Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 20 of 325
Found at i:4735737 original size:78 final size:76
Alignment explanation
Indices: 4735593--4735752 Score: 275
Period size: 78 Copynumber: 2.1 Consensus size: 76
4735583 CATGAAATTC
*
4735593 TTATCATGAAACATTTACCTAACTCATTATCATGACATTTACCTAACCCATTATCATGGAACATT
1 TTATCATGAAACATTTACCTAACCCATTATCATGACATTTACCTAACCCATTATCATGGAACATT
4735658 TACCTAACCTA
66 TACCTAACCTA
* *
4735669 TTATCATGAAGCATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCAT-G-ACATTTACCTAACCCATTATCATGGAACA
4735734 TTTACCTAACCTA
64 TTTACCTAACCTA
4735747 TTATCA
1 TTATCA
4735753 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 31 0.39
77 1 0.01
78 47 0.59
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (76 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGACATTTACCTAACCCATTATCATGGAACATT
TACCTAACCTA
Found at i:4740318 original size:18 final size:17
Alignment explanation
Indices: 4740281--4740318 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4740271 TGAACTATTC
*
4740281 ATTTTATATAATTGTTT
1 ATTTTATATAATTGTAT
4740298 ATTTTATATAATTTGTAT
1 ATTTTATATAA-TTGTAT
4740316 ATT
1 ATT
4740319 ACAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
ATTTTATATAATTGTAT
Found at i:4750165 original size:2 final size:2
Alignment explanation
Indices: 4750158--4750183 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4750148 ACAATAAATT
4750158 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4750184 CGTGGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4750364 original size:10 final size:10
Alignment explanation
Indices: 4750349--4750389 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
4750339 ATGTACTTTA
4750349 TAAAAAATAT
1 TAAAAAATAT
4750359 TAAAAAA-AT
1 TAAAAAATAT
4750368 TATAAAAAT-T
1 TA-AAAAATAT
4750378 TAAAAAAATAT
1 T-AAAAAATAT
4750389 T
1 T
4750390 TGTGTTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 4 0.15
10 20 0.74
11 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:4750380 original size:19 final size:21
Alignment explanation
Indices: 4750346--4750386 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
4750336 AAAATGTACT
4750346 TTATAAAAAATATTAAAAAAA
1 TTATAAAAAATATTAAAAAAA
4750367 TTAT-AAAAAT-TTAAAAAAA
1 TTATAAAAAATATTAAAAAAA
4750386 T
1 T
4750387 ATTTGTGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 6 0.30
21 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TTATAAAAAATATTAAAAAAA
Found at i:4751485 original size:159 final size:161
Alignment explanation
Indices: 4751219--4751596 Score: 602
Period size: 159 Copynumber: 2.3 Consensus size: 161
4751209 TTTAAAAGGA
* * *
4751219 ACAAATATTTTAATTAATATTTAAAATTTTTAAAAAATAAAATT-AAACACATCTCATTTTCTTG
1 ACAAATATTCTAATTAATATTTAAAA--ATTAAAAAATAAAATTAAAACACATCTCATTTTCTTC
* *
4751283 GAGGAATTTAAAACCCGACAAATATTCTAATTAATATTTAAAAAAT-TAAAA-AAAATTAAAGCA
64 GAGGAATTTAAAACCCGACAAATATTCTAATTAATATTTAAAAAATAAAAAATAAAATTAAAACA
4751346 CATCTCA-TTTTTTTCAAGGAATTTAAAACCTG
129 CATCTCATTTTTTTTCAAGGAATTTAAAACCTG
* *
4751378 ACAAATATTCTAATTAATATTTAAAAAATAAAAAATTAAAATTAAAACACATCTCATTTTTTTCG
1 ACAAATATTCTAATTAATATTTAAAAATTAAAAAA-TAAAATTAAAACACATCTCATTTTCTTCG
*
4751443 AGGAATTTAAAACCTGACAAATATTCTAATTAATATTTAAAAAATAAAAAATTAAAATTAAAACA
65 AGGAATTTAAAACCCGACAAATATTCTAATTAATATTTAAAAAATAAAAAA-TAAAATTAAAACA
*
4751508 CATCTCATTTTTTTTCGAGGAATTTAAAACCTG
129 CATCTCATTTTTTTTCAAGGAATTTAAAACCTG
4751541 ACAAATATTCTAATTAATATTTAAAAATTTAAAAAATAAAATTAAAACACATCTCA
1 ACAAATATTCTAATTAATATTTAAAAA-TTAAAAAATAAAATTAAAACACATCTCA
4751597 GCTTTGGGAG
Statistics
Matches: 202, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
157 7 0.03
158 7 0.03
159 88 0.44
160 4 0.02
162 18 0.09
163 71 0.35
164 7 0.03
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.35
Consensus pattern (161 bp):
ACAAATATTCTAATTAATATTTAAAAATTAAAAAATAAAATTAAAACACATCTCATTTTCTTCGA
GGAATTTAAAACCCGACAAATATTCTAATTAATATTTAAAAAATAAAAAATAAAATTAAAACACA
TCTCATTTTTTTTCAAGGAATTTAAAACCTG
Found at i:4751537 original size:82 final size:80
Alignment explanation
Indices: 4751219--4751596 Score: 591
Period size: 81 Copynumber: 4.7 Consensus size: 80
4751209 TTTAAAAGGA
* ** * *
4751219 ACAAATATTTTAATTAATATTTAAAATTTTTAAAAAATAAAATT-AAACACATCTCATTTTCTTG
1 ACAAATATTCTAATTAATATTTAAAA--AATAAAAAATAAAATTAAAACACATCTCATTTTTTTC
*
4751283 GAGGAATTTAAAACCCG
64 GAGGAATTTAAAACCTG
* * *
4751300 ACAAATATTCTAATTAATATTTAAAAAAT-TAAAA-AAAATTAAAGCACATCTCATTTTTTTCAA
1 ACAAATATTCTAATTAATATTTAAAAAATAAAAAATAAAATTAAAACACATCTCATTTTTTTCGA
4751363 GGAATTTAAAACCTG
66 GGAATTTAAAACCTG
4751378 ACAAATATTCTAATTAATATTTAAAAAATAAAAAATTAAAATTAAAACACATCTCATTTTTTTCG
1 ACAAATATTCTAATTAATATTTAAAAAATAAAAAA-TAAAATTAAAACACATCTCATTTTTTTCG
4751443 AGGAATTTAAAACCTG
65 AGGAATTTAAAACCTG
4751459 ACAAATATTCTAATTAATATTTAAAAAATAAAAAATTAAAATTAAAACACATCTCATTTTTTTTC
1 ACAAATATTCTAATTAATATTTAAAAAATAAAAAA-TAAAATTAAAACACATCTCA-TTTTTTTC
4751524 GAGGAATTTAAAACCTG
64 GAGGAATTTAAAACCTG
*
4751541 ACAAATATTCTAATTAATATTTAAAAATTTAAAAAATAAAATTAAAACACATCTCA
1 ACAAATATTCTAATTAATATTTAAAAA-ATAAAAAATAAAATTAAAACACATCTCA
4751597 GCTTTGGGAG
Statistics
Matches: 278, Mismatches: 13, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
77 6 0.02
78 65 0.23
79 5 0.02
81 123 0.44
82 72 0.26
83 7 0.03
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.35
Consensus pattern (80 bp):
ACAAATATTCTAATTAATATTTAAAAAATAAAAAATAAAATTAAAACACATCTCATTTTTTTCGA
GGAATTTAAAACCTG
Found at i:4763751 original size:23 final size:24
Alignment explanation
Indices: 4763707--4763756 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
4763697 TTGCAGTTTC
*
4763707 AAATATTAATCTATATATATTT-T
1 AAATATTAATCTATATAGATTTAT
4763730 AAATATTAAT-TATAATAGATTTAT
1 AAATATTAATCTAT-ATAGATTTAT
4763754 AAA
1 AAA
4763757 AAAATGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 3 0.12
23 17 0.71
24 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
AAATATTAATCTATATAGATTTAT
Found at i:4765909 original size:2 final size:2
Alignment explanation
Indices: 4765904--4765931 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4765894 CATAAAAAAG
4765904 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
4765932 TATTGGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4774063 original size:96 final size:96
Alignment explanation
Indices: 4773863--4774055 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
4773853 TTTAATAGAG
*
4773863 AAGGTAAAATGCAATCCAACTCTTAATACAGAGGCCTTCAAATTACTTTTACCTCTATTAAATCG
1 AAGGTAAAATGCAATCCAACTCTTAATACAGAGGCCTCCAAATTACTTTTACCTCTATTAAATCG
4773928 TATCATGATTGATACTATTGTTATTGTAAAT
66 TATCATGATTGATACTATTGTTATTGTAAAT
4773959 AAGGTAAAATGCAATCCAACTCTTAATACAGAGGCCTCCAAATTACTTTTACCTCTATTAAATCG
1 AAGGTAAAATGCAATCCAACTCTTAATACAGAGGCCTCCAAATTACTTTTACCTCTATTAAATCG
4774024 TATCATGATTGATACTATTGTTATTGTAAAT
66 TATCATGATTGATACTATTGTTATTGTAAAT
4774055 A
1 A
4774056 TTTTAAAAGA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (96 bp):
AAGGTAAAATGCAATCCAACTCTTAATACAGAGGCCTCCAAATTACTTTTACCTCTATTAAATCG
TATCATGATTGATACTATTGTTATTGTAAAT
Found at i:4777280 original size:15 final size:16
Alignment explanation
Indices: 4777253--4777282 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4777243 TTTAGCACAA
4777253 AAAATGAATAAAAATC
1 AAAATGAATAAAAATC
4777269 AAAATG-ATAAAAAT
1 AAAATGAATAAAAAT
4777283 ATGTAAACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (16 bp):
AAAATGAATAAAAATC
Found at i:4778542 original size:32 final size:32
Alignment explanation
Indices: 4778493--4778554 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
4778483 TATATAAACT
4778493 ATATTTTAAATAATTAAATA-TAAC-CATTAA
1 ATATTTTAAATAATTAAATATTAACACATTAA
*
4778523 ATATTTGTAATTAGATTAAATATTAACACATT
1 ATATTT-TAAATA-ATTAAATATTAACACATT
4778555 TTTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 6 0.22
31 5 0.19
32 8 0.30
33 4 0.15
34 4 0.15
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (32 bp):
ATATTTTAAATAATTAAATATTAACACATTAA
Found at i:4782236 original size:29 final size:30
Alignment explanation
Indices: 4782179--4782246 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
4782169 CACCCTTAAA
* * * *
4782179 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
*
4782209 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTC
4782238 AGTATTTAC
1 A-TATTTAC
4782247 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:4782782 original size:17 final size:17
Alignment explanation
Indices: 4782760--4782795 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
4782750 TAAATAGCTA
4782760 ACCCAAGCCCATTTTAG
1 ACCCAAGCCCATTTTAG
4782777 ACCCAAGCCCATTTTAG
1 ACCCAAGCCCATTTTAG
4782794 AC
1 AC
4782796 TGACTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.36, G:0.11, T:0.22
Consensus pattern (17 bp):
ACCCAAGCCCATTTTAG
Found at i:4782846 original size:23 final size:21
Alignment explanation
Indices: 4782820--4782866 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
4782810 TTTAAAAAAA
4782820 TTTAAAGTATATATTTATATTAT
1 TTTAAAGTA-ATATTTA-ATTAT
*
4782843 TTT-AATTAATATTTAATTAT
1 TTTAAAGTAATATTTAATTAT
4782863 TTTA
1 TTTA
4782867 TATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 8 0.36
21 7 0.32
22 4 0.18
23 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTAAAGTAATATTTAATTAT
Found at i:4790316 original size:71 final size:71
Alignment explanation
Indices: 4790200--4790342 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
4790190 AACTAAGTTA
4790200 GCACGATTACATGATGAAATTAAATTATTTTAGAAAGCAAATATTTTAGATTGTTTGTTTCTAAT
1 GCACGATTACATGATGAAATTAAATTATTTTAGAAAGCAAATATTTTAGATTGTTTGTTTCTAAT
4790265 AGGTTT
66 AGGTTT
*
4790271 GCACGATTACATGATGAAATTAAATTATTTTAGAAATCAAATATTTTAGATTGTTTGTTTCTAAT
1 GCACGATTACATGATGAAATTAAATTATTTTAGAAAGCAAATATTTTAGATTGTTTGTTTCTAAT
4790336 AGGTTT
66 AGGTTT
4790342 G
1 G
4790343 TCCAAATTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (71 bp):
GCACGATTACATGATGAAATTAAATTATTTTAGAAAGCAAATATTTTAGATTGTTTGTTTCTAAT
AGGTTT
Found at i:4790317 original size:16 final size:17
Alignment explanation
Indices: 4790286--4790320 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4790276 ATTACATGAT
*
4790286 GAAATTAAATTATTTTA
1 GAAATCAAATTATTTTA
4790303 GAAATCAAA-TATTTTA
1 GAAATCAAATTATTTTA
4790319 GA
1 GA
4790321 TTGTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (17 bp):
GAAATCAAATTATTTTA
Found at i:4792234 original size:19 final size:18
Alignment explanation
Indices: 4792199--4792239 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4792189 TTGTTAATTC
4792199 ACTTTTGTCCATTTTTTT
1 ACTTTTGTCCATTTTTTT
*
4792217 ACTTTT-TCTCATTATTTT
1 ACTTTTGTC-CATTTTTTT
4792235 A-TTTT
1 ACTTTT
4792240 AGTCTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.68
Consensus pattern (18 bp):
ACTTTTGTCCATTTTTTT
Found at i:4792318 original size:3 final size:3
Alignment explanation
Indices: 4792310--4792343 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
4792300 ATTAGCATGG
*
4792310 TAT TAT TAT TAT TAT TAT TAT TACT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
4792344 ATACATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4792340 original size:28 final size:28
Alignment explanation
Indices: 4792283--4792343 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
4792273 TACTGCTATC
*
4792283 ATTATTATATTTTATTTATTAGCATGGT
1 ATTATTATATTTTATTTATTAGCATAGT
*
4792311 ATTATTATTATTATTA-TTATTA-CTTAGT
1 ATTATTA-TATT-TTATTTATTAGCATAGT
4792339 ATTAT
1 ATTAT
4792344 ATACATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 16 0.55
29 10 0.34
30 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (28 bp):
ATTATTATATTTTATTTATTAGCATAGT
Found at i:4792399 original size:18 final size:19
Alignment explanation
Indices: 4792363--4792400 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4792353 TATCATATAG
*
4792363 TATTATTAATTTGTTTTAA
1 TATTATTAATTTGTGTTAA
*
4792382 TATTATTATTTTG-GTTAA
1 TATTATTAATTTGTGTTAA
4792400 T
1 T
4792401 GTATTTGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (19 bp):
TATTATTAATTTGTGTTAA
Found at i:4794317 original size:24 final size:23
Alignment explanation
Indices: 4794290--4794369 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
4794280 TATGTATTTG
4794290 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
* *
4794314 TTATTATTATAGTTTTATATTAAA
1 TTATTA-AATAGTATTATATTAAA
* *
4794338 TTATTAAATTATTATTATTATTATTA
1 TTATTAAA-TAGTATTA-TATTA-AA
4794364 TTATTA
1 TTATTA
4794370 TTATTATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 1 0.02
24 23 0.51
25 14 0.31
26 7 0.16
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:4794319 original size:3 final size:3
Alignment explanation
Indices: 4794305--4794387 Score: 95
Period size: 3 Copynumber: 29.0 Consensus size: 3
4794295 AAATAGATAT
* * *
4794305 TTA TTA TAA TTA TTA TTA -TA GTT- TTA -TA TTA -AA TTA TTA -AA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
4794346 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4794388 AAATAAATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
2 8 0.12
3 59 0.87
4 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4794520 original size:3 final size:3
Alignment explanation
Indices: 4794512--4794563 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
4794502 ATGAATTAAA
* *
4794512 TAT TAT TAT T-T TA- TAT TAT TAT TAT AAT GTAT TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
4794556 TAT TAT TA
1 TAT TAT TA
4794564 ACTAATATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4794529 original size:13 final size:13
Alignment explanation
Indices: 4794511--4794562 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
4794501 TATGAATTAA
4794511 ATATTATTATTTT
1 ATATTATTATTTT
*
4794524 ATATTATTATTAT
1 ATATTATTATTTT
4794537 A-ATGTATTATTATT
1 ATAT-TATTATT-TT
*
4794551 ATTAATATTATT
1 A-TATTATTATT
4794563 AACTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 2 0.06
13 20 0.62
14 2 0.06
15 7 0.22
16 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
ATATTATTATTTT
Found at i:4798442 original size:22 final size:21
Alignment explanation
Indices: 4798398--4798442 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4798388 ACACGAACAC
* *
4798398 TTACAAGTATATTCCATCCAA
1 TTACAAGTATATTCAAGCCAA
*
4798419 TTACAAGTATAATTCAAGCTAA
1 TTACAAGTAT-ATTCAAGCCAA
4798441 TT
1 TT
4798443 TTTATCTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (21 bp):
TTACAAGTATATTCAAGCCAA
Found at i:4805903 original size:15 final size:15
Alignment explanation
Indices: 4805883--4805916 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4805873 AGGGTCAAGG
*
4805883 TTTAAGGTCTAAAGT
1 TTTAAGGTCCAAAGT
*
4805898 TTTAAGGTCCAAGGT
1 TTTAAGGTCCAAAGT
4805913 TTTA
1 TTTA
4805917 GGGTAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (15 bp):
TTTAAGGTCCAAAGT
Found at i:4805972 original size:14 final size:14
Alignment explanation
Indices: 4805934--4805972 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
4805924 GAATCCAATG
*
4805934 TTTAAGGTCTAAGA
1 TTTAAGGTTTAAGA
4805948 TTT-AGGATTTAAGA
1 TTTAAGG-TTTAAGA
4805962 TTTAAGGTTTA
1 TTTAAGGTTTA
4805973 TTCTCAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 16 0.73
15 3 0.14
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.44
Consensus pattern (14 bp):
TTTAAGGTTTAAGA
Found at i:4808785 original size:45 final size:45
Alignment explanation
Indices: 4808730--4808822 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
4808720 TGAGAGTAAG
* *
4808730 AACAATTAACTCTAGGTTGATTAATTGAAATATCTTTCTGATTAA
1 AACAACTAACTCTAGGTTGATTAATTGAAATATCTTTCTAATTAA
*
4808775 AACAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAA
1 AACAACTAACTCTAGGTTGATTAATTGAAATATCTTTCTAATTAA
4808820 AAC
1 AAC
4808823 CCCTATCGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (45 bp):
AACAACTAACTCTAGGTTGATTAATTGAAATATCTTTCTAATTAA
Found at i:4811558 original size:29 final size:30
Alignment explanation
Indices: 4811516--4811574 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
4811506 TTTAGTTTAA
*
4811516 TGTACAATTTTATATAAG-AATTTTGATTT
1 TGTACAATTTTATACAAGAAATTTTGATTT
* *
4811545 TGTATAATTTTATACATGAAATTTTGATTT
1 TGTACAATTTTATACAAGAAATTTTGATTT
4811575 GATCAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (30 bp):
TGTACAATTTTATACAAGAAATTTTGATTT
Found at i:4811874 original size:22 final size:23
Alignment explanation
Indices: 4811841--4811903 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
4811831 TACATTTTAA
*
4811841 ATAATAAAAATAGAAATA-AATAT
1 ATAA-AAAAATAAAAATATAATAT
*
4811864 ATAAAAAAATAAAAATATAATCT
1 ATAAAAAAATAAAAATATAATAT
* *
4811887 AGAAAAAATATACAAAT
1 ATAAAAAA-ATAAAAAT
4811904 CATACAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.35
23 15 0.44
24 7 0.21
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (23 bp):
ATAAAAAAATAAAAATATAATAT
Found at i:4812012 original size:23 final size:22
Alignment explanation
Indices: 4811982--4812048 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
4811972 CAAAAAAATG
4811982 TAAAAAGTTGTAAAAAATATTTT
1 TAAAAAGTT-TAAAAAATATTTT
4812005 TAAAAAGTTTAAAAACA-ATTTT
1 TAAAAAGTTTAAAAA-ATATTTT
*
4812027 TATAAAA-TTCTAAAAAGTATTT
1 TA-AAAAGTT-TAAAAAATATTT
4812049 AAATTTCAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
22 15 0.38
23 24 0.62
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (22 bp):
TAAAAAGTTTAAAAAATATTTT
Found at i:4812114 original size:19 final size:18
Alignment explanation
Indices: 4812100--4812151 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
4812090 ATTTTTTAAC
4812100 TTTTATAATAATTTTCAA
1 TTTTATAATAATTTTCAA
* *
4812118 TTTTTATATATTATTTTGAA
1 -TTTTATA-ATAATTTTCAA
*
4812138 TTTTATAAAAATTT
1 TTTTATAATAATTT
4812152 ATAATTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 5 0.18
19 14 0.50
20 9 0.32
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTATAATAATTTTCAA
Found at i:4812133 original size:20 final size:19
Alignment explanation
Indices: 4812083--4812141 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
4812073 TTACTTGAAA
* *
4812083 TTTAAATATT-TTTTAACT
1 TTTATATATTATTTTAATT
*
4812101 TTTATA-ATAATTTTCAATT
1 TTTATATATTATTTT-AATT
4812120 TTTATATATTATTTTGAATT
1 TTTATATATTATTTT-AATT
4812140 TT
1 TT
4812142 ATAAAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 2 0.06
18 9 0.27
19 9 0.27
20 13 0.39
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATATATTATTTTAATT
Found at i:4812168 original size:33 final size:35
Alignment explanation
Indices: 4812121--4812205 Score: 111
Period size: 33 Copynumber: 2.5 Consensus size: 35
4812111 TTTTCAATTT
*
4812121 TTATATATTATTTTGAATTTTATAAAAATTTATAA
1 TTATATATTATTTTGAATTTTATAAAAAATTATAA
**
4812156 TTATATA-T-TTTTGAATTTTATAAAAAATTATTTT
1 TTATATATTATTTTGAATTTTATAAAAAATTA-TAA
*
4812190 TTATATATTATATTGA
1 TTATATATTATTTTGA
4812206 TTAATAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
33 21 0.49
34 9 0.21
35 8 0.19
36 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (35 bp):
TTATATATTATTTTGAATTTTATAAAAAATTATAA
Found at i:4818589 original size:18 final size:18
Alignment explanation
Indices: 4818566--4818600 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4818556 ATTCCATTCG
* *
4818566 AAACTCTGACTCTGTTGA
1 AAACTCTAACCCTGTTGA
4818584 AAACTCTAACCCTGTTG
1 AAACTCTAACCCTGTTG
4818601 GACAAGTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (18 bp):
AAACTCTAACCCTGTTGA
Found at i:4821336 original size:36 final size:36
Alignment explanation
Indices: 4821289--4821360 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
4821279 TAGAGTCAAG
4821289 GTCGAGCTATTAATTGAGCCAAATTCAAGTTTAGTC
1 GTCGAGCTATTAATTGAGCCAAATTCAAGTTTAGTC
4821325 GTCGAGCTATTAATTGAGCCAAATTCAAGTTTAGTC
1 GTCGAGCTATTAATTGAGCCAAATTCAAGTTTAGTC
4821361 ATACTCGACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (36 bp):
GTCGAGCTATTAATTGAGCCAAATTCAAGTTTAGTC
Found at i:4822131 original size:139 final size:139
Alignment explanation
Indices: 4821881--4822154 Score: 469
Period size: 139 Copynumber: 2.0 Consensus size: 139
4821871 AGCCTGTTGA
* * *
4821881 GCTGGTTCTGGGTTTCTGACGATTGAGAAAGAACTCTGAATAGTCATCACTTTTGCTTCTTTCTT
1 GCTGGTTCTGGATTTCTGACGAGTGAGAAAGAACTCTGAACAGTCATCACTTTTGCTTCTTTCTT
* *
4821946 TTTTTTCATTTTAAAGTCTAGGATTATTGGTATCAACTAGTAACATTTAGTCCTTGACTATTCTG
66 TTTTTTCATTTTAAAGTCTAGGATTATTGGTATCAAATAGTAACATTGAGTCCTTGACTATTCTG
4822011 AAAATTAGT
131 AAAATTAGT
* *
4822020 GCTGGTTCTGGATTTCTGACGAGTGAGAAGGAACTCTGAACAGTCATCACTTTTGCTTCTTTTTT
1 GCTGGTTCTGGATTTCTGACGAGTGAGAAAGAACTCTGAACAGTCATCACTTTTGCTTCTTTCTT
4822085 ATTTTTTCATTTT-AAGTCTAGGATTATTGGTATCAAATAGTAACATTGAGTCCTTGACTATTCT
66 -TTTTTTCATTTTAAAGTCTAGGATTATTGGTATCAAATAGTAACATTGAGTCCTTGACTATTCT
4822149 GAAAAT
130 GAAAAT
4822155 GAGTTTGGCT
Statistics
Matches: 127, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
139 115 0.91
140 12 0.09
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (139 bp):
GCTGGTTCTGGATTTCTGACGAGTGAGAAAGAACTCTGAACAGTCATCACTTTTGCTTCTTTCTT
TTTTTTCATTTTAAAGTCTAGGATTATTGGTATCAAATAGTAACATTGAGTCCTTGACTATTCTG
AAAATTAGT
Found at i:4836542 original size:31 final size:31
Alignment explanation
Indices: 4836506--4836565 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4836496 AATTAACAAC
* * *
4836506 TTGGTGACTTACATAAAATTTTTTGAATAGT
1 TTGGTGACTTAAATAAAAGTTTTCGAATAGT
*
4836537 TTGGTGACTTAAATGAAAGTTTTCGAATA
1 TTGGTGACTTAAATAAAAGTTTTCGAATA
4836566 CTTCAATGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (31 bp):
TTGGTGACTTAAATAAAAGTTTTCGAATAGT
Found at i:4838285 original size:17 final size:18
Alignment explanation
Indices: 4838253--4838286 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4838243 ATAACCCTAT
*
4838253 TGTAAGCTTTTAAATTTG
1 TGTAAGCTTGTAAATTTG
4838271 TGTAA-CTTGTAAATTT
1 TGTAAGCTTGTAAATTT
4838287 ATTAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (18 bp):
TGTAAGCTTGTAAATTTG
Found at i:4839055 original size:28 final size:28
Alignment explanation
Indices: 4838996--4839055 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
4838986 ATCCAAATTG
* * * * **
4838996 CAAAATTTATGAAAGCTTTTGTGATTGG
1 CAAAACTTATAAAAGCTTTTGAGACTAA
4839024 CAAAACTTATAAAAGCTTTTGAGACTAA
1 CAAAACTTATAAAAGCTTTTGAGACTAA
4839052 CAAA
1 CAAA
4839056 CTACTATGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (28 bp):
CAAAACTTATAAAAGCTTTTGAGACTAA
Found at i:4858428 original size:62 final size:63
Alignment explanation
Indices: 4858333--4858469 Score: 165
Period size: 62 Copynumber: 2.2 Consensus size: 63
4858323 TTGCACACTC
* * ** * *
4858333 ATGATCAAAAAA-GAAAAAAAAATATATAGTTGAGTGATTATTTTATAACTTTTTATAGTTTAG
1 ATGACCAAAAAAGGAAAAAAAAACATATAGTTGAGTGACCATTTTAAAACTTTTCATAG-TTAG
*
4858396 -TGACCAAAAAAGGAAAATAAAAACATA-A-TTGAGTGACCATTTTAAAACTTTTCATAGTTGG
1 ATGACCAAAAAAGGAAAA-AAAAACATATAGTTGAGTGACCATTTTAAAACTTTTCATAGTTAG
4858457 ATGACCAAAAAAG
1 ATGACCAAAAAAG
4858470 AAGAGTGACT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
61 3 0.05
62 47 0.73
63 6 0.09
64 8 0.12
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (63 bp):
ATGACCAAAAAAGGAAAAAAAAACATATAGTTGAGTGACCATTTTAAAACTTTTCATAGTTAG
Found at i:4861934 original size:126 final size:126
Alignment explanation
Indices: 4861708--4861952 Score: 411
Period size: 126 Copynumber: 1.9 Consensus size: 126
4861698 GTTTTAGCTT
*
4861708 TAAGAGGATATTCGAATATTCAAAATAAAAAAAAGAAAGCGAAACCCAGTACGTTAGGGTACGAT
1 TAAGAGGATATTCGAATATTC-AAATAAAAAAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAT
* * *
4861773 TCTTCGAATTCTTTAACTACCAAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
65 TCTTCAAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
*
4861835 TAAGAGGATATTCGAATATTC-AATACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAT
1 TAAGAGGATATTCGAATATTCAAATA-AAAAAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAT
*
4861899 TCTTCAAATTCTTTAAATACCAAACATTGTCTTTATTTTGAAAAATTTTGAGAG
65 TCTTCAAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAG
4861953 AAGATCAATG
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
125 4 0.04
126 86 0.77
127 21 0.19
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAATAAAAAAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCAAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:4862085 original size:13 final size:12
Alignment explanation
Indices: 4862053--4862102 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
4862043 AACCATATAT
4862053 AAATAA-TAA-A
1 AAATAATTAATA
4862063 AAATAA-TAATA
1 AAATAATTAATA
*
4862074 ATAGTAATTAATA
1 A-AATAATTAATA
4862087 GAAATAATTAATA
1 -AAATAATTAATA
4862100 AAA
1 AAA
4862103 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:4862428 original size:11 final size:11
Alignment explanation
Indices: 4862412--4862445 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
4862402 ATATATTTAC
*
4862412 ATAATAAATAT
1 ATAATAAATAA
4862423 ATAATAAATAA
1 ATAATAAATAA
4862434 ATAATATAATAA
1 ATAATA-AATAA
4862446 TATGAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAATAAATAA
Found at i:4862442 original size:16 final size:15
Alignment explanation
Indices: 4862414--4862445 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
4862404 ATATTTACAT
4862414 AATAAATATATAATA
1 AATAAATATATAATA
4862429 AATAAATAATATAATA
1 AATAAAT-ATATAATA
4862445 A
1 A
4862446 TATGAAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAAATATATAATA
Found at i:4862499 original size:63 final size:63
Alignment explanation
Indices: 4862423--4862555 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 63
4862413 TAATAAATAT
* * * *
4862423 ATAATAAATAAA-TAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AAA
1 ATAATAAA-AAACAAATATAAAAATAATGAAA-ATAAAGCTCAAATTAACTAAATTAACAGTAAA
* *
4862483 ATAATAAAAAACAAATATAAAAATAATGAGAATAAAGCTCAAATTAACTAATTTAACAGTAAA
1 ATAATAAAAAACAAATATAAAAATAATGAAAATAAAGCTCAAATTAACTAAATTAACAGTAAA
*
4862546 ATAACAAAAA
1 ATAATAAAAA
4862556 TAAAAAAGGG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
59 3 0.05
60 20 0.33
61 7 0.11
62 19 0.31
63 12 0.20
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.26
Consensus pattern (63 bp):
ATAATAAAAAACAAATATAAAAATAATGAAAATAAAGCTCAAATTAACTAAATTAACAGTAAA
Found at i:4862860 original size:18 final size:18
Alignment explanation
Indices: 4862837--4862909 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
4862827 ATAACAAGTA
*
4862837 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
4862855 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
4862873 ATGGT-TTAGTAGGGT-GTGG
1 -GGGTGAT-GGA-GGTAGTGG
4862892 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
4862910 ATGGTTTAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
17 3 0.07
18 27 0.63
19 10 0.23
20 3 0.07
ACGTcount: A:0.16, C:0.00, G:0.56, T:0.27
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:4862888 original size:29 final size:30
Alignment explanation
Indices: 4862848--4862954 Score: 85
Period size: 37 Copynumber: 3.4 Consensus size: 30
4862838 GGTGATGGAG
*
4862848 TTAGTGGGGGTGATGGAGGTAGTGGATGGT
1 TTAGTAGGGGTGATGGAGGTAGTGGATGGT
4862878 TTAGTAGGGTGTGGGGGTGATGGAGGTAGTGGATGGT
1 TTAGTA-------GGGGTGATGGAGGTAGTGGATGGT
* *
4862915 TTAGTA-GGGTGATAGAGTTAGTGG-TCGGT
1 TTAGTAGGGGTGATGGAGGTAGTGGAT-GGT
*
4862944 TTAAT-GGGGTG
1 TTAGTAGGGGTG
4862955 TTTAATTTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
28 1 0.02
29 28 0.44
30 5 0.08
37 30 0.47
ACGTcount: A:0.18, C:0.01, G:0.50, T:0.32
Consensus pattern (30 bp):
TTAGTAGGGGTGATGGAGGTAGTGGATGGT
Found at i:4862901 original size:37 final size:37
Alignment explanation
Indices: 4862851--4862925 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
4862841 GATGGAGTTA
4862851 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
4862888 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
4862925 G
1 G
4862926 ATAGAGTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.55, T:0.29
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
Found at i:4863398 original size:133 final size:132
Alignment explanation
Indices: 4863170--4863779 Score: 704
Period size: 133 Copynumber: 4.7 Consensus size: 132
4863160 CTCCTGTAAC
* * * *
4863170 TTGATCTGCTTTACTCTTACTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGC
1 TTGATCTGCTTTACTCCTGCTCAGTGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCCTGC
*
4863235 TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATC
64 TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGATACATGGAGATAAGATTC-TC
4863300 AAAAT
128 AAAAT
* * * *
4863305 TTGATCTGCTTTGCTCCTGCTCAGCGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTGTTC
1 TTGATCTGCTTTACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTC
** * * * *
4863370 AGTGAAGATAAGGCT-AGTGGCTGAAATCTGCTCTATTGCCGATACATGGAGATAAGAATAAC-C
66 AGTGAAGATAAGGCTGA-TGATTGGAATCTGCTCCATCGCCGATACATGGAGATAAG-AT-TCTC
4863433 AAAAT
128 AAAAT
* *** *
4863438 TTGATCTACTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTC
1 TTGATCTGCTTTACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTC
** * * * *
4863503 AGTGAAGATAAATCTGATGATTGGAATCTGCTCCATCGCTGGTACGTAGAGATAAGATTCTCCAA
66 AGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGATACATGGAGATAAGATTCT-CAA
4863568 AAT
130 AAT
* * * * *
4863571 TCGATCTGCTTCACTCATGTTCAGTTAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTC
1 TTGATCTGCTTTACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTC
* * * *
4863636 AGTGAAGATAAGGCTTATGATTGGAATCTGCTCCATCACCGGTACGT-G-G---AG----TCAAA
66 AGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGATACATGGAGATAAGATTCTCAAA
4863692 AT
131 AT
* * * *
4863694 TCGATCTG-TTTCACTCTTGCTCAGTGAAGATAAGATCTGGTATTTAACCTGCTCCACTCCTGCT
1 TTGATCTGCTTT-ACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCT
*
4863758 CAGTGAAGATAAGGCTTATGAT
65 CAGTGAAGATAAGGCTGATGAT
4863780 ATCTGTAATC
Statistics
Matches: 419, Mismatches: 49, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
122 2 0.00
123 83 0.20
124 1 0.00
128 2 0.00
131 2 0.00
132 4 0.01
133 285 0.68
134 3 0.01
135 37 0.09
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (132 bp):
TTGATCTGCTTTACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTC
AGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGATACATGGAGATAAGATTCTCAAA
AT
Found at i:4863501 original size:43 final size:43
Alignment explanation
Indices: 4863446--4863647 Score: 146
Period size: 43 Copynumber: 4.6 Consensus size: 43
4863436 ATTTGATCTA
* *
4863446 CTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTG
1 CTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTG
* **
4863489 CTCCACTCCTGCTCAGTGAAGATAA-ATCT-GATGATTGGAATCTG
1 CTCCACTCCTGCTCAGTGAAGATAAGATCTAG-T-ATT-TAGCCTG
* * * * *
4863533 CTCCA-TCGCTGGT-ACGT-AGAGATAAGATTCTCCA-AAATTCGATCTG
1 CTCCACTC-CTGCTCA-GTGA-AGATAAGA-TCT--AGTATTTAG-CCTG
* * * *
4863579 CTTCACTCATGTTCAGTTAAGATAAGATCTAGTATTTAGCCTG
1 CTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTG
4863622 CTCCACTCCTGCTCAGTGAAGATAAG
1 CTCCACTCCTGCTCAGTGAAGATAAG
4863648 GCTTATGATT
Statistics
Matches: 121, Mismatches: 22, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 56 0.46
44 25 0.21
45 4 0.03
46 26 0.21
47 4 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (43 bp):
CTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTG
Found at i:4871525 original size:21 final size:21
Alignment explanation
Indices: 4871501--4871545 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
4871491 ACTGGCTTAT
*
4871501 CATGTTGT-TCTGGGATTCTAG
1 CATGTT-TCTCTGGGATTCCAG
4871522 CATGTTTCTCTGGGATTCCAG
1 CATGTTTCTCTGGGATTCCAG
4871543 CAT
1 CAT
4871546 CTGATCCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (21 bp):
CATGTTTCTCTGGGATTCCAG
Found at i:4874196 original size:46 final size:45
Alignment explanation
Indices: 4874129--4874303 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
4874119 TGTAACCCGC
4874129 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
4874175 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCTGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-G-GGCTTCGCAT
* *** * * * *
4874221 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* *
4874268 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
4874304 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.66
47 32 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:4874250 original size:93 final size:93
Alignment explanation
Indices: 4874137--4874308 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
4874127 GCCCATAAGT
* * *
4874137 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
4874202 CGAGCTCTGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
4874230 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
4874295 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
4874309 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:4876109 original size:126 final size:126
Alignment explanation
Indices: 4875884--4876127 Score: 443
Period size: 126 Copynumber: 1.9 Consensus size: 126
4875874 GTTTTAGCCT
* *
4875884 TAAGAGGATATTCGAATATTCAAAACAAATAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCAAATATTCAAAACAAAAAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
4875949 CTTCGAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
66 CTTCAAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
*
4876010 TAAGAGGATATTCAAATATTCAAGACAAAAAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCAAATATTCAAAACAAAAAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
4876075 CTTCAAATTCTTTAAATACCAAACATTGTCTTTATTTTGAAAAATTTTGAGAG
66 CTTCAAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAG
4876128 AAGATCAATG
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 113 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCAAATATTCAAAACAAAAAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCAAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:4876260 original size:13 final size:12
Alignment explanation
Indices: 4876228--4876277 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
4876218 AACCATATAT
4876228 AAATAA-TAA-A
1 AAATAATTAATA
4876238 AAATAA-TAATA
1 AAATAATTAATA
*
4876249 ATAGTAATTAATA
1 A-AATAATTAATA
4876262 GAAATAATTAATA
1 -AAATAATTAATA
4876275 AAA
1 AAA
4876278 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:4876626 original size:15 final size:16
Alignment explanation
Indices: 4876587--4876624 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
4876577 ATATATTTAC
*
4876587 ATAATAAATATATAAT
1 ATAATAAATAAATAAT
4876603 A-AATAAATAAATAAT
1 ATAATAAATAAATAAT
4876618 ATAATAA
1 ATAATAA
4876625 TATGAAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATAAATAAATAAT
Found at i:4877082 original size:37 final size:37
Alignment explanation
Indices: 4877032--4877106 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
4877022 GATAGAGTTA
*
4877032 GTGGGGGTAATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTAATGGAGGTAGTAGATGGTTTAGTAGGGT
*
4877069 GTGGGGGTGATGGAGGTAGTAGATGGTTTAGTAGGGT
1 GTGGGGGTAATGGAGGTAGTAGATGGTTTAGTAGGGT
4877106 G
1 G
4877107 ATAGAGTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.00, G:0.52, T:0.29
Consensus pattern (37 bp):
GTGGGGGTAATGGAGGTAGTAGATGGTTTAGTAGGGT
Found at i:4880773 original size:60 final size:60
Alignment explanation
Indices: 4880665--4880796 Score: 151
Period size: 60 Copynumber: 2.2 Consensus size: 60
4880655 CTGCAACACA
* ** * * *
4880665 GGTCAGCCAACTATT-GTCCTTTTCCTTTTTGGTCACCCAATTACCAATTTTTTTAATTT
1 GGTCACCCAACTATTACCCCTTTTCCTTTTTGGTCACCCAACTACCAATTTATTAAATTT
* * *
4880724 GGTTACCCAACTATTACCCCTTTT-CTCTTTTGGTCACCTAACTATCAATTTATTAAATTT
1 GGTCACCCAACTATTACCCCTTTTCCT-TTTTGGTCACCCAACTACCAATTTATTAAATTT
*
4880784 GGTCACTCAACTA
1 GGTCACCCAACTA
4880797 ATCGAGATTG
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 15 0.25
60 45 0.75
ACGTcount: A:0.23, C:0.25, G:0.09, T:0.42
Consensus pattern (60 bp):
GGTCACCCAACTATTACCCCTTTTCCTTTTTGGTCACCCAACTACCAATTTATTAAATTT
Found at i:4882663 original size:16 final size:17
Alignment explanation
Indices: 4882638--4882670 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4882628 AAAAAATAAA
4882638 ATTTTAAATAA-TTTTT
1 ATTTTAAATAAGTTTTT
*
4882654 ATTTTTAATAAGTTTTT
1 ATTTTAAATAAGTTTTT
4882671 TTAATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
ATTTTAAATAAGTTTTT
Found at i:4884068 original size:26 final size:26
Alignment explanation
Indices: 4884039--4884198 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
4884029 TGGTACAAAT
4884039 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4884065 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4884091 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4884117 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4884143 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4884169 TGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
4884195 TGAT
1 TGAT
4884199 GGGCATTTCA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 122 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4884104 original size:52 final size:52
Alignment explanation
Indices: 4884039--4884198 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
4884029 TGGTACAAAT
4884039 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
4884091 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
4884143 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
4884195 TGAT
1 TGAT
4884199 GGGCATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:4891129 original size:26 final size:26
Alignment explanation
Indices: 4891100--4891155 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
4891090 TGGTACAAAT
4891100 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4891126 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4891152 TGAT
1 TGAT
4891156 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4894182 original size:3 final size:3
Alignment explanation
Indices: 4894174--4894233 Score: 75
Period size: 3 Copynumber: 19.0 Consensus size: 3
4894164 TGATATTTAC
* *
4894174 TAT TAT TAT TAAT TAT AAT CTCT GTAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT
4894222 TAT TAT TAT TAT
1 TAT TAT TAT TAT
4894234 ATGTAGTAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
3 44 0.88
4 6 0.12
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4894189 original size:30 final size:27
Alignment explanation
Indices: 4894152--4894219 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 27
4894142 CAAATTACTC
*
4894152 ATTATTATTTTCTGATATTTACTATTATT
1 ATTATTATTCTCTG-TA-TTACTATTATT
*
4894181 ATTAATTATAATCTCTGTATTATTATTATT
1 ATT-ATTAT--TCTCTGTATTACTATTATT
4894211 ATTATTATT
1 ATTATTATT
4894220 ATTATTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
27 1 0.03
29 8 0.24
30 18 0.53
31 2 0.06
32 5 0.15
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (27 bp):
ATTATTATTCTCTGTATTACTATTATT
Found at i:4894443 original size:20 final size:21
Alignment explanation
Indices: 4894404--4894477 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
4894394 CTTTTAATAT
*
4894404 ATATATTATACTCTATATTACGC
1 ATATATTTTA-TC-ATATTACGC
**
4894427 ATAT-TTTTATCATATTATTC
1 ATATATTTTATCATATTACGC
* * * *
4894447 ATATATTTTATTATAGTATGT
1 ATATATTTTATCATATTACGC
4894468 ATATATTTTA
1 ATATATTTTA
4894478 ATAACTATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 11 0.26
21 24 0.56
22 4 0.09
23 4 0.09
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (21 bp):
ATATATTTTATCATATTACGC
Found at i:4894457 original size:21 final size:22
Alignment explanation
Indices: 4894426--4894477 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
4894416 CTATATTACG
*
4894426 CATAT-TTTTATCATATTAT-T
1 CATATATTTTATCATAGTATGT
*
4894446 CATATATTTTATTATAGTATGT
1 CATATATTTTATCATAGTATGT
4894468 -ATATATTTTA
1 CATATATTTTA
4894478 ATAACTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 5 0.18
21 22 0.79
22 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (22 bp):
CATATATTTTATCATAGTATGT
Found at i:4894873 original size:22 final size:21
Alignment explanation
Indices: 4894837--4894877 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
4894827 TTCTTAGTAC
4894837 ATATATTTTATTATACGTATAT
1 ATATATTTTATTATA-GTATAT
4894859 ATATATTTT-TATATAGTAT
1 ATATATTTTAT-TATAGTAT
4894878 TATTTTCGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
ATATATTTTATTATAGTATAT
Found at i:4895966 original size:26 final size:26
Alignment explanation
Indices: 4895929--4896012 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
4895919 TGATACAAAT
* *
4895929 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4895955 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4895981 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4896007 TGATAA
1 TGATAA
4896013 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:4902233 original size:7 final size:7
Alignment explanation
Indices: 4902217--4902273 Score: 71
Period size: 7 Copynumber: 8.0 Consensus size: 7
4902207 GAAAAATCTC
4902217 AAAA-AA
1 AAAAGAA
4902223 AAAAGAA
1 AAAAGAA
4902230 AAAAGAA
1 AAAAGAA
4902237 AAAAGAA
1 AAAAGAA
4902244 AAAAGAA
1 AAAAGAA
*
4902251 AAAGGAA
1 AAAAGAA
4902258 AGAAACGAA
1 A-AAA-GAA
*
4902267 AAGAGAA
1 AAAAGAA
4902274 GAGAGACTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
6 4 0.09
7 33 0.73
8 4 0.09
9 4 0.09
ACGTcount: A:0.81, C:0.02, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:4904964 original size:18 final size:17
Alignment explanation
Indices: 4904942--4904976 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4904932 AATAAATCAT
*
4904942 TAAAAAATTATAAAAAA
1 TAAAAAAATATAAAAAA
*
4904959 TAAAAAAATATTAAAAA
1 TAAAAAAATATAAAAAA
4904976 T
1 T
4904977 CAATTGAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAAATATAAAAAA
Found at i:4907467 original size:26 final size:26
Alignment explanation
Indices: 4907438--4907519 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
4907428 TGATACAAAT
4907438 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4907464 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4907490 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4907516 TGAT
1 TGAT
4907520 GGGAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4909031 original size:26 final size:26
Alignment explanation
Indices: 4909002--4909054 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
4908992 TTTACAGTTT
4909002 TACCCCTAGTAGATAAATT-ACCGAAA
1 TACCCCTAG-AGATAAATTGACCGAAA
* *
4909028 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
4909054 T
1 T
4909055 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:4914480 original size:9 final size:9
Alignment explanation
Indices: 4914466--4914499 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4914456 CCGAATTCAA
4914466 TGAAAGGAT
1 TGAAAGGAT
4914475 TGAAAGGAT
1 TGAAAGGAT
*
4914484 GGAAAGGAT
1 TGAAAGGAT
*
4914493 TCAAAGG
1 TGAAAGG
4914500 GAATTACAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.03, G:0.35, T:0.18
Consensus pattern (9 bp):
TGAAAGGAT
Found at i:4922734 original size:18 final size:18
Alignment explanation
Indices: 4922707--4922742 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4922697 CGCTGAGGTA
* *
4922707 TTTTCGATTTCTGTTTTT
1 TTTTCAATTTATGTTTTT
4922725 TTTTCAATTTATGTTTTT
1 TTTTCAATTTATGTTTTT
4922743 CAAAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.08, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTCAATTTATGTTTTT
Found at i:4922815 original size:93 final size:90
Alignment explanation
Indices: 4922641--4922817 Score: 266
Period size: 93 Copynumber: 1.9 Consensus size: 90
4922631 GATGTTTTTT
* *
4922641 ATTTATGTTTCAAAAAATCAACTCTTATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
1 ATTTATGTTTCAAAAAATCAACTCATATTCCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
* *
4922706 ATTTTCGATTTCTGTTTTTTTTTCA
66 ATTTTCAATTTATGTTTTTTTTTCA
*
4922731 ATTTATGTTTTTCAAAAAAATTAACTCATATTCCGAGAGGTGAGTTGAGCCTCAGGG-CACGCTG
1 ATTTATG--TTTC-AAAAAATCAACTCATATTCCGAGAGGTGAGTTGAGCCTC-GGGACACGCTG
4922795 AGGTATTTTCAATTTATGTTTTT
62 AGGTATTTTCAATTTATGTTTTT
4922818 CAAAAATCAA
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
90 7 0.09
92 4 0.05
93 64 0.82
94 3 0.04
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (90 bp):
ATTTATGTTTCAAAAAATCAACTCATATTCCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
ATTTTCAATTTATGTTTTTTTTTCA
Found at i:4922848 original size:73 final size:73
Alignment explanation
Indices: 4922725--4923034 Score: 426
Period size: 73 Copynumber: 4.2 Consensus size: 73
4922715 TTCTGTTTTT
* *
4922725 TTTTCAATTTATGTTTTTCAAAAAAATTAACTCATATTCCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTATGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
4922790 CGCTGAGGTA
64 CGCTGAGGTA
* **
4922800 TTTTCAATTTATGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGGCATA
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
4922865 CTGAGGTA
66 CTGAGGTA
* * *
4922873 TTTTCAACTTATGTTTTTCAAAAATCAA-TCATATTGCTAGAGGTGAATTGAGCCTC-GGGTCAC
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC
*
4922936 ATGCCGAGGTA
65 --GCTGAGGTA
*** *
4922947 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
4923012 CTGAGGTA
66 CTGAGGTA
* *
4923020 TGTTCAATTTTTGTT
1 TTTTCAATTTATGTT
4923035 CTTTAATTTA
Statistics
Matches: 208, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
71 3 0.01
72 27 0.13
73 97 0.47
74 31 0.15
75 48 0.23
76 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
CTGAGGTA
Found at i:4922993 original size:147 final size:147
Alignment explanation
Indices: 4922725--4923026 Score: 421
Period size: 147 Copynumber: 2.0 Consensus size: 147
4922715 TTCTGTTTTT
* * *
4922725 TTTTCAATTTATGTTTTTCAAAAAAATTAACTCATATTCCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAACTTATGTTTTTC-AAAAAATCAACTCATATTCCGAGAGGTGAATTGAGCCTCAGGGCA
* ***
4922790 CGCTGAGGTATTTTCAATTTATGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCC
65 CGCCGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCC
* *
4922855 TCAGGGCATACTGAGGTA
130 TCAGGACACACTGAGGTA
* *
4922873 TTTTCAACTTATGTTTTTC-AAAAATCAA-TCATATTGCTAGAGGTGAATTGAGCCTC-GGGTCA
1 TTTTCAACTTATGTTTTTCAAAAAATCAACTCATATTCCGAGAGGTGAATTGAGCCTCAGGG-CA
*
4922935 CATGCCGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
65 C--GCCGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAG
*
4923000 CCTCAGGACACGCTGAGGTA
128 CCTCAGGACACACTGAGGTA
*
4923020 TGTTCAA
1 TTTTCAA
4923027 TTTTTGTTCT
Statistics
Matches: 137, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
144 3 0.02
145 28 0.20
146 8 0.06
147 80 0.58
148 18 0.13
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (147 bp):
TTTTCAACTTATGTTTTTCAAAAAATCAACTCATATTCCGAGAGGTGAATTGAGCCTCAGGGCAC
GCCGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
CAGGACACACTGAGGTA
Found at i:4923211 original size:100 final size:100
Alignment explanation
Indices: 4923053--4923238 Score: 309
Period size: 100 Copynumber: 1.9 Consensus size: 100
4923043 TACTTTTCAA
* *
4923053 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGAGTCACATGCCGAGGTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGAGTCACATGCCGAGATATTTTCAAAA
* *
4923118 TCTATTTTTCGAATTCTGTTTAATTTCTACTCTTC
66 TCTATTTTGCAAATTCTGTTTAATTTCTACTCTTC
* *
4923153 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGATATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGAGTCACATGCCGAGATATTTTCAAAA
*
4923218 TCTGTTTTGCAAATTCTGTTT
66 TCTATTTTGCAAATTCTGTTT
4923239 TCAAAAATCA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (100 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGAGTCACATGCCGAGATATTTTCAAAA
TCTATTTTGCAAATTCTGTTTAATTTCTACTCTTC
Found at i:4923235 original size:14 final size:13
Alignment explanation
Indices: 4923209--4923244 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
4923199 TGCCGAGATA
4923209 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
4923222 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
4923236 TTTTCAAAA
1 TTTTCAAAA
4923245 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:4923282 original size:21 final size:21
Alignment explanation
Indices: 4923256--4923300 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
4923246 TCAACTCATA
4923256 TTGTGAGAGGTGAGTTGAGCC
1 TTGTGAGAGGTGAGTTGAGCC
4923277 TTGTGAGAGGTGAGTTGAGCC
1 TTGTGAGAGGTGAGTTGAGCC
4923298 TTG
1 TTG
4923301 GTTCACACGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.09, G:0.42, T:0.31
Consensus pattern (21 bp):
TTGTGAGAGGTGAGTTGAGCC
Found at i:4923681 original size:44 final size:44
Alignment explanation
Indices: 4923627--4923740 Score: 165
Period size: 44 Copynumber: 2.6 Consensus size: 44
4923617 ACACCAGATT
*
4923627 TTGTTTCCCTGAAGTTGCAGTGGAGCAGGCCAAAGTTACAAGTC
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGGCCAAAGTTACAAGTC
* * * *
4923671 TTGTCTCCCTGAAGTTGCAGCGGAGCAGGTCAAAGTTGCAAGTT
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGGCCAAAGTTACAAGTC
* *
4923715 TTGTCCCCCTGAAGTTACAGTGGAGC
1 TTGTCTCCCTGAAGTTGCAGTGGAGC
4923741 TGATCGAGGA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (44 bp):
TTGTCTCCCTGAAGTTGCAGTGGAGCAGGCCAAAGTTACAAGTC
Found at i:4925504 original size:12 final size:12
Alignment explanation
Indices: 4925442--4925507 Score: 89
Period size: 12 Copynumber: 5.5 Consensus size: 12
4925432 ATAATCTCTG
*
4925442 TATTATTATTAT
1 TATTATTGTTAT
4925454 TATTATTGTTAT
1 TATTATTGTTAT
*
4925466 TATTATTATTAT
1 TATTATTGTTAT
*
4925478 TATTATTATTAT
1 TATTATTGTTAT
4925490 TATTATTG-TATT
1 TATTATTGTTA-T
4925502 TATTAT
1 TATTAT
4925508 ATGTAGTAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
11 2 0.04
12 48 0.96
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (12 bp):
TATTATTGTTAT
Found at i:4925507 original size:3 final size:3
Alignment explanation
Indices: 4925442--4925496 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
4925432 ATAATCTCTG
*
4925442 TAT TAT TAT TAT TAT TAT TGT 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
4925490 TAT TAT T
1 TAT TAT T
4925497 GTATTTATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4925767 original size:21 final size:21
Alignment explanation
Indices: 4925741--4925787 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
4925731 ACGCATATTT
*
4925741 TTTTATCATATTAT-TCATATA
1 TTTTATCATAGTATGT-ATATA
*
4925762 TTTTATTATAGTATGTATATA
1 TTTTATCATAGTATGTATATA
4925783 TTTTA
1 TTTTA
4925788 ATAACTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTATCATAGTATGTATATA
Found at i:4925938 original size:29 final size:29
Alignment explanation
Indices: 4925870--4925939 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 29
4925860 GTATATCTAG
* * * *
4925870 TTATATTTTTATATATTTTGTTTTTACTA
1 TTATATATATATATATATTATTTTTACTA
4925899 TTATAAGTATATATATATATTATTTATTACTA
1 TTAT-A-TATATATATATATTATTT-TTACTA
4925931 TTAT-TATAT
1 TTATATATAT
4925940 TCATTATCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 9 0.26
30 1 0.03
31 14 0.41
32 10 0.29
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (29 bp):
TTATATATATATATATATTATTTTTACTA
Found at i:4926182 original size:22 final size:21
Alignment explanation
Indices: 4926146--4926186 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
4926136 ATCTTAGTAC
4926146 ATATATTTTATTATACGTATAT
1 ATATATTTTATTATA-GTATAT
4926168 ATATATTTT-TATATAGTAT
1 ATATATTTTAT-TATAGTAT
4926187 TATTTTCGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
ATATATTTTATTATAGTATAT
Found at i:4939552 original size:19 final size:19
Alignment explanation
Indices: 4939528--4939588 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
4939518 AATCTTTAAG
4939528 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4939547 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4939566 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
4939583 GATATG
1 GATATG
4939589 ATATGATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4940151 original size:25 final size:25
Alignment explanation
Indices: 4940123--4940171 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
4940113 GTGCATAGTT
4940123 TTATTT-TTTTATATGCTATGTTTAA
1 TTATTTCTTTTATATGCTAT-TTTAA
*
4940148 TTATTTCTTTTATGTGCTATTTTA
1 TTATTTCTTTTATATGCTATTTTA
4940172 TGATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.65
Consensus pattern (25 bp):
TTATTTCTTTTATATGCTATTTTAA
Found at i:4945748 original size:18 final size:18
Alignment explanation
Indices: 4945716--4945763 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
4945706 ACAATTAAAA
* *
4945716 TTTTAAAATTTTTATAAAT
1 TTTTAAAAATTATAT-AAT
*
4945735 TTATTAAAAATTATATTAT
1 TT-TTAAAAATTATATAAT
4945754 TTTTAAAAAT
1 TTTTAAAAAT
4945764 AAAAAGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 8 0.32
19 6 0.24
20 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTAAAAATTATATAAT
Found at i:4948171 original size:2 final size:2
Alignment explanation
Indices: 4948164--4948203 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4948154 CATGAAATAC
*
4948164 AT AT AT AT AC 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
4948204 GCCAAGCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4950244 original size:3 final size:3
Alignment explanation
Indices: 4950236--4950507 Score: 57
Period size: 3 Copynumber: 90.7 Consensus size: 3
4950226 ATTTGCCATT
**
4950236 TTA TTA TTA AAA TTGA TTAA TTA -TA TTTA TTTA TTAA TT- TTA TTA
1 TTA TTA TTA TTA TT-A TT-A TTA TTA T-TA T-TA TT-A TTA TTA TTA
* * * * * * * *
4950281 TTA TTG CTA TTA TTA TTA TCA TCA TTA TTT TTA TT- CTG TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
4950328 TTA TT- TCTC TTG TTG TT- TTCA TTA TTA TT- TATA TTA TTG TTA GTA
1 TTA TTA T-TA TTA TTA TTA TT-A TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * ** *
4950373 CTA TTA GTA CTCT- TTA GT- TTA TTA TTA TTA TTA CTA TT- TCG TCA
1 TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
4950417 TTA TTT TCTA TTA TTG TTA TTA ATA -TA CTA TTA TTA TTC TTA TTAA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* * * *
4950463 TGTA TTA CTA TTA TT- TTT TTA CT- TTA TTA TTA -TA TTA TTA CTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4950506 TT
1 TT
4950508 GCTATCATCA
Statistics
Matches: 197, Mismatches: 48, Indels: 48
0.67 0.16 0.16
Matches are distributed among these distances:
2 19 0.10
3 150 0.76
4 26 0.13
5 2 0.01
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4950459 original size:23 final size:23
Alignment explanation
Indices: 4950424--4950477 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
4950414 TCATTATTTT
*
4950424 CTATTATTGTTATTAATATACTA
1 CTATTATTCTTATTAATATACTA
* * *
4950447 TTATTATTCTTATTAATGTATTA
1 CTATTATTCTTATTAATATACTA
4950470 CTATTATT
1 CTATTATT
4950478 TTTTTACTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
CTATTATTCTTATTAATATACTA
Found at i:4950525 original size:3 final size:3
Alignment explanation
Indices: 4950266--4950507 Score: 58
Period size: 3 Copynumber: 81.7 Consensus size: 3
4950256 TTATATTTAT
* * * * *
4950266 TTA TTAA TT- TTA TTA TTA TTG CTA TTA TTA TTA TCA TCA TTA TTT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
4950311 TTA TT- CTG TTA TTG TTA TTA TT- TCTC TTG TTG TT- TTCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TTA
* * * * *
4950355 TT- TATA TTA TTG TTA GTA CTA TTA GTA CTCT- TTA GT- TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA
* ** * * * *
4950400 TTA TTA CTA TT- TCG TCA TTA TTT TCTA TTA TTG TTA TTA ATA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * * *
4950444 CTA TTA TTA TTC TTA TTAA TGTA TTA CTA TTA TT- TTT TTA CT- TTA
1 TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA TTA
*
4950489 TTA TTA -TA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TT
4950508 GCTATCATCA
Statistics
Matches: 175, Mismatches: 43, Indels: 42
0.67 0.17 0.16
Matches are distributed among these distances:
2 17 0.10
3 143 0.82
4 13 0.07
5 2 0.01
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4950594 original size:3 final size:3
Alignment explanation
Indices: 4950586--4950634 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
4950576 ATATATTTAC
** *
4950586 ATT ATT ATT GCT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4950634 A
1 A
4950635 GACATAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:4956162 original size:26 final size:26
Alignment explanation
Indices: 4956124--4956259 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
4956114 TGATACAAAT
*
4956124 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
4956150 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
4956176 TGATAATGGGTTAGATAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
**
4956202 TGATAATGTATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4956228 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4956254 TGATAA
1 TGATAA
4956260 GAATTTCATG
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 99 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:4957781 original size:25 final size:27
Alignment explanation
Indices: 4957738--4957790 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
4957728 TTTACAGTTT
*
4957738 TACCCTTAGGGGTTAAATT-ACCGAAA
1 TACCCCTAGGGGTTAAATTGACCGAAA
*
4957764 TACCCCTA-GGGTTAAATTGACCTAAA
1 TACCCCTAGGGGTTAAATTGACCGAAA
4957790 T
1 T
4957791 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (27 bp):
TACCCCTAGGGGTTAAATTGACCGAAA
Found at i:4962522 original size:61 final size:64
Alignment explanation
Indices: 4962446--4962570 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 64
4962436 CATATAATAA
4962446 CACATCTAGTTAGGAGCATTTGATTCATTTC-AT-A-A-CATCCTAATTATTTGACATAAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACAT-AAGCAT
* *
4962507 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
4962571 GGATACATGA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 30 0.52
62 2 0.03
63 1 0.02
64 7 0.12
65 18 0.31
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:4962765 original size:47 final size:47
Alignment explanation
Indices: 4962714--4962863 Score: 129
Period size: 47 Copynumber: 3.3 Consensus size: 47
4962704 TATCATGCGG
4962714 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
1 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
* * * * * *
4962761 GGAGCAGATC-----CA-AGATGATTTGG-TATCTC-TGCATCAGGCG-G
1 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTG-TTTA--CGTT
4962802 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
1 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
* * *
4962849 GAAGCAAATCCAAGA
1 GGAGCAGATCGAAGA
4962864 TGATTTGGCG
Statistics
Matches: 76, Mismatches: 15, Indels: 24
0.66 0.13 0.21
Matches are distributed among these distances:
39 2 0.03
40 6 0.08
41 20 0.26
42 4 0.05
46 4 0.05
47 32 0.42
48 6 0.08
49 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (47 bp):
GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
Found at i:4962829 original size:88 final size:88
Alignment explanation
Indices: 4962680--4962872 Score: 341
Period size: 88 Copynumber: 2.2 Consensus size: 88
4962670 AGCTGAAGAT
* *
4962680 ATCCAAGATGATTTGGCATCTCTGTATCATGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGCATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
* *
4962745 TTCACGTGTTTACGTTGGAGCAG
66 TTCACGTGTTTACGTTGAAGCAA
*
4962768 ATCCAAGATGATTTGGTATCTCTGCATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGCATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
4962833 TTCACGTGTTTACGTTGAAGCAA
66 TTCACGTGTTTACGTTGAAGCAA
4962856 ATCCAAGATGATTTGGC
1 ATCCAAGATGATTTGGC
4962873 GTTTCTATAG
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 99 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGCATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
TTCACGTGTTTACGTTGAAGCAA
Found at i:4963049 original size:44 final size:44
Alignment explanation
Indices: 4963001--4963176 Score: 169
Period size: 44 Copynumber: 4.0 Consensus size: 44
4962991 GATTTCAGCA
* * *
4963001 TGGCATCCTTGTGCTTAAAGGGAACAAGTTGAAAATAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATT
* * * *
4963045 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATT
* ** * * **
4963089 TGACATTACTGTGCTTACAGTGAAGC-AGATTGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAG-TTGAAGATAGCAG-ATT
*
4963133 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATT
4963177 GGACCCCCTA
Statistics
Matches: 101, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
42 1 0.01
43 12 0.12
44 76 0.75
45 11 0.11
46 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATT
Found at i:4963063 original size:132 final size:132
Alignment explanation
Indices: 4962906--4963176 Score: 434
Period size: 132 Copynumber: 2.1 Consensus size: 132
4962896 ATCGAAGATT
* * * *
4962906 GCAGATTTGGCATCCCTATGTTTATATGGAATAGATCGAAGATAGCAGATCTAACATTCCTGTGC
1 GCAGATTTGGCATCCCTATGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTACTGTGC
*
4962971 TTACAGTAAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTAAAGGGAACAAGTTGAAAA
66 TTACAGTAAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTAAAGGGAACAAGTTGAAAA
4963036 TA
131 TA
* *
4963038 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTACTGTGC
1 GCAGATTTGGCATCCCTATGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTACTGTGC
* * * * *
4963103 TTACAGTGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
66 TTACAGTAAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTAAAGGGAACAAGTTGAAAA
4963168 TA
131 TA
4963170 GCAGATT
1 GCAGATT
4963177 GGACCCCCTA
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 127 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTATGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTACTGTGC
TTACAGTAAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTAAAGGGAACAAGTTGAAAA
TA
Found at i:4963462 original size:87 final size:85
Alignment explanation
Indices: 4963179--4963846 Score: 780
Period size: 87 Copynumber: 7.8 Consensus size: 85
4963169 AGCAGATTGG
* * ** *
4963179 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTT-AACTCCTTAAGTAGTAGGGTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAAC-CCCTAAGTAGTAGGGTA
4963243 ACAGGCTAAATTTACAGATCTTA
65 ACAGG-T-AATTTACAGATCTTA
*
4963266 A-CCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGAACCTTAAACCCCTAAGTAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGTAGTAGGGTAA
* *
4963330 TAGG---TTTACAGCTCTTA
66 CAGGTAATTTACAGATCTTA
* * **
4963347 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTT-AACTCCCTAAGTAGTAGGGTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAAC-CCCTAAGTAGTAGGGTA
4963411 ACAGGCTAATTTCACAGATCTTA
65 ACAGG-TAATTT-ACAGATCTTA
* *
4963434 ACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGTAGTAGGGTAA
* *
4963499 TAGG---TTTACAGCTCTTA
66 CAGGTAATTTACAGATCTTA
* * *
4963516 ACCCCTTAAGCAATAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGTAGTAGGGTAA
*
4963581 CATGTGGAATTTACA-AGTCTTA
66 CA-G-GTAATTTACAGA-TCTTA
* * *
4963603 ACCCCCTAAGCAGTAGGGAATCAGATCAAAGGCGATGGACCTTAAACCCCTAAGTAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGTAGTAGGGTAA
*
4963668 CAGATGGAATTTACAGATCTTA
66 CAG--GTAATTTACAGATCTTA
* * * * * * *
4963690 GCCCTCTAAGTAGTAGGGAAATAGATCGAAGGCAATGAACCTTAAACCCCAAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGTAGTAGGGTAA
*
4963755 CATGCTGAATTTACAAGATCTTA
66 CA-GGT-AATTTAC-AGATCTTA
* * * * ** * *
4963778 ACCCACTAAGCAGTAGGGAAATAAATCGAAGGTGATGGGCCTTAAACCCCAAAGTAATAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGTAGTAGGGTAA
4963843 CAGG
66 CAGG
4963847 CTAAAAATTA
Statistics
Matches: 504, Mismatches: 57, Indels: 40
0.84 0.09 0.07
Matches are distributed among these distances:
81 16 0.03
82 129 0.26
83 4 0.01
84 1 0.00
86 60 0.12
87 224 0.44
88 70 0.14
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (85 bp):
ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGTAGTAGGGTAA
CAGGTAATTTACAGATCTTA
Found at i:4963535 original size:169 final size:169
Alignment explanation
Indices: 4963179--4963842 Score: 836
Period size: 169 Copynumber: 3.9 Consensus size: 169
4963169 AGCAGATTGG
** * *
4963179 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTT-AACTCCTTAAGTAGTAGGGTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAAC-CCCTAAGCAGTAGGGTA
* *
4963243 ACAGGCTAAATTTACAGATCTTAA-CCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGAACCT
65 ACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGAACCT
4963307 TAAACCCCTAAGTAGTAGGGTAATAGGTTTACAGCTCTTA
130 TAAACCCCTAAGTAGTAGGGTAATAGGTTTACAGCTCTTA
** *
4963347 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTT-AACTCCCTAAGTAGTAGGGTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAAC-CCCTAAGCAGTAGGGTA
4963411 ACAGGCT-AATTTCACAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGAACC
65 ACAGGCTAAATTT-ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGAACC
*
4963475 TTAAACCCCTAAGCAGTAGGGTAATAGGTTTACAGCTCTTA
129 TTAAACCCCTAAGTAGTAGGGTAATAGGTTTACAGCTCTTA
* * * *
4963516 ACCCCTTAAGCAATAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAACCCCTAAGCAGTAGGGTAA
* * * * * *
4963581 CATG-TGGAATTTACA-AGTCTTAACCCCCTAAGCAGTAGGGAATCAGATCAAAGGCGATGGACC
66 CAGGCT-AAATTTACAGA-TCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGAACC
* *
4963644 TTAAACCCCTAAGTAGTAGGGTAACAGATGGAATTTACAGATCTTA
129 TTAAACCCCTAAGTAGTAGGGT-A-ATA-GG--TTTACAGCTCTTA
* * * * * * * *
4963690 GCCCTCTAAGTAGTAGGGAAATAGATCGAAGGCAATGAACCTTAAACCCCAAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAACCCCTAAGCAGTAGGGTAA
* * * * * **
4963755 CATGCTGAATTTACAAGATCTTAACCCACTAAGCAGTAGGGAAATAAATCGAAGGTGATGGGCCT
66 CAGGCTAAATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGAACCT
* *
4963820 TAAACCCCAAAGTAATAGGGTAA
130 TAAACCCCTAAGTAGTAGGGTAA
4963843 CAGGCTAAAA
Statistics
Matches: 446, Mismatches: 36, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
167 5 0.01
168 83 0.19
169 200 0.45
170 9 0.02
171 2 0.00
172 2 0.00
173 1 0.00
174 82 0.18
175 61 0.14
176 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (169 bp):
ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAACCCCTAAGCAGTAGGGTAA
CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGAACCTT
AAACCCCTAAGTAGTAGGGTAATAGGTTTACAGCTCTTA
Found at i:4964540 original size:22 final size:22
Alignment explanation
Indices: 4964491--4964533 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4964481 GGGGGGATCG
*
4964491 ATTGTATTTTGGGGAAGAATCA
1 ATTGTATTTTGGGGAAGAACCA
4964513 ATTGTATTTTAGGGG-AGAACC
1 ATTGTATTTT-GGGGAAGAACC
4964534 GTTTGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (22 bp):
ATTGTATTTTGGGGAAGAACCA
Found at i:4965276 original size:3 final size:3
Alignment explanation
Indices: 4965268--4965541 Score: 54
Period size: 3 Copynumber: 91.7 Consensus size: 3
4965258 ATTTGCCATT
**
4965268 TTA TTA TTA AAA TTGA TTAA TTA -TA TTTA TTTA TTAA TT- TTA TTA
1 TTA TTA TTA TTA TT-A TT-A TTA TTA T-TA T-TA TT-A TTA TTA TTA
* * * * * * *
4965313 TTA TTG CTA TTA TTA TTA TTA TCA TTA TTT TTA TT- CTG TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
4965360 TTA TT- TCTC TTG TTG TT- TTCA TTA CTA TT- TATA TTA TTG TTA GTA
1 TTA TTA T-TA TTA TTA TTA TT-A TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * ** *
4965405 CTA TTA GTA CTCT- TTA GT- TTA TTA TTA TTA TTA CTA TT- TCG TCA
1 TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
4965449 TTA TTT TCTA TTA TTG TTA TTA ATA -TA CTA TTA TTA TTC TTA TTAA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* * *
4965495 TGTA TTA CTA TTA TT- TT- TTT TTA CT- TTA TTA TTA -TA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4965537 CTA TT
1 TTA TT
4965542 TCTATCATCA
Statistics
Matches: 197, Mismatches: 50, Indels: 48
0.67 0.17 0.16
Matches are distributed among these distances:
2 21 0.11
3 148 0.75
4 26 0.13
5 2 0.01
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4965491 original size:23 final size:23
Alignment explanation
Indices: 4965456--4965509 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
4965446 TCATTATTTT
*
4965456 CTATTATTGTTATTAATATACTA
1 CTATTATTCTTATTAATATACTA
* * *
4965479 TTATTATTCTTATTAATGTATTA
1 CTATTATTCTTATTAATATACTA
4965502 CTATTATT
1 CTATTATT
4965510 TTTTTTTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
CTATTATTCTTATTAATATACTA
Found at i:4965559 original size:3 final size:3
Alignment explanation
Indices: 4965298--4965541 Score: 55
Period size: 3 Copynumber: 82.7 Consensus size: 3
4965288 TTATATTTAT
* * * *
4965298 TTA TTAA TT- TTA TTA TTA TTG CTA TTA TTA TTA TTA TCA TTA TTT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
4965343 TTA TT- CTG TTA TTG TTA TTA TT- TCTC TTG TTG TT- TTCA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TTA
* * * * *
4965387 TT- TATA TTA TTG TTA GTA CTA TTA GTA CTCT- TTA GT- TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA
* ** * * * *
4965432 TTA TTA CTA TT- TCG TCA TTA TTT TCTA TTA TTG TTA TTA ATA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * * *
4965476 CTA TTA TTA TTC TTA TTAA TGTA TTA CTA TTA TT- TT- TTT TTA CT-
1 TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA TTA
*
4965520 TTA TTA TTA -TA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
4965542 TCTATCATCA
Statistics
Matches: 175, Mismatches: 45, Indels: 42
0.67 0.17 0.16
Matches are distributed among these distances:
2 19 0.11
3 141 0.81
4 13 0.07
5 2 0.01
ACGTcount: A:0.25, C:0.08, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4965628 original size:3 final size:3
Alignment explanation
Indices: 4965620--4965689 Score: 122
Period size: 3 Copynumber: 23.3 Consensus size: 3
4965610 ATATATTTAC
* *
4965620 ATT ATT ATT ACT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4965668 ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
4965690 GACATAACAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4968467 original size:136 final size:136
Alignment explanation
Indices: 4968223--4968507 Score: 527
Period size: 136 Copynumber: 2.1 Consensus size: 136
4968213 CATTGGGCCT
**
4968223 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
4968288 AGCCCCTTATTCAGATAACAGTATGGCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
4968353 ATATGC
131 ATATGC
*
4968359 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGATCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
4968424 AGCCCCTT-TTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGG-CCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
4968488 CATATGC
130 CATATGC
4968495 AAGCCCATTTGGG
1 AAGCCCATTTGGG
4968508 GAGACTACTC
Statistics
Matches: 145, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
135 17 0.12
136 128 0.88
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:4970311 original size:26 final size:26
Alignment explanation
Indices: 4970275--4970384 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
4970265 CATGAAATTC
4970275 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4970301 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4970327 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
4970353 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4970379 TTATCA
1 TTATCA
4970385 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4974264 original size:64 final size:64
Alignment explanation
Indices: 4974191--4974401 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
4974181 CTGGGCCAGA
*
4974191 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
4974255 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
4974317 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
4974328 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
4974392 GCCCATTTCA
1 GCCCATTTCA
4974402 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:4974403 original size:137 final size:137
Alignment explanation
Indices: 4974157--4974443 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
4974147 TATTGGGCCT
**
4974157 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
4974222 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
4974287 CATATGC
131 CATATGC
4974294 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
4974359 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
4974424 CATATGC
131 CATATGC
4974431 AAGCCCATTTGGG
1 AAGCCCATTTGGG
4974444 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:4974728 original size:25 final size:26
Alignment explanation
Indices: 4974691--4974742 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
4974681 TCAAACATGC
4974691 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
4974717 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
4974742 A
1 A
4974743 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:4976255 original size:26 final size:26
Alignment explanation
Indices: 4976219--4976354 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
4976209 CATGAAATTC
* *
4976219 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* *
4976245 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
4976271 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
4976297 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
4976323 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
4976349 TTATCA
1 TTATCA
4976355 ATTTGTATCA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:4978121 original size:16 final size:17
Alignment explanation
Indices: 4978091--4978123 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4978081 ACTCTAACTA
*
4978091 AAAAACATACCTAAAGG
1 AAAAACATACATAAAGG
4978108 AAAAACA-ACATAAAGG
1 AAAAACATACATAAAGG
4978124 CAACTACATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.15, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAAACATACATAAAGG
Found at i:4978804 original size:26 final size:26
Alignment explanation
Indices: 4978771--4978880 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
4978761 TGATACAAAT
4978771 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
4978797 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4978823 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4978849 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4978875 TGATAA
1 TGATAA
4978881 GAATTTCATG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:4980359 original size:28 final size:26
Alignment explanation
Indices: 4980317--4980391 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
4980307 AAAAGTAGCT
* *
4980317 AAATTACTATAATACCCCTATGTATGAA
1 AAATTACTGTTATACCCCTA-G-ATGAA
* *
4980345 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGAA
*
4980371 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
4980392 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGAA
Found at i:4980533 original size:27 final size:27
Alignment explanation
Indices: 4980495--4980610 Score: 169
Period size: 27 Copynumber: 4.3 Consensus size: 27
4980485 GAGGAAGCGT
4980495 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTATGCCACAAATATCTGA
4980522 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTATGCCACAAATATCTGA
* * *
4980549 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTATGCCACAAATATCTGA
* * *
4980576 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTATGCCACAAATATCTG-A
4980604 TCTGGTG
1 TCTGGTG
4980611 ACTCTGTCAC
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 74 0.91
28 7 0.09
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTATGCCACAAATATCTGA
Done.