 18256--18321 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
18246 CTAAATCATC
* * *
18256 CAACACTTGTGTTTCGTCGCCAAAGTT
1 CAACA-TTGAGTTTCCTCACCAAAGTT
*
18283 CAACATTTGAGTTTCCTCACCAAGGTT
1 CAACA-TTGAGTTTCCTCACCAAAGTT
18310 CAGACATTGAGT
1 CA-ACATTGAGT
18322 CTCGAACTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 30 0.91
28 3 0.09
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (26 bp):
CAACATTGAGTTTCCTCACCAAAGTT
Found at i:23589 original size:2 final size:2
Alignment explanation
Indices: 23584--23610 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23574 TATCAATAAA
23584 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
23611 CACGTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26252 original size:3 final size:3
Alignment explanation
Indices: 26244--26271 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
26234 ATAACAAACT
26244 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
26272 GTACAAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:26508 original size:16 final size:17
Alignment explanation
Indices: 26487--26518 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26477 TGAAACCATA
26487 ATATTAT-TTTTATATT
1 ATATTATATTTTATATT
26503 ATATTATATTTTATAT
1 ATATTATATTTTATAT
26519 AAATAAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:27017 original size:2 final size:2
Alignment explanation
Indices: 27010--27035 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27000 TCCACAGTTC
27010 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
27036 TCATTTGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:34230 original size:23 final size:22
Alignment explanation
Indices: 34204--34247 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
34194 TGTGTTAAAT
*
34204 AATTCAAATTATATTTTGATCAA
1 AATTCAAA-TATATTTCGATCAA
**
34227 AATTTTAATATATTTCGATCA
1 AATTCAAATATATTTCGATCA
34248 GTTTTGGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (22 bp):
AATTCAAATATATTTCGATCAA
Found at i:36012 original size:19 final size:20
Alignment explanation
Indices: 35925--36013 Score: 101
Period size: 19 Copynumber: 4.3 Consensus size: 20
35915 CGCGATTTTA
35925 AAAAATGTGTTGCGATAGT-
1 AAAAATGTGTTGCGATAGTG
* *
35944 TAAAATGTGTTGCGAGAGTTTG
1 AAAAATGTGTTGCGATAG--TG
35966 AAAAACGTGTTGTTGCGATAGTG
1 AAAAA--TG-TGTTGCGATAGTG
35989 AAAAA-GTGTTGCGATAGTG
1 AAAAATGTGTTGCGATAGTG
36008 AAAAAT
1 AAAAAT
36014 CCAAAATAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
19 34 0.58
20 1 0.02
21 1 0.02
22 4 0.07
23 7 0.12
24 2 0.03
25 10 0.17
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (20 bp):
AAAAATGTGTTGCGATAGTG
Found at i:37059 original size:20 final size:20
Alignment explanation
Indices: 37036--37079 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
37026 GGTTTGGTCA
* *
37036 ATATTATTCAAGTTTTAAAT
1 ATATTATTAAAATTTTAAAT
*
37056 ATATTCTTAAAATTTTAAAT
1 ATATTATTAAAATTTTAAAT
37076 ATAT
1 ATAT
37080 ATTTGAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTATTAAAATTTTAAAT
Found at i:37083 original size:13 final size:13
Alignment explanation
Indices: 37067--37109 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
37057 TATTCTTAAA
37067 ATTTTAAATATAT
1 ATTTTAAATATAT
* *
37080 ATTTGAAAGATAT
1 ATTTTAAATATAT
* *
37093 ATTTTATATTTAT
1 ATTTTAAATATAT
37106 ATTT
1 ATTT
37110 ATATTTATGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (13 bp):
ATTTTAAATATAT
Found at i:40094 original size:6 final size:6
Alignment explanation
Indices: 40083--40121 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
40073 CTTTTAGAGA
40083 TGGGTT TGGG-T TGGGTT TGGGTT TGGG-T TGGGTT TGGGT
1 TGGGTT TGGGTT TGGGTT TGGGTT TGGGTT TGGGTT TGGGT
40122 CGGGGTTCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.00, G:0.54, T:0.46
Consensus pattern (6 bp):
TGGGTT
Found at i:40099 original size:11 final size:12
Alignment explanation
Indices: 40083--40121 Score: 64
Period size: 11 Copynumber: 3.4 Consensus size: 12
40073 CTTTTAGAGA
40083 TGGGTTTGGG-T
1 TGGGTTTGGGTT
40094 TGGGTTTGGGTT
1 TGGGTTTGGGTT
40106 TGGG-TTGGGTT
1 TGGGTTTGGGTT
40117 TGGGT
1 TGGGT
40122 CGGGGTTCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.00, C:0.00, G:0.54, T:0.46
Consensus pattern (12 bp):
TGGGTTTGGGTT
Found at i:40105 original size:17 final size:17
Alignment explanation
Indices: 40083--40121 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
40073 CTTTTAGAGA
40083 TGGGTTTGGGTTGGGTT
1 TGGGTTTGGGTTGGGTT
40100 TGGGTTTGGGTTGGGTT
1 TGGGTTTGGGTTGGGTT
40117 TGGGT
1 TGGGT
40122 CGGGGTTCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.54, T:0.46
Consensus pattern (17 bp):
TGGGTTTGGGTTGGGTT
Found at i:40127 original size:17 final size:17
Alignment explanation
Indices: 40090--40128 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
40080 AGATGGGTTT
**
40090 GGGTTGGGTTTGGGTTT
1 GGGTTGGGTTTGGGTCG
40107 GGGTTGGGTTTGGGTCG
1 GGGTTGGGTTTGGGTCG
40124 GGGTT
1 GGGTT
40129 CGGCCAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.03, G:0.56, T:0.41
Consensus pattern (17 bp):
GGGTTGGGTTTGGGTCG
Found at i:40771 original size:291 final size:290
Alignment explanation
Indices: 40150--41016 Score: 1492
Period size: 291 Copynumber: 3.0 Consensus size: 290
40140 ATTCAACTCA
* * *
40150 AAAATTTTACA--TTTCACCCGACTCGACCAGACCCGAAGAATATATACTCTCCATCC-GACCTA
1 AAAATTTTACATCTTTCACCCGACTTGACCAGACCCAAAGAATATATACTCTCCA-CCTGACCCA
* *
40212 AACCCGACACGACTTTTTGAGATAAAATTCAAACCCTATCCGACCCATCCCGAAACAATAAAAAT
65 AACCCGACCCGACTTTTTGAGATAAAATTCAAACCCGATCCGACCCATCCCGAAACAATAAAAAT
* *
40277 ATTATTTTTATTTAATAAAAACAGTAATTTAATT-AAAAAATAATATATAGAGGGATATTATTGT
130 ATTATTTTTATTCAAT-AAAACAGTAATTTAATTAAAAAAATAATATATAGAGGG-TATTATTAT
* * *
40341 AATTATTCATAAATATATAAGGTAAAATTATATATTTTTTTGGGTCGGGCCGAGTTGTGTATTTT
193 AATTATTCCTAAATATATAAGGTAAAA-T-TATATTTTTTTGGGTCGGGTCGGGTTGTGTATTTT
40406 TCATCCTAAACCCGAATCCGACCCGACCTGACCCG
256 TCATCCTAAACCCGAATCCGACCCGACCTGACCCG
*
40441 AAAATTTTACATCCTTCACCCGACTTGACCAGACCCAAAGAATATATACTCTCCACCTGACCCAA
1 AAAATTTTACATCTTTCACCCGACTTGACCAGACCCAAAGAATATATACTCTCCACCTGACCCAA
*
40506 ACCCGACCCGACTTTTTGAGATAAAATTCAAACCCGATCCGACCCATCCAGAAACAATAAAAATA
66 ACCCGACCCGACTTTTTGAGATAAAATTCAAACCCGATCCGACCCATCCCGAAACAATAAAAATA
40571 TTATTTTTATTCAATAAAACAGTAATTTAATTGAAAAAAATAATATATAGAGGAGTATTATTATA
131 TTATTTTTATTCAATAAAACAGTAATTTAATT-AAAAAAATAATATATAGAGG-GTATTATTATA
40636 ATTATTCCTAAATATATAAGGTAAAATTATA-TTTTTTGGGTCGGGTCGGGTTGTGTATTTTTCA
194 ATTATTCCTAAATATATAAGGTAAAATTATATTTTTTTGGGTCGGGTCGGGTTGTGTATTTTTCA
40700 TCCTAAACCCGAATCCGACCCGACCTGACCCG
259 TCCTAAACCCGAATCCGACCCGACCTGACCCG
40732 AAAATTTTACATCTTTCACCCGACTTGACCAGACCCAAAGAATATATACTCTCCACCTGACCCAA
1 AAAATTTTACATCTTTCACCCGACTTGACCAGACCCAAAGAATATATACTCTCCACCTGACCCAA
40797 ACCCGACCCGACTTTTTGAGATAAAATTCAAACCCGATCCGACCCATCCCGAAACAATAAAAATA
66 ACCCGACCCGACTTTTTGAGATAAAATTCAAACCCGATCCGACCCATCCCGAAACAATAAAAATA
40862 TTATTTTTATTCAATAAAACAGTAATTTAATTTAAAAAAATAATATATAGAGGGGTATTATTATA
131 TTATTTTTATTCAATAAAACAGTAATTTAA-TTAAAAAAATAATATATAGA-GGGTATTATTATA
*
40927 ATTATTCCTAAATATATAAGGTAAAATTATATTTTTTTGGGTCGGGTCGGGTTGGGTATTTTTCA
194 ATTATTCCTAAATATATAAGGTAAAATTATATTTTTTTGGGTCGGGTCGGGTTGTGTATTTTTCA
*
40992 TCATAAACCCGAATCCGACCCGACC
259 TCCTAAACCCGAATCCGACCCGACC
41017 CGAATACCAC
Statistics
Matches: 551, Mismatches: 16, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
291 292 0.53
292 83 0.15
293 122 0.22
294 53 0.10
295 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (290 bp):
AAAATTTTACATCTTTCACCCGACTTGACCAGACCCAAAGAATATATACTCTCCACCTGACCCAA
ACCCGACCCGACTTTTTGAGATAAAATTCAAACCCGATCCGACCCATCCCGAAACAATAAAAATA
TTATTTTTATTCAATAAAACAGTAATTTAATTAAAAAAATAATATATAGAGGGTATTATTATAAT
TATTCCTAAATATATAAGGTAAAATTATATTTTTTTGGGTCGGGTCGGGTTGTGTATTTTTCATC
CTAAACCCGAATCCGACCCGACCTGACCCG
Found at i:43742 original size:43 final size:44
Alignment explanation
Indices: 43624--43783 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 44
43614 CGGGCAATTT
* *
43624 TTTTTACCTTTATAATTGATG-C-CGTTAATTTTTGTAATCTCA-
1 TTTTTACCTTTATAATTGAGGACTC-TTAATTTTTTTAATCTCAC
* * *
43666 TTTTCTACCTTTATAATTGA-AACCCTTACTTTTTTTAATCTCAC
1 TTTT-TACCTTTATAATTGAGGACTCTTAATTTTTTTAATCTCAC
*
43710 TTTTTACCTTTATAATTGAGGACTC-TAATTTTTTCAATC-CAAC
1 TTTTTACCTTTATAATTGAGGACTCTTAATTTTTTTAATCTC-AC
* * *
43753 CTTTTACTTTTATAATTTAGG-CTCTTAATTT
1 TTTTTACCTTTATAATTGAGGACTCTTAATTT
43784 AATCATTTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 13
0.81 0.08 0.10
Matches are distributed among these distances:
42 8 0.08
43 85 0.84
44 8 0.08
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.51
Consensus pattern (44 bp):
TTTTTACCTTTATAATTGAGGACTCTTAATTTTTTTAATCTCAC
Found at i:45977 original size:2 final size:2
Alignment explanation
Indices: 45966--46019 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
45956 TTACTCTATT
45966 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
46007 TT TA TA TT TA TA T
1 TA TA TA TA TA TA T
46020 TTAATAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:47286 original size:23 final size:24
Alignment explanation
Indices: 47252--47298 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
47242 TCAATAAGTA
*
47252 TTTTAAATAT-AATAATAAATATT
1 TTTTAAAAATAAATAATAAATATT
*
47275 TTTTAAAAATAAATTATAAATATT
1 TTTTAAAAATAAATAATAAATATT
47299 AGCATATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTTAAAAATAAATAATAAATATT
Found at i:47585 original size:11 final size:12
Alignment explanation
Indices: 47557--47589 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
47547 TATTTAAACG
47557 GGTATTGGGCCA
1 GGTATTGGGCCA
*
47569 GGTATTGGGTC-
1 GGTATTGGGCCA
47580 GGTATTGGGC
1 GGTATTGGGC
47590 TGGGAATCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.12, C:0.12, G:0.45, T:0.30
Consensus pattern (12 bp):
GGTATTGGGCCA
Found at i:47688 original size:39 final size:40
Alignment explanation
Indices: 47613--47705 Score: 95
Period size: 39 Copynumber: 2.4 Consensus size: 40
47603 GGGTATATAT
* * *
47613 ATATATTTAA-ATTAAATATATATTATTTTTATTTAAATTA
1 ATATTTTTAATATTAAATATATATTATATATATTTAAA-TA
*
47653 A-ATTTATTAATATTATATATATA-TATATATA-TTAAATA
1 ATATTT-TTAATATTAAATATATATTATATATATTTAAATA
47691 ATTATTTTTAATATT
1 A-TATTTTTAATATT
47706 TATCGGGTCG
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
38 3 0.07
39 16 0.36
40 15 0.33
41 11 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (40 bp):
ATATTTTTAATATTAAATATATATTATATATATTTAAATA
Found at i:51864 original size:12 final size:12
Alignment explanation
Indices: 51847--51871 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51837 ATATTTTCAG
51847 TAAAATATTATT
1 TAAAATATTATT
51859 TAAAATATTATT
1 TAAAATATTATT
51871 T
1 T
51872 TTTACTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:51958 original size:44 final size:45
Alignment explanation
Indices: 51910--52031 Score: 178
Period size: 46 Copynumber: 2.7 Consensus size: 45
51900 AAGCGTTACT
51910 TAAAATATTATTTTTTACTA-GAAATATTAA-TATTAGACGTTAAC
1 TAAAATATTATTTTTTACTACGAAA-ATTAAGTATTAGACGTTAAC
*
51954 TAAAATATTATTTTTTTCTACTGAAAATTAAGTATTAGACGTTAAC
1 TAAAATATTATTTTTTACTAC-GAAAATTAAGTATTAGACGTTAAC
*
52000 TAAAATGTTATTTTTT-CTACTGAAAATTAAGT
1 TAAAATATTATTTTTTACTAC-GAAAATTAAGT
52032 TATAAAATTA
Statistics
Matches: 73, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
44 19 0.26
45 21 0.29
46 33 0.45
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (45 bp):
TAAAATATTATTTTTTACTACGAAAATTAAGTATTAGACGTTAAC
Found at i:51993 original size:46 final size:46
Alignment explanation
Indices: 51910--52031 Score: 189
Period size: 45 Copynumber: 2.7 Consensus size: 46
51900 AAGCGTTACT
*
51910 TAAAATATTATTTTTTACTA--GAAATATTAA-TATTAGACGTTAAC
1 TAAAATATTATTTTTTTCTACTGAAA-ATTAAGTATTAGACGTTAAC
51954 TAAAATATTATTTTTTTCTACTGAAAATTAAGTATTAGACGTTAAC
1 TAAAATATTATTTTTTTCTACTGAAAATTAAGTATTAGACGTTAAC
*
52000 TAAAATGTTA-TTTTTTCTACTGAAAATTAAGT
1 TAAAATATTATTTTTTTCTACTGAAAATTAAGT
52032 TATAAAATTA
Statistics
Matches: 73, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
44 19 0.26
45 27 0.37
46 27 0.37
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (46 bp):
TAAAATATTATTTTTTTCTACTGAAAATTAAGTATTAGACGTTAAC
Found at i:56899 original size:13 final size:13
Alignment explanation
Indices: 56877--56990 Score: 91
Period size: 13 Copynumber: 9.2 Consensus size: 13
56867 ATATTTGATT
56877 TTAA-TTTTAATA
1 TTAATTTTTAATA
56889 TTAATTTTTAA-A
1 TTAATTTTTAATA
* * *
56901 ATAA-ATTAAATA
1 TTAATTTTTAATA
56913 TTAATTTTTAATA
1 TTAATTTTTAATA
*
56926 TT-ATATTATAGATA
1 TTAAT-TTTTA-ATA
56940 TTAA-TTTTAATA
1 TTAATTTTTAATA
56952 TTAATTTTTAA-A
1 TTAATTTTTAATA
* *
56964 -TAA-ATTAAATA
1 TTAATTTTTAATA
*
56975 TTCATTTTTAATA
1 TTAATTTTTAATA
56988 TTA
1 TTA
56991 TATTATAGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
10 4 0.05
11 8 0.10
12 24 0.31
13 36 0.46
14 5 0.06
15 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.54
Consensus pattern (13 bp):
TTAATTTTTAATA
Found at i:56940 original size:14 final size:12
Alignment explanation
Indices: 56877--57008 Score: 72
Period size: 13 Copynumber: 10.5 Consensus size: 12
56867 ATATTTGATT
*
56877 TTAATTTTAATA
1 TTAATTATAATA
* *
56889 TTAATTTTTAAAA
1 TTAA-TTATAATA
*
56902 TAAATTA-AATA
1 TTAATTATAATA
*
56913 TTAATTTTTAATA
1 TTAA-TTATAATA
56926 TTATATTATAGATA
1 TTA-ATTATA-ATA
*
56940 TTAATTTTAATA
1 TTAATTATAATA
*
56952 TTAATTTTTAA-A
1 TTAA-TTATAATA
*
56964 TAAATTA-AATA
1 TTAATTATAATA
* *
56975 TTCATTTTTAATA
1 TT-AATTATAATA
56988 TTATATTATAGATA
1 TTA-ATTATA-ATA
57002 TTTAATT
1 -TTAATT
57009 TTATATCATA
Statistics
Matches: 93, Mismatches: 15, Indels: 22
0.72 0.12 0.17
Matches are distributed among these distances:
10 2 0.02
11 10 0.11
12 23 0.25
13 42 0.45
14 13 0.14
15 3 0.03
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (12 bp):
TTAATTATAATA
Found at i:56947 original size:27 final size:25
Alignment explanation
Indices: 56885--56955 Score: 92
Period size: 24 Copynumber: 2.8 Consensus size: 25
56875 TTTTAATTTT
*
56885 AATATTAATTTTTAA-AATAAATTA
1 AATATTAATTTTTAATATTAAATTA
*
56909 AATATTAATTTTTAATATTATATTA
1 AATATTAATTTTTAATATTAAATTA
56934 TAGATATTAA-TTTTAATATTAA
1 -A-ATATTAATTTTTAATATTAA
56956 TTTTTAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
24 15 0.37
25 7 0.17
26 12 0.29
27 7 0.17
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (25 bp):
AATATTAATTTTTAATATTAAATTA
Found at i:56958 original size:39 final size:36
Alignment explanation
Indices: 56909--56990 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 36
56899 AAATAAATTA
*
56909 AATATTAATTTTTAATATTATATTATAGATATT-AATTTT
1 AATATTAATTTTTAA-A-TAAATTA-A-ATATTCAATTTT
*
56948 AATATTAATTTTTAAATAAATTAAATATTCATTTTT
1 AATATTAATTTTTAAATAAATTAAATATTCAATTTT
56984 AATATTA
1 AATATTA
56991 TATTATAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
35 5 0.12
36 13 0.32
37 6 0.15
38 1 0.03
39 15 0.38
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (36 bp):
AATATTAATTTTTAAATAAATTAAATATTCAATTTT
Found at i:56985 original size:62 final size:63
Alignment explanation
Indices: 56862--57011 Score: 252
Period size: 62 Copynumber: 2.4 Consensus size: 63
56852 ATTTTTTATT
*
56862 ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTAAAATAAATTAAATATTAATTTTTA
1 ATATTATATTATAGATATTAATTTTAATATTAATTTTTAAAATAAATTAAATATTAATTTTTA
*
56923 ATATTATATTATAGATATTAATTTTAATATTAATTTTT-AAATAAATTAAATATTCATTTTTA
1 ATATTATATTATAGATATTAATTTTAATATTAATTTTTAAAATAAATTAAATATTAATTTTTA
56985 ATATTATATTATAGATATTTAATTTTA
1 ATATTATATTATAGATA-TTAATTTTA
57012 TATCATATAA
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
61 10 0.12
62 41 0.49
63 33 0.39
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (63 bp):
ATATTATATTATAGATATTAATTTTAATATTAATTTTTAAAATAAATTAAATATTAATTTTTA
Found at i:57079 original size:20 final size:20
Alignment explanation
Indices: 57021--57080 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
57011 ATATCATATA
57021 AATTATTTTATATATTA--TT
1 AATTATTTTATAT-TTAGTTT
* *
57040 AA-AATTTTATATTTATTTT
1 AATTATTTTATATTTAGTTT
57059 AATTATTTTA-ATTTAAGTTT
1 AATTATTTTATATTT-AGTTT
57079 AA
1 AA
57081 ATATAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 9 0.26
19 10 0.29
20 12 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTATTTTATATTTAGTTT
Found at i:57298 original size:32 final size:30
Alignment explanation
Indices: 57262--57333 Score: 72
Period size: 32 Copynumber: 2.3 Consensus size: 30
57252 ACAATTAAAT
* *
57262 AAAAAATAATCATAAAATAATTTTATAAATTA
1 AAAAAATAATCAAAAAAT-ATTATAT-AATTA
**
57294 AAAAATATTTTCAAAAAATATTATATAATTA
1 AAAAA-ATAATCAAAAAATATTATATAATTA
*
57325 TAAAAATAA
1 AAAAAATAA
57334 ATTATGAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
30 2 0.06
31 9 0.28
32 11 0.34
33 10 0.31
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAAAATAATCAAAAAATATTATATAATTA
Found at i:61455 original size:76 final size:76
Alignment explanation
Indices: 61325--61469 Score: 272
Period size: 76 Copynumber: 1.9 Consensus size: 76
61315 ATCATAAAAA
61325 ATGTGAGAGTCTATATAGAGATTATGAAGGTCATATCCTTCTTTTAATCATGGAATTGTACATTT
1 ATGTGAGAGTCTATATAGAGATTATGAAGGTCATATCCTTCTTTTAATCATGGAATTGTACATTT
61390 ATAGTAATCTT
66 ATAGTAATCTT
* *
61401 ATGTGAGAGTTTATATAGAGATTATGAAGGTCATATCCTTCTTTTAATCGTGGAATTGTACATTT
1 ATGTGAGAGTCTATATAGAGATTATGAAGGTCATATCCTTCTTTTAATCATGGAATTGTACATTT
61466 ATAG
66 ATAG
61470 CAACTTTAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (76 bp):
ATGTGAGAGTCTATATAGAGATTATGAAGGTCATATCCTTCTTTTAATCATGGAATTGTACATTT
ATAGTAATCTT
Found at i:63279 original size:18 final size:18
Alignment explanation
Indices: 63256--63290 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
63246 AGGGATATAC
*
63256 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
63274 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
63291 AATATTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:64376 original size:23 final size:23
Alignment explanation
Indices: 64317--64396 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
64307 ACGCTAAACA
* * *
64317 AACATATAAACAAATATGTTCGCG
1 AACAT-TAAACGAACATGTTCACG
*
64341 AACATTTAAACGAACATGTTCATG
1 AACA-TTAAACGAACATGTTCACG
**
64365 AACATTAAACGAACACATTCACG
1 AACATTAAACGAACATGTTCACG
64388 AACATTAAA
1 AACATTAAA
64397 TAAACGAACA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 25 0.52
24 22 0.46
25 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (23 bp):
AACATTAAACGAACATGTTCACG
Found at i:64971 original size:24 final size:24
Alignment explanation
Indices: 64925--64971 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
64915 CATAATAAAC
* *
64925 AACAAAAATTAACAAAGATATATG
1 AACAAAAATTAACAAACAAATATG
*
64949 AACAAACATTAACAAACAAATAT
1 AACAAAAATTAACAAACAAATAT
64972 AAAATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.64, C:0.13, G:0.04, T:0.19
Consensus pattern (24 bp):
AACAAAAATTAACAAACAAATATG
Found at i:65198 original size:14 final size:14
Alignment explanation
Indices: 65181--65221 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
65171 AACATAAATG
*
65181 AACATAAACGAAGT
1 AACATAAACGAACT
**
65195 AACATAAATAAACT
1 AACATAAACGAACT
65209 AACATAAACGAAC
1 AACATAAACGAAC
65222 GGATTATTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.61, C:0.17, G:0.07, T:0.15
Consensus pattern (14 bp):
AACATAAACGAACT
Found at i:68776 original size:20 final size:20
Alignment explanation
Indices: 68700--68779 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
68690 GAACCCCATT
* *
68700 GGGGTATCGATTCCC-CCTG
1 GGGGAATCGATTCCCTCATG
*
68719 TGGGGAATCGATTCCCATTCAAAG
1 -GGGGAATCGATTCCC--TC-ATG
* *
68743 GGAGAATCGGTTCCCTCATG
1 GGGGAATCGATTCCCTCATG
*
68763 GGGGTATCGATTCCCTC
1 GGGGAATCGATTCCCTC
68780 TGCACCAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
20 30 0.64
21 2 0.04
23 14 0.30
24 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (20 bp):
GGGGAATCGATTCCCTCATG
Found at i:77124 original size:44 final size:43
Alignment explanation
Indices: 77061--77987 Score: 1328
Period size: 44 Copynumber: 21.2 Consensus size: 43
77051 TATCAATCTT
*
77061 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACTAATATA
1 CTTACCATTT-TTCCATAAGCTCGTAAGCTTATTTTAC-AATATA
* *
77106 CTTATCATTATTCCATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTA-CAATATA
* * *
77150 CTTACCATTATACTATAAGCTCGTAAGCTTATTTTAC-ATCATA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAAT-ATA
77193 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
* * * *
77236 CCTACCATTTTTTTCACAAGCTCATAAGCTTATTTTACCAATATA
1 CTTACCA-TTTTTCCATAAGCTCGTAAGCTTATTTTA-CAATATA
*
77281 ATTACCATTATTT-CATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATT-TTTCCATAAGCTCGTAAGCTTATTTTA-CAATATA
77325 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
* * *
77368 CCTACCATTTTTTCCATAAGCTCATAAGCTTATTTTACCATTATA
1 CTTACCA-TTTTTCCATAAGCTCGTAAGCTTATTTTA-CAATATA
*
77413 ATTACCATTATTT-CATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATT-TTTCCATAAGCTCGTAAGCTTATTTTA-CAATATA
77457 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
* *
77500 CCTACCATTTTTTCCATAAGCTCATAAGCTTATTTTACCAATATA
1 CTTACCA-TTTTTCCATAAGCTCGTAAGCTTATTTTA-CAATATA
*
77545 ATTACCATTATTT-CATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATT-TTTCCATAAGCTCGTAAGCTTATTTTA-CAATATA
* *
77589 CTTATCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATCTA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
*
77632 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATCTA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
77675 CTTACCATTATTT-CATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATT-TTTCCATAAGCTCGTAAGCTTATTTTA-CAATATA
* *
77719 CTTACCATTTTTCTATAAGCTCGTAAGCTTATTTTACAATCTA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
* * *
77762 CTTACCATTTTTCCATAAACTCGTAATCTTATTTTACAATCTA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
77805 CTTACCATTATTT-CATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCATT-TTTCCATAAGCTCGTAAGCTTATTTTA-CAATATA
* *
77849 CTTACCATTTTTCCATAAGCTCGTAAGATTATTTTACAATCTA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
* * *
77892 CTTACCATTTTTCTATAAACTCGTAAGCTTATTTTACAATCTA
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
77935 CTTACCATTATTT-CATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATT-TTTCCATAAGCTCGTAAGCTTATTTTA-CAATATA
77979 CTTACCATT
1 CTTACCATT
77988 ATATATATTC
Statistics
Matches: 807, Mismatches: 52, Indels: 47
0.89 0.06 0.05
Matches are distributed among these distances:
42 2 0.00
43 320 0.40
44 432 0.54
45 53 0.07
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (43 bp):
CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATA
Found at i:77728 original size:130 final size:131
Alignment explanation
Indices: 77061--77987 Score: 1470
Period size: 132 Copynumber: 7.1 Consensus size: 131
77051 TATCAATCTT
* * *
77061 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACTAATATACTTATCATTATTCCATAAGC
1 CTTACCATTT-TTCCATAAGCTCGTAAGCTTATTTTAC-AATATACTTACCATTTTTCCATAAGC
* *
77126 TCGTAAGCTTATTTTATCAATATACTTACCATTA-TACTATAAGCTCGTAAGCTTATTTTA-C-A
64 TCGTAAGCTTATTTTACCAATATACTTACCATTATTTC-ATAAGCTCGTAAGCTTATTTTACCAA
77188 TCATA
128 T-ATA
* * *
77193 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATACCTACCATTTTTTTCACAAGCT
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATACTTACCA-TTTTTCCATAAGCT
* *
77258 CATAAGCTTATTTTACCAATATAATTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATA
65 CGTAAGCTTATTTTACCAATATACTTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATA
77323 TA
130 TA
*
77325 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATACCTACCATTTTTTCCATAAGCT
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATACTTACCA-TTTTTCCATAAGCT
* * *
77390 CATAAGCTTATTTTACCATTATAATTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATA
65 CGTAAGCTTATTTTACCAATATACTTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATA
77455 TA
130 TA
*
77457 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATACCTACCATTTTTTCCATAAGCT
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATACTTACCA-TTTTTCCATAAGCT
* *
77522 CATAAGCTTATTTTACCAATATAATTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATA
65 CGTAAGCTTATTTTACCAATATACTTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATA
77587 TA
130 TA
* *
77589 CTTATCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATCTACTTACCATTTTTCCATAAGCTC
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATACTTACCATTTTTCCATAAGCTC
*
77654 GTAAGCTTATTTTA-CAATCTACTTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATAT
66 GTAAGCTTATTTTACCAATATACTTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATAT
77718 A
131 A
* * *
77719 CTTACCATTTTTCTATAAGCTCGTAAGCTTATTTTACAATCTACTTACCATTTTTCCATAAACTC
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATACTTACCATTTTTCCATAAGCTC
* * *
77784 GTAATCTTATTTTA-CAATCTACTTACCATTATTTCATAAGCTCGTAAGCTTATTTTATCAATAT
66 GTAAGCTTATTTTACCAATATACTTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATAT
77848 A
131 A
* * * *
77849 CTTACCATTTTTCCATAAGCTCGTAAGATTATTTTACAATCTACTTACCATTTTTCTATAAACTC
1 CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATACTTACCATTTTTCCATAAGCTC
*
77914 GTAAGCTTATTTTA-CAATCTACTTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATAT
66 GTAAGCTTATTTTACCAATATACTTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATAT
77978 A
131 A
77979 CTTACCATT
1 CTTACCATT
77988 ATATATATTC
Statistics
Matches: 761, Mismatches: 30, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
130 319 0.42
131 117 0.15
132 323 0.42
133 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (131 bp):
CTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTACAATATACTTACCATTTTTCCATAAGCTC
GTAAGCTTATTTTACCAATATACTTACCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATAT
A
Found at i:78337 original size:117 final size:116
Alignment explanation
Indices: 78161--79013 Score: 899
Period size: 117 Copynumber: 7.3 Consensus size: 116
78151 CATACCATTT
* * * *
78161 GTATGATTCTTTTACCATTTTTAGCACATATAATGC-CCTATATGGAAATCCATATA-TTCATTA
1 GTATGATT-TCTTATCA-TTTTAGCACATATAATGCTCC-ATATGGAAATCCATACACTT-AGTA
*
78224 TGATTTCCTTAACGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACACTTA
62 TGATTTCCTTAACATTTTAGCACA-TTAGTGCTCCATATGGAAATCCATACACTTA
* * *
78280 GTATGATTTCTTATCATTTTAGCACATATAATGC-CCTATTTGGAAATCCATATA-TTCAATATG
1 GTATGATTTCTTATCATTTTAGCACATATAATGCTCC-ATATGGAAATCCATACACTT-AGTATG
*
78343 ATTTCCTTAACATTTTAGCACACTTAGTGCTCCATATTGAAATCCATACACTTA
64 ATTTCCTTAACATTTTAGCACA-TTAGTGCTCCATATGGAAATCCATACACTTA
* * * *
78397 GTATGATTTCTTATCGTTTTAGCACATTTAGTGCTCCATATGGAAATACATACACTTAGTATGAT
1 GTATGATTTCTTATCATTTTAGCACATATAATGCTCCATATGGAAATCCATACACTTAGTATGAT
* * * * * *
78462 TCCCTTACCATTTTAGCACAAATAATGC-CCTATTTGGAAATCCATATA-TTCA
66 TTCCTTAACATTTTAGCAC-ATTAGTGCTCC-ATATGGAAATCCATACACTT-A
* * * *
78514 ATATGATTTCCTTAACATTTTAGCACACT-TAGTGCTCCATATTGAAATCCATACACTTAGTATG
1 GTATGATTT-CTTATCATTTTAGCACA-TATAATGCTCCATATGGAAATCCATACACTTAGTATG
* *
78578 ATTT-CTTATCATTTTAGCACATTCAGTGCTCCATATGGAAATACATACACTTA
64 ATTTCCTTAACATTTTAGCACATT-AGTGCTCCATATGGAAATCCATACACTTA
* * * * *
78631 GTATGATTCCCTTACCATTTTAGCACATATAATGC-CCTATTTGGAAATCCATATA-TTCAATAT
1 GTATGATT-TCTTATCATTTTAGCACATATAATGCTCC-ATATGGAAATCCATACACTT-AGTAT
** *
78694 GATTTCCTTAACATTTTAGCACACAAAGTGCTCCATATGGAAATTCATACACTTA
63 GATTTCCTTAACATTTTAGCACA-TTAGTGCTCCATATGGAAATCCATACACTTA
* * *
78749 GTATGATTTCTTATCGTTTTAGCACAT-TCAGTGCTCCATATGGAAATACATACACTTAGTATGA
1 GTATGATTTCTTATCATTTTAGCACATAT-AATGCTCCATATGGAAATCCATACACTTAGTATGA
* * * * *
78813 TTCCCTTACCATTTTAGCACATATAATGC-CCTATTTGGAAATCCATATA-TTCA
65 TTTCCTTAACATTTTAGCACAT-TAGTGCTCC-ATATGGAAATCCATACACTT-A
** * * * * *
78866 ACATGATTTCCTTAACATTTTAGCACACA-AAGTGCTCCATATGAAAATTCATACACTTAGTACG
1 GTATGATTT-CTTATCATTTTAGCACATATAA-TGCTCCATATGGAAATCCATACACTTAGTATG
* * *
78930 ATTT-CTTATCGTTTTAGCACATTCAGTGCTCCATATGGAAATACATACACTTA
64 ATTTCCTTAACATTTTAGCACATT-AGTGCTCCATATGGAAATCCATACACTTA
*
78983 GTATGATTTCCTTATCATTTTTGCACATATA
1 GTATGATTT-CTTATCATTTTAGCACATATA
79014 GTGCCATTTG
Statistics
Matches: 624, Mismatches: 81, Indels: 59
0.82 0.11 0.08
Matches are distributed among these distances:
116 17 0.03
117 424 0.68
118 174 0.28
119 9 0.01
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (116 bp):
GTATGATTTCTTATCATTTTAGCACATATAATGCTCCATATGGAAATCCATACACTTAGTATGAT
TTCCTTAACATTTTAGCACATTAGTGCTCCATATGGAAATCCATACACTTA
Found at i:78490 original size:176 final size:176
Alignment explanation
Indices: 78179--79018 Score: 1368
Period size: 176 Copynumber: 4.8 Consensus size: 176
78169 CTTTTACCAT
* * * * *
78179 TTTTAGCACA-TATAATGC-CCTATATGGAAATCCATATA-TTCATTATGATTTCCTTAACGTTT
1 TTTTAGCACACT-TAGTGCTCC-ATATTGAAATCCATACACTT-AGTATGATTT-CTTATCGTTT
* * *
78241 TAGCACACTT-AGTGCTCCATATGGAAATCCATACACTTAGTATGATT-TCTTATCATTTTAGCA
62 TAGCACA-TTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTCCCTTACCATTTTAGCA
78304 CATATAATGCCCTATTTGGAAATCCATATATTCAATATGATTTCCTTAACA
126 CATATAATGCCCTATTTGGAAATCCATATATTCAATATGATTTCCTTAACA
78355 TTTTAGCACACTTAGTGCTCCATATTGAAATCCATACACTTAGTATGATTTCTTATCGTTTTAGC
1 TTTTAGCACACTTAGTGCTCCATATTGAAATCCATACACTTAGTATGATTTCTTATCGTTTTAGC
* *
78420 ACATTTAGTGCTCCATATGGAAATACATACACTTAGTATGATTCCCTTACCATTTTAGCACAAAT
66 ACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTCCCTTACCATTTTAGCACATAT
78485 AATGCCCTATTTGGAAATCCATATATTCAATATGATTTCCTTAACA
131 AATGCCCTATTTGGAAATCCATATATTCAATATGATTTCCTTAACA
*
78531 TTTTAGCACACTTAGTGCTCCATATTGAAATCCATACACTTAGTATGATTTCTTATCATTTTAGC
1 TTTTAGCACACTTAGTGCTCCATATTGAAATCCATACACTTAGTATGATTTCTTATCGTTTTAGC
78596 ACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTCCCTTACCATTTTAGCACATAT
66 ACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTCCCTTACCATTTTAGCACATAT
78661 AATGCCCTATTTGGAAATCCATATATTCAATATGATTTCCTTAACA
131 AATGCCCTATTTGGAAATCCATATATTCAATATGATTTCCTTAACA
** * *
78707 TTTTAGCACACAAAGTGCTCCATATGGAAATTCATACACTTAGTATGATTTCTTATCGTTTTAGC
1 TTTTAGCACACTTAGTGCTCCATATTGAAATCCATACACTTAGTATGATTTCTTATCGTTTTAGC
78772 ACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTCCCTTACCATTTTAGCACATAT
66 ACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTCCCTTACCATTTTAGCACATAT
*
78837 AATGCCCTATTTGGAAATCCATATATTCAACATGATTTCCTTAACA
131 AATGCCCTATTTGGAAATCCATATATTCAATATGATTTCCTTAACA
** * *
78883 TTTTAGCACACAAAGTGCTCCATA-TGAAAATTCATACACTTAGTACGATTTCTTATCGTTTTAG
1 TTTTAGCACACTTAGTGCTCCATATTG-AAATCCATACACTTAGTATGATTTCTTATCGTTTTAG
* * *
78947 CACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTTCCTTATCATTTTTGCACATA
65 CACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTCCCTTACCATTTTAGCACATA
*
79012 TAGTGCC
130 TAATGCC
79019 ATTTGGTAAT
Statistics
Matches: 634, Mismatches: 24, Indels: 12
0.95 0.04 0.02
Matches are distributed among these distances:
174 2 0.00
175 53 0.08
176 574 0.91
177 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (176 bp):
TTTTAGCACACTTAGTGCTCCATATTGAAATCCATACACTTAGTATGATTTCTTATCGTTTTAGC
ACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTCCCTTACCATTTTAGCACATAT
AATGCCCTATTTGGAAATCCATATATTCAATATGATTTCCTTAACA
Found at i:79384 original size:19 final size:19
Alignment explanation
Indices: 79338--79430 Score: 143
Period size: 19 Copynumber: 4.8 Consensus size: 19
79328 TTTTGACCTT
*
79338 TATGCATCGATGCA-TTCTA
1 TATGCATCGATGCACTGC-A
79357 TAGTGCATCGATGCACTGCA
1 TA-TGCATCGATGCACTGCA
79377 TATGCATCGATGCACTGCA
1 TATGCATCGATGCACTGCA
*
79396 TATGCATCGATACACTGCA
1 TATGCATCGATGCACTGCA
79415 TATGCATCGATGCACT
1 TATGCATCGATGCACT
79431 TATTGTATTC
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 52 0.75
20 15 0.22
21 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (19 bp):
TATGCATCGATGCACTGCA
Found at i:80515 original size:21 final size:21
Alignment explanation
Indices: 80486--80541 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
80476 TGGACCGGTG
*
80486 CAAAATACTTCAGAGAATGTA
1 CAAAGTACTTCAGAGAATGTA
* *
80507 CAAAGTACTTCAGATAATTTA
1 CAAAGTACTTCAGAGAATGTA
*
80528 CAAAGTGCTTCAGA
1 CAAAGTACTTCAGA
80542 AAGTGTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (21 bp):
CAAAGTACTTCAGAGAATGTA
Found at i:83165 original size:2 final size:2
Alignment explanation
Indices: 83160--83190 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
83150 TAATTATAAG
83160 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83191 CTTTTTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84000 original size:4 final size:4
Alignment explanation
Indices: 83957--83991 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
83947 GGTCCCAGAT
83957 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
83992 CGAAAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:84665 original size:24 final size:24
Alignment explanation
Indices: 84638--84686 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
84628 TTTGAGGTTG
84638 ATGTGCCGCCTACACTGTTTGGGA
1 ATGTGCCGCCTACACTGTTTGGGA
84662 ATGTGCCGCCTACACTGTTTGGGA
1 ATGTGCCGCCTACACTGTTTGGGA
84686 A
1 A
84687 ATTCTGTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (24 bp):
ATGTGCCGCCTACACTGTTTGGGA
Found at i:85493 original size:131 final size:131
Alignment explanation
Indices: 85285--85594 Score: 478
Period size: 131 Copynumber: 2.4 Consensus size: 131
85275 TGATTGATCC
* * * *
85285 AAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTTGATATTATCATTCTCTCTCGAATTA
1 AAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTCTCGCTCGAATCA
* * *
85350 ATATCGATTTTTAAGATGAAATAGTGATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTT
66 ATATCGAATTTTAAGATGAAATAGTGATATCTCTTAACTTCGATTGGAGCAATAAATGACTGCTT
85415 T
131 T
* * *
85416 AAGGTATGAGAGGTCATTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCGCTCGAATCG
1 AAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTCTCGCTCGAATCA
* * * *
85481 ATATTGAATTTTAAGATGGAATAGTGATATCTCTTAACTTCGATTGGAGTAATAAATGATTGCTT
66 ATATCGAATTTTAAGATGAAATAGTGATATCTCTTAACTTCGATTGGAGCAATAAATGACTGCTT
85546 T
131 T
85547 AAGGTATGATG-GGTCATTTATTCTCGATTGGAAATAATTAGATATTAT
1 AAGGTATGA-GAGGTCATTTATTCTCGATTGGAAATAATTAGATATTAT
85595 TGTTTCCATT
Statistics
Matches: 163, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 162 0.99
132 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (131 bp):
AAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTCTCGCTCGAATCA
ATATCGAATTTTAAGATGAAATAGTGATATCTCTTAACTTCGATTGGAGCAATAAATGACTGCTT
T
Found at i:86649 original size:184 final size:183
Alignment explanation
Indices: 86340--86711 Score: 708
Period size: 184 Copynumber: 2.0 Consensus size: 183
86330 GAGGAGGAGG
86340 AGAAGTGGCGAAGGAGGAGTATGTGAAGAAGAAGAAAGTTTGCCCTAGTGTAGTTTCCTGTGCTG
1 AGAAGTGGCGAAGGAGGAGTATGTGAAGAAGAAGAAAGTTTGCCCTAGTGTAGTTTCCTGTGCTG
86405 ATATGTTGGCCACTGTTGCAGGTGACTGTTAAAAATGTAAAACTCCTAGGTTAAAGGTGTTAAAC
66 ATATGTTGGCCACTGTTGCAGGTGACTGTTAAAAATGTAAAACTCCTAGGTTAAAGGTGTTAAAC
*
86470 AACTTGAACTGGAAGGACTTTGGCCTGAAGGCTCTGGGGAGGTGAAGGCCGAGA
131 AACTTGAACTGGAAGGACTTTGGCCTGAAGGCT-TGGGAAGGTGAAGGCCGAGA
86524 AGAAGTGGCGAAGGAGGAGTATGTGAAGAAGAAGAAAGTTTGCCCTAGTGTAGTTTCCTGTGCTG
1 AGAAGTGGCGAAGGAGGAGTATGTGAAGAAGAAGAAAGTTTGCCCTAGTGTAGTTTCCTGTGCTG
*
86589 ATATGTTGGCCACTGTTGCTGGTGACTGTTAAAAATGTAAAACTCCTAGGTTAAAGGTGTTAAAC
66 ATATGTTGGCCACTGTTGCAGGTGACTGTTAAAAATGTAAAACTCCTAGGTTAAAGGTGTTAAAC
*
86654 AACTTGAACTGGAAGGACTTTGGCCTGAAGGCTTGGGAAGGTGAAGGCGGAGA
131 AACTTGAACTGGAAGGACTTTGGCCTGAAGGCTTGGGAAGGTGAAGGCCGAGA
86707 AGAAG
1 AGAAG
86712 AAAATTTAGC
Statistics
Matches: 185, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
183 23 0.12
184 162 0.88
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (183 bp):
AGAAGTGGCGAAGGAGGAGTATGTGAAGAAGAAGAAAGTTTGCCCTAGTGTAGTTTCCTGTGCTG
ATATGTTGGCCACTGTTGCAGGTGACTGTTAAAAATGTAAAACTCCTAGGTTAAAGGTGTTAAAC
AACTTGAACTGGAAGGACTTTGGCCTGAAGGCTTGGGAAGGTGAAGGCCGAGA
Found at i:87561 original size:2 final size:2
Alignment explanation
Indices: 87554--87583 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
87544 CTAATTAAAT
87554 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87584 ATTATTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88701 original size:18 final size:18
Alignment explanation
Indices: 88672--88708 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
88662 GTTCATGTAA
88672 AAATTAAATAATAATATTT
1 AAATTAAATAATAA-ATTT
88691 AAATT-AATAATAAATTT
1 AAATTAAATAATAAATTT
88708 A
1 A
88709 TATGTTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 8 0.44
19 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTAAATAATAAATTT
Found at i:93675 original size:15 final size:15
Alignment explanation
Indices: 93655--93696 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
93645 TTATTTGTTT
93655 TTAAATATTTTTATA
1 TTAAATATTTTTATA
* *
93670 TTAAATATATATATA
1 TTAAATATTTTTATA
93685 -TAATATATTTTT
1 TTAA-ATATTTTT
93697 CAAAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAAATATTTTTATA
Found at i:108393 original size:19 final size:21
Alignment explanation
Indices: 108357--108396 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
108347 TAAAAATAAT
108357 TAAAAATATTTGTTTAAAATA
1 TAAAAATATTTGTTTAAAATA
108378 TAAAAATA-TT-TTTAAAATA
1 TAAAAATATTTGTTTAAAATA
108397 ATTTTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 2 0.11
21 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TAAAAATATTTGTTTAAAATA
Found at i:108832 original size:2 final size:2
Alignment explanation
Indices: 108825--108852 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
108815 CATCATAATT
108825 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108853 CTGAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110772 original size:10 final size:10
Alignment explanation
Indices: 110757--110782 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
110747 TTGTTTTAAA
110757 TATTTTGTTT
1 TATTTTGTTT
110767 TATTTTGTTT
1 TATTTTGTTT
110777 TATTTT
1 TATTTT
110783 TTCAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.81
Consensus pattern (10 bp):
TATTTTGTTT
Found at i:119902 original size:40 final size:40
Alignment explanation
Indices: 119842--119922 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
119832 CGTCAAATAT
*
119842 AGTGATCGTATGATAGAAGAGATCAAAATTTTACAGGGAA
1 AGTGATCGTATGATAAAAGAGATCAAAATTTTACAGGGAA
* *
119882 AGTGATCGTATGATAAAAGAGATCAAAGTTTTACATGGAA
1 AGTGATCGTATGATAAAAGAGATCAAAATTTTACAGGGAA
119922 A
1 A
119923 ATCCTTGACG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.26
Consensus pattern (40 bp):
AGTGATCGTATGATAAAAGAGATCAAAATTTTACAGGGAA
Found at i:120621 original size:19 final size:19
Alignment explanation
Indices: 120581--120621 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
120571 AAGAGTTTTA
* *
120581 ATATACATCAAATTTTGGG
1 ATATACATCAAATTATGAG
*
120600 ATATATATCAAATTATGAG
1 ATATACATCAAATTATGAG
120619 ATA
1 ATA
120622 CAAGAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (19 bp):
ATATACATCAAATTATGAG
Found at i:126743 original size:21 final size:21
Alignment explanation
Indices: 126709--126756 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
126699 TAATTTTCAA
* *
126709 ACATTATTGCACCTAATTTTT
1 ACATTGTTGCACCTAATTTTG
*
126730 ACATTGTTGTACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
126751 ACATTG
1 ACATTG
126757 CATATTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Done.