Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1272
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: 71746
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Found at i:3355 original size:79 final size:79
Alignment explanation
Indices: 3250--3505 Score: 320
Period size: 79 Copynumber: 3.2 Consensus size: 79
3240 GAAATAAGGG
* * * * * *
3250 CCGGGGTTGGAGCATTCTCGT-GAAAATAACAGGGTTGGAGTATCTCCGATTGTGAGAAATTGGT
1 CCGGGGTTGGAGTATCCTC-TCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGT
* *
3314 ATCTTGGAACTAAAA
65 ATCTTAGAAATAAAA
* * *
3329 TCGGAGTTGGAGTATCCTCTCGAAAATAACGGGGTTTGAGTATCCCCGATTATGAAAAATT-G-A
1 CCGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTA
3392 TGCTTTAGAAATAAAA
66 T-C-TTAGAAATAAAA
* * * *
3408 CCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
1 CCGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTA
*
3473 TTTTAGAAATAAAA
66 TCTTAGAAATAAAA
3487 CCGGGGTTGGAGTATCCTC
1 CCGGGGTTGGAGTATCCTC
3506 GATTATGAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
77 2 0.01
78 3 0.02
79 146 0.96
81 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
CCGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTA
TCTTAGAAATAAAA
Found at i:3443 original size:158 final size:160
Alignment explanation
Indices: 3204--3505 Score: 394
Period size: 158 Copynumber: 1.9 Consensus size: 160
3194 ATCGGGCTTA
** *
3204 GAGTATCCCCGATTATAAAAAAAAATTGATGCTTTAGAAATAAGGGCCGGGGTTGGAGCATTCTC
1 GAGTATCCCCGATTAT--AAAAAAATTGATGCTTTAGAAATAAGAACCGGGGTTGGAGCATTCCC
* * * * * * * * *
3269 GTGAAAATAACAGGGTTGGAGTATCTCCGATTGTGAGAAATTGGTATCTTGGAACTAAAATCGGA
64 CTAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGA
3334 GTTGGAGTATCCTCTCGAAAATAACGGGGTTT
129 GTTGGAGTATCCTCTCGAAAATAACGGGGTTT
* *
3366 GAGTATCCCCGATTAT-GAAAAATTGATGCTTTAGAAATAA-AACCGGGGTTGGAGTA-TCCCCT
1 GAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGAACCGGGGTTGGAGCATTCCCCT
* * * *
3428 CAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGG
66 -AAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGAG
3493 TTGGAGTATCCTC
130 TTGGAGTATCCTC
3506 GATTATGAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
157 4 0.03
158 78 0.64
159 23 0.19
162 16 0.13
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (160 bp):
GAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGAACCGGGGTTGGAGCATTCCCCT
AAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGAGT
TGGAGTATCCTCTCGAAAATAACGGGGTTT
Found at i:3509 original size:51 final size:51
Alignment explanation
Indices: 3437--3556 Score: 204
Period size: 51 Copynumber: 2.4 Consensus size: 51
3427 TCAAAAATAA
*
3437 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAC
* *
3488 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATATTTTAGAGATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAC
*
3539 CGGGGTTAGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
3557 TCAGAAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAC
Found at i:3513 original size:130 final size:130
Alignment explanation
Indices: 3358--3634 Score: 482
Period size: 130 Copynumber: 2.1 Consensus size: 130
3348 TCGAAAATAA
* * *
3358 CGGGGTTTGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATACTTTAGAAATAAAACCGGGGTTAGAGTAT
*
3423 CCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCCCTCAAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * *
3488 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATATTTTAGAGATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATACTTTAGAAATAAAACCGGGGTTAGAGTAT
*
3553 CCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCCCTCAAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
3618 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
3635 TTGAAAATAA
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 138 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATACTTTAGAAATAAAACCGGGGTTAGAGTAT
CCCCTCAAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:3567 original size:209 final size:209
Alignment explanation
Indices: 3281--3711 Score: 636
Period size: 209 Copynumber: 2.1 Consensus size: 209
3271 GAAAATAACA
* * * * * *
3281 GGGTTGGAGTAT-CTCCGATTGTGAGAAATTGGTATCTTGGAACTAAAATCGGAGTTGGAGTATC
1 GGGTTGGAGTATCCTCCGATTATGAAAAATTGATATCTTAGAACTAAAACCGGAGTTAGAGTATC
* * *
3345 CTCTCGAAAATAACGGGGTTTGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACC
66 CCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACC
*
3410 GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
131 GGGGTTGGAGTAT-CCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
3475 TTAGAAATAAAACCG
195 TTAGAAATAAAACCG
* *
3490 GGGTTGGAGTATCCT-CGATTATGAAAAATTGATATTTTAGAGA-TAAAACCGGGGTTAGAGTAT
1 GGGTTGGAGTATCCTCCGATTATGAAAAATTGATATCTTAGA-ACTAAAACCGGAGTTAGAGTAT
*
3553 CCCCTC-AGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA
65 CCCCTCGA-AAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAA
** * *
3617 CCGGGGTTGGAGTATCCCTTGAAAATAACGAGGTTGGGGTATCCTCGATTATGAAAAATTGATGT
129 CCGGGGTTGGAGTATCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
*
3682 TTTAGAAATAAAATCG
194 TTTAGAAATAAAACCG
*
3698 GGGTTAGAGTATCC
1 GGGTTGGAGTATCC
3712 CCTCGAAAAT
Statistics
Matches: 200, Mismatches: 19, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
208 74 0.37
209 123 0.62
210 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (209 bp):
GGGTTGGAGTATCCTCCGATTATGAAAAATTGATATCTTAGAACTAAAACCGGAGTTAGAGTATC
CCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACC
GGGGTTGGAGTATCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTT
TAGAAATAAAACCG
Found at i:3576 original size:79 final size:79
Alignment explanation
Indices: 3488--3908 Score: 634
Period size: 79 Copynumber: 5.4 Consensus size: 79
3478 GAAATAAAAC
* * * *
3488 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATATTTTAGAGATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
3553 CCCCTCAGAAATAA
66 CCCCTCAGAAATAA
*
3567 CGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
3632 CCCTTGA-AAATAA
66 CCCCTCAGAAATAA
* * * * *
3645 CGAGGTTGGGGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
3710 CCCCTC-GAAAATAA
66 CCCCTCAG-AAATAA
* * * *
3724 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAGAACCAGGG-TGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
3788 CCCCTC-GAAATAA
66 CCCCTCAGAAATAA
* *
3801 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
3866 CCCCTCAGAAATAA
66 CCCCTCAGAAATAA
*
3880 CGGGGTTGGAGTATCCCCGATTGTGAAAA
1 CGGGGTTGGAGTATCCCCGATTATGAAAA
3909 TTTAGAAAAT
Statistics
Matches: 306, Mismatches: 32, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
77 56 0.18
78 97 0.32
79 153 0.50
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCAGAAATAA
Found at i:3689 original size:287 final size:290
Alignment explanation
Indices: 3150--3791 Score: 812
Period size: 287 Copynumber: 2.2 Consensus size: 290
3140 ACAAAAGGGC
* * * * * *
3150 TAGAGTATCCCCGATTATGGAAAAA-TGGTGTTCTAAAAAATAAAATCGGGCTTAGAGTATCCCC
1 TAGAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAACCGGGGTTGGAGTATCCCC
* ** * * * *
3214 GATTATAAAAAAAAATTGATGCTTTAGAAATAAGGGCCGGGGTTGGAGCATTCTCGTGAAAATAA
64 GATTAT--AAAAAAATTGATACTTTAGAAATAAGAACCGGGGTTAGAGCATTCCCCTCAAAATAA
* * * * * * *
3279 CAGGGTTGGAGTATCTCCGATTGTGAGAAATTGGTATCTTGGAACTAAAATCGGAGTTGGAGTAT
127 CAGGGTTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGAGTTGGAGTAT
* *
3344 CCTCTCGAAAATAACGGGGTTTGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAAC
192 CCTCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAAC
*
3409 CGGGGTTGGAGTATCCCCTCAAAAATAACGGGGT
257 CGGGGTTAGAGTATCCCCTCAAAAATAACGGGGT
* *
3443 TGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCGA
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGA
* * * *
3508 TTAT-GAAAAATTGATATTTTAGAGATAA-AACCGGGGTTAGAGTA-TCCCCTCAGAAATAAC-G
66 TTATAAAAAAATTGATACTTTAGAAATAAGAACCGGGGTTAGAGCATTCCCCTCA-AAATAACAG
* * *
3569 GGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
130 GG-TTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGAGTTGGAGTATCC
* * * * *
3634 -CTTGAAAATAACGAGGTTGGGGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCG
194 TCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACCG
*
3698 GGGTTAGAGTATCCCCTCGAAAATAACGGGGT
259 GGGTTAGAGTATCCCCTCAAAAATAACGGGGT
* * *
3730 TAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAGAACCAGGG-TGGAGTATCCCC
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
3792 TCGAAATAAC
Statistics
Matches: 303, Mismatches: 43, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
286 11 0.04
287 141 0.47
288 71 0.23
289 20 0.07
292 37 0.12
293 23 0.08
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (290 bp):
TAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGA
TTATAAAAAAATTGATACTTTAGAAATAAGAACCGGGGTTAGAGCATTCCCCTCAAAATAACAGG
GTTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGAGTTGGAGTATCCTC
TCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACCGGG
GTTAGAGTATCCCCTCAAAAATAACGGGGT
Found at i:3851 original size:156 final size:157
Alignment explanation
Indices: 3488--3908 Score: 686
Period size: 157 Copynumber: 2.7 Consensus size: 157
3478 GAAATAAAAC
* * *
3488 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATATTTTAGAGATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
*
3553 CCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* *
3618 CGGGGTTGGAGTATCCCTTGAAAATAA
131 CAGGGTTGGAGTATCCCTCGAAAATAA
* *
3645 CGAGGTTGGGGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
* * *
3710 CCCCTC-GAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAGAA
66 CCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA
3774 CCAGGG-TGGAGTATCCCCTCG-AAATAA
130 CCAGGGTTGGAGTAT-CCCTCGAAAATAA
*
3801 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
*
3866 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA
66 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAA
3909 TTTAGAAAAT
Statistics
Matches: 245, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
156 116 0.47
157 129 0.53
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (157 bp):
CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
CAGGGTTGGAGTATCCCTCGAAAATAA
Found at i:5352 original size:35 final size:35
Alignment explanation
Indices: 5306--5411 Score: 196
Period size: 35 Copynumber: 3.1 Consensus size: 35
5296 TCCTCTTTTT
5306 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
1 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
*
5341 CCCATCATTCCATGCCTCCATTTTTATATTCCATG
1 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
5376 CCCATCATTCCATGCCTTCA-TTTTATATTCCATG
1 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
5410 CC
1 CC
5412 TTCATTTTTA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
34 16 0.23
35 53 0.77
ACGTcount: A:0.20, C:0.34, G:0.06, T:0.41
Consensus pattern (35 bp):
CCCATCATTCCATGCCTTCATTTTTATATTCCATG
Found at i:5372 original size:21 final size:20
Alignment explanation
Indices: 5312--5432 Score: 86
Period size: 21 Copynumber: 6.5 Consensus size: 20
5302 TTTTCCCATC
*
5312 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCA-TTTTAT
*
5333 ATTCCATG-C-CCA---T-C
1 ATTCCATGCCTCCATTTTAT
5347 ATTCCATGCCTCCATTTTTAT
1 ATTCCATGCCTCCA-TTTTAT
*
5368 ATTCCATG-C-CCA---T-C
1 ATTCCATGCCTCCATTTTAT
*
5382 ATTCCATGCCTTCATTTTAT
1 ATTCCATGCCTCCATTTTAT
*
5402 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCA-TTTTAT
5423 ATTCCATGCC
1 ATTCCATGCC
5433 CATCATTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 28
0.70 0.05 0.25
Matches are distributed among these distances:
14 16 0.20
15 4 0.05
16 5 0.06
19 6 0.08
20 17 0.21
21 32 0.40
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.44
Consensus pattern (20 bp):
ATTCCATGCCTCCATTTTAT
Found at i:5411 original size:55 final size:56
Alignment explanation
Indices: 5347--5466 Score: 224
Period size: 55 Copynumber: 2.2 Consensus size: 56
5337 CATGCCCATC
5347 ATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTTCA-TTTTAT
1 ATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
*
5402 ATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
5458 ATTCCATGC
1 ATTCCATGC
5467 ACATCATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 48 0.76
56 15 0.24
ACGTcount: A:0.20, C:0.30, G:0.06, T:0.44
Consensus pattern (56 bp):
ATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
Found at i:5445 original size:35 final size:35
Alignment explanation
Indices: 5402--5489 Score: 158
Period size: 35 Copynumber: 2.5 Consensus size: 35
5392 TTCATTTTAT
*
5402 ATTCCATGCCTTCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCTTCATTTTTATATTCCATGCACATC
5437 ATTCCATGCCTTCATTTTTATATTCCATGCACATC
1 ATTCCATGCCTTCATTTTTATATTCCATGCACATC
*
5472 ATTTCATGCCTTCATTTT
1 ATTCCATGCCTTCATTTT
5490 ATTATTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.20, C:0.28, G:0.06, T:0.45
Consensus pattern (35 bp):
ATTCCATGCCTTCATTTTTATATTCCATGCACATC
Found at i:5465 original size:90 final size:90
Alignment explanation
Indices: 5312--5491 Score: 333
Period size: 90 Copynumber: 2.0 Consensus size: 90
5302 TTTTCCCATC
5312 ATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTCCATGC
1 ATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTCCATGC
*
5377 CCATCATTCCATGCCTTCATTTTAT
66 ACATCATTCCATGCCTTCATTTTAT
*
5402 ATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 ATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTCCATGC
*
5467 ACATCATTTCATGCCTTCATTTTAT
66 ACATCATTCCATGCCTTCATTTTAT
5492 TATTTTTTTA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.21, C:0.29, G:0.06, T:0.44
Consensus pattern (90 bp):
ATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTCCATGC
ACATCATTCCATGCCTTCATTTTAT
Found at i:5514 original size:6 final size:6
Alignment explanation
Indices: 5505--5550 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
5495 TTTTTTAATT
*
5505 TTTTAA TTTTAA TTTAAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
5551 TGGATTTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:6752 original size:13 final size:13
Alignment explanation
Indices: 6734--6759 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6724 TAGTAACCCA
6734 TGTATTGATACAT
1 TGTATTGATACAT
6747 TGTATTGATACAT
1 TGTATTGATACAT
6760 GCTTCAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TGTATTGATACAT
Found at i:11244 original size:3 final size:3
Alignment explanation
Indices: 11236--11271 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
11226 TCCGAGTCAC
* *
11236 CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT CGT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
11272 TAATAGTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (3 bp):
CAT
Found at i:13436 original size:24 final size:25
Alignment explanation
Indices: 13397--13459 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
13387 AATTAATCCT
* *
13397 CTCTTTTTTTTCTTCTCTTA-TTTTT
1 CTCTTTTCTTT-TTCTCTTACTTTTC
* *
13422 TTCTTTTCTTTTTCTTTTACTTTTC
1 CTCTTTTCTTTTTCTCTTACTTTTC
13447 CTCTTTCTCTTTT
1 CTCTTT-TCTTTT
13460 ATGTTAAGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 7 0.23
25 18 0.58
26 6 0.19
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (25 bp):
CTCTTTTCTTTTTCTCTTACTTTTC
Found at i:13439 original size:16 final size:15
Alignment explanation
Indices: 13400--13446 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
13390 TAATCCTCTC
*
13400 TTTTTTTTCTTCTCT
1 TTTTTTTTCTTTTCT
13415 TATTTTTTTCTTTTCT
1 T-TTTTTTTCTTTTCT
13431 TTTTCTTTTACTTTTC
1 TTTT-TTTT-CTTTTC
13447 CTCTTTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 4 0.14
16 18 0.64
17 6 0.21
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTTTCTTTTCT
Found at i:13889 original size:23 final size:23
Alignment explanation
Indices: 13831--13882 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
13821 TCCGTACCCA
** *
13831 AAATGACTCGAGTAATTAACCTG
1 AAATGACTCGAACAATTAACATG
*
13854 AAATGACTTGAACAATTAACATG
1 AAATGACTCGAACAATTAACATG
13877 AAATGA
1 AAATGA
13883 TCCGAACTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (23 bp):
AAATGACTCGAACAATTAACATG
Found at i:14744 original size:16 final size:16
Alignment explanation
Indices: 14725--14765 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
14715 AAACAATCTG
*
14725 AACCCAAAATGATCCA
1 AACCCAAAATAATCCA
*
14741 AACCTAAAATAATCCA
1 AACCCAAAATAATCCA
14757 AACCCAAAA
1 AACCCAAAA
14766 ATTTTAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.29, G:0.02, T:0.12
Consensus pattern (16 bp):
AACCCAAAATAATCCA
Found at i:22861 original size:2 final size:2
Alignment explanation
Indices: 22854--22891 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22844 TGAATTCTTA
22854 CT CT CT CT CT CT 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 CT CT CT CT CT CT
22892 ATATATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:22896 original size:2 final size:2
Alignment explanation
Indices: 22891--22923 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22881 TCTCTCTCTC
22891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22924 TCAAATTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25241 original size:3 final size:3
Alignment explanation
Indices: 25233--25292 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
25223 GCTGAAAATA
25233 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25281 TAT TAT TAT TAT
1 TAT TAT TAT TAT
25293 ATAGCTTAGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:26447 original size:17 final size:15
Alignment explanation
Indices: 26435--26469 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
26425 TTTATAATCT
26435 TATAATATCTATATC
1 TATAATATCTATATC
26450 TATAAT-T-TATATC
1 TATAATATCTATATC
26463 TATAATA
1 TATAATA
26470 ATACATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.63
14 1 0.05
15 6 0.32
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (15 bp):
TATAATATCTATATC
Found at i:26462 original size:13 final size:13
Alignment explanation
Indices: 26424--26468 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
26414 CCTTATTGAT
26424 ATTTATAATCTTATA
1 ATTTAT-ATC-TATA
26439 ATATCTATATCTATA
1 AT-T-TATATCTATA
26454 ATTTATATCTATA
1 ATTTATATCTATA
26467 AT
1 AT
26469 AATACATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.43
14 1 0.04
15 8 0.29
16 4 0.14
17 3 0.11
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTATATCTATA
Found at i:26564 original size:19 final size:19
Alignment explanation
Indices: 26542--26580 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26532 GTGAATTTTT
26542 TATTTTCTCTTAT-TTTATG
1 TATTTT-TCTTATATTTATG
*
26561 TATTTTTGTTATATTTATG
1 TATTTTTCTTATATTTATG
26580 T
1 T
26581 TATATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (19 bp):
TATTTTTCTTATATTTATG
Found at i:27905 original size:158 final size:162
Alignment explanation
Indices: 27700--28029 Score: 445
Period size: 165 Copynumber: 2.0 Consensus size: 162
27690 TATTTAAAAT
27700 GAGCATTTCATATTAAACAAAAAATATAACCCAAAACCACTTCAAACTAAGCCTTTTTATTTTTG
1 GAGCATTTCATATTAAACAAAAAATATAACCCAAAACCACTTCAAACTAAGCCTTTTTATTTTTG
* * * *
27765 ACATATTAAACATA-TTT-T-A-ACATATTAAACAAGCATGTCATAAAAAAATTAATAATATTAA
66 AAATATTAAACATATTTTATAATACATATTAAACAAGCATGCCATAAAAAAATTAATAAAATCAA
*
27826 AAATCTCAAACAACATCAAGAGTCATCTAAAC
131 AAATCTCAAACAACATCAAGAGGCATCTAAAC
* * * * * *
27858 GAGCATTTCATATTAAACATAAAATATAATCTAAAATCA-TGTTAAACTAAGTCTTTTTATTTTT
1 GAGCATTTCATATTAAACAAAAAATATAACCCAAAACCACT-TCAAACTAAGCCTTTTTATTTTT
*
27922 GAAATATTAAACATATTTTGATAAATTACATATTAAACAAGCATGCCATTAAAAAATTAATAAAA
65 GAAATATTAAACATATTTT-AT-AA-TACATATTAAACAAGCATGCCATAAAAAAATTAATAAAA
* * * *
27987 TCATAAATGTCAAACAACATTAAGAGGCATTTAAAC
127 TCAAAAATCTCAAACAACATCAAGAGGCATCTAAAC
28023 GAGCATT
1 GAGCATT
28030 GGTTGGGCTT
Statistics
Matches: 148, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
157 1 0.01
158 70 0.47
159 3 0.02
161 1 0.01
163 1 0.01
165 72 0.49
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (162 bp):
GAGCATTTCATATTAAACAAAAAATATAACCCAAAACCACTTCAAACTAAGCCTTTTTATTTTTG
AAATATTAAACATATTTTATAATACATATTAAACAAGCATGCCATAAAAAAATTAATAAAATCAA
AAATCTCAAACAACATCAAGAGGCATCTAAAC
Found at i:28447 original size:74 final size:74
Alignment explanation
Indices: 28271--28445 Score: 214
Period size: 70 Copynumber: 2.4 Consensus size: 74
28261 CCAAAAAATA
* *
28271 AAATTCTAAACTTCTATAAATAAAAATAAATTACACTATAAAAAATTTAAACTCATATAAGCATA
1 AAATT-TAAACTTCTATAAATAAAAATAAATTACACTATAAAAAATTTAAACCCACATAAGCATA
*
28336 CCTAAGAAAC
65 CATAAGAAAC
* * * * * * *
28346 ACATTCAAATTTCTATAAATCAAAATAAATTATATTAT-AAAAATTTAAACCCACATAATCA-A-
1 AAATTTAAACTTCTATAAATAAAAATAAATTACACTATAAAAAATTTAAACCCACATAAGCATAC
28408 ATAA-AAAC
66 ATAAGAAAC
*
28416 AAATTTAAACTTCTATAAATAGAAATAAAT
1 AAATTTAAACTTCTATAAATAAAAATAAAT
28446 AATACATGTA
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
70 29 0.34
71 3 0.04
72 1 0.01
73 20 0.24
74 28 0.33
75 4 0.05
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (74 bp):
AAATTTAAACTTCTATAAATAAAAATAAATTACACTATAAAAAATTTAAACCCACATAAGCATAC
ATAAGAAAC
Found at i:28828 original size:21 final size:21
Alignment explanation
Indices: 28788--28828 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
28778 TGATCTTTAC
*
28788 TTTTTATTTTTTAATTAATTT
1 TTTTTATTTTTTAATAAATTT
28809 TTTTTATTTTATTAA-AAATT
1 TTTTTATTTT-TTAATAAATT
28829 AATAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTATTTTTTAATAAATTT
Found at i:28909 original size:75 final size:71
Alignment explanation
Indices: 28797--28958 Score: 213
Period size: 75 Copynumber: 2.2 Consensus size: 71
28787 CTTTTTATTT
** *
28797 TTTAATT-AATTTTTTTTATTTTATTAAAAATTAATAATTAATTTTTTAACTTTTTA-ATATAAT
1 TTTAATTAAATTTTTTTTATTTTATTAAAAATTAATAATTAATTCGTTAA-TTTTAACATA-AAT
28860 TTTTTTCAAA
64 TTTTTT--AA
*
28870 TTTAATTAAAATTTATTTTTATTTTATT-AAAATTAATAATTAATTCGTTGATTTTAACATAAAT
1 TTTAATT-AAATTT-TTTTTATTTTATTAAAAATTAATAATTAATTCGTTAATTTTAACATAAAT
28934 TTTTTTAA
64 TTTTTTAA
28942 TTTAATTAAATTTTTTT
1 TTTAATTAAATTTTTTT
28959 AAATTTTCTT
Statistics
Matches: 81, Mismatches: 4, Indels: 11
0.84 0.04 0.11
Matches are distributed among these distances:
70 4 0.05
71 6 0.07
72 9 0.11
73 7 0.09
74 14 0.17
75 28 0.35
76 13 0.16
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (71 bp):
TTTAATTAAATTTTTTTTATTTTATTAAAAATTAATAATTAATTCGTTAATTTTAACATAAATTT
TTTTAA
Found at i:28945 original size:20 final size:19
Alignment explanation
Indices: 28922--28960 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
28912 ATTCGTTGAT
28922 TTTAACATAAATTTTTTTAA
1 TTTAA-ATAAATTTTTTTAA
*
28942 TTTAATTAAATTTTTTTAA
1 TTTAAATAAATTTTTTTAA
28961 ATTTTCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTAAATAAATTTTTTTAA
Found at i:29196 original size:3 final size:3
Alignment explanation
Indices: 29149--29177 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
29139 AATAATAATA
29149 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
29178 AACAAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:29549 original size:47 final size:47
Alignment explanation
Indices: 29491--29580 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
29481 TGCAATTTTC
*
29491 TTTTCTTTACTTTTTAATTATTATGTATATATTTTCATTTCTACAAT
1 TTTTATTTACTTTTTAATTATTATGTATATATTTTCATTTCTACAAT
*
29538 TTTTATTTACTTTTTAATTATTATGTATATATTTTTATTTCTA
1 TTTTATTTACTTTTTAATTATTATGTATATATTTTCATTTCTA
29581 TATTATTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (47 bp):
TTTTATTTACTTTTTAATTATTATGTATATATTTTCATTTCTACAAT
Found at i:30033 original size:16 final size:16
Alignment explanation
Indices: 30002--30187 Score: 115
Period size: 16 Copynumber: 11.6 Consensus size: 16
29992 TTATAAAATT
* *
30002 TTCGGGTTATTTTTGGG
1 TTCGGGTCA-TTTCGGG
*
30019 TTCGGGTCATTTTGGG
1 TTCGGGTCATTTCGGG
* **
30035 TTTGGGTCATTTCAAG
1 TTCGGGTCATTTCGGG
* *
30051 TTCGAGTCACTTT-GGA
1 TTCGGGTCA-TTTCGGG
* * *
30067 TTCGAGTTATTTCGAG
1 TTCGGGTCATTTCGGG
* *
30083 TTCGGGTTATTTCAGG
1 TTCGGGTCATTTCGGG
* *
30099 TTTGAGTCATTTCGGG
1 TTCGGGTCATTTCGGG
*
30115 TTCGGGTCACTTT-GGA
1 TTCGGGTCA-TTTCGGG
* *
30131 TTCGAGTCATTTCGAG
1 TTCGGGTCATTTCGGG
**
30147 TTCGGGTTGTTTCGGG
1 TTCGGGTCATTTCGGG
*** *
30163 TTTTAGTCATTTTGGG
1 TTCGGGTCATTTCGGG
30179 TTCGGGTCA
1 TTCGGGTCA
30188 ATCGAGTTTA
Statistics
Matches: 126, Mismatches: 39, Indels: 9
0.72 0.22 0.05
Matches are distributed among these distances:
15 6 0.05
16 106 0.84
17 14 0.11
ACGTcount: A:0.12, C:0.13, G:0.31, T:0.44
Consensus pattern (16 bp):
TTCGGGTCATTTCGGG
Found at i:30054 original size:32 final size:32
Alignment explanation
Indices: 30018--30153 Score: 150
Period size: 32 Copynumber: 4.2 Consensus size: 32
30008 TTATTTTTGG
* * * * *
30018 GTTCGGGTCATTTTGGGTTTGGGTCATTTCAA
1 GTTCGGGTCACTTTGGATTCGAGTCATTTCGA
* *
30050 GTTCGAGTCACTTTGGATTCGAGTTATTTCGA
1 GTTCGGGTCACTTTGGATTCGAGTCATTTCGA
* * *
30082 GTTCGGGTTA-TTTCAGG-TTTGAGTCATTTCGG
1 GTTCGGGTCACTTT--GGATTCGAGTCATTTCGA
30114 GTTCGGGTCACTTTGGATTCGAGTCATTTCGA
1 GTTCGGGTCACTTTGGATTCGAGTCATTTCGA
30146 GTTCGGGT
1 GTTCGGGT
30154 TGTTTCGGGT
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
31 5 0.06
32 75 0.88
33 5 0.06
ACGTcount: A:0.14, C:0.15, G:0.30, T:0.41
Consensus pattern (32 bp):
GTTCGGGTCACTTTGGATTCGAGTCATTTCGA
Found at i:30171 original size:32 final size:32
Alignment explanation
Indices: 30018--30185 Score: 142
Period size: 32 Copynumber: 5.2 Consensus size: 32
30008 TTATTTTTGG
* * * *
30018 GTTCGGGTCATTTTGGGTTTGGGTCATTTCAA
1 GTTCGGGTTATTTCGGGTTTGAGTCATTTCGA
* * * * *
30050 GTTCGAGTCACTTT-GGATTCGAGTTATTTCGA
1 GTTCGGGTTA-TTTCGGGTTTGAGTCATTTCGA
* *
30082 GTTCGGGTTATTTCAGGTTTGAGTCATTTCGG
1 GTTCGGGTTATTTCGGGTTTGAGTCATTTCGA
* * *
30114 GTTCGGGTCACTTT-GGATTCGAGTCATTTCGA
1 GTTCGGGTTA-TTTCGGGTTTGAGTCATTTCGA
* * * *
30146 GTTCGGGTTGTTTCGGGTTTTAGTCATTTTGG
1 GTTCGGGTTATTTCGGGTTTGAGTCATTTCGA
30178 GTTCGGGT
1 GTTCGGGT
30186 CAATCGAGTT
Statistics
Matches: 107, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
31 6 0.06
32 95 0.89
33 6 0.06
ACGTcount: A:0.12, C:0.14, G:0.31, T:0.43
Consensus pattern (32 bp):
GTTCGGGTTATTTCGGGTTTGAGTCATTTCGA
Found at i:30180 original size:64 final size:64
Alignment explanation
Indices: 30018--30187 Score: 232
Period size: 64 Copynumber: 2.7 Consensus size: 64
30008 TTATTTTTGG
* ** * ** * *
30018 GTTCGGGTCATTTTGGGTTTGGGTCATTTCAAGTTCGAGTCACTTTGGATTCGAGTTATTTCGA
1 GTTCGGGTTATTTCAGGTTTGAGTCATTTCGGGTTCGGGTCACTTTGGATTCGAGTCATTTCGA
30082 GTTCGGGTTATTTCAGGTTTGAGTCATTTCGGGTTCGGGTCACTTTGGATTCGAGTCATTTCGA
1 GTTCGGGTTATTTCAGGTTTGAGTCATTTCGGGTTCGGGTCACTTTGGATTCGAGTCATTTCGA
* * * *
30146 GTTCGGGTTGTTTCGGGTTTTAGTCATTTTGGGTTCGGGTCA
1 GTTCGGGTTATTTCAGGTTTGAGTCATTTCGGGTTCGGGTCA
30188 ATCGAGTTTA
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 94 1.00
ACGTcount: A:0.13, C:0.14, G:0.31, T:0.42
Consensus pattern (64 bp):
GTTCGGGTTATTTCAGGTTTGAGTCATTTCGGGTTCGGGTCACTTTGGATTCGAGTCATTTCGA
Found at i:31297 original size:16 final size:16
Alignment explanation
Indices: 31261--31337 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 16
31251 TTGGGTTTAA
31261 ATCATTTC-AGATTCAGG
1 ATCATTTCGAG-TTC-GG
*
31278 -TCATTTTGAGTTCGG
1 ATCATTTCGAGTTCGG
*
31293 ATCA-TTCTAGATTCGG
1 ATCATTTCGAG-TTCGG
* * *
31309 GTCATTTCGAATTCGA
1 ATCATTTCGAGTTCGG
31325 ATCATTTCGAGTT
1 ATCATTTCGAGTT
31338 TGAATCAGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
15 6 0.13
16 35 0.74
17 6 0.13
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (16 bp):
ATCATTTCGAGTTCGG
Found at i:31297 original size:32 final size:33
Alignment explanation
Indices: 31260--31332 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 33
31250 TTTGGGTTTA
* *
31260 AATCATTTC-AGATTCAGGTCATTTTGAGTTCG
1 AATCATTTCTAGATTCAGGTCATTTCGAATTCG
* *
31292 GATCA-TTCTAGATTCGGGTCATTTCGAATTCG
1 AATCATTTCTAGATTCAGGTCATTTCGAATTCG
31324 AATCATTTC
1 AATCATTTC
31333 GAGTTTGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 3 0.09
32 28 0.82
33 3 0.09
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (33 bp):
AATCATTTCTAGATTCAGGTCATTTCGAATTCG
Found at i:31342 original size:16 final size:16
Alignment explanation
Indices: 31310--31344 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31300 TAGATTCGGG
31310 TCATTTCGAATTCGAA
1 TCATTTCGAATTCGAA
* *
31326 TCATTTCGAGTTTGAA
1 TCATTTCGAATTCGAA
31342 TCA
1 TCA
31345 GTTCAGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (16 bp):
TCATTTCGAATTCGAA
Found at i:43543 original size:2 final size:2
Alignment explanation
Indices: 43536--43560 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43526 TTGTTCAGGG
43536 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
43561 GAAGGTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44525 original size:28 final size:28
Alignment explanation
Indices: 44494--44560 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
44484 GAAAATGTCA
44494 AAAAATATATAGCAAA-TTATTAATA-TGT
1 AAAAATATATA-CAAATTTA-TAATACTGT
* *
44522 AAAAATTTATACAAATTTATAATACTTT
1 AAAAATATATACAAATTTATAATACTGT
*
44550 AAATATATATA
1 AAAAATATATA
44561 AAAAAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (28 bp):
AAAAATATATACAAATTTATAATACTGT
Found at i:44577 original size:18 final size:19
Alignment explanation
Indices: 44551--44596 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
44541 TAATACTTTA
44551 AATAT-ATATAA-AAAAAT
1 AATATAATATAAGAAAAAT
44568 AATATAATATAAGAAAAAT
1 AATATAATATAAGAAAAAT
44587 AAT-TAATATA
1 AATATAATATA
44597 TAGCACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.19
18 13 0.48
19 9 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AATATAATATAAGAAAAAT
Found at i:44598 original size:20 final size:17
Alignment explanation
Indices: 44551--44589 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
44541 TAATACTTTA
44551 AATATATATAAAAAAAT
1 AATATATATAAAAAAAT
44568 AATATAATATAAGAAAAAT
1 AATAT-ATATAA-AAAAAT
44587 AAT
1 AAT
44590 TAATATATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AATATATATAAAAAAAT
Found at i:45978 original size:18 final size:17
Alignment explanation
Indices: 45946--45992 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 17
45936 ATTAAAGTAT
45946 AATTTATTTTTTAAATA
1 AATTTATTTTTTAAATA
45963 AATTT-TTTTATT---TA
1 AATTTATTTT-TTAAATA
45977 AATTTATTTTTTAAAT
1 AATTTATTTTTTAAAT
45993 TTAATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
14 9 0.36
15 4 0.16
16 4 0.16
17 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTATTTTTTAAATA
Found at i:45988 original size:32 final size:32
Alignment explanation
Indices: 45946--46028 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
45936 ATTAAAGTAT
*
45946 AATTTATTTTTTAAA-TAAATTTTTTTATTTA
1 AATTTATTTTTTAAATTAAATATTTTTATTTA
*
45977 AATTTATTTTTTAAATTTAATATTTTTATTTA
1 AATTTATTTTTTAAATTAAATATTTTTATTTA
46009 AA---ATTTTTTAATATTAAATA
1 AATTTATTTTTTAA-ATTAAATA
46029 AACTTTTGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
29 9 0.19
30 7 0.15
31 15 0.32
32 16 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
AATTTATTTTTTAAATTAAATATTTTTATTTA
Found at i:45989 original size:13 final size:14
Alignment explanation
Indices: 45961--45995 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
45951 ATTTTTTAAA
*
45961 TAAATTTTTTTATT
1 TAAATTTATTTATT
45975 TAAATTTATTT-TT
1 TAAATTTATTTATT
45988 TAAATTTA
1 TAAATTTA
45996 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAAATTTATTTATT
Found at i:49923 original size:23 final size:22
Alignment explanation
Indices: 49892--49950 Score: 79
Period size: 23 Copynumber: 2.8 Consensus size: 22
49882 AATTTAATTT
49892 ATTTTTATTTATATAATATATTA
1 ATTTTTATTTATATAATATA-TA
*
49915 TTTTTTATTTATAT--TATATA
1 ATTTTTATTTATATAATATATA
49935 ATTTTTA-TTATATAAT
1 ATTTTTATTTATATAAT
49951 GAATAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 6 0.19
20 8 0.25
21 5 0.16
23 13 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTTATTTATATAATATATA
Found at i:49941 original size:16 final size:14
Alignment explanation
Indices: 49892--49950 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
49882 AATTTAATTT
49892 ATTTTTATTTATATA
1 ATTTTTA-TTATATA
* * *
49907 ATATATTATT-TTTT
1 AT-TTTTATTATATA
*
49921 ATTTATATTATATA
1 ATTTTTATTATATA
49935 ATTTTTATTATATA
1 ATTTTTATTATATA
49949 AT
1 AT
49951 GAATAAATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
13 5 0.15
14 21 0.62
15 4 0.12
16 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTTATTATATA
Found at i:49956 original size:21 final size:21
Alignment explanation
Indices: 49892--49950 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
49882 AATTTAATTT
49892 ATTTTTATTTATATAATATATTA
1 ATTTTTA-TTATATAATATA-TA
* *
49915 TTTTTTATT-TATATTATATA
1 ATTTTTATTATATAATATATA
49935 ATTTTTATTATATAAT
1 ATTTTTATTATATAAT
49951 GAATAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 10 0.32
21 13 0.42
22 2 0.06
23 6 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTATTATATAATATATA
Found at i:50071 original size:23 final size:22
Alignment explanation
Indices: 50013--50076 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 22
50003 TTTTTATCTT
*
50013 AAAATTTAATAAAAATAAATTAT
1 AAAATTTAA-AAAAATAAATTAA
* * *
50036 TAAATTATTAAAAATTAAATTTAA
1 AAAATT-TAAAAAAATAAA-TTAA
50060 AAAATTTAAAAATAATA
1 AAAATTTAAAAA-AATA
50077 TAAATGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
23 18 0.58
24 13 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTTAAAAAAATAAATTAA
Found at i:50650 original size:21 final size:17
Alignment explanation
Indices: 50595--50639 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
50585 TAACACACTT
* *
50595 ATTTATTATATATCTAA
1 ATTTATTAAATATTTAA
50612 ATTTATTAAATATTTAA
1 ATTTATTAAATATTTAA
50629 ATTTATTAAAT
1 ATTTATTAAAT
50640 TAATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATTAAATATTTAA
Found at i:51244 original size:31 final size:29
Alignment explanation
Indices: 51209--51288 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 29
51199 TATTTTATGA
*
51209 ATTTTTAATATAAATATAATTTTGAAATTTT
1 ATTTTTAATATAAATATAATTTT-AAA-CTT
* * **
51240 ATTTTTCATATGAATATAATTTTTTACTT
1 ATTTTTAATATAAATATAATTTTAAACTT
51269 ATTATTTAATATAAATATAA
1 ATT-TTTAATATAAATATAA
51289 ATATAATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 5 0.12
30 15 0.37
31 21 0.51
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (29 bp):
ATTTTTAATATAAATATAATTTTAAACTT
Found at i:51294 original size:36 final size:35
Alignment explanation
Indices: 51214--51347 Score: 111
Period size: 36 Copynumber: 4.0 Consensus size: 35
51204 TATGAATTTT
**
51214 TAATATAAATATAATTTTGAAATT-TTATTT--T-
1 TAATATAAATATAATTTTTTAATTATTATTTAATA
* * *
51245 TCATATGAATATAATTTTTTACTTATTATTTAATA
1 TAATATAAATATAATTTTTTAATTATTATTTAATA
* *
51280 TAAATATAAATATAATTTAATTAATTATT-TTAAATA
1 T-AATATAAATATAATTT-TTTAATTATTATTTAATA
* * *
51316 TAAT-TTAATATAA-TATTTAATTATAATTTAAT
1 TAATATAAATATAATTTTTTAATTATTATTTAAT
51348 GTAACTTATA
Statistics
Matches: 81, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
31 19 0.23
32 14 0.17
33 6 0.07
34 9 0.11
35 4 0.05
36 21 0.26
37 8 0.10
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (35 bp):
TAATATAAATATAATTTTTTAATTATTATTTAATA
Found at i:51309 original size:12 final size:11
Alignment explanation
Indices: 51262--51347 Score: 59
Period size: 11 Copynumber: 7.5 Consensus size: 11
51252 AATATAATTT
* *
51262 TTTACTTATTA
1 TTTAATTATAA
51273 TTTAA-TATAAA
1 TTTAATTAT-AA
* *
51284 TATAAATATAA
1 TTTAATTATAA
*
51295 TTTAATTAATTAT
1 TTTAATT-A-TAA
*
51308 TTTAAATATAA
1 TTTAATTATAA
51319 TTTAA-TATAATA
1 TTTAATTAT-A-A
51331 TTTAATTATAA
1 TTTAATTATAA
51342 TTTAAT
1 TTTAAT
51348 GTAACTTATA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
10 6 0.10
11 31 0.52
12 12 0.20
13 11 0.18
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAATTATAA
Found at i:51316 original size:24 final size:25
Alignment explanation
Indices: 51252--51356 Score: 98
Period size: 24 Copynumber: 4.4 Consensus size: 25
51242 TTTTCATATG
** *
51252 AATATAATT-TTTTACTTATTATTT
1 AATATAATTATTTTAAATATAATTT
*
51276 AATATAA--A-TATAAATATAATTT
1 AATATAATTATTTTAAATATAATTT
51298 AAT-TAATTATTTTAAATATAATTT
1 AATATAATTATTTTAAATATAATTT
*
51322 AATATAA-TA-TTTAATTATAATTT
1 AATATAATTATTTTAAATATAATTT
*
51345 AATGTAACTTAT
1 AATATAA-TTAT
51357 ATTTTTATTA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.05
22 13 0.20
23 20 0.30
24 25 0.38
25 5 0.08
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (25 bp):
AATATAATTATTTTAAATATAATTT
Found at i:51513 original size:24 final size:25
Alignment explanation
Indices: 51463--51516 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
51453 TTATTTTATC
*
51463 ATAATTAAATTTTAATATATATTTT
1 ATAATTAAATTTTAATATATATATT
*
51488 ATAATT-AATTTTAATCT-TATCATT
1 ATAATTAAATTTTAATATATAT-ATT
51512 ATAAT
1 ATAAT
51517 ACTTAACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 3 0.12
24 17 0.65
25 6 0.23
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
ATAATTAAATTTTAATATATATATT
Found at i:52004 original size:20 final size:20
Alignment explanation
Indices: 51967--52006 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51957 ATAATTAAAT
*
51967 TTAAATAAAATATTATTTTA
1 TTAAATAAAATATAATTTTA
51987 TTAAAT-AAATAATAATTTTA
1 TTAAATAAAAT-ATAATTTTA
52007 ACTTGGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAATAAAATATAATTTTA
Found at i:54783 original size:155 final size:154
Alignment explanation
Indices: 54624--55052 Score: 385
Period size: 154 Copynumber: 2.8 Consensus size: 154
54614 GGTTCTAGAG
* *
54624 AAATTACTAAAACACCCTTAGGGTATACCTTT-GATATGAAAGTGCCTTAGTAACCTTAAAGGAC
1 AAATTACTAAAATACCCTTAGGGTATA-CTTTCGATGTGAAAGT-CCTTAGTAACCTTAAAGGAC
*
54688 ATAAAAATGATAAGTAAAAGGATGAACCTATCATAAATGATACCTTTGGCATAAAA-CAACCTAG
64 ATAAAAATGATAAGTAAAAGGACGAACCTATCATAAATGATACCTTTGGCATAAAAGCAACCTAG
* * *
54752 TGATTA-ATGGGGCCTAATTTTTAGAAA
129 TGATTACAT-AGGACTAATTTTAAG-AA
* * * * * * * * *
54779 AAATTA-TCAAAATGCCTTTAAGGTATACTTTCGACGTAAAACTATCC-AAGTAACCCTAAAGAA
1 AAATTACT-AAAATACCCTTAGGGTATACTTTCGATGTGAAA--GTCCTTAGTAACCTTAAAGGA
* * * * *
54842 CATGAAAATGAT-A-TAAAAGGACAAACCTATTCCAAAAAT-ATGCCTTTGGCATAAAAGCAACT
63 CATAAAAATGATAAGTAAAAGGACGAACCTA-T-CATAAATGATACCTTTGGCATAAAAGCAACC
* * **
54904 TGGTGATTACCTAGGACTCGTTTTAAGAA
126 TAGTGATTACATAGGACTAATTTTAAGAA
* ** *
54933 AAATTACTAAAATACCCTTAGGGTTTACTTTCGATGTGAAAGTATTCTCGTAACCTTAAA-GAGC
1 AAATTACTAAAATACCCTTAGGGTATACTTTCGATGTGAAAGTCCT-TAGTAACCTTAAAGGA-C
* * *
54997 ATAAAAATGATAAGT--AAGGACGAACCTATCCTAAAAGCATACTTTTTGGCATAAAA
64 ATAAAAATGATAAGTAAAAGGACGAACCTATCATAAATG-ATAC-CTTTGGCATAAAA
55053 ATGACCCAAT
Statistics
Matches: 213, Mismatches: 44, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
152 5 0.02
153 16 0.08
154 94 0.44
155 93 0.44
156 4 0.02
157 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (154 bp):
AAATTACTAAAATACCCTTAGGGTATACTTTCGATGTGAAAGTCCTTAGTAACCTTAAAGGACAT
AAAAATGATAAGTAAAAGGACGAACCTATCATAAATGATACCTTTGGCATAAAAGCAACCTAGTG
ATTACATAGGACTAATTTTAAGAA
Found at i:56825 original size:11 final size:12
Alignment explanation
Indices: 56809--56839 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
56799 TAAGAGATCA
56809 AAAATTAAAA-T
1 AAAATTAAAATT
56820 AAAATTAAAATT
1 AAAATTAAAATT
56832 AAAATTAA
1 AAAATTAA
56840 TAATCATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:56828 original size:6 final size:6
Alignment explanation
Indices: 56809--56839 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
56799 TAAGAGATCA
56809 AAAATT AAAA-T AAAATT AAAATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AA
56840 TAATCATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:58740 original size:30 final size:29
Alignment explanation
Indices: 58668--58740 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
58658 AGGAGGGAAA
*
58668 CTAAGTCAAAAAGGGTTGACTAGGATGAT
1 CTAAGTCAAAAAGGGTTGACTAGGATGAC
* *
58697 TTAATTCAAAAAGGGTTGACTAGG-TAGAAC
1 CTAAGTCAAAAAGGGTTGACTAGGAT-G-AC
*
58727 CTAAGTAAAAAAGG
1 CTAAGTCAAAAAGG
58741 ATATTGATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 1 0.03
29 23 0.64
30 12 0.33
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (29 bp):
CTAAGTCAAAAAGGGTTGACTAGGATGAC
Found at i:58960 original size:33 final size:33
Alignment explanation
Indices: 58922--59002 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 33
58912 TAACTAAAGG
* **
58922 TGACCAAGGTGAAACCTAAGTTAAAAAGGGTGT
1 TGACCAAGGTGAAACCTAAGTCAAAAAAAGTGT
****
58955 TGACCAATACAAAACCTAAGTCAAAAAAAGTGT
1 TGACCAAGGTGAAACCTAAGTCAAAAAAAGTGT
*
58988 TAACCAAGGTGAAAC
1 TGACCAAGGTGAAAC
59003 TGATAAAGTC
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.19
Consensus pattern (33 bp):
TGACCAAGGTGAAACCTAAGTCAAAAAAAGTGT
Found at i:59079 original size:41 final size:41
Alignment explanation
Indices: 59034--59153 Score: 186
Period size: 41 Copynumber: 2.9 Consensus size: 41
59024 CTAATAGACC
* * * *
59034 GAGACAAAATCGATAAGTCAACAGATAAAAAGAGGTTGATT
1 GAGACAAAATCGACAAGTCAATAGATGAAAAGGGGTTGATT
59075 GAGACAAAATCGACAAGTCAATAGATGAAAAGGGGTTGATT
1 GAGACAAAATCGACAAGTCAATAGATGAAAAGGGGTTGATT
* *
59116 GAGACAAAATCAACAAATCAATAGATGAAAAGGGGTTG
1 GAGACAAAATCGACAAGTCAATAGATGAAAAGGGGTTG
59154 TAACATTTGA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.47, C:0.10, G:0.24, T:0.18
Consensus pattern (41 bp):
GAGACAAAATCGACAAGTCAATAGATGAAAAGGGGTTGATT
Found at i:59579 original size:12 final size:12
Alignment explanation
Indices: 59562--59586 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59552 AAGAACCTGA
59562 TTGGGAAACATG
1 TTGGGAAACATG
59574 TTGGGAAACATG
1 TTGGGAAACATG
59586 T
1 T
59587 AGTTTCCACA
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:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (12 bp):
TTGGGAAACATG
Found at i:60151 original size:48 final size:48
Alignment explanation
Indices: 60059--60154 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
60049 AACAGCTGAA
*
60059 ACAAATTGATAAAAAGCTGAAGGAAAAGAACATGATATAGAATATGTG
1 ACAAATTGATAAAAAGCTGAAGGAAAAGAACATGATAGAGAATATGTG
* * *
60107 ACAAATTGATAATAGGCTGAAGGAAGAGAACATGATAG-GAAATATGTG
1 ACAAATTGATAAAAAGCTGAAGGAAAAGAACATGATAGAG-AATATGTG
60155 GTATCTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.02
48 42 0.98
ACGTcount: A:0.49, C:0.06, G:0.24, T:0.21
Consensus pattern (48 bp):
ACAAATTGATAAAAAGCTGAAGGAAAAGAACATGATAGAGAATATGTG
Found at i:60216 original size:75 final size:76
Alignment explanation
Indices: 60137--60498 Score: 335
Period size: 76 Copynumber: 4.8 Consensus size: 76
60127 AGGAAGAGAA
* * * *
60137 CATGATAGGAAATATGTGGTATCTAAAATTT-TTATCGACAGCCAAAACAAA-AGATAACAAGCT
1 CATGATAGGAAATATGTGGT-TCTACAATTTCTCATCAACAGCCAAAACAAACTGATAACAAGCT
* *
60200 GAAGTGGAAGAT
65 AAAGTAGAAGAT
* * * * * *
60212 CATGATGGGGAATATGTGGTTCTACAATTT-TCGATCAACAACCAAAACAAACTTATAATAAGTT
1 CATGATAGGAAATATGTGGTTCTACAATTTCTC-ATCAACAGCCAAAACAAACTGATAACAAGCT
*
60276 GAAGTAGATA-A-
65 AAAGTAGA-AGAT
* * * *
60287 CATGATAGGGAATATCTGGTTTTTACAATTTCCCATCAACAGCCAAAACAAACTGATAACAAGCT
1 CATGATAGGAAATATGTGG-TTCTACAATTTCTCATCAACAGCCAAAACAAACTGATAACAAGCT
60352 AAAGTAGAAGAT
65 AAAGTAGAAGAT
* * * * *
60364 CATAAT-GCGAAATATGTAGTTCTATAATTTCTCATCAACAGCCAAAGCAAACT-ACTAATAAGC
1 CATGATAG-GAAATATGTGGTTCTACAATTTCTCATCAACAGCCAAAACAAACTGA-TAACAAGC
* *
60427 TAAAGTAAAAGAA
64 TAAAGTAGAAGAT
* * ** *
60440 CATGATA-GAGAATATGTGGTTTCTACAATTTCCCATCAATAGTTAAAACAATCTGATAA
1 CATGATAGGA-AATATGTGG-TTCTACAATTTCTCATCAACAGCCAAAACAAACTGATAA
60499 GAGTAATGAT
Statistics
Matches: 234, Mismatches: 40, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
74 10 0.04
75 55 0.24
76 123 0.53
77 45 0.19
78 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (76 bp):
CATGATAGGAAATATGTGGTTCTACAATTTCTCATCAACAGCCAAAACAAACTGATAACAAGCTA
AAGTAGAAGAT
Found at i:60228 original size:123 final size:123
Alignment explanation
Indices: 60003--60229 Score: 278
Period size: 124 Copynumber: 1.8 Consensus size: 123
59993 ATGGCCTAAA
* * * * ** *
60003 AAGGAAAGAACATGATGGGGAATATATGGTTTCTGAAATTTTCATCAACAGCTGAAACAAATTGA
1 AAGGAAAGAACATGATAGGAAATATATGGTATCTAAAATTTTCATCAACAGCCAAAACAAATAGA
*
60068 TAAAAAGCTGAAGGAAAAGAACATGATATAGAATATGTGACAAATTGATAATAGGCTG
66 TAAAAAGCTGAAGGAAAAGAACATGATAGAGAATATGTGACAAATTGATAATAGGCTG
* * *
60126 AAGGAAGAGAACATGATAGGAAATATGTGGTATCTAAAATTTTTATCGACAGCCAAAACAAA-AG
1 AAGGAA-AGAACATGATAGGAAATATATGGTATCTAAAATTTTCATCAACAGCCAAAACAAATAG
* * * * *
60190 ATAACAAGCTGAAGTG-GAAGATCATGATGGGGAATATGTG
65 ATAAAAAGCTGAAG-GAAAAGAACATGATAGAGAATATGTG
60230 GTTCTACAAT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
123 39 0.45
124 47 0.55
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (123 bp):
AAGGAAAGAACATGATAGGAAATATATGGTATCTAAAATTTTCATCAACAGCCAAAACAAATAGA
TAAAAAGCTGAAGGAAAAGAACATGATAGAGAATATGTGACAAATTGATAATAGGCTG
Found at i:60386 original size:152 final size:153
Alignment explanation
Indices: 60133--60498 Score: 420
Period size: 152 Copynumber: 2.4 Consensus size: 153
60123 CTGAAGGAAG
* * * ** * *
60133 AGAACATGATAG-GAAATATGTGGTATCTAAAATTT-TTATCGACAGCCAAAACAAA-AGATAAC
1 AGAACATGATAGAG-AATATCTGGTTTCTACAATTTCCCATCAACAGCCAAAACAAACTGATAAC
* * * * * *
60195 AAGCTGAAGTGGAAGATCATGATGGGGAATATGTGGTTCTACAATTT-TCGATCAACAACCAAAA
65 AAGCTAAAGTAGAAGATCATAATGCGAAATATGTAGTTCTACAATTTCTC-ATCAACAACCAAAA
* * *
60259 CAAACTTA-TAATAAGTTGAAGT-AG
129 CAAAC-TACTAATAAGCTAAAGTAAA
* * *
60283 ATAACATGATAGGGAATATCTGGTTTTTACAATTTCCCATCAACAGCCAAAACAAACTGATAACA
1 AGAACATGATAGAGAATATCTGGTTTCTACAATTTCCCATCAACAGCCAAAACAAACTGATAACA
* * *
60348 AGCTAAAGTAGAAGATCATAATGCGAAATATGTAGTTCTATAATTTCTCATCAACAGCCAAAGCA
66 AGCTAAAGTAGAAGATCATAATGCGAAATATGTAGTTCTACAATTTCTCATCAACAACCAAAACA
60413 AACTACTAATAAGCTAAAGTAAA
131 AACTACTAATAAGCTAAAGTAAA
* * ** *
60436 AGAACATGATAGAGAATATGTGGTTTCTACAATTTCCCATCAATAGTTAAAACAATCTGATAA
1 AGAACATGATAGAGAATATCTGGTTTCTACAATTTCCCATCAACAGCCAAAACAAACTGATAA
60499 GAGTAATGAT
Statistics
Matches: 181, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
150 28 0.15
151 20 0.11
152 75 0.41
153 58 0.32
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (153 bp):
AGAACATGATAGAGAATATCTGGTTTCTACAATTTCCCATCAACAGCCAAAACAAACTGATAACA
AGCTAAAGTAGAAGATCATAATGCGAAATATGTAGTTCTACAATTTCTCATCAACAACCAAAACA
AACTACTAATAAGCTAAAGTAAA
Found at i:63678 original size:13 final size:13
Alignment explanation
Indices: 63660--63684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63650 CAAAGATCAG
63660 TGTATCGATACAA
1 TGTATCGATACAA
63673 TGTATCGATACA
1 TGTATCGATACA
63685 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:63762 original size:33 final size:33
Alignment explanation
Indices: 63725--63791 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
63715 AGTAGCTTAA
63725 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
63758 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
63791 A
1 A
63792 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:63765 original size:13 final size:13
Alignment explanation
Indices: 63747--63771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63737 CAAAAAAATA
63747 TGTATCGATACAT
1 TGTATCGATACAT
63760 TGTATCGATACA
1 TGTATCGATACA
63772 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:64705 original size:52 final size:51
Alignment explanation
Indices: 64643--64832 Score: 218
Period size: 52 Copynumber: 3.8 Consensus size: 51
64633 GTTAAAGATG
* * *
64643 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGGATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGG-TGACA
*
64695 AAGGCGCCAATATGCTGATTCACGGCCAGCGATATTGGACTT---G-G---
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGGTGACA
* * * *
64739 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-ACCA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGGTGA-CA
64790 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
64833 GAAGAAGATG
Statistics
Matches: 115, Mismatches: 13, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
43 36 0.31
47 2 0.02
49 1 0.01
51 1 0.01
52 75 0.65
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (51 bp):
AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGGTGACA
Found at i:64807 original size:95 final size:95
Alignment explanation
Indices: 64644--64831 Score: 308
Period size: 95 Copynumber: 2.0 Consensus size: 95
64634 TTAAAGATGA
*
64644 AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGGATGACAAAGGCGCCAATATG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCGCCAATATG
*
64709 CTGATTCACGGCCAGCGATATTGGACTTGG
66 CTGATTCAAGGCCAGCGATATTGGACTTGG
* *
64739 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGG-T-ACCAAAGGCGCCAATA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATAGGACTT-AAGGATGA-CAAAGGCGCCAATA
64802 TGCTGATTCAAGGCCAGCGATATTGGACTT
64 TGCTGATTCAAGGCCAGCGATATTGGACTT
64832 AGAAGAAGAT
Statistics
Matches: 87, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
94 1 0.01
95 82 0.94
96 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (95 bp):
AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTTGG
Found at i:64919 original size:28 final size:28
Alignment explanation
Indices: 64854--64945 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
64844 CACCAACTTG
*
64854 TGTGGGCTTTTAAAAGGATTG-CA-TCAACT
1 TGTGGGCTTTT-AAA-GATTGCCACT-GACT
* *
64883 TGTGTGCTTTTGAATG-TTGCCACTGACT
1 TGTGGGCTTTT-AAAGATTGCCACTGACT
64911 TGTGGGCTTTTAAAGATTGCCACTGACT
1 TGTGGGCTTTTAAAGATTGCCACTGACT
64939 TGTGGGC
1 TGTGGGC
64946 GCTGGACCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 6 0.11
28 35 0.65
29 13 0.24
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.37
Consensus pattern (28 bp):
TGTGGGCTTTTAAAGATTGCCACTGACT
Found at i:65113 original size:1 final size:1
Alignment explanation
Indices: 65107--65156 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
65097 ACAACCAAAC
* ** * *
65107 AAAAAAAGAAAAAAACCAAAAAAAAAACAAAAAAAACAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
65157 CAAACAACAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:65121 original size:9 final size:9
Alignment explanation
Indices: 65103--65163 Score: 65
Period size: 9 Copynumber: 6.7 Consensus size: 9
65093 CTCCACAACC
65103 AAACAAAAA
1 AAACAAAAA
65112 AAGA-AAAAA
1 AA-ACAAAAA
65121 ACCAA-AAAAA
1 A--AACAAAAA
65131 AAACAAAAA
1 AAACAAAAA
65140 AAACAAAAA
1 AAACAAAAA
65149 AAA-AAAAA
1 AAACAAAAA
65157 CAAACAA
1 -AAACAA
65164 CAACAACAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.15
9 28 0.61
10 10 0.22
11 1 0.02
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (9 bp):
AAACAAAAA
Found at i:65123 original size:21 final size:19
Alignment explanation
Indices: 65099--65161 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
65089 CGTCCTCCAC
65099 AACCAAACAAAAAAAGAAAAA
1 AACCAAA-AAAAAAA-AAAAA
65120 AACCAAAAAAAAAACAAAAA
1 AACCAAAAAAAAAA-AAAAA
* *
65140 AAACAAAAAAAAAAAAACA
1 AACCAAAAAAAAAAAAAAA
65159 AAC
1 AAC
65162 AACAACAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.16
20 25 0.66
21 7 0.18
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (19 bp):
AACCAAAAAAAAAAAAAAA
Found at i:65132 original size:20 final size:20
Alignment explanation
Indices: 65099--65153 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
65089 CGTCCTCCAC
*
65099 AACCAAACAAAAAAAGAAAAA
1 AACCAAA-AAAAAAACAAAAA
65120 AACCAAAAAAAAAACAAAAA
1 AACCAAAAAAAAAACAAAAA
*
65140 AAACAAAAAAAAAA
1 AACCAAAAAAAAAA
65154 AAACAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 25 0.78
21 7 0.22
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (20 bp):
AACCAAAAAAAAAACAAAAA
Found at i:65165 original size:3 final size:3
Alignment explanation
Indices: 65159--65187 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
65149 AAAAAAAACA
65159 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
65188 AAGGGTCCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:66639 original size:29 final size:29
Alignment explanation
Indices: 66603--66822 Score: 177
Period size: 29 Copynumber: 7.7 Consensus size: 29
66593 TTCAAAAGCC
66603 CAAGTCAGTGGCATCTTTTTCAAAGCCCA
1 CAAGTCAGTGGCATCTTTTTCAAAGCCCA
*
66632 CAAGTCAGTGGCA-CCTTTTCGAAAGCCCA
1 CAAGTCAGTGGCATCTTTTTC-AAAGCCCA
** * *
66661 CAA-TTGGTGGCAAC--CTTC-AAGCCCA
1 CAAGTCAGTGGCATCTTTTTCAAAGCCCA
* * *
66686 TAA-TCAGTGGCACCCTTTTTCGAAGCCCA
1 CAAGTCAGTGGCA-TCTTTTTCAAAGCCCA
*
66715 CAAGTCGGTGGCATCTTTTTCAAAGCCCA
1 CAAGTCAGTGGCATCTTTTTCAAAGCCCA
* * * *
66744 CAAATCCGTGGCACCCTTTTTCGAAGCCCA
1 CAAGTCAGTGGCA-TCTTTTTCAAAGCCCA
* * * *
66774 CAAGTC-GGGGC-TCTCTTTCCAAGTCCA
1 CAAGTCAGTGGCATCTTTTTCAAAGCCCA
* *
66801 CAACTCCGTGGCACTCTTTTTC
1 CAAGTCAGTGGCA-TCTTTTTC
66823 TTTTGTAAGC
Statistics
Matches: 154, Mismatches: 26, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
25 16 0.10
26 1 0.01
27 20 0.13
28 20 0.13
29 63 0.41
30 34 0.22
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.26
Consensus pattern (29 bp):
CAAGTCAGTGGCATCTTTTTCAAAGCCCA
Found at i:66923 original size:31 final size:30
Alignment explanation
Indices: 66863--66960 Score: 137
Period size: 31 Copynumber: 3.3 Consensus size: 30
66853 TTTTCCTTTT
66863 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
* *
66893 AATCCCACAAGTTAGTGGCATCTCTTTTCAA
1 AAGCCCACAAGTTAGTGGCA-CCCTTTTCAA
* *
66924 AAGCCCATAAGTTAGTGGCAACC-TTT-AA
1 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
66952 AAGCCCACA
1 AAGCCCACA
66961 CATTCCACAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
28 10 0.17
29 3 0.05
30 20 0.33
31 27 0.45
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (30 bp):
AAGCCCACAAGTTAGTGGCACCCTTTTCAA
Done.