Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 95 of 187
Found at i:27774010 original size:23 final size:22
Alignment explanation
Indices: 27773979--27774037 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
27773969 TATCCAAACA
27773979 ATAACAACAAAATAGTAAGCAAC
1 ATAACAACAAAATAGT-AGCAAC
* * *
27774002 ATAATAACAAAATGGTAGCAAA
1 ATAACAACAAAATAGTAGCAAC
* *
27774024 ACAACAGCAAAATA
1 ATAACAACAAAATA
27774038 ACTAATTCAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.61, C:0.15, G:0.10, T:0.14
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:27778331 original size:33 final size:34
Alignment explanation
Indices: 27778278--27778341 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
27778268 TTTATTATTG
* *
27778278 TATTATTATTAAATATTATAAGTATTATTATCAT
1 TATTATTAATAAATAATATAAGTATTATTATCAT
27778312 TATTATTAATAAA-AATATAAGTATTATTAT
1 TATTATTAATAAATAATATAAGTATTATTAT
27778342 TCAACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (34 bp):
TATTATTAATAAATAATATAAGTATTATTATCAT
Found at i:27780877 original size:109 final size:109
Alignment explanation
Indices: 27780736--27780951 Score: 432
Period size: 109 Copynumber: 2.0 Consensus size: 109
27780726 CTTTTGCCGT
27780736 GCATTGTATATGGTTTTTAGTGTAGAAATGTTATTCTCGTCCTGCTCCTTCAGTGTCGATAATAT
1 GCATTGTATATGGTTTTTAGTGTAGAAATGTTATTCTCGTCCTGCTCCTTCAGTGTCGATAATAT
27780801 GTCACGTGGTGTAATATTCTTACTCGTCAAATGAACCAACAACG
66 GTCACGTGGTGTAATATTCTTACTCGTCAAATGAACCAACAACG
27780845 GCATTGTATATGGTTTTTAGTGTAGAAATGTTATTCTCGTCCTGCTCCTTCAGTGTCGATAATAT
1 GCATTGTATATGGTTTTTAGTGTAGAAATGTTATTCTCGTCCTGCTCCTTCAGTGTCGATAATAT
27780910 GTCACGTGGTGTAATATTCTTACTCGTCAAATGAACCAACAA
66 GTCACGTGGTGTAATATTCTTACTCGTCAAATGAACCAACAA
27780952 TTTTTTTTCA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 107 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (109 bp):
GCATTGTATATGGTTTTTAGTGTAGAAATGTTATTCTCGTCCTGCTCCTTCAGTGTCGATAATAT
GTCACGTGGTGTAATATTCTTACTCGTCAAATGAACCAACAACG
Found at i:27781016 original size:48 final size:48
Alignment explanation
Indices: 27780945--27781042 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
27780935 GTCAAATGAA
*
27780945 CCAACAATTTTTTTTCATTTTCTTTCAACCGCCTTGCATAAGCATGTC
1 CCAACAAATTTTTTTCATTTTCTTTCAACCGCCTTGCATAAGCATGTC
27780993 CCAACAAATTTTTTTCATTTTCTTTCAACCGCCTTGCATAAGCATGTC
1 CCAACAAATTTTTTTCATTTTCTTTCAACCGCCTTGCATAAGCATGTC
27781041 CC
1 CC
27781043 TCTATATGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.23, C:0.29, G:0.08, T:0.40
Consensus pattern (48 bp):
CCAACAAATTTTTTTCATTTTCTTTCAACCGCCTTGCATAAGCATGTC
Found at i:27781936 original size:20 final size:19
Alignment explanation
Indices: 27781899--27781944 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
27781889 AAATGTACTA
*
27781899 ATTAA-TTTTTTGGGCCAC
1 ATTAATTTTTTTGGACCAC
27781917 ATTAATTTTCTTTGGACCAC
1 ATTAATTTT-TTTGGACCAC
27781937 ATTAATTT
1 ATTAATTT
27781945 AAGATCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.20
19 3 0.12
20 17 0.68
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (19 bp):
ATTAATTTTTTTGGACCAC
Found at i:27782793 original size:24 final size:26
Alignment explanation
Indices: 27782745--27782794 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27782735 ACATTATTTT
27782745 AATGTAATAGAATAATAATGTATAAAA
1 AATGTAATAGAATAAT-ATGTATAAAA
*
27782772 AATGTGATAGAATAAT-TG-ATAAA
1 AATGTAATAGAATAATATGTATAAA
27782795 TTTATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
27 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.30
Consensus pattern (26 bp):
AATGTAATAGAATAATATGTATAAAA
Found at i:27789559 original size:69 final size:69
Alignment explanation
Indices: 27789134--27789747 Score: 421
Period size: 69 Copynumber: 8.9 Consensus size: 69
27789124 AATTATTGTT
* ** * * *
27789134 TGTAAAATCAAGGTTCGAAGGTGAAGAGCTGCAACCTCTAACACAGTTAGCGAGAGCAAAGCTCC
1 TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAAACTCC
**
27789199 TAAA
66 TAGC
* * * * * *
27789203 TATAAAATCAAGGTTTGCT-GG-AGAAGAGCCACGACCTTTAACACAGTTAGCGAGAGTAAAGCT
1 TGTAAAATCAAGGTTCG-TAGGCA-AAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAAACT
27789266 CCTAGC
64 CCTAGC
* * * * * **
27789272 TGTAAAATCAAGGCTCGTAGGCGAAGAGCCGCAACCTCTAACACAATTAGCGA-ATGTAAAGGTC
1 TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGA-GCAAAACTC
27789336 CTAG-
65 CTAGC
* * * * *
27789340 TGTTAGAATCAAGGTTCGTAGGCGAAGAGTCGCGAACTCTAACATAGTTAGCGAGAGCAAAACTC
1 TG-TAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAAACTC
* *
27789405 CCAGT
65 CTAGC
* * * * * *
27789410 TGTAAAGTCAAGGTTCGTAGGCAAAGAGTCGTGACCTCTAACATAGTTAGCTAGAGCAAATA-TT
1 TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAA-ACTC
*
27789474 CTAGT
65 CTAGC
* * * * * * *
27789479 TGTAAAATCAAAGTTCGCAAGCAAAGAGTCACGACCTCTAACACAGTTAGTGAGAGCAAAACACC
1 TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAAACTCC
27789544 TAGC
66 TAGC
* * * * * * * * *
27789548 TATAAAATCAAAGTTC-AACAGCGAAGAGCCGCGACCACTAA-AGCAATTAACGAGAGCAAAACA
1 TGTAAAATCAAGGTTCGTA-GGCAAAGAGCCGCGACCTCTAACA-CAGTTAGCGAGAGCAAAACT
*
27789611 CTTAGC
64 CCTAGC
* * ** * * * * *
27789617 TGTAAAATTAAAGTTTATAGGCAAAGAGCCACAACCAC-AA-AGCAGTTAGCGAGAGTAAAGCTT
1 TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACA-CAGTTAGCGAGAGCAAAAC-T
*
27789680 CC-AGT
64 CCTAGC
* * * *
27789685 TGTAAAATCAAAGTTCGCAAGTG-AAA-AACCACGATCCTC--A-ACAGTTAGCGAGAGCAAAAC
1 TGTAAAATCAAGGTTCG-TAG-GCAAAGAGCCGCGA-CCTCTAACACAGTTAGCGAGAGCAAAAC
27789745 TCC
63 TCC
27789748 CATCTGTAGA
Statistics
Matches: 443, Mismatches: 85, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
66 3 0.01
67 17 0.04
68 50 0.11
69 367 0.83
70 6 0.01
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (69 bp):
TGTAAAATCAAGGTTCGTAGGCAAAGAGCCGCGACCTCTAACACAGTTAGCGAGAGCAAAACTCC
TAGC
Found at i:27791183 original size:31 final size:31
Alignment explanation
Indices: 27791090--27791185 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
27791080 GGCAAATTAC
* *
27791090 AAGAGTAAGTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
27791121 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
27791153 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
27791184 AA
1 AA
27791186 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:27796781 original size:46 final size:46
Alignment explanation
Indices: 27796712--27796834 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 46
27796702 AGGTAGGCAA
* *
27796712 CTTTTTTTTGCGCTGTTTGCTTTTTTTTTTAAGATTTTTCTCAACT
1 CTTTTTTTTGCGCTATTTGCTTTTTTTTTTAAGATTTTTCTCAAAT
*
27796758 CTTTTTTTTGCGCTATTTCCTTTTTTTTTT-AGATTTTTCTCAAAT
1 CTTTTTTTTGCGCTATTTGCTTTTTTTTTTAAGATTTTTCTCAAAT
*
27796803 -TTTTTTTTGCGCTTTTTGCTTTTTTTTATTAA
1 CTTTTTTTTGCGCTATTTGCTTTTTTTT-TTAA
27796835 CTAATTTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
44 25 0.36
45 16 0.23
46 29 0.41
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (46 bp):
CTTTTTTTTGCGCTATTTGCTTTTTTTTTTAAGATTTTTCTCAAAT
Found at i:27796782 original size:45 final size:45
Alignment explanation
Indices: 27796712--27796829 Score: 166
Period size: 44 Copynumber: 2.6 Consensus size: 45
27796702 AGGTAGGCAA
* * *
27796712 CTTTTTTTTGCGCTGTTTGCTTTTTTTTTTAAGATTTTTCTCAACT
1 CTTTTTTTTGCGCTATTT-CCTTTTTTTTTAAGATTTTTCTCAAAT
*
27796758 CTTTTTTTTGCGCTATTTCCTTTTTTTTTTAGATTTTTCTCAAAT
1 CTTTTTTTTGCGCTATTTCCTTTTTTTTTAAGATTTTTCTCAAAT
* *
27796803 -TTTTTTTTGCGCTTTTTGCTTTTTTTT
1 CTTTTTTTTGCGCTATTTCCTTTTTTTT
27796830 ATTAACTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 25 0.38
45 24 0.36
46 17 0.26
ACGTcount: A:0.09, C:0.14, G:0.09, T:0.67
Consensus pattern (45 bp):
CTTTTTTTTGCGCTATTTCCTTTTTTTTTAAGATTTTTCTCAAAT
Found at i:27797442 original size:31 final size:31
Alignment explanation
Indices: 27797349--27797444 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
27797339 GGCAAATTAC
* *
27797349 AAGAGTAATTGAATCATAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
27797380 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
27797412 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
27797443 AA
1 AA
27797445 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:27800518 original size:2 final size:2
Alignment explanation
Indices: 27800507--27800536 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27800497 AAATAAAAAC
27800507 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
27800537 TTATCTCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:27803476 original size:16 final size:17
Alignment explanation
Indices: 27803455--27803495 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
27803445 TCCAAAGTAC
*
27803455 AATTTTATCA-TTAATT
1 AATTTTATAATTTAATT
27803471 AATTTT-TAATTTAATT
1 AATTTTATAATTTAATT
27803487 -ATTTTATAA
1 AATTTTATAA
27803496 AGACTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTATAATTTAATT
Found at i:27805839 original size:15 final size:16
Alignment explanation
Indices: 27805802--27805839 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
27805792 TGGATACCTA
*
27805802 AAAAAAATATAAATTT
1 AAAAAAATATAAACTT
*
27805818 TAAAAAAT-TAAACTT
1 AAAAAAATATAAACTT
27805833 AAAAAAA
1 AAAAAAA
27805840 CCCAAACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAAATATAAACTT
Found at i:27809499 original size:68 final size:68
Alignment explanation
Indices: 27809390--27809596 Score: 378
Period size: 68 Copynumber: 3.0 Consensus size: 68
27809380 AACCCAAATT
* **
27809390 TAATATTAAAAATGATTTTAATCTATTTTTAATAAATTAATTATGTATTTTTATGTATAATAAAA
1 TAATATTAAAAATAATAATAATCTATTTTTAATAAATTAATTATGTATTTTTATGTATAATAAAA
27809455 TAA
66 TAA
27809458 TAATATTAAAAATAATAATAATCTATTTTTAATAAATTAATTATGTATTTTTATGTATAATAAAA
1 TAATATTAAAAATAATAATAATCTATTTTTAATAAATTAATTATGTATTTTTATGTATAATAAAA
27809523 TAA
66 TAA
*
27809526 TAATATTAAAAATAATAATAATCTATTTTTAATAAATTAATTATGTATTTTTATATATAATAAAA
1 TAATATTAAAAATAATAATAATCTATTTTTAATAAATTAATTATGTATTTTTATGTATAATAAAA
27809591 TAA
66 TAA
27809594 TAA
1 TAA
27809597 ATTTTGAGGA
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 135 1.00
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (68 bp):
TAATATTAAAAATAATAATAATCTATTTTTAATAAATTAATTATGTATTTTTATGTATAATAAAA
TAA
Found at i:27814649 original size:56 final size:56
Alignment explanation
Indices: 27814563--27814684 Score: 192
Period size: 56 Copynumber: 2.2 Consensus size: 56
27814553 TAAAAACTAT
* * *
27814563 GTAAAATTATTAAGCCCAATAACTTTTGTTAATGGTTAGTAA-ATTTATCAAATTAA
1 GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGA-TTATCAAATTAA
*
27814619 GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGATTATCAAATTAG
1 GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGATTATCAAATTAA
27814675 GTAAAATTAT
1 GTAAAATTAT
27814685 GTTATGGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 60 0.98
57 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (56 bp):
GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGATTATCAAATTAA
Found at i:27814704 original size:23 final size:23
Alignment explanation
Indices: 27814678--27814762 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
27814668 AAATTAGGTA
* *
27814678 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
* *
27814701 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
27814724 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
27814747 AAATTAGGTTAGGGTT
1 AAATTAGGTTAGGGTT
27814763 AGGGTTTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAAAT
Found at i:27814764 original size:29 final size:29
Alignment explanation
Indices: 27814730--27814910 Score: 317
Period size: 29 Copynumber: 6.2 Consensus size: 29
27814720 AAATAAATTA
27814730 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
27814759 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
27814788 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
27814817 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
27814846 GGTTAGGGTTGTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
27814875 GGTTAAGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
27814904 GGTTAGG
1 GGTTAGG
27814911 TTAGGGTTAG
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 142 1.00
ACGTcount: A:0.28, C:0.00, G:0.29, T:0.43
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:27814794 original size:58 final size:58
Alignment explanation
Indices: 27814730--27814992 Score: 366
Period size: 58 Copynumber: 4.3 Consensus size: 58
27814720 AAATAAATTA
27814730 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTAG
*
27814788 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTAG
* *
27814846 GGTTAGGGTTGTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AA--A--TTA--G---GG
27814911 TTAG
56 -TAG
* *
27814915 GGTTAGGGTTTTTAATTAAATTATGG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTA-GGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTAG
27814973 GGTTAGGGTTTTTAATTAAA
1 GGTTAGGGTTTTTAATTAAA
27814993 GTTTTTAATT
Statistics
Matches: 185, Mismatches: 8, Indels: 24
0.85 0.04 0.11
Matches are distributed among these distances:
58 122 0.66
59 3 0.02
61 1 0.01
62 1 0.01
63 3 0.02
64 3 0.02
65 1 0.01
66 1 0.01
68 4 0.02
69 44 0.24
70 2 0.01
ACGTcount: A:0.29, C:0.00, G:0.28, T:0.43
Consensus pattern (58 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGGTAG
Found at i:27814820 original size:23 final size:23
Alignment explanation
Indices: 27814678--27814820 Score: 106
Period size: 23 Copynumber: 5.7 Consensus size: 23
27814668 AAATTAGGTA
* * *
27814678 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAAGGTTTTTAATT
* * *
27814701 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAAGGTTTTTAATT
*
27814724 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAAGGTTTTTAATT
27814747 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTA-----A-GGTTTTTAATT
*
27814776 AAATTAGGGTAGGGTTAGGGTTTTTAATT
1 AAA-T----TA-GGTTAAGGTTTTTAATT
27814805 AAATTAGGTTAAGGTT
1 AAATTAGGTTAAGGTT
27814821 AGGGTTTTTA
Statistics
Matches: 102, Mismatches: 6, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
23 63 0.62
24 2 0.02
28 1 0.01
29 28 0.27
30 1 0.01
34 2 0.02
35 5 0.05
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.46
Consensus pattern (23 bp):
AAATTAGGTTAAGGTTTTTAATT
Found at i:27814847 original size:23 final size:24
Alignment explanation
Indices: 27814685--27814992 Score: 150
Period size: 29 Copynumber: 11.8 Consensus size: 24
27814675 GTAAAATTAT
* * *
27814685 GTTATGGTTTTTAAATAAATTA-T
1 GTTAGGGTTTTTAATTAAATTAGG
* *
27814708 GTTATGGTTTTTAAATAAATTA-G
1 GTTAGGGTTTTTAATTAAATTAGG
27814731 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATT-AA--A--TTAGG
27814760 GTTAGGGTTTTTAATTAAATTAGGGTAGG
1 GTTAGGGTTTTTAATTAAA-T----TAGG
27814789 GTTAGGGTTTTTAATTAAATTAGGTTAAG
1 GTTAGGGTTTTTAATTAAATTA-G----G
27814818 GTTAGGGTTTTTAATTAAATTAGGGTAGG
1 GTTAGGGTTTTTAATTAAA-T----TAGG
*
27814847 GTTAGGGTTGTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATT-AA--A--TTAGG
*
27814876 GTTAAGGTTTTTAATTAAATTA-G
1 GTTAGGGTTTTTAATTAAATTAGG
**
27814899 GTTAGGG-------TTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
27814916 GTTAGGGTTTTTAATTAAATTATGGTAGG
1 GTTAGGGTTTTTAATT-AA--AT--TAGG
27814945 GTTAGGGTTTTTAATTAAATTAGGTTAAG
1 GTTAGGGTTTTTAATTAAATTA-G----G
27814974 GTTAGGGTTTTTAATTAAA
1 GTTAGGGTTTTTAATTAAA
27814993 GTTTTTAATT
Statistics
Matches: 230, Mismatches: 13, Indels: 78
0.72 0.04 0.24
Matches are distributed among these distances:
16 6 0.03
17 8 0.03
23 43 0.19
24 11 0.05
25 4 0.02
26 5 0.02
27 1 0.00
28 10 0.04
29 134 0.58
30 3 0.01
32 1 0.00
33 2 0.01
34 2 0.01
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (24 bp):
GTTAGGGTTTTTAATTAAATTAGG
Found at i:27814911 original size:11 final size:11
Alignment explanation
Indices: 27814895--27814921 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27814885 TTTAATTAAA
27814895 TTAGGTTAGGG
1 TTAGGTTAGGG
27814906 TTAGGTTAGGG
1 TTAGGTTAGGG
27814917 TTAGG
1 TTAGG
27814922 GTTTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (11 bp):
TTAGGTTAGGG
Found at i:27814925 original size:40 final size:40
Alignment explanation
Indices: 27814866--27815021 Score: 145
Period size: 42 Copynumber: 4.1 Consensus size: 40
27814856 GTTAATTAAA
27814866 TTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGG
*
27814906 TTAGGTTAGGGTTAGGGTTTTTAATT-AA--A--TTA---
1 TTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGG
* *
27814938 -T-GG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGG
**** *
27814975 TTAGGGTTTTTAATTAAAGTTTTTAATTAAATTAGGTTAGGG
1 TTA-GG-TTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGG
27815017 TTAGG
1 TTAGG
27815022 GTATGAAATA
Statistics
Matches: 95, Mismatches: 8, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
29 20 0.21
30 4 0.04
31 1 0.01
32 1 0.01
34 3 0.03
35 3 0.03
37 1 0.01
38 1 0.01
39 2 0.02
40 27 0.28
41 2 0.02
42 30 0.32
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (40 bp):
TTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGG
Found at i:27814934 original size:69 final size:69
Alignment explanation
Indices: 27814837--27815019 Score: 242
Period size: 69 Copynumber: 2.6 Consensus size: 69
27814827 TTTAATTAAA
* *
27814837 TTAGGGTAGGGTTAGGGTTGTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTT
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTT
*
27814902 AGGG
66 AAGG
*
27814906 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTATGG-TAGGGTTAGGGTTTTTAATTAAATTAGGT
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GGTTAGGGTTAAGGTTTTTAATTAAATTAGGT
27814970 TAAGG
65 TAAGG
**** **
27814975 TTAGGGTTTTTAATTAAAGTTTTTAATTAAATTAGGTTAGGGTTA
1 TTA-GG-TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA
27815020 GGGTATGAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
69 65 0.65
70 6 0.06
71 29 0.29
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (69 bp):
TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTT
AAGG
Found at i:27814934 original size:98 final size:98
Alignment explanation
Indices: 27814808--27814992 Score: 325
Period size: 98 Copynumber: 1.9 Consensus size: 98
27814798 TTTAATTAAA
27814808 TTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTGTTAATTAAATTAGGTT
1 TTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTGTTAATTAAATTAGGTT
*
27814873 AGGGTTAAGGTTTTTAATTAAATTAGGTTAGGG
66 AAGGTTAAGGTTTTTAATTAAATTAGGTTAGGG
* * *
27814906 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTATGGTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 TTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTGTTAATTAAATTAGGTT
*
27814971 AAGGTTAGGGTTTTTAATTAAA
66 AAGGTTAAGGTTTTTAATTAAA
27814993 GTTTTTAATT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 82 1.00
ACGTcount: A:0.29, C:0.00, G:0.28, T:0.43
Consensus pattern (98 bp):
TTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTGTTAATTAAATTAGGTT
AAGGTTAAGGTTTTTAATTAAATTAGGTTAGGG
Found at i:27814998 original size:13 final size:13
Alignment explanation
Indices: 27814980--27815005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27814970 TAAGGTTAGG
27814980 GTTTTTAATTAAA
1 GTTTTTAATTAAA
27814993 GTTTTTAATTAAA
1 GTTTTTAATTAAA
27815006 TTAGGTTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
GTTTTTAATTAAA
Found at i:27816253 original size:7 final size:7
Alignment explanation
Indices: 27816238--27816268 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
27816228 TATTACTTAT
*
27816238 ATACAAA
1 ATACTAA
27816245 ATACTAA
1 ATACTAA
27816252 ATACTAA
1 ATACTAA
27816259 ATACTAA
1 ATACTAA
27816266 ATA
1 ATA
27816269 TCAATCCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (7 bp):
ATACTAA
Found at i:27817418 original size:30 final size:30
Alignment explanation
Indices: 27817354--27817416 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
27817344 GCCATTGATG
*
27817354 AAAATATAAAAAAAATTTAAAATTATTTTA
1 AAAATATAAAAAAAATTTAAAATTATTTAA
*
27817384 AAAATAT-AAAAAAATTTGAAATTATTTAA
1 AAAATATAAAAAAAATTTAAAATTATTTAA
27817413 AAAA
1 AAAA
27817417 ATGAAATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAAAATTTAAAATTATTTAA
Found at i:27817477 original size:22 final size:22
Alignment explanation
Indices: 27817452--27817501 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
27817442 TAATATAGAT
* *
27817452 TTGA-AAGATTTTTGGAATGAAA
1 TTGAGAAGA-TTTTGAAAGGAAA
*
27817474 TTGAGAGGATTTTGAAAGGAAA
1 TTGAGAAGATTTTGAAAGGAAA
27817496 TTGAGA
1 TTGAGA
27817502 GTTTAAGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
TTGAGAAGATTTTGAAAGGAAA
Found at i:27817502 original size:22 final size:22
Alignment explanation
Indices: 27817461--27817502 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27817451 TTTGAAAGAT
* *
27817461 TTTTGGAATGAAATTGAGAGGA
1 TTTTGAAAGGAAATTGAGAGGA
27817483 TTTTGAAAGGAAATTGAGAG
1 TTTTGAAAGGAAATTGAGAG
27817503 TTTAAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (22 bp):
TTTTGAAAGGAAATTGAGAGGA
Found at i:27817537 original size:22 final size:22
Alignment explanation
Indices: 27817507--27817551 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
27817497 TGAGAGTTTA
27817507 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
*
27817529 AGAGGATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
27817551 A
1 A
27817552 TATAGGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:27823254 original size:25 final size:25
Alignment explanation
Indices: 27823218--27823286 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
27823208 GGTCACCGAT
27823218 TTCAGCTCGCATGAGCTTCCCATTA
1 TTCAGCTCGCATGAGCTTCCCATTA
*
27823243 TTCAGCTTGCATGAGCTTCCCATTA
1 TTCAGCTCGCATGAGCTTCCCATTA
*
27823268 TTCAGCTCGTATGAGCTTC
1 TTCAGCTCGCATGAGCTTC
27823287 TTGCTATTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (25 bp):
TTCAGCTCGCATGAGCTTCCCATTA
Found at i:27831076 original size:35 final size:34
Alignment explanation
Indices: 27830976--27831079 Score: 154
Period size: 35 Copynumber: 3.0 Consensus size: 34
27830966 TCTCTATTTG
* *
27830976 GCGTGTTTCGATTGGACTAGCTCTTATAAGCACT
1 GCGTGTTTCGATTGGACTAGCTCTTATGAGCATT
27831010 GACGTGTTTCGATTGGACTAGCTCTTATGAGCATT
1 G-CGTGTTTCGATTGGACTAGCTCTTATGAGCATT
* *
27831045 AGCGTGTTTCGGTTGGACTAGCTCTTGTGAGCATT
1 -GCGTGTTTCGATTGGACTAGCTCTTATGAGCATT
27831080 TGATGTTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
34 1 0.02
35 62 0.97
36 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (34 bp):
GCGTGTTTCGATTGGACTAGCTCTTATGAGCATT
Found at i:27833491 original size:75 final size:75
Alignment explanation
Indices: 27833406--27833559 Score: 227
Period size: 75 Copynumber: 2.1 Consensus size: 75
27833396 GCGGTTGTCC
* * * * * * *
27833406 TATAATTTTTTGATGTCATGGGACATAGGTTGACAACATGTTTGCAACATGTTGACTGCTTCTAT
1 TATAATTTTTTCATGTCACGGGAAACAAGTTGACAACATGTTCGCAACATGTTGACTACTTCTAT
27833471 TAGGATTTTG
66 TAGGATTTTG
* *
27833481 TATAATTTTTTCATGTCACGTGAAACAAGTTGACAACATGTTCGCAACTTGTTGACTACTTCTAT
1 TATAATTTTTTCATGTCACGGGAAACAAGTTGACAACATGTTCGCAACATGTTGACTACTTCTAT
27833546 TAGGATTTTG
66 TAGGATTTTG
27833556 TATA
1 TATA
27833560 TAAATTACGA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (75 bp):
TATAATTTTTTCATGTCACGGGAAACAAGTTGACAACATGTTCGCAACATGTTGACTACTTCTAT
TAGGATTTTG
Found at i:27833982 original size:73 final size:73
Alignment explanation
Indices: 27833751--27834268 Score: 411
Period size: 73 Copynumber: 7.2 Consensus size: 73
27833741 TGAGACAAAA
* * * * **
27833751 TCTATCCCAACCTTTTTTAGTTTACCTTAGACGGGTTTA-CCCTAACC-TTTTT-AAGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCC-AACCTTTTTTAAAGGTTGCCT
*
27833813 TAGAC-GGG
65 TAGACAAGG
* * * * * * *
27833821 TTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGGTCTATCCCAA-CTTTTTT-ACGGTTGCT
1 TCTATCCCAAC-CTTTTTAAGGTTGCCTTAG-ACAGGTCAATCCCAACCTTTTTTAAAGGTTGCC
27833883 TTA-A-ATAGG
64 TTAGACA-AGG
* * * * * *
27833892 TCTATCCCAACATTTTTAAGGTTGTCTTAAACGGGTCAATCCCAACCCTTTTTAAAAGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
*
27833957 AGACAGGG
66 AGACAAGG
* * * * * * *
27833965 TCTATCCTAACCCTTTTAAGGTTGCTTTAGGCAAGTCTATCCCAACCTTTTTTGAAGGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
27834030 AGACAAGG
66 AGACAAGG
* * * * *
27834038 TTTATCCCAACTTTTTTAAAAGGTTGCCTTAGACTGG-CATCTCCCAACTTTTTTTAAAGGTTGC
1 TCTATCCCAACCTTTTT--AAGGTTGCCTTAGACAGGTCA-ATCCCAACCTTTTTTAAAGGTTGC
27834102 CTTAGACAAGG
63 CTTAGACAAGG
* * * *
27834113 TTTATCCCAACCTTTTTAAGGTTGCCTTAGAC--G--AATCTCAATCTTTTTTAAAGGTTACCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
*
27834174 AGATAAGG
66 AGACAAGG
** ** *
27834182 TCTATCCCAATTTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCCCAA-CTTTTTTAAAAGGTTA
1 TCTATCCCAA-CCTTTTT-AAGGTTGCCTTAGAC-AGGTCAATCCCAACCTTTTTT-AAAGGTTG
* *
27834246 TCTTAGAC-TGG
62 CCTTAGACAAGG
*
27834257 TCTATCCTAACC
1 TCTATCCCAACC
27834269 ACTTTCAAAG
Statistics
Matches: 357, Mismatches: 69, Indels: 40
0.77 0.15 0.09
Matches are distributed among these distances:
69 38 0.11
70 44 0.12
71 70 0.20
72 12 0.03
73 90 0.25
74 3 0.01
75 80 0.22
76 20 0.06
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (73 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
AGACAAGG
Found at i:27833988 original size:108 final size:108
Alignment explanation
Indices: 27833794--27834191 Score: 348
Period size: 108 Copynumber: 3.7 Consensus size: 108
27833784 GGTTTACCCT
** * *
27833794 AACC-TTTTTAAGGTTGCCTTAGACGGGTTTATCCCAA-CTTTTTTTAAGTTGCCTTGGAAAAGG
1 AACCATTTTTAAGGTTGCCTTAGACGGGTTTATCCCAACCTTTTTAAAAGTTGCCTTAGACAAGG
** * * *
27833857 TCTATCCCAACTTTTTTACGGTTGCTTTAAATAGGTCTATCCC
66 TCTATCCCAACCCTTTTAAGGTTGCTTTAAACAAGTCTATCCC
* * ** *
27833900 AA-CATTTTTAAGGTTGTCTTAAACGGGTCAATCCCAACCCTTTTTAAAAGTTGCCTTAGACAGG
1 AACCATTTTTAAGGTTGCCTTAGACGGGTTTATCCCAA-CCTTTTTAAAAGTTGCCTTAGACAAG
* **
27833964 GTCTATCCTAACCCTTTTAAGGTTGCTTTAGGCAAGTCTATCCC
65 GTCTATCCCAACCCTTTTAAGGTTGCTTTAAACAAGTCTATCCC
* * *
27834008 AACCTTTTTTGAAGGTTGCCTTAGACAAGGTTTATCCCAACTTTTTTAAAAGGTTGCCTTAGAC-
1 AACCATTTTT-AAGGTTGCCTTAGAC-GGGTTTATCCCAACCTTTTTAAAA-GTTGCCTTAGACA
* * ** * * *
27834072 TGG-CATCTCCCAACTTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCCC
63 AGGTC-TATCCCAAC-CCTTTT-AAGGTTGCTTTAAACAA-GTCTATCCC
* * * * * *
27834121 AACC-TTTTTAAGGTTGCCTTAGAC--G--AATCTCAATCTTTTTTAAAGGTTACCTTAGATAAG
1 AACCATTTTTAAGGTTGCCTTAGACGGGTTTATCCCAA-CCTTTTTAAAAGTTGCCTTAGACAAG
27834181 GTCTATCCCAA
65 GTCTATCCCAA
27834192 TTTTTTTTAA
Statistics
Matches: 239, Mismatches: 39, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
105 1 0.00
106 47 0.20
107 19 0.08
108 60 0.25
109 7 0.03
110 32 0.13
111 41 0.17
112 20 0.08
113 12 0.05
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (108 bp):
AACCATTTTTAAGGTTGCCTTAGACGGGTTTATCCCAACCTTTTTAAAAGTTGCCTTAGACAAGG
TCTATCCCAACCCTTTTAAGGTTGCTTTAAACAAGTCTATCCC
Found at i:27834052 original size:37 final size:36
Alignment explanation
Indices: 27833751--27834238 Score: 398
Period size: 35 Copynumber: 13.5 Consensus size: 36
27833741 TGAGACAAAA
* * *
27833751 TCTATCCCAACCTTTTTT-AGTTTACCTTAGAC-GGG
1 TCTATCCCAA-CTTTTTTAAGGTTGCCTTAGACAAGG
* * *
27833786 TTTA-CCCTAACCTTTTTAAGGTTGCCTTAGAC-GGG
1 TCTATCCC-AACTTTTTTAAGGTTGCCTTAGACAAGG
* * *
27833821 TTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGG
1 TCTATCCCAAC-TTTTTTAAGGTTGCCTTAGACAAGG
* *
27833857 TCTATCCCAACTTTTTTACGGTTGCTTTA-A-ATAGG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGACA-AGG
* * * *
27833892 TCTATCCCAACATTTTTAAGGTTGTCTTAAAC-GGG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGG
* * * *
27833927 TCAATCCCAACCCTTTTTAAAAGTTGCCTTAGACAGGG
1 TCTATCCCAA--CTTTTTTAAGGTTGCCTTAGACAAGG
* ** * *
27833965 TCTATCCTAACCCTTTTAAGGTTGCTTTAGGCAA-G
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGG
27834000 TCTATCCCAACCTTTTTTGAAGGTTGCCTTAGACAAGG
1 TCTATCCCAA-CTTTTTT-AAGGTTGCCTTAGACAAGG
* *
27834038 TTTATCCCAACTTTTTTAAAAGGTTGCCTTAGAC-TGG
1 TCTATCCCAACTTTTTT--AAGGTTGCCTTAGACAAGG
*
27834075 -CATCTCCCAACTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TC-TATCCCAAC-TTTTTT-AAGGTTGCCTTAGACAAGG
* *
27834113 TTTATCCCAACCTTTTTAAGGTTGCCTTAGACGAA--
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGAC-AAGG
* *
27834148 TC--T--CAATCTTTTTTAAAGGTTACCTTAGATAAGG
1 TCTATCCCAA-CTTTTTT-AAGGTTGCCTTAGACAAGG
*
27834182 TCTATCCCAATTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAA-CTTTTTT-AAGGTTGCCTTAGACAAGG
*
27834220 TTTATCCCAACTTTTTTAA
1 TCTATCCCAACTTTTTTAA
27834239 AAGGTTATCT
Statistics
Matches: 369, Mismatches: 55, Indels: 57
0.77 0.11 0.12
Matches are distributed among these distances:
31 3 0.01
32 8 0.02
33 14 0.04
34 12 0.03
35 95 0.26
36 70 0.19
37 78 0.21
38 89 0.24
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (36 bp):
TCTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGG
Found at i:27834263 original size:37 final size:36
Alignment explanation
Indices: 27833751--27834263 Score: 406
Period size: 38 Copynumber: 14.2 Consensus size: 36
27833741 TGAGACAAAA
* * *
27833751 TCTATCCCAACCTTTTTT--AGTTTACCTTAGACGGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGACAGG
* * *
27833786 TTTA-CCCTAACCTTTTT-AAGGTTGCCTTAGACGGG
1 TCTATCCC-AACTTTTTTAAAGGTTGCCTTAGACAGG
* * * *
27833821 TTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAG-ACAGG
* * * *
27833857 TCTATCCCAACTTTTTT-ACGGTTGCTTTAAATAGG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
* * * *
27833892 TCTATCCCAACATTTTT-AAGGTTGTCTTAAACGGG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
* * *
27833927 TCAATCCCAACCCTTTTTAAAAGTTGCCTTAGACAGGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGACA-GG
* ** * * *
27833965 TCTATCCTAACCCTTTT-AAGGTTGCTTTAGGCAAG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
*
27834000 TCTATCCCAACCTTTTTTGAAGGTTGCCTTAGACAAGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGAC-AGG
* *
27834038 TTTATCCCAACTTTTTTAAAAGGTTGCCTTAGACTGG
1 TCTATCCCAACTTTTTT-AAAGGTTGCCTTAGACAGG
*
27834075 -CATCTCCCAACTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TC-TATCCCAAC-TTTTTTAAAGGTTGCCTTAGAC-AGG
* *
27834113 TTTATCCCAACCTTTTT-AAGGTTGCCTTAGAC--G
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
* * * *
27834146 --AATCTCAATCTTTTTTAAAGGTTACCTTAGATAAGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGA-CAGG
*
27834182 TCTATCCCAATTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGAC-AGG
* ** *
27834220 TTTATCCCAACTTTTTTAAAAGGTTATCTTAGACTGG
1 TCTATCCCAACTTTTTT-AAAGGTTGCCTTAGACAGG
27834257 TCTATCC
1 TCTATCC
27834264 TAACCACTTT
Statistics
Matches: 388, Mismatches: 64, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
31 6 0.02
32 6 0.02
33 14 0.04
34 9 0.02
35 94 0.24
36 71 0.18
37 83 0.21
38 105 0.27
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (36 bp):
TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
Found at i:27836908 original size:32 final size:33
Alignment explanation
Indices: 27836821--27836908 Score: 88
Period size: 32 Copynumber: 2.6 Consensus size: 33
27836811 CGAATTTGAC
* * * *
27836821 TTAAAAAAACTTGAATCTAGAATTTTATTTTTAAA
1 TTAAAAAAA-TTAAATCT-GAATTTAATATATAAA
* *
27836856 TTAAAAAAATTATATTTGAATTTAATATATAAA
1 TTAAAAAAATTAAATCTGAATTTAATATATAAA
*
27836889 -TAAAAAATTTAAATCTGAAT
1 TTAAAAAAATTAAATCTGAAT
27836909 AATAGATAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
32 17 0.39
33 13 0.30
34 5 0.11
35 9 0.20
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (33 bp):
TTAAAAAAATTAAATCTGAATTTAATATATAAA
Found at i:27843910 original size:16 final size:17
Alignment explanation
Indices: 27843889--27843930 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
27843879 GAAATAACCT
*
27843889 ATAATTTGAA-TTAAAA
1 ATAATTTAAACTTAAAA
27843905 ATAATTTAAACTT-AAA
1 ATAATTTAAACTTAAAA
*
27843921 ATAACTTAAA
1 ATAATTTAAA
27843931 AACCCAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAATTTAAACTTAAAA
Found at i:27849158 original size:20 final size:20
Alignment explanation
Indices: 27849133--27849172 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27849123 ATTTATTATT
27849133 ATTTCAATTTATATTTGAAG
1 ATTTCAATTTATATTTGAAG
27849153 ATTTCAATTTATATTTGAAG
1 ATTTCAATTTATATTTGAAG
27849173 TTCTAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
ATTTCAATTTATATTTGAAG
Found at i:27853336 original size:21 final size:21
Alignment explanation
Indices: 27853310--27853353 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27853300 TTTATAATGT
27853310 ATGTATAT-TATTATAAAAATA
1 ATGTATATGTA-TATAAAAATA
*
27853331 ATGTATATGTATATAATAATA
1 ATGTATATGTATATAAAAATA
27853352 AT
1 AT
27853354 AATAGTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
ATGTATATGTATATAAAAATA
Found at i:27853351 original size:3 final size:3
Alignment explanation
Indices: 27853343--27853388 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
27853333 GTATATGTAT
*
27853343 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27853389 CAAGTAGGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27854935 original size:6 final size:6
Alignment explanation
Indices: 27854920--27854973 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
27854910 GGTTTTCTCC
* * * * *
27854920 AAATGA AAATTG AAATGA AAATGG AAATGG AAATGT AAATGA AAATGAG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G
27854969 AAATG
1 AAATG
27854974 ATTCATTTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.20
Consensus pattern (6 bp):
AAATGG
Found at i:27854947 original size:18 final size:18
Alignment explanation
Indices: 27854920--27854974 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
27854910 GGTTTTCTCC
*
27854920 AAATGAAAATTGAAATGA
1 AAATGAAAATGGAAATGA
* *
27854938 AAATGGAAATGGAAATGT
1 AAATGAAAATGGAAATGA
27854956 AAATGAAAATGAGAAATGA
1 AAATGAAAATG-GAAATGA
27854975 TTCATTTGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
18 25 0.81
19 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.22, T:0.20
Consensus pattern (18 bp):
AAATGAAAATGGAAATGA
Found at i:27854966 original size:12 final size:12
Alignment explanation
Indices: 27854920--27854966 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
27854910 GGTTTTCTCC
27854920 AAATGAAAAT-T
1 AAATGAAAATGT
*
27854931 GAAATGAAAATGG
1 -AAATGAAAATGT
*
27854944 AAATGGAAATGT
1 AAATGAAAATGT
27854956 AAATGAAAATG
1 AAATGAAAATG
27854967 AGAAATGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (12 bp):
AAATGAAAATGT
Found at i:27858383 original size:27 final size:27
Alignment explanation
Indices: 27858342--27858397 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
27858332 TTAATAACTG
* * *
27858342 TTATAGTATTGTTTTGGATATAGATCA
1 TTATAGCATTATTTTGGATATACATCA
27858369 TTATAGCATTATTTTGGATATACATCA
1 TTATAGCATTATTTTGGATATACATCA
27858396 TT
1 TT
27858398 TATTTGCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.48
Consensus pattern (27 bp):
TTATAGCATTATTTTGGATATACATCA
Found at i:27862518 original size:27 final size:27
Alignment explanation
Indices: 27862487--27862664 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27862477 TAAATTGTAC
27862487 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27862514 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27862540 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27862568 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27862596 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27862623 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27862650 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27862665 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27862601 original size:82 final size:81
Alignment explanation
Indices: 27862488--27862643 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27862478 AAATTGTACA
* *
27862488 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27862552 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27862569 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27862634 TGCGAGTTGA
65 TGCGAATTGA
27862644 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27862655 original size:82 final size:81
Alignment explanation
Indices: 27862484--27862664 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27862474 GATTAAATTG
* *
27862484 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27862549 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27862565 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27862629 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27862647 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27862665 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27871704 original size:42 final size:42
Alignment explanation
Indices: 27871566--27871792 Score: 246
Period size: 42 Copynumber: 5.5 Consensus size: 42
27871556 TTTAAACAGA
* * * *
27871566 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGATAT-TGT
* * * * *
27871607 TACACTGGCATTTAGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
*
27871648 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
* * * *
27871690 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTAAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
*
27871732 TTCACCGGCATTAAGCCTGCTAGACATAAAGTTTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
* * *
27871774 TTCACTGGCAATAAACCTG
1 TTCACCGGCATTAAGCCTG
27871793 ATAGGCACTG
Statistics
Matches: 159, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
40 3 0.02
41 60 0.38
42 96 0.60
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
Found at i:27871753 original size:84 final size:83
Alignment explanation
Indices: 27871566--27871792 Score: 271
Period size: 84 Copynumber: 2.7 Consensus size: 83
27871556 TTTAAACAGA
* * * * * *
27871566 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGAT-TCAG-TACACTGGCATTTAGCCTGCT
1 TTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGATAT-TGTTTCACTGGCATTAAGCCTGCT
* * *
27871628 AGACATATAGTCTGAAATGT
64 AGACATAAAGTCTAAAATAT
* *
27871648 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGCCTGCTAG
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGTTTCACTGGCATTAAGCCTGCTAG
*
27871713 ACGTAAAGTCTAAAATTAT
66 ACATAAAGTCTAAAA-TAT
* * *
27871732 TTCACCGGCATTAAGCCTGCTAGACATAAAGTTTGATATTGTTTCACTGGCAATAAACCTG
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGTTTCACTGGCATTAAGCCTG
27871793 ATAGGCACTG
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
81 2 0.02
82 32 0.26
83 33 0.26
84 58 0.46
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (83 bp):
TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGTTTCACTGGCATTAAGCCTGCTAG
ACATAAAGTCTAAAATAT
Found at i:27888790 original size:21 final size:21
Alignment explanation
Indices: 27888766--27888807 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27888756 TATTTCAGTC
27888766 AGAGTCACTAAACCATTTTTA
1 AGAGTCACTAAACCATTTTTA
27888787 AGAGTCACTAAACCATTTTTA
1 AGAGTCACTAAACCATTTTTA
27888808 TCTGGAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
AGAGTCACTAAACCATTTTTA
Found at i:27889681 original size:51 final size:50
Alignment explanation
Indices: 27889619--27889807 Score: 231
Period size: 51 Copynumber: 3.7 Consensus size: 50
27889609 ATACCCGGTT
* *
27889619 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCTGATA
* * *
27889670 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTAT-TCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCT-GATA
* * * *
27889721 CGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCTGATA
27889771 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
27889808 TAGCAACTTC
Statistics
Matches: 118, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
49 1 0.01
50 44 0.37
51 71 0.60
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCTGATA
Found at i:27889804 original size:101 final size:101
Alignment explanation
Indices: 27889621--27889805 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 101
27889611 ACCCGGTTCA
* * *
27889621 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATCCGATACACATAGTAGCCTGCA
27889686 CATAGTACTACACACGTGATCGAAGCTATTCGATACG
65 CATAGTACTACACACGTGATCGAAGCTATTCGATACG
*
27889723 CATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TCCGATACACATAGTAGCCTGCA
27889787 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
27889806 CCTAGCAACT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.50
102 35 0.45
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATCCGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATTCGATACG
Found at i:27894948 original size:18 final size:19
Alignment explanation
Indices: 27894913--27894962 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
27894903 AGTAAAGTTT
* * *
27894913 ATATTAAAATCCTTGAAGG
1 ATATTAAAATTCTAGAAGC
27894932 AT-TTAAAATTCTAGAAGC
1 ATATTAAAATTCTAGAAGC
*
27894950 ATATTAGAATTCT
1 ATATTAAAATTCT
27894963 CGGGAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (19 bp):
ATATTAAAATTCTAGAAGC
Found at i:27897744 original size:21 final size:19
Alignment explanation
Indices: 27897720--27897768 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
27897710 TGTATAACTA
27897720 AATTGTGTAATTATATGCTTG
1 AATTGTGTAATTATATG--TG
** *
27897741 AATTGAATAATTGTATGTG
1 AATTGTGTAATTATATGTG
27897760 AATTGTGTA
1 AATTGTGTA
27897769 TTGGCCATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 9 0.39
21 14 0.61
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (19 bp):
AATTGTGTAATTATATGTG
Found at i:27898192 original size:24 final size:24
Alignment explanation
Indices: 27898160--27898210 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
27898150 TGCTTCCTGA
*
27898160 TTAAGTGCTTTTC-GAAGCTACCCG
1 TTAAGTGCTCTTCAG-AGCTACCCG
27898184 TTAAGTGCTCTTCAGAGCTACCCG
1 TTAAGTGCTCTTCAGAGCTACCCG
27898208 TTA
1 TTA
27898211 TATGCTCGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (24 bp):
TTAAGTGCTCTTCAGAGCTACCCG
Found at i:27904794 original size:20 final size:21
Alignment explanation
Indices: 27904766--27904804 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
27904756 TGTAAACTTG
*
27904766 AGTGTTTAAATTG-TATTTGT
1 AGTGGTTAAATTGTTATTTGT
27904786 AGTGGTTAAATTGTTATTT
1 AGTGGTTAAATTGTTATTT
27904805 AAGCTTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.54
Consensus pattern (21 bp):
AGTGGTTAAATTGTTATTTGT
Found at i:27908075 original size:26 final size:26
Alignment explanation
Indices: 27908017--27908087 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
27908007 CTTTCACATT
* * *
27908017 ATGCCACACAGGCATTTCCTTCATGTT
1 ATGCCACAAAGGC-TTTCCTTCATATC
* *
27908044 ACGCCACAAAGGCTTTCCTTTATATC
1 ATGCCACAAAGGCTTTCCTTCATATC
27908070 ATGCCACAAAGGCTTTCC
1 ATGCCACAAAGGCTTTCC
27908088 ACTTGAGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
26 27 0.71
27 11 0.29
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (26 bp):
ATGCCACAAAGGCTTTCCTTCATATC
Found at i:27909753 original size:16 final size:17
Alignment explanation
Indices: 27909710--27909754 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
27909700 GATTGTGTGA
*
27909710 AATGTGATACATG-ATT
1 AATGTGATATATGTATT
27909726 AATG-GA-ATATGTATT
1 AATGTGATATATGTATT
27909741 -ATGTGATATATGTA
1 AATGTGATATATGTA
27909755 AATTCTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.28
15 7 0.28
16 11 0.44
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (17 bp):
AATGTGATATATGTATT
Found at i:27912507 original size:48 final size:47
Alignment explanation
Indices: 27912449--27912563 Score: 158
Period size: 48 Copynumber: 2.4 Consensus size: 47
27912439 TATCTGCAAT
* *
27912449 TATGTAGTGGTGTATCCACGATGTGCTATGTGACCGTTCATCGATATC
1 TATGTGGTGGT-TATCCACGATGTGCTATGTGACCGTTCATCGACATC
* * *
27912497 TATGTGGTGGTTTATCCTCGATGTGCTATGTGACTGTTCATCGGCATC
1 TATGTGGTGG-TTATCCACGATGTGCTATGTGACCGTTCATCGACATC
27912545 TATGTGGTGGCTTATCCAC
1 TATGTGGTGG-TTATCCAC
27912564 AAACTGGTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 58 0.98
49 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.37
Consensus pattern (47 bp):
TATGTGGTGGTTATCCACGATGTGCTATGTGACCGTTCATCGACATC
Found at i:27913076 original size:37 final size:38
Alignment explanation
Indices: 27913024--27913096 Score: 130
Period size: 37 Copynumber: 1.9 Consensus size: 38
27913014 GACACTATTT
*
27913024 TGATTTAATAGGGTATTATGTATGAATTGT-TTTAATG
1 TGATTTAATAAGGTATTATGTATGAATTGTCTTTAATG
27913061 TGATTTAATAAGGTATTATGTATGAATTGTCTTTAA
1 TGATTTAATAAGGTATTATGTATGAATTGTCTTTAA
27913097 ATGGTTCAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 29 0.85
38 5 0.15
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (38 bp):
TGATTTAATAAGGTATTATGTATGAATTGTCTTTAATG
Found at i:27918588 original size:40 final size:40
Alignment explanation
Indices: 27918350--27918574 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
27918340 TCGAATGATG
* * * *
27918350 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
27918390 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27918430 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27918469 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27918509 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27918550 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27918575 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27918596 original size:119 final size:119
Alignment explanation
Indices: 27918350--27918607 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
27918340 TCGAATGATG
* *
27918350 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
27918415 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
27918469 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
27918532 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
27918589 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
27918608 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 85 0.71
120 31 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:27920439 original size:27 final size:28
Alignment explanation
Indices: 27920409--27920520 Score: 133
Period size: 27 Copynumber: 4.1 Consensus size: 28
27920399 TATAATAGTC
* *
27920409 ATTTTACTCC-TCGGGGGTATTTCGGTA
1 ATTTTACTCCTTCGAGGGTATTTCGATA
* *
27920436 ATTTTACT-CTTTGGGGGTATTTCGATA
1 ATTTTACTCCTTCGAGGGTATTTCGATA
*
27920463 ATTTTAC-CCTTTGAGGGTATTTCGATA
1 ATTTTACTCCTTCGAGGGTATTTCGATA
* *
27920490 ATTTTA-TCCTTCGAGGCTATTTCGGTA
1 ATTTTACTCCTTCGAGGGTATTTCGATA
27920517 ATTT
1 ATTT
27920521 ACCCCTCAAG
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.01
27 75 0.99
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.46
Consensus pattern (28 bp):
ATTTTACTCCTTCGAGGGTATTTCGATA
Found at i:27921477 original size:17 final size:19
Alignment explanation
Indices: 27921441--27921480 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
27921431 AACCAACAAC
*
27921441 AAGAGAAGAAGAAACCGAA
1 AAGAGAAGAAGAAACAGAA
27921460 AAGA-AAGAAGAAA-AGAA
1 AAGAGAAGAAGAAACAGAA
27921477 AAGA
1 AAGA
27921481 TGACGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAGAAACAGAA
Found at i:27923217 original size:25 final size:23
Alignment explanation
Indices: 27923182--27923226 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
27923172 AAGTATGTGT
*
27923182 ATATATATATAAATTATAAAAAA
1 ATATATATATATATTATAAAAAA
*
27923205 ATATATATGTATATTATAAAAA
1 ATATATATATATATTATAAAAA
27923227 CGTATGCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATATATATATATATTATAAAAAA
Found at i:27925642 original size:17 final size:19
Alignment explanation
Indices: 27925606--27925645 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
27925596 AATCGGCAAC
*
27925606 AAGAGAAGAAGAAATTGAA
1 AAGAGAAGAAGAAATAGAA
27925625 AAGA-AAGAAGAAA-AGAA
1 AAGAGAAGAAGAAATAGAA
27925642 AAGA
1 AAGA
27925646 TGAGGGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (19 bp):
AAGAGAAGAAGAAATAGAA
Found at i:27929687 original size:25 final size:25
Alignment explanation
Indices: 27929636--27929703 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
27929626 CTGTACATGT
*
27929636 ATGCTCGCACAAGCTGT-AATCAGA
1 ATGCTCACACAAGCTGTGAATCAGA
*
27929660 ATGCTCACACGAGCTGTGAATCAGA
1 ATGCTCACACAAGCTGTGAATCAGA
27929685 ATGCTCACACAAGCTGTGA
1 ATGCTCACACAAGCTGTGA
27929704 GAATGGGCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 15 0.38
25 25 0.62
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (25 bp):
ATGCTCACACAAGCTGTGAATCAGA
Found at i:27931539 original size:44 final size:44
Alignment explanation
Indices: 27931476--27931563 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
27931466 GTCTATCAAA
27931476 ATGTAACCAAGAAACCTGAATTATCAAACTTTTACTAGTGCTTC
1 ATGTAACCAAGAAACCTGAATTATCAAACTTTTACTAGTGCTTC
27931520 ATGTAACCAAGAAACCTGAATTATCAAACTTTTACTAGTGCTTC
1 ATGTAACCAAGAAACCTGAATTATCAAACTTTTACTAGTGCTTC
27931564 TAACATGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (44 bp):
ATGTAACCAAGAAACCTGAATTATCAAACTTTTACTAGTGCTTC
Found at i:27934679 original size:15 final size:16
Alignment explanation
Indices: 27934650--27934679 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27934640 CAAACATGCT
27934650 TTAACACATTATCAAA
1 TTAACACATTATCAAA
27934666 TTAACACA-TATCAA
1 TTAACACATTATCAA
27934680 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:27941803 original size:35 final size:35
Alignment explanation
Indices: 27941752--27941820 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
27941742 TTTGATTTAC
* * *
27941752 GAACAGTTCAAAAGTGTAGTATACCAATTATTCAT
1 GAACAATTCAAAAGTGTAATATACAAATTATTCAT
*
27941787 GAACAATTCAAGAGTGTAATATACAAATTATTCA
1 GAACAATTCAAAAGTGTAATATACAAATTATTCA
27941821 ATATGGGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (35 bp):
GAACAATTCAAAAGTGTAATATACAAATTATTCAT
Found at i:27946068 original size:5 final size:5
Alignment explanation
Indices: 27946058--27946084 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
27946048 TAGGGAATCG
27946058 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
27946085 GGCAGAACAG
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:27947951 original size:31 final size:31
Alignment explanation
Indices: 27947913--27947978 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
27947903 TAATTTTTAA
* * *
27947913 AAATAAATAAATATAATAATAGATAATATTT
1 AAATAAATAAATATAATAATACATAAAATAT
* *
27947944 AAATAAATTAATATAATGATACATAAAATAT
1 AAATAAATAAATATAATAATACATAAAATAT
27947975 AAAT
1 AAAT
27947979 TAATTTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (31 bp):
AAATAAATAAATATAATAATACATAAAATAT
Found at i:27952791 original size:51 final size:50
Alignment explanation
Indices: 27952727--27952846 Score: 136
Period size: 51 Copynumber: 2.4 Consensus size: 50
27952717 TTCAGGTCAT
* * * *
27952727 TTTCATTT-T-CATTTTTACTTTGGAGAAAACCACATTTATTTCCAAATAA
1 TTTCATTTCTCCATTTTCACTTTGAAG-AAACCACAATCATTTCCAAATAA
* * **
27952776 TTTCATTTCTCCATTTTCATTTTGAAGAAACCATAATCATTTCCAAATGT
1 TTTCATTTCTCCATTTTCACTTTGAAGAAACCACAATCATTTCCAAATAA
27952826 TTCTCATTTCTCCATTTTCAC
1 TT-TCATTTCTCCATTTTCAC
27952847 AATTTCTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 8 0.14
50 21 0.36
51 30 0.51
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (50 bp):
TTTCATTTCTCCATTTTCACTTTGAAGAAACCACAATCATTTCCAAATAA
Found at i:27954330 original size:46 final size:44
Alignment explanation
Indices: 27954280--27954385 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 44
27954270 TTTCATGATT
* * * *
27954280 CACCATAAAGGCAACATAGAATATGCCACACGGGGCAAACAAAATA
1 CACCACAAAGGCAACAT--AATACGCCACACAGGCCAAACAAAATA
* *
27954326 CACCACATAGGCTAAACATAATACGCCACATAGGCCAAACAAAATA
1 CACCACAAAGGC--AACATAATACGCCACACAGGCCAAACAAAATA
*
27954372 CTCCACAAAGGCAA
1 CACCACAAAGGCAA
27954386 TACCAAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
44 2 0.04
46 43 0.86
48 5 0.10
ACGTcount: A:0.47, C:0.27, G:0.14, T:0.11
Consensus pattern (44 bp):
CACCACAAAGGCAACATAATACGCCACACAGGCCAAACAAAATA
Found at i:27954331 original size:23 final size:22
Alignment explanation
Indices: 27954312--27954385 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
27954302 ATGCCACACG
27954312 GGGCAAACAAAATACACCACATA
1 GGGCAAACAAAATACACCACA-A
* *
27954335 -GGCTAAACATAATACGCCACATA
1 GGGC-AAACAAAATACACCACA-A
* *
27954358 GGCCAAACAAAATACTCCACAA
1 GGGCAAACAAAATACACCACAA
*
27954380 AGGCAA
1 GGGCAA
27954386 TACCAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
22 8 0.19
23 32 0.76
24 2 0.05
ACGTcount: A:0.49, C:0.27, G:0.14, T:0.11
Consensus pattern (22 bp):
GGGCAAACAAAATACACCACAA
Found at i:27957239 original size:27 final size:27
Alignment explanation
Indices: 27957201--27957254 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
27957191 ACCAAGTTTT
27957201 TTCATTAGACTACATTATAAAAGAGGA
1 TTCATTAGACTACATTATAAAAGAGGA
*
27957228 TTCATTAGACTACATTATAAAGGAGGA
1 TTCATTAGACTACATTATAAAAGAGGA
27957255 GGAGTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (27 bp):
TTCATTAGACTACATTATAAAAGAGGA
Found at i:27960106 original size:31 final size:32
Alignment explanation
Indices: 27960047--27960111 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
27960037 GGCAAATTAC
27960047 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27960079 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27960110 AA
1 AA
27960112 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:27963298 original size:32 final size:32
Alignment explanation
Indices: 27963255--27963322 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 32
27963245 GGTAGGCAAC
*
27963255 TTTTTTTTGCGCTTTTTGCTTTTTTTT-CTTT
1 TTTTTTTTGCGCTTTTTGCTTTTTTTTGCTGT
27963286 TTTTCTTTTGCGCTTTTTGCTTTTTTTTGCTGT
1 TTTT-TTTTGCGCTTTTTGCTTTTTTTTGCTGT
27963319 TTTT
1 TTTT
27963323 GCTATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 4 0.12
32 23 0.68
33 7 0.21
ACGTcount: A:0.00, C:0.13, G:0.12, T:0.75
Consensus pattern (32 bp):
TTTTTTTTGCGCTTTTTGCTTTTTTTTGCTGT
Found at i:27963351 original size:9 final size:9
Alignment explanation
Indices: 27963256--27963332 Score: 54
Period size: 9 Copynumber: 8.8 Consensus size: 9
27963246 GTAGGCAACT
27963256 TTTTTTTGC
1 TTTTTTTGC
**
27963265 GCTTTTTGC
1 TTTTTTTGC
*
27963274 TTTTTTTTC
1 TTTTTTTGC
27963283 TTTTTTT-C
1 TTTTTTTGC
27963291 ---TTTTGC
1 TTTTTTTGC
**
27963297 GCTTTTTGC
1 TTTTTTTGC
27963306 TTTTTTTTGC
1 -TTTTTTTGC
*
27963316 TGTTTTTGC
1 TTTTTTTGC
27963325 TATTTTTT
1 T-TTTTTT
27963333 TTACTTTTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
5 4 0.08
6 1 0.02
8 1 0.02
9 35 0.66
10 12 0.23
ACGTcount: A:0.01, C:0.13, G:0.12, T:0.74
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:27963957 original size:31 final size:32
Alignment explanation
Indices: 27963898--27963962 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
27963888 GGCAAATTAC
27963898 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27963930 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27963961 AA
1 AA
27963963 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:27965013 original size:19 final size:20
Alignment explanation
Indices: 27964976--27965031 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
27964966 TATTAAATTA
27964976 AATTTAATATTAAGATAATC
1 AATTTAATATTAAGATAATC
*
27964996 AATTTAATA-TAAGTTAAT-
1 AATTTAATATTAAGATAATC
** *
27965014 AAAATACTATTAAGATAA
1 AATTTAATATTAAGATAA
27965032 GTATAAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 6 0.20
19 15 0.50
20 9 0.30
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (20 bp):
AATTTAATATTAAGATAATC
Found at i:27970611 original size:23 final size:22
Alignment explanation
Indices: 27970568--27970611 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
27970558 TTCTAAGTTG
27970568 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
27970591 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
27970612 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:27970813 original size:51 final size:49
Alignment explanation
Indices: 27970755--27970941 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 49
27970745 TCGGTTCACA
**
27970755 TAGTAGCCTGCACATAGTACTACACGTGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCG-TACACG
* * * * * *
27970806 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC-CGTACACG
* * *
27970857 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCTGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCC-GTACACG
*
27970907 TAGTAGCCTGCACATAGTATTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
27970942 CACTTTCACT
Statistics
Matches: 111, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 2 0.02
50 38 0.34
51 68 0.61
52 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGTACACG
Found at i:27970931 original size:101 final size:101
Alignment explanation
Indices: 27970753--27970937 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 101
27970743 ATTCGGTTCA
* *
27970753 CATAGTAGCCTGCACATAGTACTACACGTGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
27970818 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
*
27970855 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCTG-TACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCC-GATACACGTAGTAGCCTGC
*
27970918 ACATAGTATTACACACGTGA
64 ACATAGTACTACACACGTGA
27970938 CCATCACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 34 0.44
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:27973943 original size:28 final size:28
Alignment explanation
Indices: 27973880--27974033 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
27973870 ATATTAAGTC
*
27973880 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
27973907 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
27973935 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
27973963 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
27973991 CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
27974020 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27974034 CAATCTCATG
Statistics
Matches: 121, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
27 22 0.18
28 80 0.66
29 19 0.16
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27977336 original size:73 final size:72
Alignment explanation
Indices: 27977217--27977361 Score: 254
Period size: 73 Copynumber: 2.0 Consensus size: 72
27977207 AGCATTCACC
*
27977217 GCTCTCAAAGCAAACAGTGCTTTCCGACTTAAAGCATCGGCAACCACGTTAGCCTTTCCCGGGTG
1 GCTCTCAAAGCAAACAGTGCTTTCCGACTTAAAGCATCGGCAACCACGTTAGCCTTCCCCGGGTG
27977282 ATAATCA
66 ATAATCA
* *
27977289 NGCTCTCAAAGCAAACAGTGCTTTCTGACTTAAAGCATCGGCCACCACGTTAGCCTTCCCCGGGT
1 -GCTCTCAAAGCAAACAGTGCTTTCCGACTTAAAGCATCGGCAACCACGTTAGCCTTCCCCGGGT
27977354 GATAATCA
65 GATAATCA
27977362 ATAACAAGTT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (72 bp):
GCTCTCAAAGCAAACAGTGCTTTCCGACTTAAAGCATCGGCAACCACGTTAGCCTTCCCCGGGTG
ATAATCA
Found at i:27984606 original size:28 final size:29
Alignment explanation
Indices: 27984566--27984638 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 29
27984556 NNNNNNNNAA
*
27984566 CTCGCACACTTAGTGCTATATAA-TCAAC
1 CTCGCACACTTAGTGCTATACAATTCAAC
*
27984594 CTCGCACACTTAGTGCTATACAATTTGAAC
1 CTCGCACACTTAGTGCTATACAA-TTCAAC
27984624 C-CGCACACTTAGTGC
1 CTCGCACACTTAGTGC
27984639 CAATCTCATG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.54
29 14 0.34
30 5 0.12
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
CTCGCACACTTAGTGCTATACAATTCAAC
Found at i:27993038 original size:104 final size:105
Alignment explanation
Indices: 27992900--27993268 Score: 477
Period size: 104 Copynumber: 3.6 Consensus size: 105
27992890 TTGTACATAA
** * *
27992900 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGG-TGCTATGTGC-GATATCCACCGTATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGAT-TCCACCGTATC
*
27992963 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTTGAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* *
27993004 AGGGGTTGCTAAGTGCTGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCACCATAT-
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
27993067 TTT-AAATGTGAAAGGGGGCTGCTAAGTGCTGATTCCCCCCG
65 TTTGAAATGTGAAAGGGGGTTGCTAAGTGCTGATT-CCCCCG
* * * *
27993108 AGGGGTTCCTAAGTGCTGATTCCCTGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
27993173 --TGAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCCA
65 TTTGAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
** * * *
27993211 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACC
27993269 AACAACGGTT
Statistics
Matches: 234, Mismatches: 23, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
101 18 0.08
102 7 0.03
103 60 0.26
104 90 0.38
105 56 0.24
106 3 0.01
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
TTGAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:27994871 original size:186 final size:185
Alignment explanation
Indices: 27994557--27994925 Score: 648
Period size: 186 Copynumber: 2.0 Consensus size: 185
27994547 ACATGCCATA
27994557 AATATATTGTGATAGTGTGATGATTTCTGACAATTTAAAATTTTGTTTTATATAGTAAATGGACC
1 AATATATTGTGATAGTGTGATGATTTCTGACAATTTAAAATTTTGTTTTATATAGTAAATGGACC
* * * *
27994622 CTGACCGAAGTGTGGCAGATGATGTTGAAAGTAACGCGCTGACTCCCGCACAAGGGACCGCGCAT
66 CTAACCGAAGTATGGCAGATGATGTTGAAAGTAACACGCCGACTCCCGCACAAGGGACCGCGCAT
*
27994687 GAAGAGAGTAGACATGAGACACATGGACAGGATGAGGCTCGGGAAGCCTTCCTNTC
131 GAAGAGAGTAGACATGAGACACATGGACAGGATGAGGCTCGAGAAGCCTTCCT-TC
*
27994743 AATATATTGTGATAGTGTGATGATTTCTGACAATTTAAAATTTTGTTTTATATAGTAAATGGATC
1 AATATATTGTGATAGTGTGATGATTTCTGACAATTTAAAATTTTGTTTTATATAGTAAATGGACC
* **
27994808 CTAATCGAAGTATGGCAGATGATGTTGAAAGTAACACGCCGGTTCCCGCACAAGGGACCGCGCAT
66 CTAACCGAAGTATGGCAGATGATGTTGAAAGTAACACGCCGACTCCCGCACAAGGGACCGCGCAT
27994873 GAAGAGAGTAGACATGAGACACATGGACAGGATGAGGCTCGAGAAGCCTTCCT
131 GAAGAGAGTAGACATGAGACACATGGACAGGATGAGGCTCGAGAAGCCTTCCT
27994926 CCGAATGATG
Statistics
Matches: 174, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
186 174 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (185 bp):
AATATATTGTGATAGTGTGATGATTTCTGACAATTTAAAATTTTGTTTTATATAGTAAATGGACC
CTAACCGAAGTATGGCAGATGATGTTGAAAGTAACACGCCGACTCCCGCACAAGGGACCGCGCAT
GAAGAGAGTAGACATGAGACACATGGACAGGATGAGGCTCGAGAAGCCTTCCTTC
Found at i:28003948 original size:6 final size:6
Alignment explanation
Indices: 28003937--28003962 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
28003927 GTGGTTGGAA
28003937 GAAGTG GAAGTG GAAGTG GAAGTG GA
1 GAAGTG GAAGTG GAAGTG GAAGTG GA
28003963 TTTCTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.50, T:0.15
Consensus pattern (6 bp):
GAAGTG
Found at i:28014510 original size:27 final size:26
Alignment explanation
Indices: 28014449--28014510 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
28014439 AAGTACCATA
28014449 AAATTAAA-TATATTTGACTTTTTTC
1 AAATTAAATTATATTTGACTTTTTTC
**
28014474 ATAAACAAATTATATTTGACTTTAATTT-
1 A-AATTAAATTATATTTGACTTT--TTTC
28014502 AAATTAAAT
1 AAATTAAAT
28014511 ATTTTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.17
27 19 0.66
28 1 0.03
29 3 0.10
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (26 bp):
AAATTAAATTATATTTGACTTTTTTC
Found at i:28019638 original size:23 final size:23
Alignment explanation
Indices: 28019592--28019643 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
28019582 ATAAAATGAT
* * *
28019592 TTAATATAAATTGTATATAGATA
1 TTAAAATAAATTGTATAAAAATA
28019615 -TAAAATAATATTGTATAAAAATA
1 TTAAAATAA-ATTGTATAAAAATA
28019638 TTAAAA
1 TTAAAA
28019644 ACCTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.29
23 12 0.50
24 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
TTAAAATAAATTGTATAAAAATA
Found at i:28019799 original size:17 final size:16
Alignment explanation
Indices: 28019761--28019803 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
28019751 AATAACGGTG
28019761 ATAATAATAATAAAAA
1 ATAATAATAATAAAAA
**
28019777 ATTAATAATAATAGATTA
1 A-TAATAATAATA-AAAA
28019795 ATAATAATA
1 ATAATAATA
28019804 TTACTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 19 0.83
18 3 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATAATAATAAAAA
Found at i:28019802 original size:14 final size:14
Alignment explanation
Indices: 28019765--28019803 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
28019755 ACGGTGATAA
*
28019765 TAATAATAAAAAAT
1 TAATAATAATAAAT
*
28019779 TAATAATAATAGAT
1 TAATAATAATAAAT
28019793 TAATAATAATA
1 TAATAATAATA
28019804 TTACTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:28021597 original size:9 final size:9
Alignment explanation
Indices: 28021583--28021611 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
28021573 GGAGATGAAA
28021583 TTAATTAAT
1 TTAATTAAT
28021592 TTAATTAAT
1 TTAATTAAT
28021601 TTAATTAAT
1 TTAATTAAT
28021610 TT
1 TT
28021612 CAATGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTAATTAAT
Found at i:28023115 original size:15 final size:15
Alignment explanation
Indices: 28023092--28023129 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
28023082 CAAAAGTAAA
* *
28023092 AAATCAAATTATGTT
1 AAATTAAATTATATT
28023107 AAATTAAATTATATT
1 AAATTAAATTATATT
28023122 -AATTAAAT
1 AAATTAAAT
28023130 CACTAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
AAATTAAATTATATT
Found at i:28025371 original size:24 final size:23
Alignment explanation
Indices: 28025339--28025384 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
28025329 TGCTTCGATT
*
28025339 TTTATTTTTAATGCATATATTTTC
1 TTTATTTTTAATCCATAT-TTTTC
28025363 TTTATTTTTAATCCATATTTTT
1 TTTATTTTTAATCCATATTTTT
28025385 AATAATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTATTTTTAATCCATATTTTTC
Found at i:28025455 original size:13 final size:13
Alignment explanation
Indices: 28025429--28025466 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
28025419 TAAATATGTA
28025429 ATATTTTGATATAT
1 ATATTTT-ATATAT
28025443 ATATTTTATATAT
1 ATATTTTATATAT
28025456 A-ATTTT-TATAT
1 ATATTTTATATAT
28025467 GTTAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.21
12 5 0.21
13 7 0.29
14 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
ATATTTTATATAT
Found at i:28025857 original size:19 final size:19
Alignment explanation
Indices: 28025833--28025884 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
28025823 TAGTATGGTA
28025833 AATTATATTTAATAAAAAT
1 AATTATATTTAATAAAAAT
* *
28025852 AATTATATTTGA-AACAAT
1 AATTATATTTAATAAAAAT
* *
28025870 TATTTTATTTAATAA
1 AATTATATTTAATAA
28025885 TAGTAGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
AATTATATTTAATAAAAAT
Found at i:28031468 original size:21 final size:21
Alignment explanation
Indices: 28031444--28031493 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
28031434 TATAGTAGAT
*
28031444 TTTTATTTATTTATTTA-TTTA
1 TTTTATTTA-ATATTTATTTTA
*
28031465 TTTT-TCTTAATGTTTATTTTA
1 TTTTAT-TTAATATTTATTTTA
28031486 TTTTATTT
1 TTTTATTT
28031494 TTGGTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTATTTAATATTTATTTTA
Found at i:28040184 original size:15 final size:15
Alignment explanation
Indices: 28040164--28040193 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
28040154 CTTTGTGTTC
28040164 CCTTTTAAAAGTATA
1 CCTTTTAAAAGTATA
28040179 CCTTTTAAAAGTATA
1 CCTTTTAAAAGTATA
28040194 GTAAAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
CCTTTTAAAAGTATA
Found at i:28045694 original size:20 final size:21
Alignment explanation
Indices: 28045646--28045695 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
28045636 TCAATGACCC
*
28045646 TCAAAATTTTAATTAAACTTT
1 TCAAAATTTTAATTAAACTTA
28045667 TCAAAATTTTAATTAAA-TTCA
1 TCAAAATTTTAATTAAACTT-A
28045688 T-AAAATTT
1 TCAAAATTT
28045696 AATGCACCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (21 bp):
TCAAAATTTTAATTAAACTTA
Found at i:28046190 original size:16 final size:16
Alignment explanation
Indices: 28046166--28046199 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
28046156 CATTTAAAGG
*
28046166 AAAATGAATATTGTAA
1 AAAAGGAATATTGTAA
28046182 AAAAGGAATATTGTAA
1 AAAAGGAATATTGTAA
28046198 AA
1 AA
28046200 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (16 bp):
AAAAGGAATATTGTAA
Found at i:28046453 original size:31 final size:31
Alignment explanation
Indices: 28046418--28046477 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
28046408 TTTATAAGGG
28046418 TTTTGAAAATATTAATTAAATTATTTAAAAT
1 TTTTGAAAATATTAATTAAATTATTTAAAAT
* * * *
28046449 TTTTGAAAATTTTCATTAATTTCTTTAAA
1 TTTTGAAAATATTAATTAAATTATTTAAA
28046478 TTTAAAAAAA
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:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTTGAAAATATTAATTAAATTATTTAAAAT
Found at i:28046565 original size:885 final size:883
Alignment explanation
Indices: 28045517--28047229 Score: 3029
Period size: 885 Copynumber: 1.9 Consensus size: 883
28045507 AAAAAATTTA
* *
28045517 ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTCTTTAAAATTTTGAAAATTTTCGTTA
1 ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTATTTAAAATTTTGAAAATTTTCATTA
*
28045582 ATTTCTTTAAATTAAAAAAAAATAATTGTATCCCTATTTTTTTTTTGAAAATTCTCAATGACCCT
66 ATTTCTTTAAATTAAAAAAAAATAATTGTATCCCTATTTTTTTTTTGAAAATTCTCAATAACCCT
*
28045647 CAAAATTTTAATTAAACTTTTCAAAATTTTAATTAAATTCATAAAATTTAATGCACCATCCCACC
131 CAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCATAAAATTTAATGCACCATCCCACC
*
28045712 CCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGTACTT
196 CCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCACTT
*
28045777 AGACCTGTTCATGGATCGGGTCATCCAATTCGG-CTTGAAAGCCCGCTTGAAAAATAGAAAGGTT
261 AGACCTGTTCATGGATCGAGTCATCCAATTCGGTC-TGAAAGCCCGCTTGAAAAATAGAAAGGTT
*
28045841 GGAGTAAAAATATAGACTCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCGG
325 GGAGTAAAAATATAGACCCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCGG
* * ** *
28045906 GCTTGGGCAAAATTTTAGGCTCATTTTTTGGGTTGGGTCAGGCCCATCAAACGGGCCTAAAATTT
390 GCTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCAGGCCCATCAAACGGGCCTAAAATTT
* *
28045971 TAGTTGGGTCCGACCCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAAA
455 TAGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAAA
28046036 ATCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCCAT-AAATTTTAAAACATTTT
520 ATCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCC-TCAAATTTTAAAACATTTT
* *
28046100 AATTACATCAATAAACCATCGATGTTATATGAATAAAGTTATTTTATTACTAAAACCATTTAAAG
584 AATTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAG
*
28046165 GAAAATGAATATTGTAAAAA-AGGAATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTACA
649 GAAAATGAATATTATAAAAATA-G-ATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTACA
*
28046229 CAACACCTTTATCGTTCACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAACG
712 CAACACCTTTATCGTTAACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAACG
*
28046294 TTTTATTTTTCTTTAGAATTTCCATTTTAAATCATGTCAAATAAGAATTCAAAAAAATTAAGTAA
777 TTTTATTTTTCTTTAAAATTTCCATTTTAAATCATGTCAAATAAGAATTCAAAAAAATTAAGTAA
28046359 TAAAATATTTCACAAAATTAAATCATTGTAACATATTAAATT
842 TAAAATATTTCACAAAATTAAATCATTGTAACATATTAAATT
*
28046401 ATTAAGTTTTATAAGGGTTTTGAAAATATTAATTAAATTATTTAAAATTTTTGAAAATTTTCATT
1 ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTATTTAAAA-TTTTGAAAATTTTCATT
*
28046466 AATTTCTTTAAATTTAAAAAAAATTAATTGTATCCCTA-TTTTTTTTTGAAAATTCTCAATAACC
65 AATTTCTTTAAA-TTAAAAAAAAATAATTGTATCCCTATTTTTTTTTTGAAAATTCTCAATAACC
* *
28046530 CTCAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCGTAAAATTTAATGCACCATTCCA
129 CTCAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCATAAAATTTAATGCACCATCCCA
* *
28046595 CCCCTAACTCTATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCAT
194 CCCCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCAC
* *
28046660 TTAGACCTGTTCATGGATCGAGTCATCCAGTTCGGTCTGAAAGCCCGCTTGAAAAGTAGAAAGGT
259 TTAGACCTGTTCATGGATCGAGTCATCCAATTCGGTCTGAAAGCCCGCTTGAAAAATAGAAAGGT
28046725 TGGAGTAAAAATATAGACCCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCG
324 TGGAGTAAAAATATAGACCCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCG
*
28046790 GGCTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCGGGCCCATCAAACGGGCCTAAAATT
389 GGCTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCAGGCCCATCAAACGGGCCTAAAATT
28046855 TTAGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAA
454 TTAGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAA
28046920 AATCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCCTCAAATTTTAAAACATTTT
519 AATCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCCTCAAATTTTAAAACATTTT
28046985 AATTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAG
584 AATTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAG
* * *
28047050 GAAAATGAATATTATAAAAATAGATGTTGTAAAAGTTTTATTTTGAGTTTTTCAAAACTTACGCA
649 GAAAATGAATATTATAAAAATAGATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTACACA
* *
28047115 ATACCTTTATCGTTAACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTGTAACGTT
714 ACACCTTTATCGTTAACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAACGTT
* *
28047180 TTATTTTTCTTTAAAATTTCTATTTTAAATTATGTCAAATAAGAATTCAA
779 TTATTTTTCTTTAAAATTTCCATTTTAAATCATGTCAAATAAGAATTCAA
28047230 CAATTAAATT
Statistics
Matches: 789, Mismatches: 35, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
884 194 0.25
885 569 0.72
886 26 0.03
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (883 bp):
ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTATTTAAAATTTTGAAAATTTTCATTA
ATTTCTTTAAATTAAAAAAAAATAATTGTATCCCTATTTTTTTTTTGAAAATTCTCAATAACCCT
CAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCATAAAATTTAATGCACCATCCCACC
CCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCACTT
AGACCTGTTCATGGATCGAGTCATCCAATTCGGTCTGAAAGCCCGCTTGAAAAATAGAAAGGTTG
GAGTAAAAATATAGACCCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCGGG
CTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCAGGCCCATCAAACGGGCCTAAAATTTT
AGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAAAA
TCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCCTCAAATTTTAAAACATTTTAA
TTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAGGA
AAATGAATATTATAAAAATAGATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTACACAAC
ACCTTTATCGTTAACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAACGTTTT
ATTTTTCTTTAAAATTTCCATTTTAAATCATGTCAAATAAGAATTCAAAAAAATTAAGTAATAAA
ATATTTCACAAAATTAAATCATTGTAACATATTAAATT
Found at i:28049841 original size:17 final size:17
Alignment explanation
Indices: 28049819--28049855 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
28049809 ATCCCAACAA
28049819 AATCAATTAATGACTCT
1 AATCAATTAATGACTCT
28049836 AATCAATTAATGACTCT
1 AATCAATTAATGACTCT
28049853 AAT
1 AAT
28049856 TAACCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (17 bp):
AATCAATTAATGACTCT
Found at i:28056646 original size:41 final size:41
Alignment explanation
Indices: 28056601--28056720 Score: 186
Period size: 41 Copynumber: 2.9 Consensus size: 41
28056591 ACTGACATTT
* *
28056601 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
28056642 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
* * * *
28056683 AGCCTACTAGACTTAAAGTCTAAAAGGTTTCACTGGCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCA
28056721 ATAAACCTGA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:28057253 original size:2 final size:2
Alignment explanation
Indices: 28057246--28057270 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28057236 AATCTTAAGT
28057246 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
28057271 TATATACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:28062317 original size:29 final size:30
Alignment explanation
Indices: 28062258--28062318 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
28062248 GCTTTTTGAA
* * * *
28062258 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAACAGACAACCAAATTTT
28062288 AATATTTACAAAAACA-ACAACCAAATTTT
1 AATATTTACAAAAACAGACAACCAAATTTT
28062317 AA
1 AA
28062319 AAATAATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAACAGACAACCAAATTTT
Found at i:28068453 original size:30 final size:30
Alignment explanation
Indices: 28068396--28068457 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
28068386 GGTTTTTGAA
* * *
28068396 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGAACCAAATTTTT
*
28068426 AATATTTACAAAAAGAGTAACCAAATTTTT
1 AATATTTACAAAAAGAGGAACCAAATTTTT
28068456 AA
1 AA
28068458 AAATAATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGAACCAAATTTTT
Found at i:28078741 original size:22 final size:22
Alignment explanation
Indices: 28078690--28078741 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
28078680 TTAGATACTA
* *
28078690 AATTGAAGAAATTGAAATTTCT
1 AATTGAATAAACTGAAATTTCT
28078712 AATTGAATAAACTGAAAATTT-T
1 AATTGAATAAACTG-AAATTTCT
28078734 AATTGAAT
1 AATTGAAT
28078742 GTAATTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.37
Consensus pattern (22 bp):
AATTGAATAAACTGAAATTTCT
Found at i:28081797 original size:17 final size:17
Alignment explanation
Indices: 28081775--28081816 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
28081765 CAAATATGGA
*
28081775 ATGTGATTTTCAAAGAT
1 ATGTGATCTTCAAAGAT
28081792 ATGTGATCTTCAAAGAT
1 ATGTGATCTTCAAAGAT
28081809 ATGTGATC
1 ATGTGATC
28081817 CTAGACATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (17 bp):
ATGTGATCTTCAAAGAT
Found at i:28082551 original size:39 final size:39
Alignment explanation
Indices: 28082495--28082571 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
28082485 ATGTTGAAAA
28082495 GATGACTGGTGGAGATGATGCCATTGAGGCTATGATGAC
1 GATGACTGGTGGAGATGATGCCATTGAGGCTATGATGAC
*
28082534 GATGATTGGTAGG-GATGATGCCATTGAGGCTATGATGA
1 GATGACTGGT-GGAGATGATGCCATTGAGGCTATGATGA
28082572 AGGCCTTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 34 0.94
40 2 0.06
ACGTcount: A:0.26, C:0.10, G:0.36, T:0.27
Consensus pattern (39 bp):
GATGACTGGTGGAGATGATGCCATTGAGGCTATGATGAC
Found at i:28087784 original size:51 final size:50
Alignment explanation
Indices: 28087627--28087821 Score: 203
Period size: 51 Copynumber: 3.8 Consensus size: 50
28087617 ATGATCAATG
* * *
28087627 CTATCTGGTACACATAGTAGCCTACACTTTGTACTACACATGTGACCAATA
1 CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA-A
* * * * * *
28087678 CCATCCGGTACACGTAGTAGGCTGCACATAGTACTACACACGTGCCCAAA
1 CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA
*
28087728 GCTATCCGGTACAAATAGTAGCCTGCACTTAGTACTACACATGTGACCATAA
1 -CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AA
*** * * *
28087780 CTATCTTATACTCAT-GCTAGCCTACACATAGTACTACACATG
1 CTATCCGGTACACATAG-TAGCCTGCACTTAGTACTACACATG
28087822 AGTTCTCATG
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 2 0.02
51 114 0.97
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (50 bp):
CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA
Found at i:28087808 original size:102 final size:102
Alignment explanation
Indices: 28087626--28087819 Score: 248
Period size: 102 Copynumber: 1.9 Consensus size: 102
28087616 TATGATCAAT
* * * *
28087626 GCTATCTGGTACACATAGTAGCCTACACTTTGTACTACACATGTGACCAATACCATCCGGTACAC
1 GCTATCCGGTACAAATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCCGATACAC
* * *
28087691 GTAGTAGGCTGCACATAGTACTACACACGTGCCCAAA
66 ATAGTAGCCTACACATAGTACTACACACGTGCCCAAA
* * ** *
28087728 GCTATCCGGTACAAATAGTAGCCTGCACTTAGTACTACACATGTGACC-ATAACTATCTTATACT
1 GCTATCCGGTACAAATAGTAGCCTACACTTAGTACTACACATGTGACCAAT-ACCATCCGATACA
28087792 CAT-GCTAGCCTACACATAGTACTACACA
65 CATAG-TAGCCTACACATAGTACTACACA
28087820 TGAGTTCTCA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
101 3 0.04
102 75 0.96
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (102 bp):
GCTATCCGGTACAAATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCCGATACAC
ATAGTAGCCTACACATAGTACTACACACGTGCCCAAA
Found at i:28091715 original size:14 final size:14
Alignment explanation
Indices: 28091687--28091718 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
28091677 TTTTTACTGC
28091687 TTTGTTGCTACTAT
1 TTTGTTGCTACTAT
*
28091701 TTTGTTGCTATTAT
1 TTTGTTGCTACTAT
28091715 TTTG
1 TTTG
28091719 GATATTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.09, G:0.16, T:0.62
Consensus pattern (14 bp):
TTTGTTGCTACTAT
Found at i:28093098 original size:27 final size:26
Alignment explanation
Indices: 28093046--28093120 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
28093036 ACATAAAGCC
*
28093046 ATAACAGTCATTTCATCTCCTA-GGGGT
1 ATAACAGTCATTTTA-C-CCTATGGGGT
28093073 ATAACAGTCATTTTACCCTATGGGGGT
1 ATAACAGTCATTTTACCCTAT-GGGGT
* **
28093100 ATTATGGTCATTTTACCCTAT
1 ATAACAGTCATTTTACCCTAT
28093121 AGGGATCTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.10
26 1 0.02
27 37 0.88
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (26 bp):
ATAACAGTCATTTTACCCTATGGGGT
Done.