Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 86 of 290
Found at i:26233675 original size:2 final size:2
Alignment explanation
Indices: 26233670--26233705 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26233660 CTGATATATA
26233670 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26233706 CTCTGATAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:26234241 original size:81 final size:81
Alignment explanation
Indices: 26234167--26234322 Score: 192
Period size: 82 Copynumber: 1.9 Consensus size: 81
26234157 TTTTGGCCCC
*
26234167 AAAAA-TAAAAATTTTCAATTTAGTCCTTTAATAAATAA-AGATATTATAAATTAATATATAGTA
1 AAAAATTAAAAA-TTT--ATTTAGTCCTTTAA-AAATAATA-AAATTATAAATTAATATATAGTA
26234230 AAATTATATTTTAACCCCTCT
61 AAATTATATTTTAACCCCTCT
* * * *
26234251 AAAAATTTAAAAATTTGTTTAGTCCTTTCAAAATAATAAAATTATAAATTAATACATA-TAAACT
1 AAAAA-TTAAAAATTTATTTAGTCCTTTAAAAATAATAAAATTATAAATTAATATATAGTAAAAT
26234315 TATATTTT
65 TATATTTT
26234323 TGATCTATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
81 13 0.20
82 24 0.38
83 13 0.20
84 5 0.08
85 3 0.05
86 6 0.09
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.40
Consensus pattern (81 bp):
AAAAATTAAAAATTTATTTAGTCCTTTAAAAATAATAAAATTATAAATTAATATATAGTAAAATT
ATATTTTAACCCCTCT
Found at i:26237576 original size:12 final size:12
Alignment explanation
Indices: 26237551--26237602 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
26237541 ATCTACAAGA
26237551 TAAATATTAAAT
1 TAAATATTAAAT
26237563 TAAAT-TTAATAT
1 TAAATATTAA-AT
* *
26237575 TAAGATAATCAAT
1 TAA-ATATTAAAT
*
26237588 TTAATATTAAAT
1 TAAATATTAAAT
26237600 TAA
1 TAA
26237603 TAAAATATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
11 4 0.13
12 19 0.61
13 6 0.19
14 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:26237603 original size:20 final size:19
Alignment explanation
Indices: 26237553--26237605 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
26237543 CTACAAGATA
26237553 AATATTAAATT-A-AATTT
1 AATATTAAATTAATAATTT
26237570 AATATTAAGA-TAATCAATTT
1 AATATTAA-ATTAAT-AATTT
26237590 AATATTAAATTAATAA
1 AATATTAAATTAATAA
26237606 AATATATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.29
18 2 0.06
19 3 0.10
20 17 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATTAAATTAATAATTT
Found at i:26240333 original size:2 final size:2
Alignment explanation
Indices: 26240326--26240356 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26240316 TTCAATATCT
26240326 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 T
26240357 CAGTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26241425 original size:20 final size:18
Alignment explanation
Indices: 26241400--26241440 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
26241390 ATTTTTTAAT
*
26241400 AAATTTGTAAAACATTATTA
1 AAATTTATAAAA-A-TATTA
26241420 AAATTTATAAAAATATTA
1 AAATTTATAAAAATATTA
26241438 AAA
1 AAA
26241441 AATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 11 0.55
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATTTATAAAAATATTA
Found at i:26242916 original size:40 final size:41
Alignment explanation
Indices: 26242840--26242922 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
26242830 ATACCTACAA
*
26242840 AATGCAATACTCACCATCCAAAAAAGAAAACTTATAATTAC
1 AATGCAATACTCACCATCCAAAAAAGAAAACTTATAATAAC
* *
26242881 AATGCAATCCTCACCATCCAAAAAAGCAAAC-TATAATAAC
1 AATGCAATACTCACCATCCAAAAAAGAAAACTTATAATAAC
26242921 AA
1 AA
26242923 GTAGCAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 10 0.26
41 29 0.74
ACGTcount: A:0.52, C:0.24, G:0.05, T:0.19
Consensus pattern (41 bp):
AATGCAATACTCACCATCCAAAAAAGAAAACTTATAATAAC
Found at i:26243943 original size:11 final size:12
Alignment explanation
Indices: 26243927--26243955 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
26243917 TAACCAACCC
26243927 AAAAAGAAAA-A
1 AAAAAGAAAAGA
26243938 AAAAAGAAAAGA
1 AAAAAGAAAAGA
26243950 AAAAAG
1 AAAAAG
26243956 TGAGACATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:26246302 original size:21 final size:21
Alignment explanation
Indices: 26246276--26246332 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
26246266 AGGTACATGG
26246276 CCGTGTGATTGAG-GCACACGC
1 CCGTGTGATTGAGAG-ACACGC
* *
26246297 CTGTGTGACTGAGAGACACGC
1 CCGTGTGATTGAGAGACACGC
26246318 CCGTGTGATTGAGAG
1 CCGTGTGATTGAGAG
26246333 GCATGGCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.21
Consensus pattern (21 bp):
CCGTGTGATTGAGAGACACGC
Found at i:26254774 original size:58 final size:60
Alignment explanation
Indices: 26254685--26254826 Score: 200
Period size: 58 Copynumber: 2.4 Consensus size: 60
26254675 CCCTTAGGTA
* * *
26254685 AACCTTTGTGTGCGAACCCCTATA-AGCGATCCCCATTTGCATGTG-AACCATATAGGCT
1 AACCCTTGTATGCGAACCCCTATAGAGCGATCCCCATTTGCATGTGAAACCATATAGGCG
* * * *
26254743 AACCCTTGTATGCAAACCCCTATAGA-TGATCCCCTTTTGCATGTGAAACCCTATAGGCG
1 AACCCTTGTATGCGAACCCCTATAGAGCGATCCCCATTTGCATGTGAAACCATATAGGCG
26254802 AACCCTTGTATGCGAACCCCTATAG
1 AACCCTTGTATGCGAACCCCTATAG
26254827 GCAAGCCCTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 38 0.51
59 36 0.49
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (60 bp):
AACCCTTGTATGCGAACCCCTATAGAGCGATCCCCATTTGCATGTGAAACCATATAGGCG
Found at i:26254826 original size:28 final size:28
Alignment explanation
Indices: 26254685--26254876 Score: 122
Period size: 28 Copynumber: 6.7 Consensus size: 28
26254675 CCCTTAGGTA
* * *
26254685 AACCTTTGTGTGCGAACCCCTATAAGCG
1 AACCCTTGTATGCGAACCCCTATAGGCG
* * * * *
26254713 ATCCCCATTTGCATGTGAA-CCATATAGGCT
1 A-ACCC--TTGTATGCGAACCCCTATAGGCG
* **
26254743 AACCCTTGTATGCAAACCCCTATAGATG
1 AACCCTTGTATGCGAACCCCTATAGGCG
* * * *
26254771 ATCCCCTTTTGCATGTGAAACCCTATAGGCG
1 A-ACCC--TTGTATGCGAACCCCTATAGGCG
26254802 AACCCTTGTATGCGAACCCCTATAGGC-
1 AACCCTTGTATGCGAACCCCTATAGGCG
*
26254829 AAGCCCTTGTATG-TAACCCCCTATAGGCG
1 AA-CCCTTGTATGCGAA-CCCCTATAGGCG
*
26254858 AACACCTAGT-TGCGAACCC
1 AAC-CCTTGTATGCGAACCC
26254877 ATGCGCAAAA
Statistics
Matches: 122, Mismatches: 30, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
27 12 0.10
28 55 0.45
29 17 0.14
30 12 0.10
31 26 0.21
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (28 bp):
AACCCTTGTATGCGAACCCCTATAGGCG
Found at i:26260115 original size:9 final size:9
Alignment explanation
Indices: 26260101--26260197 Score: 63
Period size: 10 Copynumber: 10.0 Consensus size: 9
26260091 AAGTAGAAAC
26260101 TTATAAAAA
1 TTATAAAAA
26260110 TTATAAAATAA
1 TTAT-AAA-AA
*
26260121 TTATACAAA
1 TTATAAAAA
26260130 TTATACAAATA
1 TTATA-AAA-A
*
26260141 TTATACAAAT
1 TTATA-AAAA
26260151 TTACTAAAAA
1 TTA-TAAAAA
26260161 -TATAAAAA
1 TTATAAAAA
*
26260169 -TATTAATATA
1 TTA-TAA-AAA
*
26260179 TTATGAAATA
1 TTAT-AAAAA
26260189 TTATAAAAA
1 TTATAAAAA
26260198 CTAGAATTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
8 8 0.11
9 20 0.27
10 23 0.32
11 22 0.30
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (9 bp):
TTATAAAAA
Found at i:26260124 original size:11 final size:12
Alignment explanation
Indices: 26260108--26260150 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
26260098 AACTTATAAA
26260108 AATTATA-AAAT
1 AATTATACAAAT
26260119 AATTATAC--A-
1 AATTATACAAAT
26260128 AATTATACAAAT
1 AATTATACAAAT
26260140 -ATTATACAAAT
1 AATTATACAAAT
26260151 TTACTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 8 0.29
10 1 0.04
11 19 0.68
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (12 bp):
AATTATACAAAT
Found at i:26260130 original size:20 final size:20
Alignment explanation
Indices: 26260101--26260151 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
26260091 AAGTAGAAAC
*
26260101 TTATAAAAATTATA-AAATAA
1 TTATACAAATTATACAAAT-A
26260121 TTATACAAATTATACAAATA
1 TTATACAAATTATACAAATA
26260141 TTATACAAATT
1 TTATACAAATT
26260152 TACTAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TTATACAAATTATACAAATA
Found at i:26260567 original size:9 final size:9
Alignment explanation
Indices: 26260553--26260604 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
26260543 TTTTCTGTTA
26260553 AAAAATTTT
1 AAAAATTTT
26260562 AAAAATTATT
1 AAAAATT-TT
*
26260572 -AAAATATT
1 AAAAATTTT
*
26260580 AAAATATTAT
1 AAAA-ATTTT
*
26260590 GAAAATTTT
1 AAAAATTTT
26260599 AAAAAT
1 AAAAAT
26260605 AATAAAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 2 0.06
9 24 0.71
10 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:26260582 original size:28 final size:28
Alignment explanation
Indices: 26260550--26260612 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
26260540 TAATTTTCTG
* * *
26260550 TTAAAAAATTTTAAAAATTATTAAAATA
1 TTAAAAAATTATAAAAATTTTAAAAATA
* *
26260578 TTAAAATATTATGAAAATTTTAAAAATA
1 TTAAAAAATTATAAAAATTTTAAAAATA
*
26260606 ATAAAAA
1 TTAAAAA
26260613 TAGAAAGTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (28 bp):
TTAAAAAATTATAAAAATTTTAAAAATA
Found at i:26260588 original size:19 final size:18
Alignment explanation
Indices: 26260554--26260604 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 18
26260544 TTTCTGTTAA
*
26260554 AAAATTTTAAAAATTATT
1 AAAATTTTAAAAATTATG
*
26260572 AAAATATTAAAATATTATG
1 AAAATTTTAAAA-ATTATG
26260591 AAAATTTTAAAAAT
1 AAAATTTTAAAAAT
26260605 AATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATTTTAAAAATTATG
Found at i:26263048 original size:18 final size:17
Alignment explanation
Indices: 26263018--26263051 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
26263008 CCAACAAGTA
*
26263018 ATTTAAAATATAAAAAT
1 ATTTAAAAAATAAAAAT
26263035 ATTTAAAAAAATAAAAA
1 ATTT-AAAAAATAAAAA
26263052 GTTCATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTTAAAAAATAAAAAT
Found at i:26267203 original size:2 final size:2
Alignment explanation
Indices: 26267196--26267222 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26267186 AAGTATACAT
26267196 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
26267223 AAGGAGATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26267856 original size:16 final size:16
Alignment explanation
Indices: 26267835--26267899 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
26267825 TTTGGTTCGC
*
26267835 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
*
26267851 TGTATTGAATTAGAGG
1 TGTATTGGATTAGAGG
*
26267867 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
26267883 TGTATTAGAATAGAGG
1 TGTATTGGATTAGAGG
26267899 T
1 T
26267900 ATAATAGCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:26267876 original size:32 final size:32
Alignment explanation
Indices: 26267835--26267904 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
26267825 TTTGGTTCGC
*
26267835 TGTATTGGATTAAAGGTGTATT-GAATTAGAGG
1 TGTAATGGATTAAAGGTGTATTAGAA-TAGAGG
*
26267867 TGTAATGGATTAGAGGTGTATTAGAATAGAGG
1 TGTAATGGATTAAAGGTGTATTAGAATAGAGG
*
26267899 TATAAT
1 TGTAAT
26267905 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 31 0.91
33 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.30, T:0.36
Consensus pattern (32 bp):
TGTAATGGATTAAAGGTGTATTAGAATAGAGG
Found at i:26268159 original size:18 final size:17
Alignment explanation
Indices: 26268138--26268172 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26268128 TTATTATTAA
*
26268138 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
26268156 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
26268173 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:26268227 original size:157 final size:157
Alignment explanation
Indices: 26268032--26268338 Score: 569
Period size: 157 Copynumber: 2.0 Consensus size: 157
26268022 CCCTTAGTAT
*
26268032 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
*
26268097 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
26268162 TTTAATAAAATTCTTAATAATTAGCAG
131 TTTAATAAAATTCTTAATAATTAGCAG
* * *
26268189 AAATTTGTTTTGGTAAATTATTATTTTTATTGTTATTTAATTTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
26268254 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
26268319 TTTAATAAAATTCTTAATAA
131 TTTAATAAAATTCTTAATAA
26268339 CTAATATTCT
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 145 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTAGCAG
Found at i:26268312 original size:16 final size:16
Alignment explanation
Indices: 26268275--26268316 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
26268265 TTAATCATAT
*
26268275 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
26268291 TT-AAATATATTATAA
1 TTAAAATATATTATAA
26268306 TTAAAATATAT
1 TTAAAATATAT
26268317 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:26268323 original size:14 final size:15
Alignment explanation
Indices: 26268284--26268325 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
26268274 TTTAAACATA
*
26268284 ATTATTATTAAATAT
1 ATTATAATTAAATAT
26268299 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
26268313 A-TATAATTTAATA
1 ATTATAATTAAATA
26268326 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:26268771 original size:13 final size:13
Alignment explanation
Indices: 26268753--26268777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26268743 GCCTTAACAA
26268753 GAGCAGCACTCAT
1 GAGCAGCACTCAT
26268766 GAGCAGCACTCA
1 GAGCAGCACTCA
26268778 AAACAGATTT
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:0.32, G:0.24, T:0.12
Consensus pattern (13 bp):
GAGCAGCACTCAT
Found at i:26272279 original size:15 final size:15
Alignment explanation
Indices: 26272259--26272291 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26272249 TTCCAAATGT
26272259 TAGTTGTTCTCAACA
1 TAGTTGTTCTCAACA
*
26272274 TAGTTGTTCTCAATA
1 TAGTTGTTCTCAACA
26272289 TAG
1 TAG
26272292 AGATTGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (15 bp):
TAGTTGTTCTCAACA
Found at i:26272435 original size:16 final size:16
Alignment explanation
Indices: 26272393--26272436 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
26272383 TCTAAATACA
*
26272393 AGTTGTTCCAAAACAT
1 AGTTGTTCCTAAACAT
*
26272409 GGTTGTT-CTAAACAT
1 AGTTGTTCCTAAACAT
*
26272424 AGTTATTCCTAAA
1 AGTTGTTCCTAAA
26272437 ATGTCATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (16 bp):
AGTTGTTCCTAAACAT
Found at i:26279446 original size:39 final size:39
Alignment explanation
Indices: 26279403--26279579 Score: 255
Period size: 39 Copynumber: 4.5 Consensus size: 39
26279393 CCGGACATAT
* *
26279403 TTCCAGCGCATAGCCTGCGGACCTTAAGTCTGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTATAA
26279442 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTATAA
*
26279481 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTATAA
* * * * * *
26279520 TTCCAGCATATAGCCTACGGGTCTTTAAGCCCGGATATAA
1 TTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGTTATAA
*
26279560 TTCCAGCATATAGCCTGCGG
1 TTCCAGCACATAGCCTGCGG
26279580 GTCTTTAAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 93 0.73
40 34 0.27
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTATAA
Found at i:26279559 original size:40 final size:39
Alignment explanation
Indices: 26279323--26279596 Score: 250
Period size: 39 Copynumber: 7.0 Consensus size: 39
26279313 ACTTGAAACC
** *
26279323 AATTACCAGCACA-AGCCTGCGAGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCG-GACCTTAAGCCCGGATAT
* * ** *
26279362 AATACCAGCTCGA-AGCCTGCGGGA-CTTTTGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGC-GGACCTTAAGCCCGGATAT
* * * * *
26279401 ATTTCCAGCGCATAGCCTGCGGACCTTAAGTCTGGTTAT
1 AATTCCAGCACATAGCCTGCGGACCTTAAGCCCGGATAT
* *
26279440 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTAT
1 AATTCCAGCACATAGCCTGCGGACCTTAAGCCCGGATAT
* *
26279479 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTAT
1 AATTCCAGCACATAGCCTGCGGACCTTAAGCCCGGATAT
* * * *
26279518 AATTCCAGCATATAGCCTACGGGTCTTTAAGCCCGGATAT
1 AATTCCAGCACATAGCCTGC-GGACCTTAAGCCCGGATAT
* * *
26279558 AATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATA
1 AATTCCAGCACATAGCCTGC-GGACCTTAAGCCCGGATA
26279597 CACATCAAAT
Statistics
Matches: 202, Mismatches: 27, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
38 17 0.08
39 131 0.65
40 54 0.27
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
AATTCCAGCACATAGCCTGCGGACCTTAAGCCCGGATAT
Found at i:26284449 original size:17 final size:20
Alignment explanation
Indices: 26284429--26284467 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
26284419 CCTTTAACTA
26284429 ATTGTT-TT-CTTTT-AATT
1 ATTGTTATTACTTTTAAATT
26284446 ATTGTTATTACTTTTAAATT
1 ATTGTTATTACTTTTAAATT
26284466 AT
1 AT
26284468 ACTAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 5 0.26
20 6 0.32
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTGTTATTACTTTTAAATT
Found at i:26289160 original size:39 final size:39
Alignment explanation
Indices: 26289070--26289404 Score: 521
Period size: 39 Copynumber: 8.5 Consensus size: 39
26289060 ACAAAGCATG
* * *
26289070 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTAT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCT-T
*
26289111 -GGGACTTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
26289150 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
26289189 CGGGGCTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
26289228 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
26289267 CGGGACTTAGCGCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
26289306 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
26289345 CGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
26289384 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
26289405 TTCTCCATTA
Statistics
Matches: 277, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
39 259 0.94
40 18 0.06
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:26292963 original size:23 final size:22
Alignment explanation
Indices: 26292920--26292966 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
26292910 GTATGGGACA
26292920 AAAAAAATTCAAGTACCAATTT
1 AAAAAAATTCAAGTACCAATTT
*
26292942 AAAAAAATTCAAGTACCAAATT
1 AAAAAAATTCAAGTACCAATTT
26292964 AAA
1 AAA
26292967 TATTGAAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.23
Consensus pattern (22 bp):
AAAAAAATTCAAGTACCAATTT
Found at i:26295200 original size:3 final size:3
Alignment explanation
Indices: 26295192--26295217 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26295182 GGGCGCATGC
26295192 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
26295218 TTGAGGGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:26301414 original size:23 final size:25
Alignment explanation
Indices: 26301375--26301435 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 25
26301365 ATCATTTATT
*
26301375 TATTT-TA-AAAAAAACTATACATA
1 TATTTATATAAAAATACTATACATA
**
26301398 TA-TTAT-TAAAAATACTATTTATA
1 TATTTATATAAAAATACTATACATA
26301421 TATTTATATAAAAAT
1 TATTTATATAAAAAT
26301436 TTTATTTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 2 0.06
23 18 0.58
24 4 0.13
25 7 0.23
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (25 bp):
TATTTATATAAAAATACTATACATA
Found at i:26301449 original size:26 final size:25
Alignment explanation
Indices: 26301394--26301451 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
26301384 AAAAACTATA
26301394 CATATATTATTAAAAATACTATTTAT
1 CATAT-TTATTAAAAATACTATTTAT
**
26301420 -ATATTTATATAAAAATTTTATTTAT
1 CATATTTAT-TAAAAATACTATTTAT
26301445 CATATTT
1 CATATTT
26301452 TATTTTCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.14
25 18 0.64
26 6 0.21
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (25 bp):
CATATTTATTAAAAATACTATTTAT
Found at i:26301482 original size:19 final size:20
Alignment explanation
Indices: 26301434--26301508 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 20
26301424 TTATATAAAA
* *
26301434 ATTTTATT-TATCATATTTT
1 ATTTTATTATATAATATTAT
**
26301453 ATTTTCCTATAT-ATATTAT
1 ATTTTATTATATAATATTAT
26301472 ATTTTATTATATAACATTTATTAT
1 ATTTTATTATAT-A-A--TATTAT
26301496 ATTTTATTATATA
1 ATTTTATTATATA
26301509 TTACTTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
19 22 0.49
20 3 0.07
22 1 0.02
23 1 0.02
24 18 0.40
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTATTATATAATATTAT
Found at i:26301516 original size:24 final size:24
Alignment explanation
Indices: 26301466--26301519 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
26301456 TTCCTATATA
*
26301466 TATTATATTTTATTATATAACATT
1 TATTATATTTTATTATATAACACT
**
26301490 TATTATATTTTATTATATATTACT
1 TATTATATTTTATTATATAACACT
26301514 TATTAT
1 TATTAT
26301520 GTATATCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTATATTTTATTATATAACACT
Found at i:26301551 original size:16 final size:15
Alignment explanation
Indices: 26301489--26301570 Score: 62
Period size: 16 Copynumber: 5.3 Consensus size: 15
26301479 TATATAACAT
26301489 TTATTATA-T-TTTA
1 TTATTATATTATTTA
*
26301502 TTA-TATATTACTTA
1 TTATTATATTATTTA
26301516 TTATGTATATCGTATATTA
1 TTAT-TATAT--TAT-TTA
26301535 TCTATTATATTATTTA
1 T-TATTATATTATTTA
* *
26301551 TGTTTTATATTATTCA
1 T-TATTATATTATTTA
26301567 TTAT
1 TTAT
26301571 GTTATTTATA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
12 4 0.07
13 4 0.07
14 6 0.11
15 2 0.04
16 22 0.40
17 3 0.05
18 2 0.04
19 9 0.16
20 3 0.05
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (15 bp):
TTATTATATTATTTA
Found at i:26301790 original size:15 final size:16
Alignment explanation
Indices: 26301766--26301852 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 16
26301756 TTTTAAACCA
*
26301766 ATATATTTATT-TTAT
1 ATATAATTATTATTAT
26301781 ATATAATTATTATTATT
1 ATATAATTATTATTA-T
*
26301798 TTATATATATATATATTAT
1 ATATA-AT-TAT-TATTAT
* *
26301817 ATATTAAATACTATT-T
1 ATA-TAATTATTATTAT
* * *
26301833 TTAAAATTATTATTAA
1 ATATAATTATTATTAT
26301849 ATAT
1 ATAT
26301853 CATATTTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 13
0.68 0.15 0.17
Matches are distributed among these distances:
15 18 0.34
16 8 0.15
17 9 0.17
18 4 0.08
19 7 0.13
20 7 0.13
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATAATTATTATTAT
Found at i:26301796 original size:21 final size:23
Alignment explanation
Indices: 26301772--26301821 Score: 77
Period size: 21 Copynumber: 2.2 Consensus size: 23
26301762 ACCAATATAT
26301772 TTATTTTATATATA-AT-TATTA
1 TTATTTTATATATATATATATTA
26301793 TTATTTTATATATATATATATTA
1 TTATTTTATATATATATATATTA
26301816 TATATT
1 T-TATT
26301822 AAATACTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.54
22 2 0.08
23 6 0.23
24 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTTTATATATATATATATTA
Found at i:26301847 original size:25 final size:28
Alignment explanation
Indices: 26301812--26301862 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
26301802 ATATATATAT
26301812 ATTATATATTAAATA-C-TATTTTTAAA
1 ATTATATATTAAATATCATATTTTTAAA
26301838 ATTAT-TATTAAATATCATATTTTTA
1 ATTATATATTAAATATCATATTTTTA
26301863 TTTATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTATATATTAAATATCATATTTTTAAA
Found at i:26301848 original size:12 final size:13
Alignment explanation
Indices: 26301810--26301852 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
26301800 ATATATATAT
26301810 ATATTATATATTAA
1 ATATTAT-TATTAA
* *
26301824 ATACTATTTTTAA
1 ATATTATTATTAA
26301837 A-ATTATTATTAA
1 ATATTATTATTAA
26301849 ATAT
1 ATAT
26301853 CATATTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 10 0.42
13 8 0.33
14 6 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (13 bp):
ATATTATTATTAA
Found at i:26305599 original size:15 final size:15
Alignment explanation
Indices: 26305580--26305611 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
26305570 TAAAGATATT
26305580 ATTTTTCTAAAT-AA
1 ATTTTTCTAAATGAA
26305594 ATTTTTCTAAATGAA
1 ATTTTTCTAAATGAA
26305609 ATT
1 ATT
26305612 GAATTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTTTCTAAATGAA
Found at i:26314045 original size:205 final size:204
Alignment explanation
Indices: 26313694--26314481 Score: 1267
Period size: 205 Copynumber: 3.8 Consensus size: 204
26313684 TAGGCCGCAG
* *
26313694 CATAGCAGATCTCACCTTCAGATGTTTATACTGAA-TAGATCCAAGATGATTTGACATTCTTGTG
1 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGTG
* * *
26313758 TTTACAAGGATCAAATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGT-TGAAGCAAATC
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTA--TATGAAGCAAATC
26313822 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTGTCTCCATTTCGACG
129 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTGTCTCCATTTCGACG
*
26313887 GAGAGTAGATA
194 GAGAGCAGATA
26313898 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGTG
1 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGTG
* *
26313963 TTTACAAGGACCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTATATTGAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATA-TGAAGCAAATCT
26314028 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTGTCTCCATTTCGACGG
130 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTGTCTCCATTTCGACGG
26314093 AGAGCAGATA
195 AGAGCAGATA
* * *
26314103 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGCATTCTTGTA
1 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGTG
* * *
26314168 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTA-TATGAAGCAAATCT
* * * **
26314233 AAGATGATTTGGCATCTCTGTATTGTTAGAGAATAAATTGAAGTCTGGCATCTCCATATTCGACG
130 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTGTCTCCAT-TTCGACG
*
26314298 GAGAGCAGACA
194 GAGAGCAGATA
* * * *
26314309 CATAGCAGATCTCACCTTCAGATAATTT-CACTGAAGTAGATCCAAGATGATTTGACATTCTTGT
1 CATAGCAGATCTAACCTTCAGAT-GTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGT
26314373 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATC
65 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTAT-ATGAAGCAAATC
*
26314438 TAAGATGATTTGGCATCTTTGTATTGTCAGAGAACAAATCGAAG
129 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
26314482 AAGTAGATTG
Statistics
Matches: 545, Mismatches: 32, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
203 1 0.00
204 34 0.06
205 335 0.61
206 172 0.32
207 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (204 bp):
CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGTG
TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATATGAAGCAAATCTA
AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGTGTCTCCATTTCGACGGA
GAGCAGATA
Found at i:26316136 original size:26 final size:25
Alignment explanation
Indices: 26316107--26316170 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
26316097 AAAACTATAC
26316107 ATATATTATTATTAAAAATACTATTT
1 ATATATTATTATTAAAAAT-CTATTT
* *
26316133 ATATATT-TATATAAAAAATTTATTT
1 ATATATTAT-TATTAAAAATCTATTT
26316158 ATCATA-TATTATT
1 AT-ATATTATTATT
26316171 TTCCTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 12 0.38
26 20 0.62
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (25 bp):
ATATATTATTATTAAAAATCTATTT
Found at i:26316194 original size:10 final size:10
Alignment explanation
Indices: 26316179--26316253 Score: 53
Period size: 10 Copynumber: 6.8 Consensus size: 10
26316169 TTTTCCTATA
26316179 TATTATATTT
1 TATTATATTT
26316189 TATTATATAAAATT
1 TATTATAT----TT
26316203 TATTATATTT
1 TATTATATTT
*
26316213 TATTATATAT
1 TATTATATTT
26316223 TACTTATTATTT
1 TA-TTA-TATTT
*
26316235 T-TATATATGT
1 TAT-TATATTT
26316245 TATGTATAT
1 TAT-TATAT
26316254 CGTATATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
10 27 0.51
11 11 0.21
12 5 0.09
14 10 0.19
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (10 bp):
TATTATATTT
Found at i:26316209 original size:24 final size:24
Alignment explanation
Indices: 26316179--26316242 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
26316169 TTTTCCTATA
*
26316179 TATTATATTTTATTATATAAAATT
1 TATTATATTTTATTATATAAAACT
**
26316203 TATTATATTTTATTATATATTACT
1 TATTATATTTTATTATATAAAACT
26316227 TATTAT-TTTTA-TATAT
1 TATTATATTTTATTATAT
26316243 GTTATGTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 5 0.14
23 5 0.14
24 27 0.73
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTATATTTTATTATATAAAACT
Found at i:26316512 original size:21 final size:23
Alignment explanation
Indices: 26316465--26316537 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 23
26316455 CTTTTTATTT
26316465 TATA-TATTATTTTT-TA-ACTAA
1 TATATTATTATTTTTATATA-TAA
26316486 TATATT-TTATTTTTATATATAA
1 TATATTATTATTTTTATATATAA
26316508 T-TATTATTATTTATTATATATTAA
1 TATATTATTATTT-TTATATA-TAA
26316532 -ATATTA
1 TATATTA
26316538 AATACTATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
21 16 0.36
22 13 0.29
23 8 0.18
24 8 0.18
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATTATTATTTTTATATATAA
Found at i:26321820 original size:21 final size:21
Alignment explanation
Indices: 26321794--26321834 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
26321784 ACAAACTAAG
26321794 GCTTATGTTTTTGTGAATGAA
1 GCTTATGTTTTTGTGAATGAA
26321815 GCTTATGTTTTTGTGAATGA
1 GCTTATGTTTTTGTGAATGA
26321835 CTATTGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.49
Consensus pattern (21 bp):
GCTTATGTTTTTGTGAATGAA
Found at i:26324782 original size:16 final size:16
Alignment explanation
Indices: 26324761--26324810 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
26324751 AATATAAAAT
26324761 ATTTAAATAATTTATC
1 ATTTAAATAATTTATC
*
26324777 ATTTAAAATAATTTCT-
1 ATTT-AAATAATTTATC
**
26324793 ATAAAAATAATTTATC
1 ATTTAAATAATTTATC
26324809 AT
1 AT
26324811 CAAATCATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 10 0.36
16 8 0.29
17 10 0.36
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAAATAATTTATC
Found at i:26325371 original size:20 final size:20
Alignment explanation
Indices: 26325330--26325373 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
26325320 ACGGGAGTAA
* *
26325330 TAAAGTATACATAATACAAT
1 TAAAGTATAAATAATAAAAT
26325350 TAAAGTATAAAT-ATAAATAT
1 TAAAGTATAAATAATAAA-AT
26325370 TAAA
1 TAAA
26325374 ATAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TAAAGTATAAATAATAAAAT
Found at i:26326039 original size:28 final size:29
Alignment explanation
Indices: 26326007--26326063 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
26325997 GTTTGCCCAC
*
26326007 GATGTTTTTTT-TAAGTTACAATTGTTCT
1 GATGTTTTTTTAAAAGTTACAATTGTTCT
26326035 GATGTTTTTTTAAAAGTTACAATTGTTCT
1 GATGTTTTTTTAAAAGTTACAATTGTTCT
26326064 AATACAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (29 bp):
GATGTTTTTTTAAAAGTTACAATTGTTCT
Found at i:26328162 original size:75 final size:75
Alignment explanation
Indices: 26328060--26328201 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 75
26328050 TGGGCACATA
* * * * *
26328060 ATCGTCGGTTAATCTGACTAGCGCTGGGTGCAAACACCGTTGGTTTATCCAACTAGAGT-TGGGC
1 ATCGTCGGTAAATCTGACTAGCACTGGGTACAAACACCGTTGGTCTATCCAACCAGA-TCTGGGC
26328124 TCATAATAATT
65 TCATAATAATT
* **
26328135 ATCGTCGGTAAATCCT-ACTAGCACTGGGTACAAATATTGTTGGTCTATCCAACCAGATCTGGGC
1 ATCGTCGGTAAAT-CTGACTAGCACTGGGTACAAACACCGTTGGTCTATCCAACCAGATCTGGGC
26328199 TCA
65 TCA
26328202 CATTTATTGG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
74 1 0.02
75 54 0.95
76 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (75 bp):
ATCGTCGGTAAATCTGACTAGCACTGGGTACAAACACCGTTGGTCTATCCAACCAGATCTGGGCT
CATAATAATT
Found at i:26331502 original size:6 final size:6
Alignment explanation
Indices: 26331461--26331545 Score: 79
Period size: 6 Copynumber: 14.8 Consensus size: 6
26331451 AAAATAAAGA
* * * * *
26331461 AAATAT AAATAC AAATAC AAATAC AAATAC AAATAT AAATAT AATTAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
* *
26331509 AATTAT AATTAT AAATA- AAATA- AAATA- AAATA- AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATA
26331546 AATTGGGTTG
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
5 20 0.27
6 55 0.73
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (6 bp):
AAATAT
Found at i:26331531 original size:5 final size:5
Alignment explanation
Indices: 26331521--26331547 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
26331511 TTATAATTAT
26331521 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
26331548 TTGGGTTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:26334441 original size:20 final size:20
Alignment explanation
Indices: 26334418--26334474 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
26334408 ATTCATTCAT
26334418 ATAACCAGTAGTTCATCA-AA
1 ATAA-CAGTAGTTCATCAGAA
* *
26334438 ATAAACAGTAGTTTATCAGTA
1 AT-AACAGTAGTTCATCAGAA
*
26334459 ATAACAGTAATTCATC
1 ATAACAGTAGTTCATC
26334475 CGTATCAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.30
Consensus pattern (20 bp):
ATAACAGTAGTTCATCAGAA
Found at i:26334703 original size:23 final size:22
Alignment explanation
Indices: 26334687--26334750 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
26334677 AAGCGCTATT
26334687 GAGCTGAAACGGTAAGCTCCATC
1 GAGCTGAAACGGTAAGCT-CATC
*
26334710 GAGCTG-AACAGTAAGCTCATAC
1 GAGCTGAAACGGTAAGCTCAT-C
*
26334732 GAGCTGAAATGGTAAGCTC
1 GAGCTGAAACGGTAAGCTC
26334751 TAATGACTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 3 0.08
22 17 0.47
23 16 0.44
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (22 bp):
GAGCTGAAACGGTAAGCTCATC
Found at i:26334769 original size:23 final size:26
Alignment explanation
Indices: 26334743--26334799 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 26
26334733 AGCTGAAATG
26334743 GTAAGCTCTAATGA-CTAA-A-AACA
1 GTAAGCTCTAATGAGCTAATATAACA
* *
26334766 GTAAGCTCTTATGAGCTAATATATCA
1 GTAAGCTCTAATGAGCTAATATAACA
26334792 GTAAGCTC
1 GTAAGCTC
26334800 ATACAAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 13 0.45
24 4 0.14
25 1 0.03
26 11 0.38
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (26 bp):
GTAAGCTCTAATGAGCTAATATAACA
Found at i:26335638 original size:8 final size:8
Alignment explanation
Indices: 26335625--26335649 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26335615 TAATCTATCA
26335625 TTAAACAC
1 TTAAACAC
26335633 TTAAACAC
1 TTAAACAC
26335641 TTAAACAC
1 TTAAACAC
26335649 T
1 T
26335650 CAAGCATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (8 bp):
TTAAACAC
Found at i:26339653 original size:43 final size:43
Alignment explanation
Indices: 26339604--26339741 Score: 131
Period size: 42 Copynumber: 3.3 Consensus size: 43
26339594 TCCCAGACGT
* *
26339604 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAAACAA
1 GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAAACAA
* * * *
26339647 GGTCTTACACG-AAATCAGATAT-GATGTCGATGTCCCAAACAT
1 GGTCTTACACGTAATTCA-ATATCGATGCCTATGTCCCAAACAA
* * * * *
26339689 GGTCTTATACGTAATCTC-A-ATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGTAAT-TCAATATCGATGCCTATGTCCCAAACAA
26339731 GGTCTTACACG
1 GGTCTTACACG
26339742 ATGTCTCAGA
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.03
42 56 0.74
43 16 0.21
44 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAAACAA
Found at i:26339685 original size:42 final size:42
Alignment explanation
Indices: 26339585--26339704 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 42
26339575 AACAAGTACA
* * * *
26339585 ATGTCGATGTCCCAGACGTGGTCTTACATGTAATTCAATATCG
1 ATGTCGATGTCCCAAACATGGTCTTACACG-AAATCAATATCG
* ** *
26339628 ATGCCTCTGTCCCAAACAAGGTCTTACACGAAATCAGATAT-G
1 ATGTCGATGTCCCAAACATGGTCTTACACGAAATCA-ATATCG
* *
26339670 ATGTCGATGTCCCAAACATGGTCTTATACGTAATC
1 ATGTCGATGTCCCAAACATGGTCTTACACGAAATC
26339705 TCAATCGAGG
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 35 0.56
43 27 0.44
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGTCGATGTCCCAAACATGGTCTTACACGAAATCAATATCG
Found at i:26339759 original size:85 final size:85
Alignment explanation
Indices: 26339585--26339742 Score: 212
Period size: 84 Copynumber: 1.9 Consensus size: 85
26339575 AACAAGTACA
* * * *
26339585 ATGTCGATGTCCCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAAACAAGGT
1 ATGTCGATGTCCCAAACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAAACAAGGT
*
26339650 CTTACACGAAATCAGATATG
66 CTTACACGAAATCAGACATG
* * * *
26339670 ATGTCGATGTCCCAAACATGGTCTTATACGTAATCTC-A-ATCGAGGCCTGTGTCCCAGACACGG
1 ATGTCGATGTCCCAAACATGGTCTTACACGTAAT-TCAATATCGAGGCCTCTGTCCCAAACAAGG
26339733 TCTTACACGA
65 TCTTACACGA
26339743 TGTCTCAGAC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 31 0.48
85 31 0.48
86 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (85 bp):
ATGTCGATGTCCCAAACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAAACAAGGT
CTTACACGAAATCAGACATG
Found at i:26349688 original size:23 final size:23
Alignment explanation
Indices: 26349658--26349704 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
26349648 ATAGACACGC
26349658 CCGTGTGTCTAAGCCGTGTAACT
1 CCGTGTGTCTAAGCCGTGTAACT
26349681 CCGTGTGTCTAAGCCGTGTAACT
1 CCGTGTGTCTAAGCCGTGTAACT
26349704 C
1 C
26349705 ACTAACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.30
Consensus pattern (23 bp):
CCGTGTGTCTAAGCCGTGTAACT
Found at i:26350737 original size:20 final size:20
Alignment explanation
Indices: 26350709--26350821 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
26350699 ATTCATTTCT
* *
26350709 ATTCGTATAAACTGTAATTC
1 ATTCATATAAACAGTAATTC
* *
26350729 ATTCATATAACCAGTAGTTC
1 ATTCATATAAACAGTAATTC
* *
26350749 A-TCTGTATAAACAGTAGTTC
1 ATTC-ATATAAACAGTAATTC
26350769 A-TCA-ATAATAACAGTAATTC
1 ATTCATAT-A-AACAGTAATTC
* * * *
26350789 ATCCGTATCAATAGTAATTC
1 ATTCATATAAACAGTAATTC
*
26350809 ATCCATATAAACA
1 ATTCATATAAACA
26350822 CATATCTTAT
Statistics
Matches: 73, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
18 2 0.03
19 3 0.04
20 65 0.89
21 1 0.01
22 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.34
Consensus pattern (20 bp):
ATTCATATAAACAGTAATTC
Found at i:26350757 original size:40 final size:39
Alignment explanation
Indices: 26350712--26350818 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 39
26350702 CATTTCTATT
*
26350712 CGTATAAACTGTAATTCATTCATATAACCAGTAGTTCATC
1 CGTATAAACTGTAATTCATTCATATAA-CAGTAATTCATC
* * *
26350752 TGTATAAACAGTAGTTCA-TCAATAATAACAGTAATTCATC
1 CGTATAAACTGTAATTCATTC-AT-ATAACAGTAATTCATC
* *
26350792 CGTATCAA-TAGTAATTCATCCATATAA
1 CGTATAAACT-GTAATTCATTCATATAA
26350819 ACACATATCT
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
39 6 0.11
40 43 0.80
41 5 0.09
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (39 bp):
CGTATAAACTGTAATTCATTCATATAACAGTAATTCATC
Found at i:26351052 original size:22 final size:23
Alignment explanation
Indices: 26350989--26351079 Score: 89
Period size: 23 Copynumber: 4.0 Consensus size: 23
26350979 TTAGCTGATG
* *
26350989 AACATTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATCGAGCTGA
*
26351012 AACGGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTATCGAGCTGA
* *
26351034 AACAGTAAG-TTTATACGAGCTAA
1 AACAGTAAGCTCTAT-CGAGCTGA
*
26351057 AATAGTAAGCTCT-TACGAGCTGA
1 AACAGTAAGCTCTAT-CGAGCTGA
26351080 TATATCGGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.07
22 14 0.25
23 36 0.64
24 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:26367041 original size:14 final size:14
Alignment explanation
Indices: 26367022--26367061 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
26367012 GTTTGCCAGT
* *
26367022 AAAATGTTTTCCGG
1 AAAATGATTTACGG
26367036 AAAATGATTTACGG
1 AAAATGATTTACGG
26367050 AAAATGATTTAC
1 AAAATGATTTAC
26367062 TTTTCTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (14 bp):
AAAATGATTTACGG
Found at i:26367073 original size:19 final size:19
Alignment explanation
Indices: 26367049--26367087 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
26367039 ATGATTTACG
*
26367049 GAAAATGATTTACTTTTCT
1 GAAAATAATTTACTTTTCT
26367068 GAAAATAATTTACTTTTCT
1 GAAAATAATTTACTTTTCT
26367087 G
1 G
26367088 GTGTTTGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (19 bp):
GAAAATAATTTACTTTTCT
Found at i:26370900 original size:6 final size:6
Alignment explanation
Indices: 26370866--26370903 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
26370856 GGGACGGAAT
* *
26370866 GAAGG- GAAGGG GAAGGG GAAGGA GAAGGA GAAGGA GAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAA
26370904 AGCGTTTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:26371090 original size:14 final size:14
Alignment explanation
Indices: 26371071--26371097 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26371061 AGAAAATGCT
26371071 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
26371085 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
26371098 AGCTATACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:26371602 original size:20 final size:20
Alignment explanation
Indices: 26371577--26371640 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
26371567 TTGCAATATG
26371577 TTTAAAAATTTAGAATCGAA
1 TTTAAAAATTTAGAATCGAA
*
26371597 TTTAAAAA--TAAAAT-G--
1 TTTAAAAATTTAGAATCGAA
*
26371612 TTTAAAAATTTAGAGTCGAA
1 TTTAAAAATTTAGAATCGAA
26371632 TTTAAAAAT
1 TTTAAAAAT
26371641 AAAATGATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
15 8 0.22
17 5 0.14
18 6 0.17
20 17 0.47
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (20 bp):
TTTAAAAATTTAGAATCGAA
Found at i:26371620 original size:35 final size:35
Alignment explanation
Indices: 26371574--26371646 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
26371564 CGTTTGCAAT
26371574 ATGTTTAAAAATTTAGAATCGAATTTAAAAATAAA
1 ATGTTTAAAAATTTAGAATCGAATTTAAAAATAAA
*
26371609 ATGTTTAAAAATTTAGAGTCGAATTTAAAAATAAA
1 ATGTTTAAAAATTTAGAATCGAATTTAAAAATAAA
26371644 ATG
1 ATG
26371647 ATAGTTTAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.52, C:0.03, G:0.11, T:0.34
Consensus pattern (35 bp):
ATGTTTAAAAATTTAGAATCGAATTTAAAAATAAA
Found at i:26380578 original size:22 final size:21
Alignment explanation
Indices: 26380539--26380587 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
26380529 AATTATGACT
* * *
26380539 AAAAAACTAACAAGAAAATCA
1 AAAAAACTAAAAAAAAAAGCA
*
26380560 AAAAAACTTAAAAAAAAAAGGA
1 AAAAAAC-TAAAAAAAAAAGCA
26380582 AAAAAA
1 AAAAAA
26380588 GAAAGAAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (21 bp):
AAAAAACTAAAAAAAAAAGCA
Found at i:26381133 original size:10 final size:11
Alignment explanation
Indices: 26381118--26381142 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26381108 TTTCTAGAAC
26381118 TTTTTTAAAAT
1 TTTTTTAAAAT
26381129 TTTTTTAAAAT
1 TTTTTTAAAAT
26381140 TTT
1 TTT
26381143 GAGTTAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:26381410 original size:33 final size:30
Alignment explanation
Indices: 26381366--26381430 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 30
26381356 ATTTTTAGAA
*
26381366 TTTAAATTTAATA-TATTTTGAATTTTCTATTTT
1 TTTAAAATTAATAGT-TTTTG--TTTTC-ATTTT
26381399 TTTAAAATTAATAGTTTTTGTTTTCATTTT
1 TTTAAAATTAATAGTTTTTGTTTTCATTTT
26381429 TT
1 TT
26381431 GAATTTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 5 0.17
33 17 0.57
34 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (30 bp):
TTTAAAATTAATAGTTTTTGTTTTCATTTT
Found at i:26382231 original size:17 final size:17
Alignment explanation
Indices: 26382206--26382239 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26382196 TTAATTTAAT
26382206 TTTTAAAAATTTTATAA
1 TTTTAAAAATTTTATAA
*
26382223 TTTTGAAAATTTTATAA
1 TTTTAAAAATTTTATAA
26382240 GATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTTAAAAATTTTATAA
Found at i:26388329 original size:25 final size:26
Alignment explanation
Indices: 26388265--26388358 Score: 68
Period size: 25 Copynumber: 3.7 Consensus size: 26
26388255 AGATAACACT
* *
26388265 CCACAAAGGC-TTCTAGAAAGAATTAA
1 CCACAAAGGCTTTCCA-AAAGAATTCA
* * **
26388291 CCATAGAGTATTTCCAAAAG-ATTCA
1 CCACAAAGGCTTTCCAAAAGAATTCA
* * **
26388316 CCACAAAGGCTTT-CTAGAGAATTTT
1 CCACAAAGGCTTTCCAAAAGAATTCA
26388341 CCACAAAGGCTTTCCAAA
1 CCACAAAGGCTTTCCAAA
26388359 GAAATCTGTG
Statistics
Matches: 49, Mismatches: 16, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
24 4 0.08
25 29 0.59
26 12 0.24
27 4 0.08
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (26 bp):
CCACAAAGGCTTTCCAAAAGAATTCA
Found at i:26393418 original size:16 final size:16
Alignment explanation
Indices: 26393397--26393427 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26393387 AATTAATTTT
*
26393397 AATTAATTAGTTTTCC
1 AATTAAATAGTTTTCC
26393413 AATTAAATAGTTTTC
1 AATTAAATAGTTTTC
26393428 TTAACCCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (16 bp):
AATTAAATAGTTTTCC
Found at i:26397258 original size:6 final size:6
Alignment explanation
Indices: 26397232--26397281 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
26397222 TTAGAACATG
* * *
26397232 AAAATG AAAATA AAAAT- AAAATA AAAACA AAAATA AAAATA AAAACA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
26397279 AAA
1 AAA
26397282 GGGAAAGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:26405768 original size:64 final size:64
Alignment explanation
Indices: 26405661--26405787 Score: 168
Period size: 64 Copynumber: 2.0 Consensus size: 64
26405651 CCCACACCTA
* * * *
26405661 TTTGCGATCGGAGAAGACAACTGATGAGCGAGATTCTCGAAGCCAACAAGTCAACCCAAAACTG
1 TTTGCGATCGGAGAAGACAACTGAGGAGCGAGATTCCCAAAGCCAACAAGTCAAACCAAAACTG
* *
26405725 TTTGCGATCGGAGAAGACGA-TAGAGGAGC-AGAATTCCCAAAGCCAACAAGTCAAACTAAAACT
1 TTTGCGATCGGAGAAGACAACT-GAGGAGCGAG-ATTCCCAAAGCCAACAAGTCAAACCAAAACT
26405788 TGAGTATTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 3 0.05
64 52 0.95
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (64 bp):
TTTGCGATCGGAGAAGACAACTGAGGAGCGAGATTCCCAAAGCCAACAAGTCAAACCAAAACTG
Found at i:26405922 original size:20 final size:19
Alignment explanation
Indices: 26405883--26405928 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 19
26405873 ACCCAGAATG
26405883 AAATAAAATAACAATAAAA
1 AAATAAAATAACAATAAAA
26405902 AAATAAATATAACCAATAAAA
1 AAATAAA-ATAA-CAATAAAA
26405923 AAATAA
1 AAATAA
26405929 TTACTCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 7 0.28
20 4 0.16
21 14 0.56
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATAAAATAACAATAAAA
Found at i:26407232 original size:16 final size:17
Alignment explanation
Indices: 26407213--26407251 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
26407203 CTTTATTCAC
26407213 TTAATAT-ATTATAATA
1 TTAATATAATTATAATA
26407229 TTAATATAATTATAATA
1 TTAATATAATTATAATA
26407246 -TAATAT
1 TTAATAT
26407252 TATTTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATAATTATAATA
Found at i:26420649 original size:23 final size:22
Alignment explanation
Indices: 26420597--26420649 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
26420587 CCACGTCTTT
*
26420597 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
26420619 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
26420642 TTTCTTTT
1 TTTCTTTT
26420650 TCAATCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:26435799 original size:28 final size:29
Alignment explanation
Indices: 26435744--26435805 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
26435734 CCAGATGGTT
* *
26435744 CATATGAATGTGATTTGGGCCTAATGGGC
1 CATATGAATGAGATTTGGGCCCAATGGGC
*
26435773 CATATGAATGAGA-TTGGGCCCAGTGGGC
1 CATATGAATGAGATTTGGGCCCAATGGGC
26435801 CATAT
1 CATAT
26435806 ATTTGTATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
CATATGAATGAGATTTGGGCCCAATGGGC
Found at i:26440703 original size:11 final size:11
Alignment explanation
Indices: 26440685--26440721 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
26440675 CAATAACAAT
26440685 AAATAATAGCA
1 AAATAATAGCA
* *
26440696 ATATAATAGAA
1 AAATAATAGCA
26440707 AAATAATAGCA
1 AAATAATAGCA
26440718 AAAT
1 AAAT
26440722 GGCAACAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.22
Consensus pattern (11 bp):
AAATAATAGCA
Found at i:26447851 original size:21 final size:22
Alignment explanation
Indices: 26447821--26447861 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
26447811 AAAGAAAATT
*
26447821 GAAAAAAGTT-GAAGAAAGAGA
1 GAAAAAAGTTAGAAAAAAGAGA
*
26447842 GAAAATAGTTAGAAAAAAGA
1 GAAAAAAGTTAGAAAAAAGA
26447862 AACAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.12
Consensus pattern (22 bp):
GAAAAAAGTTAGAAAAAAGAGA
Found at i:26449390 original size:25 final size:23
Alignment explanation
Indices: 26449346--26449391 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
26449336 GTTGAGTGGC
* *
26449346 AGAATTTTCTTTGGGGTTTCTCA
1 AGAATTTTCTTTGAGCTTTCTCA
26449369 AGAATTCTCTCTTTGAGCTTTCT
1 AGAATT-T-TCTTTGAGCTTTCT
26449392 TTAGAAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 1 0.05
25 12 0.63
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (23 bp):
AGAATTTTCTTTGAGCTTTCTCA
Found at i:26452165 original size:29 final size:28
Alignment explanation
Indices: 26452133--26452206 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
26452123 AATTGATTCA
* *
26452133 GGCCAGATGGGTCATATGAATGTGATTTG
1 GGCCAGATGGGCCATATGAATGAGA-TTG
26452162 GGCCTA-ATGGGCCATATGAATGAGATTG
1 GGCC-AGATGGGCCATATGAATGAGATTG
26452190 GGCCCAG-TGGGCCATAT
1 GG-CCAGATGGGCCATAT
26452207 ATATGTATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 16 0.40
29 23 0.57
30 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (28 bp):
GGCCAGATGGGCCATATGAATGAGATTG
Found at i:26452200 original size:28 final size:29
Alignment explanation
Indices: 26452135--26452206 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
26452125 TTGATTCAGG
* *
26452135 CCAGATGGGTCATATGAATGTGATTTGGGC
1 CCAG-TGGGCCATATGAATGAGATTTGGGC
* *
26452165 CTAATGGGCCATATGAATGAGA-TTGGGC
1 CCAGTGGGCCATATGAATGAGATTTGGGC
26452193 CCAGTGGGCCATAT
1 CCAGTGGGCCATAT
26452207 ATATGTATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 18 0.50
29 16 0.44
30 2 0.06
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (29 bp):
CCAGTGGGCCATATGAATGAGATTTGGGC
Found at i:26457129 original size:11 final size:11
Alignment explanation
Indices: 26457112--26457149 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
26457102 CAATAACAAT
26457112 AAAATAATAGC
1 AAAATAATAGC
* *
26457123 AATATAATAGA
1 AAAATAATAGC
26457134 AAAATAATAGC
1 AAAATAATAGC
26457145 AAAAT
1 AAAAT
26457150 GGCAACAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:26467714 original size:29 final size:30
Alignment explanation
Indices: 26467660--26467717 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
26467650 TTAAATATTT
26467660 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAATTTAATATT-AAGTGATTATCTTAA
*
26467691 TATTAAATTTAAT-TT-AGTGTTTATCTT
1 TATT-AATTTAATATTAAGTGATTATCTT
26467718 GTGGATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 11 0.44
31 6 0.24
32 8 0.32
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.53
Consensus pattern (30 bp):
TATTAATTTAATATTAAGTGATTATCTTAA
Found at i:26467777 original size:18 final size:17
Alignment explanation
Indices: 26467754--26467787 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
26467744 AAGATTTAAT
26467754 ATTAAATTTAAATATTAG
1 ATTAAATTT-AATATTAG
26467772 ATTAAATTTAATATTA
1 ATTAAATTTAATATTA
26467788 AAGTGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTAAATTTAATATTAG
Found at i:26469294 original size:28 final size:28
Alignment explanation
Indices: 26469254--26469310 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
26469244 GAAGTTTGTT
26469254 CACGCTTACTGCACCAAATTGTTGACTA
1 CACGCTTACTGCACCAAATTGTTGACTA
26469282 CACGCTTACTGCACCAAATTGTTGACTA
1 CACGCTTACTGCACCAAATTGTTGACTA
26469310 C
1 C
26469311 TTTTTAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (28 bp):
CACGCTTACTGCACCAAATTGTTGACTA
Found at i:26472657 original size:12 final size:12
Alignment explanation
Indices: 26472640--26472664 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26472630 TAGCTTCTAC
26472640 TCTTTTTTTTTT
1 TCTTTTTTTTTT
26472652 TCTTTTTTTTTT
1 TCTTTTTTTTTT
26472664 T
1 T
26472665 TTGGGGGGGG
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:26480618 original size:37 final size:33
Alignment explanation
Indices: 26480568--26480657 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 33
26480558 TTATACCAAG
*
26480568 GAAGATGTAAGCTCAAAACTTAGTAAGTTGTGCCTTA
1 GAAGATGTAAGCTCAAAA-TT-G-AAGTTGTACC-TA
* *
26480605 GAAGATGTAAGCTCGAAATTGGAGTTGTACCTA
1 GAAGATGTAAGCTCAAAATTGAAGTTGTACCTA
26480638 GAGAGATGTAAGCTCAAAAT
1 GA-AGATGTAAGCTCAAAAT
26480658 CTAATGAGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
33 4 0.08
34 24 0.50
35 1 0.02
36 2 0.04
37 17 0.35
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (33 bp):
GAAGATGTAAGCTCAAAATTGAAGTTGTACCTA
Found at i:26480645 original size:34 final size:36
Alignment explanation
Indices: 26480568--26480695 Score: 120
Period size: 37 Copynumber: 3.6 Consensus size: 36
26480558 TTATACCAAG
*
26480568 GAAGATGTAAGCTCAAAACTTAGTAAGTTGTGCCTTA
1 GAAGATGTAAGCTCAAAA-TTAGTAAGTTGTACCTTA
* *
26480605 GAAGATGTAAGCTCGAAATT-G-GAGTTGTACC-TA
1 GAAGATGTAAGCTCAAAATTAGTAAGTTGTACCTTA
* * *
26480638 GAGAGATGTAAGCTCAAAATCTAATGAGTTGTACACTGA
1 GA-AGATGTAAGCTCAAAAT-TAGTAAGTTGTAC-CTTA
* *
26480677 -AAAATGTAAACTCAAAATT
1 GAAGATGTAAGCTCAAAATT
26480696 TACTGAATTG
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
33 4 0.05
34 24 0.31
35 2 0.03
36 3 0.04
37 41 0.53
38 2 0.03
39 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (36 bp):
GAAGATGTAAGCTCAAAATTAGTAAGTTGTACCTTA
Found at i:26480684 original size:37 final size:37
Alignment explanation
Indices: 26480626--26480712 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
26480616 CTCGAAATTG
* * *
26480626 GAGTTGTACCTAGAGAGATGTAAGCTCAAAATCTAAT
1 GAGTTGTACCTAGAAAAATGTAAACTCAAAATCTAAT
* *
26480663 GAGTTGTACACT-GAAAAATGTAAACTCAAAATTTACT
1 GAGTTGTAC-CTAGAAAAATGTAAACTCAAAATCTAAT
*
26480700 GAATTGTACCTAG
1 GAGTTGTACCTAG
26480713 GATGGTGTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
36 2 0.05
37 38 0.90
38 2 0.05
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (37 bp):
GAGTTGTACCTAGAAAAATGTAAACTCAAAATCTAAT
Found at i:26480765 original size:23 final size:23
Alignment explanation
Indices: 26480720--26480767 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
26480710 TAGGATGGTG
* *
26480720 TAAGCTTAAAATTTAAGTTGATA
1 TAAGCTTAAAACTTAAGTAGATA
26480743 TAAGCTTAAAACTTAA-TGAGATA
1 TAAGCTTAAAACTTAAGT-AGATA
26480766 TA
1 TA
26480768 CTTGAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.35
Consensus pattern (23 bp):
TAAGCTTAAAACTTAAGTAGATA
Found at i:26483995 original size:14 final size:14
Alignment explanation
Indices: 26483976--26484013 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
26483966 TTATACTTAT
26483976 TTTTTATTTTTAAA
1 TTTTTATTTTTAAA
* *
26483990 TTTTTAATATTAAA
1 TTTTTATTTTTAAA
26484004 TTTTT-TTTTT
1 TTTTTATTTTT
26484014 TGTAAACTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 3 0.15
14 17 0.85
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATTTTTAAA
Found at i:26486123 original size:18 final size:19
Alignment explanation
Indices: 26486100--26486140 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
26486090 ATTCACACGA
26486100 AAATAAATTG-AAAAAAAT
1 AAATAAATTGAAAAAAAAT
26486118 AAATAAATTGAAAAAAAAT
1 AAATAAATTGAAAAAAAAT
26486137 AAAT
1 AAAT
26486141 TTGGATTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (19 bp):
AAATAAATTGAAAAAAAAT
Found at i:26497549 original size:13 final size:12
Alignment explanation
Indices: 26497500--26497549 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
26497490 TCCTTCTGCT
26497500 TCATCACATTCCA
1 TCATC-CATTCCA
26497513 T-ATCCATGT-CA
1 TCATCCAT-TCCA
26497524 TCATCCATTCCA
1 TCATCCATTCCA
*
26497536 TCTTCCATTTCCA
1 TCATCCA-TTCCA
26497549 T
1 T
26497550 ACTCTCATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
11 7 0.22
12 18 0.56
13 7 0.22
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (12 bp):
TCATCCATTCCA
Found at i:26501822 original size:31 final size:32
Alignment explanation
Indices: 26501781--26501897 Score: 141
Period size: 32 Copynumber: 3.7 Consensus size: 32
26501771 TTTTAAAGGA
*
26501781 ATATTT-TTATCATTTAACAAAATTAAAGTTG
1 ATATTTGTTATCATTTCACAAAATTAAAGTTG
* *
26501812 ATA-TTCTTATCATTTCACAAAATTGAAGTTG
1 ATATTTGTTATCATTTCACAAAATTAAAGTTG
* * *
26501843 -TAATTTGTTACCATTTCACAAAATGAAAGGTG
1 AT-ATTTGTTATCATTTCACAAAATTAAAGTTG
*
26501875 ATATTTGTTATCAATTCACAAAA
1 ATATTTGTTATCATTTCACAAAA
26501898 CCGCGCATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
30 3 0.04
31 27 0.37
32 42 0.58
33 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (32 bp):
ATATTTGTTATCATTTCACAAAATTAAAGTTG
Found at i:26504160 original size:18 final size:19
Alignment explanation
Indices: 26504116--26504170 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
26504106 ATATATCACC
26504116 TCAACAAATAATTTAAAAAT
1 TCAA-AAATAATTTAAAAAT
*
26504136 T-ATAAAAT-ATTTTAAAAT
1 TCA-AAAATAATTTAAAAAT
*
26504154 TCAAAAA-AATATAAAAA
1 TCAAAAATAATTTAAAAA
26504171 AAGTTGATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 21 0.72
19 6 0.21
20 2 0.07
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
TCAAAAATAATTTAAAAAT
Found at i:26504393 original size:54 final size:56
Alignment explanation
Indices: 26504334--26504440 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 56
26504324 TAGGGTCAAC
26504334 TTTTTAAC-T-CAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGCCAAT
1 TTTTTAACTTACAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGCCAAT
* *
26504388 TTTTTAACTTAAGAATAAGTATCAAATTGACAAAAATTATAAACATTAAGAGC
1 TTTTTAACTT-ACAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGC
26504441 TTAATTTATC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
54 8 0.17
55 1 0.02
57 39 0.81
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (56 bp):
TTTTTAACTTACAATAAGTATAAAATTGACAAAAATTATAAACATTAAGAGCCAAT
Found at i:26510778 original size:42 final size:42
Alignment explanation
Indices: 26510725--26510806 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
26510715 TATTTTTATT
26510725 TTATGTTTTAGTAGTTTATTAGAAAAAGGGAACTATTTTCCC
1 TTATGTTTTAGTAGTTTATTAGAAAAAGGGAACTATTTTCCC
*
26510767 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTC
1 TTATGTTTTAGTAGTTTATTAGAAAAAGGGAACTATTTTC
26510807 TCAATTAGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (42 bp):
TTATGTTTTAGTAGTTTATTAGAAAAAGGGAACTATTTTCCC
Found at i:26514608 original size:19 final size:19
Alignment explanation
Indices: 26514562--26514609 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
26514552 GTATATATTT
*
26514562 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
* *
26514580 CAAATCTTATTTAGGAAGA
1 TAAATTTTATTTAGGAAGA
26514599 TAAATTTTATT
1 TAAATTTTATT
26514610 CATATTCTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:26514670 original size:43 final size:43
Alignment explanation
Indices: 26514623--26514713 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 43
26514613 ATTCTAGGAA
**
26514623 TATTTTTATTTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
1 TATTTTTACCTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
* ** *
26514666 TA-TTTTCCCTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTTACCTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
26514708 TATTTT
1 TATTTT
26514714 CCCAATTAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 36 0.88
43 5 0.12
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (43 bp):
TATTTTTACCTTATCATTTAGTAGTTTATTAGAATAAGGAAAC
Found at i:26521781 original size:5 final size:6
Alignment explanation
Indices: 26521764--26521788 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26521754 GGTTATAATT
26521764 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
26521789 AGCTTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:26529273 original size:20 final size:20
Alignment explanation
Indices: 26529250--26529289 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26529240 ATTTAATCTC
26529250 TTTTTAAAATTTAAATTTAA
1 TTTTTAAAATTTAAATTTAA
* * *
26529270 TTTTTATATTTTCAATTTAA
1 TTTTTAAAATTTAAATTTAA
26529290 AACCAAATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTAAAATTTAAATTTAA
Found at i:26530258 original size:25 final size:25
Alignment explanation
Indices: 26530224--26530274 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
26530214 AGCATCAACA
26530224 TACCCAATGACTCCATCTCTAGTTC
1 TACCCAATGACTCCATCTCTAGTTC
26530249 TACCCAATGACTCCATCTCTAGTTC
1 TACCCAATGACTCCATCTCTAGTTC
26530274 T
1 T
26530275 TCCAAACTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.35, G:0.08, T:0.33
Consensus pattern (25 bp):
TACCCAATGACTCCATCTCTAGTTC
Found at i:26535482 original size:23 final size:23
Alignment explanation
Indices: 26535433--26535482 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
26535423 TTTTTTTTTG
* * *
26535433 AGTTAACTCAAATAAGTATTTCG
1 AGTTAACTCAAATAAGTAATACA
*
26535456 AGTTAACTCAGATAAGTAATACA
1 AGTTAACTCAAATAAGTAATACA
26535479 AGTT
1 AGTT
26535483 TTGAGTTCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (23 bp):
AGTTAACTCAAATAAGTAATACA
Found at i:26535658 original size:19 final size:20
Alignment explanation
Indices: 26535632--26535672 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
26535622 TAAAATTTAC
*
26535632 ATTTTTTAAAAAGTATAAAA
1 ATTTTTAAAAAAGTATAAAA
*
26535652 ATTTTTAAAAAATTATAAAA
1 ATTTTTAAAAAAGTATAAAA
26535672 A
1 A
26535673 ATATATAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTTTTAAAAAAGTATAAAA
Found at i:26535673 original size:10 final size:10
Alignment explanation
Indices: 26535639--26535681 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
26535629 TACATTTTTT
*
26535639 AAAAAGTATA
1 AAAAATTATA
* *
26535649 AAAATTTTTA
1 AAAAATTATA
26535659 AAAAATTATA
1 AAAAATTATA
26535669 AAAAATATATA
1 AAAAAT-TATA
26535680 AA
1 AA
26535682 GAGAGTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 21 0.78
11 6 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:26542487 original size:30 final size:31
Alignment explanation
Indices: 26542420--26542491 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
26542410 CAAGTTAATC
*
26542420 TTTAAACTTAACAATTGTTCCTATATTGAGA
1 TTTAAACTTAACAATTGTTCCTATACTGAGA
* * * *
26542451 TCTAAACTTGAGAATTGTTCC-ATGCTGAGA
1 TTTAAACTTAACAATTGTTCCTATACTGAGA
26542481 TTTAAACTTAA
1 TTTAAACTTAA
26542492 AGATTTTCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (31 bp):
TTTAAACTTAACAATTGTTCCTATACTGAGA
Found at i:26553629 original size:23 final size:23
Alignment explanation
Indices: 26553602--26553658 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
26553592 CAATTAGTTC
*
26553602 CACTTTTGTACTTGTATTTTTTT
1 CACTTTGGTACTTGTATTTTTTT
26553625 CACTTTGGTACTTGTATTTTTTT
1 CACTTTGGTACTTGTATTTTTTT
26553648 CACTTTGGTAC
1 CACTTTGGTAC
26553659 CTAAACTTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.58
Consensus pattern (23 bp):
CACTTTGGTACTTGTATTTTTTT
Found at i:26554946 original size:16 final size:16
Alignment explanation
Indices: 26554916--26554946 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26554906 AAGAGAGAAA
*
26554916 AATAAAGGAAAAAAAG
1 AATAAAGAAAAAAAAG
26554932 AATAAAGAAAAAAAA
1 AATAAAGAAAAAAAA
26554947 ATTAAATTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (16 bp):
AATAAAGAAAAAAAAG
Found at i:26554952 original size:15 final size:15
Alignment explanation
Indices: 26554913--26554948 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
26554903 GATAAGAGAG
26554913 AAAAATAAAGGAAAA
1 AAAAATAAAGGAAAA
26554928 AAAGAATAAA-GAAAA
1 AAA-AATAAAGGAAAA
26554943 AAAAAT
1 AAAAAT
26554949 TAAATTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 11 0.55
16 6 0.30
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (15 bp):
AAAAATAAAGGAAAA
Found at i:26560716 original size:19 final size:19
Alignment explanation
Indices: 26560688--26560724 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26560678 ATTATATATT
*
26560688 TATTTATAAACTTTTTATA
1 TATTTATAAAATTTTTATA
*
26560707 TATTTTTAAAATTTTTAT
1 TATTTATAAAATTTTTAT
26560725 TTCAGTTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATAAAATTTTTATA
Found at i:26561183 original size:20 final size:23
Alignment explanation
Indices: 26561144--26561190 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 23
26561134 CTTTGACCTT
26561144 AATTATATATAAAAATTATAGAA
1 AATTATATATAAAAATTATAGAA
*
26561167 AATTATA-A-AAAAA-TATATAA
1 AATTATATATAAAAATTATAGAA
26561187 AATT
1 AATT
26561191 TTATCAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 5 0.22
22 1 0.04
23 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AATTATATATAAAAATTATAGAA
Done.