Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006277.1 Hibiscus syriacus cultivar Beakdansim tig00014969_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: 106419
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:6072 original size:16 final size:17
Alignment explanation
Indices: 6051--6083 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6041 ACCATCAATA
*
6051 TTATTTTGAT-ATTTTT
1 TTATTTTAATAATTTTT
6067 TTATTTTAATAATTTTT
1 TTATTTTAATAATTTTT
6084 CATAACCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTATTTTAATAATTTTT
Found at i:9900 original size:16 final size:16
Alignment explanation
Indices: 9879--9921 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
9869 ATAATAAATA
9879 AATAATAATATTTTAT
1 AATAATAATATTTTAT
9895 AATAATAATATTTTAT
1 AATAATAATATTTTAT
9911 AATAATAATAT
1 AATAATAATAT
9922 ATAAGAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAATAATATTTTAT
Found at i:9924 original size:13 final size:13
Alignment explanation
Indices: 9867--9925 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
9857 GGGTATTTTG
*
9867 TAATAATAAATAAA
1 TAATAAT-AATATA
* *
9881 TAATAATATTTTA
1 TAATAATAATATA
9894 TAATAATAATATTTTA
1 TAATAATAATA---TA
9910 TAATAATAATATA
1 TAATAATAATATA
9923 TAA
1 TAA
9926 GAGTTGAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 17 0.46
14 7 0.19
16 13 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:10056 original size:15 final size:15
Alignment explanation
Indices: 10032--10104 Score: 76
Period size: 15 Copynumber: 4.9 Consensus size: 15
10022 CTGGTTTTTC
10032 GGAAAATGAATTACT
1 GGAAAATGAATTACT
**
10047 GGAATTTGAATTACT
1 GGAAAATGAATTACT
*
10062 GGAAAATGAACTACT
1 GGAAAATGAATTACT
* ** *
10077 AGAATTTAAATT-CT
1 GGAAAATGAATTACT
10091 GGAAAATGAATTAC
1 GGAAAATGAATTAC
10105 ATTTCTGAAA
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
14 10 0.23
15 33 0.77
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (15 bp):
GGAAAATGAATTACT
Found at i:10068 original size:30 final size:29
Alignment explanation
Indices: 10032--10104 Score: 110
Period size: 30 Copynumber: 2.5 Consensus size: 29
10022 CTGGTTTTTC
* *
10032 GGAAAATGAATTACTGGAATTTGAATTACT
1 GGAAAATGAATTACTAGAATTTAAATT-CT
*
10062 GGAAAATGAACTACTAGAATTTAAATTCT
1 GGAAAATGAATTACTAGAATTTAAATTCT
10091 GGAAAATGAATTAC
1 GGAAAATGAATTAC
10105 ATTTCTGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (29 bp):
GGAAAATGAATTACTAGAATTTAAATTCT
Found at i:10110 original size:20 final size:20
Alignment explanation
Indices: 10082--10156 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
10072 CTACTAGAAT
10082 TTAAA-TTCTGGAAAATGAA
1 TTAAATTTCTGGAAAATGAA
* *
10101 TTACATTTCTGAAAAATGAA
1 TTAAATTTCTGGAAAATGAA
*
10121 TTAAATTTCTGGAAAAAGAA
1 TTAAATTTCTGGAAAATGAA
10141 TTAAATTTCTGGAAAA
1 TTAAATTTCTGGAAAA
10157 CATCTGGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 4 0.08
20 46 0.92
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (20 bp):
TTAAATTTCTGGAAAATGAA
Found at i:10267 original size:26 final size:26
Alignment explanation
Indices: 10233--10327 Score: 101
Period size: 26 Copynumber: 3.8 Consensus size: 26
10223 TTTTTTAAAA
* *
10233 ATTATTTATTACAAATATTAAATAAT
1 ATTATTTATTATAAATATTAAATATT
* *
10259 ATTATTTATCATAAA-ACTTTAATATT
1 ATTATTTATTATAAATA-TTAAATATT
10285 ATTA-TT-TTA-AAATATTAAA-ATT
1 ATTATTTATTATAAATATTAAATATT
10307 ATTATTTATTATTAAATATTA
1 ATTATTTATTA-TAAATATTA
10328 TTTTTATAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
22 7 0.12
23 9 0.16
24 6 0.11
25 3 0.05
26 32 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTATTTATTATAAATATTAAATATT
Found at i:10295 original size:22 final size:22
Alignment explanation
Indices: 10255--10313 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
10245 AAATATTAAA
**
10255 TAATATTATTTATCATAAAACT-T
1 TAATATTA-TTATTTTAAAA-TAT
10278 TAATATTATTATTTTAAAATAT
1 TAATATTATTATTTTAAAATAT
*
10300 TAAAATTATTATTT
1 TAATATTATTATTT
10314 ATTATTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 23 0.72
23 8 0.25
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (22 bp):
TAATATTATTATTTTAAAATAT
Found at i:10333 original size:19 final size:19
Alignment explanation
Indices: 10297--10334 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
10287 TATTTTAAAA
10297 TATTAAAATTATTATTTAT
1 TATTAAAATTATTATTTAT
10316 TATTAAATATTATT-TTTAT
1 TATTAAA-ATTATTATTTAT
10335 AATTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTAAAATTATTATTTAT
Found at i:10340 original size:48 final size:49
Alignment explanation
Indices: 10245--10341 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 49
10235 TATTTATTAC
*
10245 AAATATTAAATAATATTATTTATCATAAAACTTTAATATTATTATTTTA
1 AAATATTAAATAATATTATTTATCATAAAACTTTAATATTATAATTTTA
* * * * *
10294 AAATATTAAA-ATTATTATTTATTATTAAA-TATTATTTTTATAATTTTA
1 AAATATTAAATAATATTATTTATCATAAAACT-TTAATATTATAATTTTA
10342 TTAATAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
47 1 0.02
48 30 0.73
49 10 0.24
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (49 bp):
AAATATTAAATAATATTATTTATCATAAAACTTTAATATTATAATTTTA
Found at i:10516 original size:28 final size:27
Alignment explanation
Indices: 10476--10578 Score: 95
Period size: 28 Copynumber: 3.6 Consensus size: 27
10466 CTTTACTAAA
10476 ATATTATTTAAATATATAAATATTATTAT
1 ATATTA-TTAAATATA-AAATATTATTAT
*
10505 -TCATTATTAAATATAAAAAATTTATTAT
1 AT-ATTATTAAATATAAAATA-TTATTAT
10533 ATATTATTAAA-ATAAAAATATAATATCT-T
1 ATATTATTAAATAT-AAAATAT--TAT-TAT
10562 ATATTATTATAATATAA
1 ATATTATTA-AATATAA
10579 TTGATTATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
27 7 0.11
28 31 0.49
29 18 0.29
30 5 0.08
31 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
ATATTATTAAATATAAAATATTATTAT
Found at i:10564 original size:29 final size:27
Alignment explanation
Indices: 10476--10575 Score: 87
Period size: 29 Copynumber: 3.5 Consensus size: 27
10466 CTTTACTAAA
* *
10476 ATATTATTTAAATATATAAATATTATTAT
1 ATATTATTAAAATA-AAAAATA-TATTAT
*
10505 -TCATTATTAAATATAAAAAATTTATTAT
1 AT-ATTATTAAA-ATAAAAAATATATTAT
10533 ATATTATTAAAATAAAAATATAATATCT-T
1 ATATTATTAAAATAAAAA-AT-ATAT-TAT
*
10562 ATATTATTATAATA
1 ATATTATTAAAATA
10576 TAATTGATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
27 7 0.12
28 18 0.30
29 31 0.52
30 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
ATATTATTAAAATAAAAAATATATTAT
Found at i:10585 original size:18 final size:17
Alignment explanation
Indices: 10563--10628 Score: 59
Period size: 18 Copynumber: 4.0 Consensus size: 17
10553 TAATATCTTA
10563 TATTATTATAATATAAT
1 TATTATTATAATATAAT
*
10580 TGATTATT-TTATATAA-
1 T-ATTATTATAATATAAT
* *
10596 TATTA--AAAATATATT
1 TATTATTATAATATAAT
10611 TATTATTATAAATATAAT
1 TATTATTAT-AATATAAT
10629 AAATATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
14 5 0.14
15 9 0.24
16 1 0.03
17 9 0.24
18 13 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TATTATTATAATATAAT
Found at i:10627 original size:54 final size:54
Alignment explanation
Indices: 10476--10631 Score: 133
Period size: 54 Copynumber: 2.8 Consensus size: 54
10466 CTTTACTAAA
* *
10476 ATATTATTTAAATATATAAATAT-TATTATTCATTATTAAATATAA-AAAATTTATTAT
1 ATATTA-TTAAA-ATAAAAATATAT-TTATT-ATTA-TAAATATAATAAAATTGATTAT
* * * * *
10533 ATATTATTAAAATAAAAATATAATATCTTA-TATTATTATAATATAATTGATTAT
1 ATATTATTAAAATAAAAATAT-ATTTATTATTATAAATATAATAAAATTGATTAT
*
10587 -T-TTATATAATATTAAAAATATATTTATTATTATAAATATAATAAA
1 ATATTAT-TAA-AATAAAAATATATTTATTATTATAAATATAATAAA
10632 TATTTTTAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
52 4 0.05
53 17 0.21
54 34 0.43
55 10 0.12
56 8 0.10
57 7 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (54 bp):
ATATTATTAAAATAAAAATATATTTATTATTATAAATATAATAAAATTGATTAT
Found at i:10629 original size:23 final size:23
Alignment explanation
Indices: 10548--10629 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 23
10538 ATTAAAATAA
*
10548 AAATATAATATCTTATATTATTAT
1 AAATATAATATATT-TATTATTAT
10572 -AATATAAT-TGA-TTATT-TTAT
1 AAATATAATAT-ATTTATTATTAT
10592 ATAATATTAAAAATATATTTATTATTAT
1 A-AATA-T---AATATATTTATTATTAT
10620 AAATATAATA
1 AAATATAATA
10630 AATATTTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 21
0.68 0.01 0.30
Matches are distributed among these distances:
20 4 0.09
21 4 0.09
22 6 0.13
23 13 0.28
26 5 0.11
27 10 0.21
28 5 0.11
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (23 bp):
AAATATAATATATTTATTATTAT
Found at i:11127 original size:23 final size:23
Alignment explanation
Indices: 11101--11145 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
11091 TCAGAAACGT
*
11101 TGATCCAACTCTTTATGTGATGC
1 TGATCCAACTCCTTATGTGATGC
11124 TGATCCAACTCCTTATGTGATG
1 TGATCCAACTCCTTATGTGATG
11146 GATGAGCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (23 bp):
TGATCCAACTCCTTATGTGATGC
Found at i:11662 original size:239 final size:234
Alignment explanation
Indices: 11293--11729 Score: 662
Period size: 239 Copynumber: 1.8 Consensus size: 234
11283 CTCCAACTCA
* * *
11293 TTCTGTGATGGAATAGAACAAAGTGATGATGTTGATCCAACTCCATATGCAATGGATGAGCCAAG
1 TTCTGTGATGGAATAGAACAAAGTGATGATGCTGATCCAACTCCATATGCAATGGATGAACAAAG
* *
11358 GATGAACAAGTTCTTCTCATTATAAACTTCTTCATTGGAAATGTTGATCCACCTCCTTCTATGAT
66 GATGAACAAGTTCTTCTCATTATAAACTTCTTCATTGGAAATATTGATCCACCTCATTCTATGAT
* *
11423 GGAGCTGAA-CAAAGGTTGAACAAGTTATTCTCATCATGAACTTATTCTCCCCCATCGGATGAGT
131 GGA-CTCAAGCAAAGGTTGAACAAGTTA-T-TC-T-ATGAACTTATTCTCCCCCATCGAATGAGT
11487 TCTTCTCATTATGAGCTCTCCCCTGGTAATGTTGATCCACTTCC
191 TCTTCTCATTATGAGCTCTCCCCTGGTAATGTTGATCCACTTCC
* * *
11531 TTCTGTGATGGAATAGAA-TAGGTGATGATGCTGATCCAACTCCATATGCGATGGATGAACAAAG
1 TTCTGTGATGGAATAGAACAAAGTGATGATGCTGATCCAACTCCATATGCAATGGATGAACAAAG
* *
11595 TGTTTGAACAAGTTCTTCTCATTATGAACTTCTTCATTGGAAATATTGATCCACCTCATTCTATG
66 -G-ATGAACAAGTTCTTCTCATTATAAACTTCTTCATTGGAAATATTGATCCACCTCATTCTATG
* * *
11660 ATGGATTCAAGCAAAGGTTGAACAAGTTATTCTATGAACTTATTCTCCCTCATCGAATGAGTTTT
129 ATGGACTCAAGCAAAGGTTGAACAAGTTATTCTATGAACTTATTCTCCCCCATCGAATGAGTTCT
11725 TCTCA
194 TCTCA
11730 CTTTAAACCC
Statistics
Matches: 181, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
235 34 0.19
236 1 0.01
237 42 0.23
238 23 0.13
239 81 0.45
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (234 bp):
TTCTGTGATGGAATAGAACAAAGTGATGATGCTGATCCAACTCCATATGCAATGGATGAACAAAG
GATGAACAAGTTCTTCTCATTATAAACTTCTTCATTGGAAATATTGATCCACCTCATTCTATGAT
GGACTCAAGCAAAGGTTGAACAAGTTATTCTATGAACTTATTCTCCCCCATCGAATGAGTTCTTC
TCATTATGAGCTCTCCCCTGGTAATGTTGATCCACTTCC
Found at i:12523 original size:18 final size:18
Alignment explanation
Indices: 12497--12534 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12487 TTGGGAATAG
12497 TTGCAAGAGCAGTCTTCA
1 TTGCAAGAGCAGTCTTCA
* *
12515 TTGCTAGAGGAGTCTTCA
1 TTGCAAGAGCAGTCTTCA
12533 TT
1 TT
12535 CTCTTCCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (18 bp):
TTGCAAGAGCAGTCTTCA
Found at i:13269 original size:54 final size:55
Alignment explanation
Indices: 13165--13397 Score: 267
Period size: 55 Copynumber: 4.3 Consensus size: 55
13155 ATTTAAGGTT
* * * *
13165 ATCATCAAGAAACACCTAAAAAATTAGGCTTAGCTTC-TTGAAAAATTCATTTGAAA
1 ATCATCAAGAAACTCCT-AAAAATCAGGCTTAGCTTCTTTG-AAAACTCATTTAAAA
* * * *
13221 A-CATCAAGAAACCCCTGAAAACCAGGCTTAGCTTCTTTGAAAACTCATTTATAA
1 ATCATCAAGAAACTCCTAAAAATCAGGCTTAGCTTCTTTGAAAACTCATTTAAAA
* * *
13275 ATCATCAAGAAACTTCTAAAAATCATGCTTAGTTTCTTTGAAAACTCATTTAAAA
1 ATCATCAAGAAACTCCTAAAAATCAGGCTTAGCTTCTTTGAAAACTCATTTAAAA
* * * * *
13330 ATCATCAAGAAACTTCTGAAAATC-GGTCTTAGCTT-ATTCAAAATTCATTTAAAA
1 ATCATCAAGAAACTCCTAAAAATCAGG-CTTAGCTTCTTTGAAAACTCATTTAAAA
13384 ATCATCAAGAAACT
1 ATCATCAAGAAACT
13398 TTCAAAAATC
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
54 60 0.39
55 93 0.60
56 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (55 bp):
ATCATCAAGAAACTCCTAAAAATCAGGCTTAGCTTCTTTGAAAACTCATTTAAAA
Found at i:13394 original size:109 final size:111
Alignment explanation
Indices: 13165--13420 Score: 301
Period size: 109 Copynumber: 2.3 Consensus size: 111
13155 ATTTAAGGTT
** * * * * *
13165 ATCATCAAGAAACACCTAAAAAATTAGGCTTAGCTTC-TTGAAAAATTCATTTGAAAACATCAAG
1 ATCATCAAGAAACTTCTAAAAAATCATGCTTAGTTTCTTTGAAAAACTCATTTAAAAACATCAAG
* * *
13229 AAACCCCTGAAAACCAGGCTTAGCTTCTTTGAAAACTCATTTATAA
66 AAACCCCTGAAAACCAGGCTTAGCTTCATTCAAAACTCATTTAAAA
13275 ATCATCAAGAAACTTCT-AAAAATCATGCTTAGTTTCTTTG-AAAACTCATTTAAAAATCATCAA
1 ATCATCAAGAAACTTCTAAAAAATCATGCTTAGTTTCTTTGAAAAACTCATTTAAAAA-CATCAA
** * *
13338 GAAACTTCTGAAAATC-GGTCTTAGCTT-ATTCAAAATTCATTTAAAA
65 GAAACCCCTGAAAACCAGG-CTTAGCTTCATTCAAAACTCATTTAAAA
*
13384 ATCATCAAGAAACTT-TCAAAAATC-TGTCTTAGTTTCT
1 ATCATCAAGAAACTTCTAAAAAATCATG-CTTAGTTTCT
13421 AATAAAAATT
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
108 3 0.02
109 79 0.62
110 45 0.35
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (111 bp):
ATCATCAAGAAACTTCTAAAAAATCATGCTTAGTTTCTTTGAAAAACTCATTTAAAAACATCAAG
AAACCCCTGAAAACCAGGCTTAGCTTCATTCAAAACTCATTTAAAA
Found at i:19665 original size:15 final size:15
Alignment explanation
Indices: 19640--19675 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
19630 AATTAAAAGG
19640 ACTAGATTGAAATCTA
1 ACTA-ATTGAAATCTA
19656 ACTAATTGAAATCTA
1 ACTAATTGAAATCTA
19671 ACTAA
1 ACTAA
19676 AAGTGGAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (15 bp):
ACTAATTGAAATCTA
Found at i:21145 original size:2 final size:2
Alignment explanation
Indices: 21138--21169 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21128 TAATATAAGC
21138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21170 GCAAACGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32858 original size:2 final size:2
Alignment explanation
Indices: 32851--32880 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32841 AACACTTGAA
32851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32881 TATTGATCAT
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):
AT
Found at i:36464 original size:22 final size:22
Alignment explanation
Indices: 36436--36492 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
36426 ACCATTTTAT
*
36436 TTTATTTTTATTTTAGTCACTG
1 TTTATTTTTATTTTAGCCACTG
*
36458 TTTATTTTT-TATTTAGCCATTG
1 TTTATTTTTAT-TTTAGCCACTG
36480 -TTA-TTTTATTTTA
1 TTTATTTTTATTTTA
36493 TGCATTTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 8 0.26
21 5 0.16
22 18 0.58
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTATTTTTATTTTAGCCACTG
Found at i:36530 original size:50 final size:48
Alignment explanation
Indices: 36423--36540 Score: 127
Period size: 50 Copynumber: 2.5 Consensus size: 48
36413 TATTACACTT
** *
36423 TTTA-CCATT-TTATTTTATTTTTATTTTAGTCACTGTTTATTTTTTA
1 TTTAGCCATTGTTATTTTATTTTTATTTTAGTCACTGCCTATTTTTGA
*
36469 TTTAGCCATTGTTATTTTATTTTATGCATTTTGGTCACTGCCT-TTTTTGA
1 TTTAGCCATTGTTATTTTATTTT-T--ATTTTAGTCACTGCCTATTTTTGA
* *
36519 TTTAGCTATTG-TGTTTTATTTT
1 TTTAGCCATTGTTATTTTATTTT
36541 GTTACATTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
46 4 0.07
47 5 0.08
48 12 0.20
49 11 0.18
50 16 0.26
51 13 0.21
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.63
Consensus pattern (48 bp):
TTTAGCCATTGTTATTTTATTTTTATTTTAGTCACTGCCTATTTTTGA
Found at i:37858 original size:64 final size:63
Alignment explanation
Indices: 37788--37967 Score: 191
Period size: 64 Copynumber: 2.8 Consensus size: 63
37778 TGGAGCACTT
* * *
37788 AGTGCATCGGTGCACTAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAT-AAGCCTA
1 AGTGCATCGATGCA-T-AGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTA
* * * * *
37852 AGTGCATTGATGCATGGTGTGGGCATCGATGCATAAAATGTATTCGATGTTTTCATTAAAACCTG
1 AGTGCATCGATGCATAGTGT--GCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTA
* * * *
37917 AGTGCATCGATGTATGGAGAGTGCAACGATGCATAAACTGCATTCGATGTT
1 AGTGCATCGATGCAT--AGTGTGCATCGATGCATAAAATGCATTCGATGTT
37968 CAATTTATTC
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
62 4 0.04
63 1 0.01
64 44 0.46
65 44 0.46
67 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (63 bp):
AGTGCATCGATGCATAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTA
Found at i:37962 original size:65 final size:64
Alignment explanation
Indices: 37808--37967 Score: 203
Period size: 65 Copynumber: 2.5 Consensus size: 64
37798 TGCACTAAGT
* * * * *
37808 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAGCCTAAGTGCATTGATGCATGGTGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCGATGCATGGAGA
* * * * *
37872 GGGCATCGATGCATAAAATGTATTCGATGTTTTCATTAAAACCTGAGTGCATCGATGTATGGAGA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAT-AAACCTAAGTGCATCGATGCATGGAGA
* *
37937 GTGCAACGATGCATAAACTGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
37968 CAATTTATTC
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
64 33 0.41
65 48 0.59
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCGATGCATGGAGA
Found at i:51660 original size:12 final size:12
Alignment explanation
Indices: 51614--51666 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
51604 GGTTGTAAAA
51614 TGGGTTTAGGTAT
1 TGGGTTTAGGT-T
*
51627 TGGTTTTAGG-T
1 TGGGTTTAGGTT
51638 TGGG-TTA-GTT
1 TGGGTTTAGGTT
51648 TGGGTTTAGGTT
1 TGGGTTTAGGTT
*
51660 TAGGTTT
1 TGGGTTT
51667 TATTTTGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 1 0.03
10 8 0.24
11 7 0.21
12 9 0.26
13 9 0.26
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (12 bp):
TGGGTTTAGGTT
Found at i:52703 original size:16 final size:16
Alignment explanation
Indices: 52663--52705 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
52653 GTACTTTTAT
*
52663 TTATTAATTAAATAAA
1 TTATTAATTAAACAAA
** *
52679 TTAAAAATTAAACGAA
1 TTATTAATTAAACAAA
52695 TTATTAATTAA
1 TTATTAATTAA
52706 TCTTATTTTA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
TTATTAATTAAACAAA
Found at i:55003 original size:3 final size:3
Alignment explanation
Indices: 54979--55034 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
54969 TCTACAAAAA
54979 TAT T-T TAT TA- TAT TA- TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
55022 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
55035 TTTGTAGGCC
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.12
3 41 0.84
4 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:55125 original size:33 final size:33
Alignment explanation
Indices: 55088--55169 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 33
55078 GAAAATAAAT
* *
55088 CAACGTATTTGAGTCTTATTGAAACACTAAAAC
1 CAACGTATTTGAGTCCTATTAAAACACTAAAAC
55121 CAACGTATTTGAGTCCTATTAAAACACTAAAAC
1 CAACGTATTTGAGTCCTATTAAAACACTAAAAC
*
55154 CGAA-GCATTTGAGTCC
1 C-AACGTATTTGAGTCC
55170 AAGTAGGACT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 43 0.96
34 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (33 bp):
CAACGTATTTGAGTCCTATTAAAACACTAAAAC
Found at i:55653 original size:7 final size:7
Alignment explanation
Indices: 55641--55680 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
55631 ATGATAATAC
55641 ATTATTT
1 ATTATTT
55648 ATTA-TT
1 ATTATTT
55654 ATT-TTT
1 ATTATTT
55660 ATTTATTT
1 A-TTATTT
55668 ATTATTT
1 ATTATTT
55675 ATTATT
1 ATTATT
55681 CATTTTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 8 0.27
7 18 0.60
8 4 0.13
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTATTT
Found at i:59832 original size:110 final size:110
Alignment explanation
Indices: 59677--59932 Score: 358
Period size: 110 Copynumber: 2.4 Consensus size: 110
59667 GCTTCCCAAT
* *
59677 TTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACCCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA
* *
59742 CGACGAAGGGGCGGCTGATTGTCAACAAACAACTTTTCAATTTCA
66 AGACGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAATTTCA
* *
59787 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA
* * * *
59852 AGACGAAGGGGCGACTGATTGTCAACAAATAA-TTTCCCAGTTC-
66 AGACGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAATTTCA
* ** *
59895 --CAGAGCCAATTTCAAATTCACGGCGGAGGATATTGGAC
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
59933 TCGGAGCAAT
Statistics
Matches: 131, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
106 33 0.25
109 8 0.06
110 90 0.69
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA
AGACGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAATTTCA
Found at i:60349 original size:254 final size:252
Alignment explanation
Indices: 59901--60362 Score: 629
Period size: 254 Copynumber: 1.8 Consensus size: 252
59891 GTTCCAGAGC
* * * * *
59901 CAATTTCAAATTCACGGCGGAGGATATTGGACTCGGAGCAATACAACTTACTTGGATTTCAACTT
1 CAATTTCAAATTCACAGCGAAGGATATTAGACTCGAAACAATACAACTTACTTGGATTTCAACTT
* * * ** * * *
59966 CATGACGAAGGATATCCTATTCCAGGCTCAACTTCACGACGAAGGGGCCACCCGCGGTTTCAACT
66 CACGACGAAGGATATCCAACTCCAGGCTCAACTTCACGACGAAGGAACCACACACGATTTCAACT
* * * *
60031 TCATGACGAAGGGAATCATGCACACAAGCAGCATCCATCTCTAGATTGGATTTCAACTTCACGAC
131 TCACGACGAAGGGAATCATGCACACAAGCAACATCCACCTCTAGATTGGATTTCAACGTCACGAC
60096 GAAGGATATCCAACTCAAATAAGGAGTATATGTCAATAAACTTTCCATTTTCAAAGT
196 GAAGGATATCCAACTCAAATAAGGAGTATATGTCAATAAACTTTCCATTTTCAAAGT
* *
60153 CAATTTCAACTTCACAGCGAAGGATATTAGCCTCGAAAC-ATCACAACTTACATTGGATTTCAAC
1 CAATTTCAAATTCACAGCGAAGGATATTAGACTCGAAACAAT-ACAACTTAC-TTGGATTTCAAC
* * * * * *
60217 TTCACGACGAATGATATCCAACTCCAAGGTTTAACTTCACGACGAAGGAACCATATATGATTTCA
64 TTCACGACGAAGGATATCCAACTCC-AGGCTCAACTTCACGACGAAGGAACCACACACGATTTCA
* * * *
60282 ACTTCACGACGAAGGGAATCATGCTCACCAGCAACATTCACCTTTAGATTGGATTTCAACGTCAC
128 ACTTCACGACGAAGGGAATCATGCACACAAGCAACATCCACCTCTAGATTGGATTTCAACGTCAC
60347 GACGAAGGATATCCAA
193 GACGAAGGATATCCAA
60363 TTCCAGGCTC
Statistics
Matches: 178, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
251 2 0.01
252 41 0.23
253 33 0.19
254 102 0.57
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (252 bp):
CAATTTCAAATTCACAGCGAAGGATATTAGACTCGAAACAATACAACTTACTTGGATTTCAACTT
CACGACGAAGGATATCCAACTCCAGGCTCAACTTCACGACGAAGGAACCACACACGATTTCAACT
TCACGACGAAGGGAATCATGCACACAAGCAACATCCACCTCTAGATTGGATTTCAACGTCACGAC
GAAGGATATCCAACTCAAATAAGGAGTATATGTCAATAAACTTTCCATTTTCAAAGT
Found at i:60931 original size:5 final size:5
Alignment explanation
Indices: 60921--60964 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
60911 AAAAACATTT
*
60921 TATTA TATTA TATTA TATTA TTATTA TTATTA TTATTT TATTA T
1 TATTA TATTA TATTA TATTA -TATTA -TATTA -TATTA TATTA T
60965 TTTTGTAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 20 0.56
6 16 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
TATTA
Found at i:60942 original size:3 final size:3
Alignment explanation
Indices: 60920--60965 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
60910 CAAAAACATT
60920 TTA TTA -TA TTA -TA TTA -TA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60964 TT
1 TT
60966 TTTGTAGGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 8 0.21
3 31 0.79
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:60965 original size:8 final size:8
Alignment explanation
Indices: 60917--60967 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
60907 CTACAAAAAC
60917 ATTTTATT
1 ATTTTATT
*
60925 ATATTA-T
1 ATTTTATT
*
60932 ATTATATT
1 ATTTTATT
60940 A--TTATT
1 ATTTTATT
60946 ATTATTATT
1 ATT-TTATT
60955 ATTTTATT
1 ATTTTATT
60963 ATTTT
1 ATTTT
60968 TGTAGGCCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
6 5 0.14
7 5 0.14
8 17 0.49
9 8 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
ATTTTATT
Found at i:61056 original size:33 final size:33
Alignment explanation
Indices: 61019--61087 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
61009 GAAAATAAAT
* *
61019 CAACGTATTTGAGTCTTATTGAAACACTAAAAC
1 CAACGTATTTGAGTCCTATTAAAACACTAAAAC
61052 CAACGTATTTGAGTCCTATTAAAACACTAAAAC
1 CAACGTATTTGAGTCCTATTAAAACACTAAAAC
61085 CAA
1 CAA
61088 AGCATTTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (33 bp):
CAACGTATTTGAGTCCTATTAAAACACTAAAAC
Found at i:61100 original size:33 final size:33
Alignment explanation
Indices: 61025--61100 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
61015 AAATCAACGT
* * * *
61025 ATTTGAGTCTTATTGAAACACTAAAACCAACGT
1 ATTTGAGTCCTATTAAAACACTAAAACCAAAGC
61058 ATTTGAGTCCTATTAAAACACTAAAACCAAAGC
1 ATTTGAGTCCTATTAAAACACTAAAACCAAAGC
*
61091 ATTTAAGTCC
1 ATTTGAGTCC
61101 AAGTAGGACT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (33 bp):
ATTTGAGTCCTATTAAAACACTAAAACCAAAGC
Found at i:61584 original size:7 final size:7
Alignment explanation
Indices: 61572--61628 Score: 80
Period size: 7 Copynumber: 7.9 Consensus size: 7
61562 ATGATAATAC
61572 ATTATTT
1 ATTATTT
61579 ATTA-TT
1 ATTATTT
61585 ATTTATTT
1 A-TTATTT
61593 ATTATTT
1 ATTATTT
61600 ATTATTT
1 ATTATTT
61607 ATTTATTTT
1 A-TTA-TTT
61616 ATTATTT
1 ATTATTT
61623 ATTATT
1 ATTATT
61629 CATTTTTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
6 3 0.07
7 30 0.65
8 9 0.20
9 4 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTATTT
Found at i:61590 original size:4 final size:4
Alignment explanation
Indices: 61573--61625 Score: 62
Period size: 4 Copynumber: 14.2 Consensus size: 4
61563 TGATAATACA
61573 TTAT TTA- TTA- TTAT TTAT TTA- TTAT TTA- TTAT TTAT TTAT TT-T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
61616 ATTAT TTAT T
1 -TTAT TTAT T
61626 ATTCATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
3 13 0.30
4 30 0.68
5 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:67683 original size:59 final size:59
Alignment explanation
Indices: 67560--67689 Score: 156
Period size: 58 Copynumber: 2.2 Consensus size: 59
67550 TCGGGTGATT
* * * * * **
67560 ATTTTGTAACTTTTAATAGTTGGCGATTCAACAAAGCAACACCCTATAGTCGAAGGATT
1 ATTTTGTAACTTTTAATAGTTGACGACTCAACAAAGCAACAACCTACAATCGAAGGACC
* *
67619 ATTTTGTAACTTTTAATAG-TGATGACTCAACAAAGCAACAACCTACAATCGAGGGACC
1 ATTTTGTAACTTTTAATAGTTGACGACTCAACAAAGCAACAACCTACAATCGAAGGACC
67677 ATTTTTGT-ACTTT
1 A-TTTTGTAACTTT
67690 ACCCTAAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 36 0.59
59 25 0.41
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (59 bp):
ATTTTGTAACTTTTAATAGTTGACGACTCAACAAAGCAACAACCTACAATCGAAGGACC
Found at i:67918 original size:31 final size:31
Alignment explanation
Indices: 67845--67911 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
67835 AGTTACGTCG
*
67845 GGGACCATATTGCAAACGGACTAAATGTTGA
1 GGGATCATATTGCAAACGGACTAAATGTTGA
*
67876 GGGATCATATTGCAAACGGACTAAATGTTGG
1 GGGATCATATTGCAAACGGACTAAATGTTGA
67907 GGGAT
1 GGGAT
67912 TGTATTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (31 bp):
GGGATCATATTGCAAACGGACTAAATGTTGA
Found at i:69351 original size:31 final size:31
Alignment explanation
Indices: 69311--69377 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
69301 TACAATACAA
*
69311 TCCCCCAACATTTAGTCCGTTTGCAATATGG
1 TCCCCCAACATTTAGTCCATTTGCAATATGG
* * *
69342 TCCCGCAACATTTAGTCTATTTTCAATATGG
1 TCCCCCAACATTTAGTCCATTTGCAATATGG
69373 TCCCC
1 TCCCC
69378 GACGTAACTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCCATTTGCAATATGG
Found at i:78057 original size:28 final size:28
Alignment explanation
Indices: 78041--78106 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
78031 ACTGCATGGG
78041 GAATGTTAGTGTATATGAACAACATGAA
1 GAATGTTAGTGTATATGAACAACATGAA
**
78069 GAATGTTAGTGTATATGAACAACAACAA
1 GAATGTTAGTGTATATGAACAACATGAA
78097 GAATGTTAGT
1 GAATGTTAGT
78107 ATGGAGTTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (28 bp):
GAATGTTAGTGTATATGAACAACATGAA
Found at i:81591 original size:16 final size:16
Alignment explanation
Indices: 81560--81592 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
81550 TTTAAAATTG
81560 TTATTGTTGTTATTAT
1 TTATTGTTGTTATTAT
81576 TTATATGTTGTT-TTAT
1 TTAT-TGTTGTTATTAT
81592 T
1 T
81593 ATTTGTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (16 bp):
TTATTGTTGTTATTAT
Found at i:85235 original size:2 final size:2
Alignment explanation
Indices: 85228--85281 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
85218 CCTTATACAA
85228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85270 AT AT AT AT AT AT
1 AT AT AT AT AT AT
85282 GAAATAACAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88358 original size:16 final size:18
Alignment explanation
Indices: 88331--88363 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88321 CTCCGTTAGA
88331 TTCATAATTCGA-ATAAT
1 TTCATAATTCGAGATAAT
88348 TTCAT-ATTCGAGATAA
1 TTCATAATTCGAGATAA
88364 ATAAAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (18 bp):
TTCATAATTCGAGATAAT
Found at i:90157 original size:53 final size:53
Alignment explanation
Indices: 90079--90184 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
90069 ACAAAACAAC
*
90079 ATTAGATTCGGTCATGTACGCATCCACTTATAATGTAACACCCGACCCGACAG
1 ATTAAATTCGGTCATGTACGCATCCACTTATAATGTAACACCCGACCCGACAG
90132 ATTAAATTCGGTCATGTACGCATCCACTTATAATGTAACACCCGACCCGACAG
1 ATTAAATTCGGTCATGTACGCATCCACTTATAATGTAACACCCGACCCGACAG
90185 TTTTTTGTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (53 bp):
ATTAAATTCGGTCATGTACGCATCCACTTATAATGTAACACCCGACCCGACAG
Found at i:91153 original size:17 final size:18
Alignment explanation
Indices: 91131--91172 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
91121 ATTTTCTAAA
91131 ATTTTAA-TTTATTATAT
1 ATTTTAATTTTATTATAT
*
91148 ATTTTAAATTTTTTTATAT
1 ATTTT-AATTTTATTATAT
91167 ATTTTA
1 ATTTTA
91173 TTGATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 3 0.14
19 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTAATTTTATTATAT
Found at i:91724 original size:35 final size:35
Alignment explanation
Indices: 91673--91752 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
91663 AACACAGTCA
*
91673 TTAATTACATTCTAAACCCCAAAATCCAAAATACT
1 TTAATTACATTATAAACCCCAAAATCCAAAATACT
* * *
91708 TTAATTACATTATAAACCTCAAATTCTAAAATACT
1 TTAATTACATTATAAACCCCAAAATCCAAAATACT
*
91743 TCAATTACAT
1 TTAATTACAT
91753 ACCCAACCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (35 bp):
TTAATTACATTATAAACCCCAAAATCCAAAATACT
Found at i:91766 original size:35 final size:35
Alignment explanation
Indices: 91675--91768 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 35
91665 CACAGTCATT
* *
91675 AATTACATT-CTAAACCCCAAAATCCAAAATACTTT
1 AATTACATTAC-AAACCCCAAATTCCAAAATACTTC
* * *
91710 AATTACATTATAAACCTCAAATTCTAAAATACTTC
1 AATTACATTACAAACCCCAAATTCCAAAATACTTC
*
91745 AATTACA-TACCCAACCCCAAATTC
1 AATTACATTA-CAAACCCCAAATTC
91769 ATAATCCATT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 2 0.04
35 47 0.96
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.29
Consensus pattern (35 bp):
AATTACATTACAAACCCCAAATTCCAAAATACTTC
Found at i:92135 original size:143 final size:143
Alignment explanation
Indices: 91927--92206 Score: 472
Period size: 148 Copynumber: 1.9 Consensus size: 143
91917 TACTCAATTC
91927 AGTTTATAAAATAGTTGACTCAAAATTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCG-AA
1 AGTTTATAAAATAGTTGACTCAAAATTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGTAA
* * *
91991 TTGAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTATTTGAT
66 TTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATTTGAT
92056 TCTGATTCAGTTT
131 TCTGATTCAGTTT
*
92069 AGTTTATAAAATAGTTGACTCAAAATTTTTTCGATTTGAGTTTGTAAAATTTAAATCAAGTCGAA
1 AGTTTATAAAATAGTTGACTCAAAA-TTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCG--
92134 TTTAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
63 --TAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
92199 TTGATTCT
126 TTGATTCT
92207 CATTTAAATA
Statistics
Matches: 128, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
142 25 0.20
143 36 0.28
148 67 0.52
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.47
Consensus pattern (143 bp):
AGTTTATAAAATAGTTGACTCAAAATTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGTAA
TTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATTTGAT
TCTGATTCAGTTT
Found at i:92771 original size:35 final size:35
Alignment explanation
Indices: 92693--92824 Score: 194
Period size: 35 Copynumber: 3.7 Consensus size: 35
92683 AATGGATTAT
* **
92693 GAATTTGGGGTTGGGAATGTAATTGAAGTATTTTTG
1 GAATTTGAGGTTTAGAATGTAATTGAAGTA-TTTTG
*
92729 GAATTTGAGGTTTAGAATGTAATTGAAGCATTTTG
1 GAATTTGAGGTTTAGAATGTAATTGAAGTATTTTG
*
92764 GATTTTGAGGTTTAGAATGTAATTGAAGTATTTTG
1 GAATTTGAGGTTTAGAATGTAATTGAAGTATTTTG
92799 GAATTT-AGGGTTTAGAATGTAATTGA
1 GAATTTGA-GGTTTAGAATGTAATTGA
92825 TGATTGTGTT
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
34 1 0.01
35 61 0.69
36 26 0.30
ACGTcount: A:0.30, C:0.01, G:0.28, T:0.42
Consensus pattern (35 bp):
GAATTTGAGGTTTAGAATGTAATTGAAGTATTTTG
Found at i:94849 original size:59 final size:59
Alignment explanation
Indices: 94763--95225 Score: 669
Period size: 59 Copynumber: 7.9 Consensus size: 59
94753 AATTTCAATA
* * * * * *
94763 GGAAATTAATACAATTAATATAATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCT
* * * *
94822 AGAAATTCATACACTTAGTATGCTTTCCTTACCA-TTTAGCACACAAAGTGCCCAATCG
1 GGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCT
* * *
94880 GGAAATTCATACACTTGGTATGATTTCCTTACCATTTTAGCGCACAAAGTGCTCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCT
* * * *
94939 AGAAATTCATACACTTAGTATGGTTTCCTTACCATTTTAACACACAAAGTGCTCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCT
* * *
94998 AGAAATTCATACACTTAGTATTATTTCCTTACCATTTTAGCACACAAAGTGCCATATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCT
* *
95057 GGAAATTTATACACTTAGTATGATTTCCTTACCATTTTAGCAGACAAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCT
* * *
95116 GGAAATTCATACACTTAGTATGATTTCCTTACCATCTTAGCACACAAATTGCCTTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCT
*
95175 GGAAATTCATACACTTAGTATGATTTCCTTATCC-TTTTAGCACACGAAGTG
1 GGAAATTCATACACTTAGTATGATTTCCTTA-CCATTTTAGCACACAAAGTG
95226 TCATTTGGTA
Statistics
Matches: 362, Mismatches: 40, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
58 52 0.14
59 308 0.85
60 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCT
Found at i:95577 original size:20 final size:20
Alignment explanation
Indices: 95552--95605 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
95542 GGCCCTTCAA
*
95552 TATCGATACCTCTACCATGG
1 TATCGATACCCCTACCATGG
**
95572 TATCGATACTACCCTACGTTGG
1 TATCGATAC--CCCTACCATGG
95594 TATCGATACCCC
1 TATCGATACCCC
95606 CTTCCAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.41
22 17 0.59
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (20 bp):
TATCGATACCCCTACCATGG
Found at i:95717 original size:95 final size:95
Alignment explanation
Indices: 95552--95769 Score: 253
Period size: 95 Copynumber: 2.3 Consensus size: 95
95542 GGCCCTTCAA
* * * *
95552 TATCGATA-CCTCTACCATGGTATCGATACTACCCTACGTTGGTATCGATACCCCCTTCCAGTAT
1 TATCGATACCCT-TACCATGGTATCGATAATACCATACGTTGGTACCGATACCCCCTTACAGTAT
*
95616 CAATACCAAAATTAGATTCGGTGTGACCCAG
65 CAATACCAAAATTAGATTCGATGTGACCCAG
* * **
95647 TATCGCTACCCTTACCATGGTATCGATAATACTATAC-TATGGTACCGATA-CCCCTATATGGTA
1 TATCGATACCCTTACCATGGTATCGATAATACCATACGT-TGGTACCGATACCCCCT-TACAGTA
* * * *
95710 TCGATACCAAAATTAGGTTCGATGTTACCCGG
64 TCAATACCAAAATTAGATTCGATGTGACCCAG
* *
95742 TATCGATACCCTCACAATGGTATCGATA
1 TATCGATACCCTTACCATGGTATCGATA
95770 CCACTTCGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
94 6 0.06
95 95 0.91
96 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (95 bp):
TATCGATACCCTTACCATGGTATCGATAATACCATACGTTGGTACCGATACCCCCTTACAGTATC
AATACCAAAATTAGATTCGATGTGACCCAG
Found at i:100835 original size:59 final size:59
Alignment explanation
Indices: 100743--101018 Score: 446
Period size: 59 Copynumber: 4.7 Consensus size: 59
100733 TCATGATTAG
* *
100743 ACACTTAGTATGATTTTCTTACCATTTTAGCACACAAAGTGCCATATCTGGAAATTCAT
1 ACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCAT
*
100802 ACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATTTGGAAATTCAT
1 ACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCAT
* *
100861 ACACTTAGTATGATTT-CTTACCATTTTAGTACACAAAGTACCCTATCTGGAAATTCAT
1 ACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCAT
* * * * *
100919 ACACTTAGCATGATTTTCTTACCATTTTAGCACACGAAGTGCCCTATCTGAAAATTTAT
1 ACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCAT
*
100978 ACACTTAGTATGATTTCCTTACCCTTTTAGCACACAAAGTG
1 ACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTG
101019 TCATTTGCTA
Statistics
Matches: 200, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
58 54 0.27
59 146 0.73
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (59 bp):
ACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCAT
Found at i:100950 original size:117 final size:117
Alignment explanation
Indices: 100743--101017 Score: 442
Period size: 117 Copynumber: 2.3 Consensus size: 117
100733 TCATGATTAG
*
100743 ACACTTAGTATGATTTTCTTACCATTTTAGCACACAAAGTGCCATATCTGGAAATTCATACACTT
1 ACACTTAGTATGA-TTTCTTACCATTTTAGCACACAAAGTACCATATCTGGAAATTCATACACTT
* * *
100808 AGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATTTGGAAATTCAT
65 AGCATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGAAAATTCAT
* *
100861 ACACTTAGTATGATTTCTTACCATTTTAGTACACAAAGTACCCTATCTGGAAATTCATACACTTA
1 ACACTTAGTATGATTTCTTACCATTTTAGCACACAAAGTACCATATCTGGAAATTCATACACTTA
* * *
100926 GCATGATTTTCTTACCATTTTAGCACACGAAGTGCCCTATCTGAAAATTTAT
66 GCATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGAAAATTCAT
*
100978 ACACTTAGTATGATTTCCTTACCCTTTTAGCACACAAAGT
1 ACACTTAGTATGATTT-CTTACCATTTTAGCACACAAAGT
101018 GTCATTTGCT
Statistics
Matches: 145, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
117 111 0.77
118 34 0.23
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (117 bp):
ACACTTAGTATGATTTCTTACCATTTTAGCACACAAAGTACCATATCTGGAAATTCATACACTTA
GCATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGAAAATTCAT
Found at i:102806 original size:27 final size:26
Alignment explanation
Indices: 102775--102849 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
102765 ATGCAAAAAT
102775 TAAAATAAAATAAAATGAAAAT-ATGTC
1 TAAAATAAAA-AAAAT-AAAATCATGTC
*
102802 TAAAATATAAACAAAA-AACATCATGTC
1 TAAAATA-AAA-AAAATAAAATCATGTC
*
102829 AAAAATTAAAAAAAATAAAAT
1 TAAAA-TAAAAAAAATAAAAT
102850 GCAAAAGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 8 0.20
27 23 0.57
28 9 0.22
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.23
Consensus pattern (26 bp):
TAAAATAAAAAAAATAAAATCATGTC
Found at i:104752 original size:134 final size:132
Alignment explanation
Indices: 104513--105112 Score: 462
Period size: 134 Copynumber: 4.5 Consensus size: 132
104503 AATCTGATAA
* * * * * * * *
104513 GGGATCTACTCCACTATTTCTTCAGGGTAGATCAGATC-GAGAAACGTTGATTTATTTCA-T-TA
1 GGGATCTATTCCACTGTTTCTT-AGGGAAAATCAGATCTG-GAGACATTGATTCATTCCACTGT-
* *
104575 TTTTTCAAGGAAGATTGAATCGAGGTAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGG
63 TTTTTC-AGGAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGG
104640 AAAGAG
127 AAAGAG
* * * * * *
104646 GGGATCTGTTCCGCTGCTTCTTTGGGGGAAAAT-AGATCTGGAGACATTGATTCACTCCATTGTT
1 GGGATCTATTCCACTGTTTC-TT-AGGGAAAATCAGATCTGGAGACATTGATTCATTCCACTGTT
* *
104710 TTTTCAGAAAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGAA
64 TTTTCAG-GAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTG-G
* *
104775 AAATAA
127 AAAGAG
* * * * * * * * *
104781 GGGATTTATTTCACTGTTTCTTAAGGG-AAATCAGATATGGGGACGTTAATTGATTCTACT-ATT
1 GGGATCTATTCCACTGTTTCTT-AGGGAAAATCAGATCTGGAGACATTGATTCATTCCACTGTTT
* * * * * *
104844 CTTCAGGGAAGAATGAATTGAGGTAGACTTATTCCACTGCTACTCAGGGAATATCAAATCTGGAA
65 TTTCA-GGAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGGAA
104909 AGAG
129 AGAG
*** * * ** * * ** *
104913 ATGGGA-CATATTCTGTTATTTCTTCATGGTTAATCATATATGTG-GATGTTGATTCATTCCATT
1 --GGGATC-TATTCCACTGTTTCTT-AGGGAAAATCAGATCTG-GAGACATTGATTCATTCCACT
** * * * *
104976 GTACTTTAAGGAAGAATGAATCTAGGCAGACTTGTTCCACTGCTACTCAGGGAAGAT-AAATATG
61 GTTTTTTCAGGAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTG
105040 GAAAGAGAG
126 G-AA-AGAG
* * * *
105049 GGGATATGTTCCACTGTTTCTTCAGGGAAAATCATATCTGGGGACATTGATTCATTCCACTGTT
1 GGGATCTATTCCACTGTTTCTT-AGGGAAAATCAGATCTGGAGACATTGATTCATTCCACTGTT
105113 CTTCAGGGAA
Statistics
Matches: 363, Mismatches: 86, Indels: 35
0.75 0.18 0.07
Matches are distributed among these distances:
132 4 0.01
133 96 0.26
134 166 0.46
135 89 0.25
136 8 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (132 bp):
GGGATCTATTCCACTGTTTCTTAGGGAAAATCAGATCTGGAGACATTGATTCATTCCACTGTTTT
TTCAGGAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGGAAAG
AG
Found at i:105123 original size:134 final size:135
Alignment explanation
Indices: 104578--105123 Score: 537
Period size: 134 Copynumber: 4.1 Consensus size: 135
104568 TTCATTATTT
* * *
104578 TTCAAGGAAGATTGAATCGAGGTAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGG-AA
1 TTCAGGGAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGGAAA
* * * * ** * * *
104642 -AGAGGGGATCTGTTCCGCTGCTTCTTTGGGGGAAAAT-AGATCTGGAGACATTGATTCACTCCA
66 GAGAGGGGATATATTCCACTGTTTC-TTCAGGGAAAATCAGATATGGGGACATTGATTCATTCCA
* *
104705 TTGTTTT
130 CTG-TTC
**
104712 TTCAGAAAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCT-GAAA
1 TTCAGGGAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGGAAA
* * * * * * * * * *
104776 AATAAGGGATTTATTTCACTGTTTCTTAAGGG-AAATCAGATATGGGGACGTTAATTGATTCTAC
66 GAGAGGGGATATATTCCACTGTTTCTTCAGGGAAAATCAGATATGGGGACATTGATTCATTCCAC
*
104840 TATTC
131 TGTTC
* * * * *
104845 TTCAGGGAAGAATGAATTGAGGTAGACTTATTCCACTGCTACTCAGGGAATATCAAATCTGGAAA
1 TTCAGGGAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGGAAA
* * *** * * ** * * ** *
104910 GAGATGGGACATATTCTGTTATTTCTTCATGGTTAATCATATATGTGGATGTTGATTCATTCCAT
66 GAGAGGGGATATATTCCACTGTTTCTTCAGGGAAAATCAGATATGGGGACATTGATTCATTCCAC
*
104975 TGTAC
131 TGTTC
* * * * *
104980 TTTAAGGAAGAATGAATCTAGGCAGACTTGTTCCACTGCTACTCAGGGAAGAT-AAATATGGAAA
1 TTCAGGGAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGGAAA
* * *
105044 GAGAGGGGATATGTTCCACTGTTTCTTCAGGGAAAATCATATCTGGGGACATTGATTCATTCCAC
66 GAGAGGGGATATATTCCACTGTTTCTTCAGGGAAAATCAGATATGGGGACATTGATTCATTCCAC
105109 TGTTC
131 TGTTC
105114 TTCAGGGAAG
1 TTCAGGGAAG
105124 TTTAAATCGA
Statistics
Matches: 328, Mismatches: 79, Indels: 10
0.79 0.19 0.02
Matches are distributed among these distances:
133 60 0.18
134 178 0.54
135 90 0.27
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (135 bp):
TTCAGGGAAGAATGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAAGATCAAATCTGGAAA
GAGAGGGGATATATTCCACTGTTTCTTCAGGGAAAATCAGATATGGGGACATTGATTCATTCCAC
TGTTC
Done.