Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168053.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_303, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36870
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Found at i:704 original size:25 final size:25
Alignment explanation
Indices: 659--728 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
649 TAACATATTA
* **
659 ATTAAGTAATATATTATTACTATTTTT
1 ATTAA-TAATAT-TTAATACTATAATT
686 ATTAATAATATTTAATACTATAATT
1 ATTAATAATATTTAATACTATAATT
711 ATATAA-AATATTTGAATA
1 AT-TAATAATATTT-AATA
729 AATTCATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 20 0.53
26 13 0.34
27 5 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (25 bp):
ATTAATAATATTTAATACTATAATT
Found at i:1297 original size:19 final size:19
Alignment explanation
Indices: 1265--1301 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1255 AAAATTAAAC
*
1265 AATATAATATTTTTATTAT
1 AATATAATAATTTTATTAT
*
1284 AATATTATAATTTTATTA
1 AATATAATAATTTTATTA
1302 CGTACTTGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATATAATAATTTTATTAT
Found at i:1966 original size:31 final size:31
Alignment explanation
Indices: 1931--1991 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1921 TTGTAATGAA
*
1931 TAAATTATATTTATTAAAT-AGTTATTAATTT
1 TAAATTA-ATTAATTAAATAAGTTATTAATTT
* *
1962 TAAATTAATTAATTAATTAATTTATTAATT
1 TAAATTAATTAATTAAATAAGTTATTAATT
1992 ATATACAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (31 bp):
TAAATTAATTAATTAAATAAGTTATTAATTT
Found at i:2441 original size:19 final size:19
Alignment explanation
Indices: 2419--2459 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2409 ATAATTTTCA
* *
2419 AAATATTATTAACTATTTT
1 AAATAATATTAACTATTAT
*
2438 AAATAATATTTACTATTAT
1 AAATAATATTAACTATTAT
2457 AAA
1 AAA
2460 CAACAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATATTAACTATTAT
Found at i:3398 original size:182 final size:179
Alignment explanation
Indices: 2932--3502 Score: 642
Period size: 182 Copynumber: 3.2 Consensus size: 179
2922 TTAATAAGAC
* *
2932 AATTAAT-AGTAAA-AGATTTAAAAAATAAAT-TATTTATCGAACAA-TTCAAATCGTTATGACT
1 AATTAATAAGTAAAGA-ATTTAAAAAATAAATATGTTTATCGAACAAGTTCAAATAGTTATGACT
* * * * *
2993 ATCTAAATAATTATTTATTTTCAAATTC-TTATGACTTTTTTGTTTTGTCATAAAAAAATTGTTT
65 ATCTTAATAATTATCTA-TTTCAAA-TCATTATAAC-ATTTTGTTTTGTCATAAAACAATTGTTT
* * * * * *
3057 CTATCCA-TACGAGCTTATTCGAATTAAAATAATATTTATTTATTAATATTTCAAC
127 CTATTCATTA--AGCTTATTTGAAATAAAATAATA-TAATTTATTAATATTCCAAA
* * * * *
3112 AATTAATAAGTAAA-AGATTTTAAAAAT--ATAAGTTTACCAAACAAGTTCAAATAGTCATGACT
1 AATTAATAAGTAAAGA-ATTTAAAAAATAAATATGTTTATCGAACAAGTTCAAATAGTTATGACT
* * * *
3174 AT-TTGAATAATTATCTACTTCAAATCATTGTAACATTTTGTTTTGTAATAAAACAATTGTTTCA
65 ATCTT-AATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCT
*
3238 ATTCATGTTAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAA
129 ATTCAT-TAAGCTTATTTGAAATAAAATAATA-TAATTTATTAATATTCCAAA
* * *
3291 AATTAAAAAGTAAGAGAATTAAAAAAATAAATATGTTTATCGAATAAGTTCAAATAGTTATGACT
1 AATTAATAAGTAA-AGAATTTAAAAAATAAATATGTTTATCGAACAAGTTCAAATAGTTATGACT
* * * *
3356 ATCTTAATAATTATCTATTTCAAAACATTACAACCTTTTGTTTTGTCATAAAACAATTGGTTCTA
65 ATCTTAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCTA
* *
3421 TTCATTCAAGCTTATTTCAAATAAAATAATATAAATTTATTAATGTTCCAAA
130 TTCATT-AAGCTTATTTGAAATAAAATAATAT-AATTTATTAATATTCCAAA
*
3473 AATTAATAAGTAAA-AATTTTAAAAATAAAT
1 AATTAATAAGTAAAGAATTTAAAAAATAAAT
3503 TTATTTAAAA
Statistics
Matches: 331, Mismatches: 46, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
179 84 0.25
180 53 0.16
181 51 0.15
182 141 0.43
183 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (179 bp):
AATTAATAAGTAAAGAATTTAAAAAATAAATATGTTTATCGAACAAGTTCAAATAGTTATGACTA
TCTTAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCTAT
TCATTAAGCTTATTTGAAATAAAATAATATAATTTATTAATATTCCAAA
Found at i:4041 original size:182 final size:180
Alignment explanation
Indices: 3524--4302 Score: 498
Period size: 182 Copynumber: 4.3 Consensus size: 180
3514 TTAATGTTCC
* ** *
3524 AAAACCAATTGTTTCTATTCATACAAAATTATTC-ATAATAAAATAATACTATTTTATT-ACTAT
1 AAAA-CAATTGTTTC-AATCATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAAC-AT
* * * * * * * ** *
3587 TTTAAAAA-T--TAA-TAAGAGATTTAAAAACTAAATTC-TTTTACCAAACCAGTTCAAATAGTT
62 TATAAAAATTGATAAGTAAGAAATTGAAAAA-AAAAATCAGTTTACCGAATAAGTTCAAATAATT
* * * * * * *
3647 ATGACTATTTGAACAATTATCTATCTCCAATTGTTATGA-TTTTTGTTTTGTCCT
126 ATGACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTAGTCAT
* * ** * * * * * *
3701 AAAACATTTAATTTCTGTTCA-ACAAGCTTATTC-ATAGTAAAATATTGCTAAATTAATAATATT
1 AAAACAATT-GTTTC-AATCATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAACATT
* * * * * * * ** *** * *
3764 CTAAACATTAATAAATAAG-GATTTAAAAAATAAATGTGTTT-GTTACATCAGTTCAAAGAGA-T
63 ATAAAAATTGATAAGTAAGAAATTGAAAAAAAAAATCAGTTTACCGA-ATAAGTTCAAATA-ATT
* * * * * *
3826 AAGACTATTAGAACAATGATCTATTTCAAATCGTTTTGACATTTTGTTTAGTCAT
126 ATGACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTAGTCAT
* * *
3881 AAAATAATTGCTTCAACTCATACATGCTTATTCGAAATAAAATAATACTAATTTATTAACATT-T
1 AAAACAATTGTTTCAA-TCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAACATTAT
*
3945 AGAAAATT-ATTAAGTAAGAAATTAGAAAAAAAAAATCTA-TTTACCGAATAAGTTCAAATATTT
65 A-AAAATTGA-TAAGTAAGAAATT-GAAAAAAAAAATC-AGTTTACCGAATAAGTTCAAATAATT
* * *
4008 TTTACTATTTGAATAATTATCTATTTGAAATCGTTATGACCTTATAT-TTTA-TCAT
126 ATGACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTT-T-TGTTTAGTCAT
* * * * * *
4063 AAAACAATTGTTTCAGTTCCTAAAAGCTTATCTC-AAATAAAATAATATTACTTTATTAATATTA
1 AAAACAATTGTTTCA-ATCATACAAGCTTAT-TCGAAATAAAATAATACTAATTTATTAACATTA
* * * * * * *
4127 TAAAAATTGATAAGTTAGAGATTTAAAACATAAATCAGTTTATCGAATCAGTTCAAATAATTATG
64 TAAAAATTGATAAGTAAGAAATTGAAAAAAAAAATCAGTTTACCGAATAAGTTCAAATAATTATG
* * * * * *
4192 GCCATTTGAATGATTATCGATTTCAAATCGTTATGACCTTTTGTTTTGTCAC
129 ACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTAGTCAT
* ** * * *
4244 AAAACAATTATTTTTTATCGTACAAGTTTATTCGAAATAAAATAATACTGATTTATTAA
1 AAAACAATT-GTTTCAATCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAA
4303 TTCAAATATT
Statistics
Matches: 465, Mismatches: 106, Indels: 58
0.74 0.17 0.09
Matches are distributed among these distances:
176 40 0.09
177 15 0.03
178 4 0.01
179 70 0.15
180 75 0.16
181 116 0.25
182 133 0.29
183 11 0.02
184 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (180 bp):
AAAACAATTGTTTCAATCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAACATTATA
AAAATTGATAAGTAAGAAATTGAAAAAAAAAATCAGTTTACCGAATAAGTTCAAATAATTATGAC
TATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTAGTCAT
Found at i:4226 original size:181 final size:180
Alignment explanation
Indices: 3848--4302 Score: 436
Period size: 181 Copynumber: 2.5 Consensus size: 180
3838 ACAATGATCT
* * * * *
3848 ATTTCAAATCGTTTTGACATTTTGTTTAGTCATAAAATAATTGCTTCAACTCATACATGCTTATT
1 ATTTCAAATCGTTATGACCTTTT-TTTA-TCATAAAACAATTGCTTCAACTCATAAAAGCTTATT
3913 CGAAATAAAATAATACTAATTTATTAACATTTAGAAAATTATTAAGTAAGAAATTAGAAAAAAAA
64 CGAAATAAAATAATACTAATTTATTAACATTTAGAAAATTATTAAGTAAGAAATTAGAAAAAAAA
* * * * *
3978 AATCTATTTACCGAATAAGTTCAAATATTTTTTACTATTTGAATAATTATCT
129 AATCTATTTACCGAATAAGTTCAAATAATTATGACCATTTGAATAATTATCG
* * ** *
4030 ATTTGAAATCGTTATGACCTTATATTTTATCATAAAACAATTGTTTCAGTTCCTAAAAGCTTATC
1 ATTTCAAATCGTTATGACCTT-T-TTTTATCATAAAACAATTGCTTCAACTCATAAAAGCTTAT-
* * * * * * *
4095 TC-AAATAAAATAATATTACTTTATTAATATTATA-AAAATTGA-TAAGTTAGAGATT-TAAAAC
63 TCGAAATAAAATAATACTAATTTATTAACATT-TAGAAAATT-ATTAAGTAAGAAATTAGAAAAA
* * * * *
4156 ATAAATC-AGTTTATCGAATCAGTTCAAATAATTATGGCCATTTGAATGATTATCG
126 AAAAATCTA-TTTACCGAATAAGTTCAAATAATTATGACCATTTGAATAATTATCG
* * ** ** * * *
4211 ATTTCAAATCGTTATGACCTTTTGTTTTGTCACAAAACAATTATTTTTTA-TCGTACAAGTTTAT
1 ATTTCAAATCGTTATGACC-TTT-TTTTATCATAAAACAATT-GCTTCAACTCATAAAAGCTTAT
*
4275 TCGAAATAAAATAATACTGATTTATTAA
63 TCGAAATAAAATAATACTAATTTATTAA
4303 TTCAAATATT
Statistics
Matches: 223, Mismatches: 41, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
180 3 0.01
181 115 0.52
182 94 0.42
183 10 0.04
184 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (180 bp):
ATTTCAAATCGTTATGACCTTTTTTTATCATAAAACAATTGCTTCAACTCATAAAAGCTTATTCG
AAATAAAATAATACTAATTTATTAACATTTAGAAAATTATTAAGTAAGAAATTAGAAAAAAAAAA
TCTATTTACCGAATAAGTTCAAATAATTATGACCATTTGAATAATTATCG
Found at i:4303 original size:181 final size:182
Alignment explanation
Indices: 3906--4303 Score: 448
Period size: 181 Copynumber: 2.2 Consensus size: 182
3896 ACTCATACAT
*
3906 GCTTATTCGAAATAAAATAATACTAATTTATTAACATTTAGAAAATTATTAAGTAAGAAATTAGA
1 GCTTATTCGAAATAAAATAATACTAATTTATTAATATTTAGAAAATTATTAAGTAAGAAATTAGA
* * * * * *
3971 AAAAAAAAATCTATTTACCGAATAAGTTCAAATATTTTTTACTATTTGAATAATTATCTATTTGA
66 AAAAAAAAATCTATTTACCGAATAAGTTCAAATAATTATGACCATTTGAATAATTATCGATTTCA
* *
4036 AATCGTTATGACCTTATATTTTATCATAAAACAATTGTTTCAGTTCCTAAAA
131 AATCGTTATGACCTTATATTTTATCACAAAACAATTATTTCAGTTCCTAAAA
* * * *
4088 GCTTATCTC-AAATAAAATAATATTACTTTATTAATATTATA-AAAATTGA-TAAGTTAGAGATT
1 GCTTAT-TCGAAATAAAATAATACTAATTTATTAATATT-TAGAAAATT-ATTAAGTAAGAAATT
* * * * * * *
4150 -TAAAACATAAATC-AGTTTATCGAATCAGTTCAAATAATTATGGCCATTTGAATGATTATCGAT
63 AGAAAAAAAAAATCTA-TTTACCGAATAAGTTCAAATAATTATGACCATTTGAATAATTATCGAT
* * * ** * *
4213 TTCAAATCGTTATGACCTTTTGTTTTGTCACAAAACAATTATTT-TTTATCGTACAA
127 TTCAAATCGTTATGACCTTATATTTTATCACAAAACAATTATTTCAGT-TCCTAAAA
* *
4269 GTTTATTCGAAATAAAATAATACTGATTTATTAAT
1 GCTTATTCGAAATAAAATAATACTAATTTATTAAT
4304 TCAAATATTA
Statistics
Matches: 179, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
180 4 0.02
181 121 0.68
182 49 0.27
183 5 0.03
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (182 bp):
GCTTATTCGAAATAAAATAATACTAATTTATTAATATTTAGAAAATTATTAAGTAAGAAATTAGA
AAAAAAAAATCTATTTACCGAATAAGTTCAAATAATTATGACCATTTGAATAATTATCGATTTCA
AATCGTTATGACCTTATATTTTATCACAAAACAATTATTTCAGTTCCTAAAA
Found at i:4454 original size:26 final size:24
Alignment explanation
Indices: 4425--4492 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
4415 TAATTAAACT
4425 TTAATTAAATATAAATTAAATAATAG
1 TTAATTAAATATAAATTAAAT-A-AG
* * * *
4451 TTAATTAGATATTAGTTTAATAAG
1 TTAATTAAATATAAATTAAATAAG
*
4475 TTAATTAATTATATAATT
1 TTAATTAAATATA-AATT
4493 GTTATATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
24 12 0.36
25 4 0.12
26 17 0.52
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
TTAATTAAATATAAATTAAATAAG
Found at i:4848 original size:20 final size:20
Alignment explanation
Indices: 4819--4869 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
4809 ATGTTATTAG
*
4819 TAATAA-TAATATAATAATA
1 TAATAATTAATATAATAAAA
* * *
4838 TAATTATTAATTTATTAAAA
1 TAATAATTAATATAATAAAA
4858 TAATAATTAATA
1 TAATAATTAATA
4870 AATTGATTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATAATTAATATAATAAAA
Found at i:5119 original size:26 final size:25
Alignment explanation
Indices: 5052--5126 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 25
5042 ATACATTATT
* *
5052 AATAATTAATAATGATTAATTTTTTTG
1 AATAATTAATAA--AATAATTTATTTG
* *
5079 -ATTATTGATAAAATAATTCTATTTG
1 AATAATTAATAAAATAATT-TATTTG
5104 AATAATTAATAAAAT-ATTTATTT
1 AATAATTAATAAAATAATTTATTT
5127 AGTTTATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
24 11 0.28
25 8 0.20
26 21 0.52
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (25 bp):
AATAATTAATAAAATAATTTATTTG
Found at i:5245 original size:29 final size:26
Alignment explanation
Indices: 5197--5264 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 26
5187 CTTTATTCCG
5197 AATATTATTA-TAAATAATAATAATCA
1 AATATTATTATTAAATAATAATAAT-A
*
5223 AATATTATTATTAACATTTATAATAATA
1 AATATTATTATTAA-A-TAATAATAATA
*
5251 ATATAATATTATTA
1 A-ATATTATTATTA
5265 TTACTATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 10 0.28
27 3 0.08
28 3 0.08
29 20 0.56
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (26 bp):
AATATTATTATTAAATAATAATAATA
Found at i:6252 original size:30 final size:31
Alignment explanation
Indices: 6208--6267 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
6198 TGATAACAAT
6208 TAAATTTAATAAATTACTTA-TTAAACTTTAA
1 TAAATTTAATAAATTACTTATTTAAA-TTTAA
* *
6239 TAAA-TTAGTAAATTATTTATTTAAATTTA
1 TAAATTTAATAAATTACTTATTTAAATTTA
6268 TCCAAGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (31 bp):
TAAATTTAATAAATTACTTATTTAAATTTAA
Found at i:6572 original size:22 final size:22
Alignment explanation
Indices: 6547--6588 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6537 ATATTTAACT
*
6547 AATATATATATTAATTATTAGC
1 AATATATATAATAATTATTAGC
6569 AATATATATAATAATTATTA
1 AATATATATAATAATTATTA
6589 ATAATAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
AATATATATAATAATTATTAGC
Found at i:6594 original size:22 final size:22
Alignment explanation
Indices: 6541--6594 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
6531 ATCGTTATAT
*
6541 TTAACTAATATATATATTAATTA
1 TTAA-TAATATATATAATAATTA
**
6564 TTAGCAATATATATAATAATTA
1 TTAATAATATATATAATAATTA
6586 TTAATAATA
1 TTAATAATA
6595 ATTGAGATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAATAATATATATAATAATTA
Found at i:6997 original size:15 final size:15
Alignment explanation
Indices: 6975--7007 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6965 TTTTTTATTA
6975 ATTA-ATAAATAATT
1 ATTATATAAATAATT
6989 ATTATATAAATAATT
1 ATTATATAAATAATT
7004 -TTAT
1 ATTAT
7008 TATTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATATAAATAATT
Found at i:7011 original size:20 final size:20
Alignment explanation
Indices: 6986--7053 Score: 57
Period size: 23 Copynumber: 3.1 Consensus size: 20
6976 TTAATAAATA
6986 ATTATTATATAAATAATTTT
1 ATTATTATATAAATAATTTT
7006 ATTATTATTATTTAAAT-ATATTT
1 ATTATTA-TA--TAAATAAT-TTT
* *
7029 ATAACTTATATAATATAATTAT
1 ATTA-TTATATAA-ATAATTTT
7051 ATT
1 ATT
7054 GTAATATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
20 7 0.18
21 5 0.13
22 8 0.21
23 15 0.39
24 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTATTATATAAATAATTTT
Found at i:7161 original size:19 final size:18
Alignment explanation
Indices: 7128--7172 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
7118 AAGCTTGTAT
*
7128 ATATATTAAATTAAAATAA
1 ATAT-TTAAAATAAAATAA
*
7147 CATATTTAAAATAAATTAA
1 -ATATTTAAAATAAAATAA
7166 ATATTTA
1 ATATTTA
7173 TAATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 12 0.52
20 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATTTAAAATAAAATAA
Found at i:7771 original size:14 final size:12
Alignment explanation
Indices: 7750--7819 Score: 54
Period size: 14 Copynumber: 5.5 Consensus size: 12
7740 TATTTAATTA
7750 TAAAATTAGTAAT
1 TAAAATTA-TAAT
7763 TAAATATTACTAAT
1 TAAA-ATTA-TAAT
7777 ATAAAATTATAATAT
1 -TAAAATTAT-A-AT
7792 TAAAA-TA-AAT
1 TAAAATTATAAT
* *
7802 TAATATTAAAAT
1 TAAAATTATAAT
7814 TAAAAT
1 TAAAAT
7820 CCTTATAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
10 6 0.12
11 3 0.06
12 8 0.17
13 7 0.15
14 18 0.38
15 6 0.12
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (12 bp):
TAAAATTATAAT
Found at i:8104 original size:24 final size:25
Alignment explanation
Indices: 8077--8127 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
8067 GAATATTACT
* *
8077 ATTAGTATTATTATAAT-TTTCAAA
1 ATTAGTATTAATATAATATTTAAAA
* *
8101 ATTATTTTTAATATAATATTTAAAA
1 ATTAGTATTAATATAATATTTAAAA
8126 AT
1 AT
8128 AATTACAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
ATTAGTATTAATATAATATTTAAAA
Found at i:8291 original size:13 final size:13
Alignment explanation
Indices: 8221--8388 Score: 51
Period size: 13 Copynumber: 13.4 Consensus size: 13
8211 TAATTTTAAT
*
8221 TTAATTATTACTAA
1 TTAATTA-TAATAA
*
8235 TT-ATTATTGATAA
1 TTAATTA-TAATAA
8248 -TAATTTATAATATA
1 TTAA-TTATAATA-A
*
8262 TTAA-TACTACCTAA
1 TTAATTA-TA-ATAA
8276 TTAATTATAATAA
1 TTAATTATAATAA
*
8289 TTAGTTACTAATAA
1 TTAATTA-TAATAA
8303 TT-ATTA-AACT-A
1 TTAATTATAA-TAA
* *
8314 TTTA-TA-AATTA
1 TTAATTATAATAA
* *
8325 TTAATTTATTATAT
1 TTAA-TTATAATAA
*
8339 TTAA-TATATTAA
1 TTAATTATAATAA
*
8351 TCAA--AT-ATAA
1 TTAATTATAATAA
*
8361 TT-A-TATAATAT
1 TTAATTATAATAA
8372 TTAATTAT-ATAA
1 TTAATTATAATAA
8384 TTAAT
1 TTAAT
8389 ACATTATTTA
Statistics
Matches: 117, Mismatches: 19, Indels: 38
0.67 0.11 0.22
Matches are distributed among these distances:
9 1 0.01
10 7 0.06
11 20 0.17
12 20 0.17
13 33 0.28
14 29 0.25
15 7 0.06
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (13 bp):
TTAATTATAATAA
Found at i:8384 original size:8 final size:8
Alignment explanation
Indices: 8355--8400 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
8345 TATTAATCAA
8355 ATATAATT
1 ATATAATT
8363 ATATAA-T
1 ATATAATT
*
8370 ATTTAATT
1 ATATAATT
8378 ATATAATT
1 ATATAATT
8386 A-ATACATT
1 ATATA-ATT
*
8394 ATTTAAT
1 ATATAAT
8401 ATGATAAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
7 9 0.28
8 21 0.66
9 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATAATT
Found at i:8407 original size:24 final size:23
Alignment explanation
Indices: 8355--8400 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8345 TATTAATCAA
8355 ATATAATTATATAATATTTAATT
1 ATATAATTATATAATATTTAATT
8378 ATATAATTA-ATACATTATTTAAT
1 ATATAATTATATA-A-TATTTAAT
8401 ATGATAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 10 0.48
24 8 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATAATTATATAATATTTAATT
Found at i:8941 original size:35 final size:33
Alignment explanation
Indices: 8877--8945 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 33
8867 AATATTATTA
* *
8877 ATTTATTATTACTATTAAATAAGTTAATTAATT
1 ATTTATTATTAATATTAAACAAGTTAATTAATT
8910 ATTT-TTATTAATATTAATACAAGTTCAAATTAATT
1 ATTTATTATTAATATTAA-ACAAGTT--AATTAATT
8945 A
1 A
8946 AATACAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 12 0.39
33 10 0.32
35 9 0.29
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (33 bp):
ATTTATTATTAATATTAAACAAGTTAATTAATT
Found at i:9585 original size:43 final size:41
Alignment explanation
Indices: 9532--9614 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 41
9522 AAGTAAACAA
* **
9532 GGCTCCTCTAAACAAGGGTTCAACAACTTTAGGAAAAATAAAT
1 GGCTCCTCTAAACAAAGGCACAACAACTTT--GAAAAATAAAT
*
9575 GGCTCTTCTAAACAAAGGCACAACAACTTTGAAAAATAAA
1 GGCTCCTCTAAACAAAGGCACAACAACTTTGAAAAATAAA
9615 GGTTCCTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 10 0.28
43 26 0.72
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (41 bp):
GGCTCCTCTAAACAAAGGCACAACAACTTTGAAAAATAAAT
Found at i:10092 original size:88 final size:86
Alignment explanation
Indices: 9989--10246 Score: 342
Period size: 88 Copynumber: 3.0 Consensus size: 86
9979 GGTTTCACAT
9989 TTCAAAAATTCTCATTTGAAGACTCAAAGATTCTCATTTGAAGACTCAAAGATTCTCATTTGAAA
1 TTCAAAAATTCTCATTTGAA-ACTCAAAGATTCTCATTT-AAGACTCAAAGATTCTCATTT-AAA
10054 ATTCAAAGATTCTCATTT-AAAAA
63 ATTCAAAGATTCTCATTTGAAAAA
* * *
10077 TTCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTAAGACTCAGAGATTCTCATTTAAAACT
1 TTCAAAAATTCTCATTTGAAACTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAAATT
* *** *
10142 CAAAGATTCTTATTTGTGGAT
66 CAAAGATTCTCATTTGAAAAA
*
10163 TTCTTAAAAATTCTCATTT-AATACTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTCAAG
1 TTC--AAAAATTCTCATTTGAA-ACTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAA-
*
10227 ACTT-AAAGATTCTCATTTGA
62 AATTCAAAGATTCTCATTTGA
10247 GGGTTCACAA
Statistics
Matches: 150, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
85 19 0.13
86 24 0.16
87 20 0.13
88 85 0.57
89 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (86 bp):
TTCAAAAATTCTCATTTGAAACTCAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAAATT
CAAAGATTCTCATTTGAAAAA
Found at i:10104 original size:21 final size:22
Alignment explanation
Indices: 9990--10246 Score: 301
Period size: 21 Copynumber: 11.8 Consensus size: 22
9980 GTTTCACATT
*
9990 TCAAAAATTCTCATTTGAAGAC
1 TCAAAGATTCTCATTTGAAGAC
10012 TCAAAGATTCTCATTTGAAGAC
1 TCAAAGATTCTCATTTGAAGAC
* *
10034 TCAAAGATTCTCATTTGAAAAT
1 TCAAAGATTCTCATTTGAAGAC
* * *
10056 TCAAAGATTCTCATTTAAAAAT
1 TCAAAGATTCTCATTTGAAGAC
10078 TCAAAGATTCTCATTTGAA-AC
1 TCAAAGATTCTCATTTGAAGAC
10099 TCAAAGATTCTCATTT-AAGAC
1 TCAAAGATTCTCATTTGAAGAC
* *
10120 TCAGAGATTCTCATTT-AAAAC
1 TCAAAGATTCTCATTTGAAGAC
* **
10141 TCAAAGATTCTTATTTGTGGATTTC
1 TCAAAGATTCTCATTTGAAGA---C
* * *
10166 TTAAAAATTCTCATTT-AATAC
1 TCAAAGATTCTCATTTGAAGAC
10187 TCAAAGATTCTCATTT-AAGAC
1 TCAAAGATTCTCATTTGAAGAC
*
10208 TCAAAGATTCTCA-TTCAAGAC
1 TCAAAGATTCTCATTTGAAGAC
*
10229 TTAAAGATTCTCATTTGA
1 TCAAAGATTCTCATTTGA
10247 GGGTTCACAA
Statistics
Matches: 204, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
20 4 0.02
21 101 0.50
22 84 0.41
24 1 0.00
25 14 0.07
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (22 bp):
TCAAAGATTCTCATTTGAAGAC
Found at i:10929 original size:63 final size:62
Alignment explanation
Indices: 10656--11083 Score: 236
Period size: 63 Copynumber: 6.8 Consensus size: 62
10646 TCCTTCATCT
* * * * * **
10656 ATTTGGTCACCACTCACGCAAGCTTTTTTAGCACTAG-CATTTTAGAACAATTTCT-CCTTCCTC
1 ATTTGGTCACCACTCA--CAGGC-TTCTTAGCACTAGTCATTCTAGAACAAATTCTATCTTTATC
* * * * * * *
10719 AATTTGGTCACCACTCACA-GCTTC-TAGCACTAGTCGTTTCACAAAAAAAATGCTGTCTCTATC
1 -ATTTGGTCACCACTCACAGGCTTCTTAGCACTAGTC-ATTC-TAGAACAAATTCTATCTTTATC
* * * * * * *
10782 ACTTGGGTCA-CACTCATAAGCTTTTTAGCACTAGGCTTTC-AGAACCAGAATTCTAGTTTTCTA
1 A-TTTGGTCACCACTCACAGGCTTCTTAGCACTAGTCATTCTAGAA-CA-AATTCTA-TCTT-TA
10845 TC
61 TC
* ** *
10847 A-CTAATCACCATTCA-AGGCTTCTTAGCACTAGTCATTCTAGAACAAATT-TCATTCTTTATC
1 ATTTGGTCACCACTCACAGGCTTCTTAGCACTAGTCATTCTAGAACAAATTCT-A-TCTTTATC
* * *
10908 ATTTGGTCACCACTCACAGGCTTTTTGGCATTAG-CAATT-TCA-AACAAATTCTATCTTCTATC
1 ATTTGGTCACCACTCACAGGCTTCTTAGCACTAGTC-ATTCT-AGAACAAATTCTATCTT-TATC
* * * * * *
10970 ACTTT-GTCACCACCCATAGGCTTCTCAACACTA-TCCATTCCAAAACAAATTCTATCTTTTATC
1 A-TTTGGTCACCACTCACAGGCTTCTTAGCACTAGT-CATTCTAGAACAAATTCTATC-TTTATC
* * * * *
11033 ACTTGGTCACCACTCATAGGCTTCTCAGCACTAGCCATTCCAGAACAAATT
1 ATTTGGTCACCACTCACAGGCTTCTTAGCACTAGTCATTCTAGAACAAATT
11084 TTGTCCATTA
Statistics
Matches: 283, Mismatches: 53, Indels: 57
0.72 0.13 0.15
Matches are distributed among these distances:
59 9 0.03
60 3 0.01
61 17 0.06
62 80 0.28
63 130 0.46
64 39 0.14
65 5 0.02
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (62 bp):
ATTTGGTCACCACTCACAGGCTTCTTAGCACTAGTCATTCTAGAACAAATTCTATCTTTATC
Found at i:12717 original size:19 final size:21
Alignment explanation
Indices: 12693--12740 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
12683 GATAACAAAT
12693 GAAATCCT-ATTAC-ATAAAA
1 GAAATCCTAATTACTATAAAA
12712 GAAATCCTAACATTACTATAAAA
1 GAAATCCT-A-ATTACTATAAAA
12735 GAAATC
1 GAAATC
12741 TAGAATGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.32
22 5 0.20
23 12 0.48
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.25
Consensus pattern (21 bp):
GAAATCCTAATTACTATAAAA
Found at i:13329 original size:33 final size:33
Alignment explanation
Indices: 13283--13393 Score: 106
Period size: 33 Copynumber: 3.4 Consensus size: 33
13273 TTAGTTTTAC
* *
13283 AATAAAT-TAAATAATTATTAATATTGATAGATA-
1 AATAAATAT-AATAATTATT-ATATTAATAAATAG
13316 AATAAATATAATAATTATTATA-TAATAAATAG
1 AATAAATATAATAATTATTATATTAATAAATAG
* *
13348 ATTAATATATAATAATTATTTATATTATTAAATA-
1 AATAA-ATATAATAATTA-TTATATTAATAAATAG
13382 ATATAAAT-TAAT
1 A-ATAAATATAAT
13394 TTATCTTTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
31 7 0.10
32 7 0.10
33 33 0.49
34 9 0.13
35 11 0.16
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (33 bp):
AATAAATATAATAATTATTATATTAATAAATAG
Found at i:13351 original size:19 final size:18
Alignment explanation
Indices: 13320--13383 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
13310 TAGATAAATA
*
13320 AATATAATAATTATTATAT
1 AATA-AATAATTAATATAT
13339 AATAAATAGATTAATATAT
1 AATAAATA-ATTAATATAT
* *
13358 AAT-AATTATTTATAT-T
1 AATAAATAATTAATATAT
*
13374 ATTAAATAAT
1 AATAAATAAT
13384 ATAAATTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 3 0.08
17 12 0.32
18 7 0.18
19 16 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AATAAATAATTAATATAT
Found at i:13621 original size:20 final size:18
Alignment explanation
Indices: 13582--13635 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
13572 TATTAATTGA
* *
13582 ATTAAATATTAATAGTAATT
1 ATTAAA-ATTTATAATAA-T
*
13602 ATTAAAATTTATGATAA-
1 ATTAAAATTTATAATAAT
13619 ATTAAAATTTATAATAA
1 ATTAAAATTTATAATAA
13636 ATAATTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 16 0.53
19 8 0.27
20 6 0.20
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (18 bp):
ATTAAAATTTATAATAAT
Found at i:13624 original size:17 final size:17
Alignment explanation
Indices: 13602--13637 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
13592 AATAGTAATT
*
13602 ATTAAAATTTATGATAA
1 ATTAAAATTTATAATAA
13619 ATTAAAATTTATAATAA
1 ATTAAAATTTATAATAA
13636 AT
1 AT
13638 AATTAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
ATTAAAATTTATAATAA
Found at i:13867 original size:17 final size:18
Alignment explanation
Indices: 13826--13870 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
13816 AAATTACAAG
13826 TACTTAAT-TT-ATAATT
1 TACTTAATATTAATAATT
*
13842 TAATTAATATTAATAA-T
1 TACTTAATATTAATAATT
13859 TACTTAATATTA
1 TACTTAATATTA
13871 TTAACATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
TACTTAATATTAATAATT
Found at i:13957 original size:17 final size:16
Alignment explanation
Indices: 13941--14011 Score: 58
Period size: 17 Copynumber: 4.4 Consensus size: 16
13931 AAATTAAATA
13941 TATATTATAATATAAT
1 TATATTATAATATAAT
*
13957 AAATATTAT-A-A-AAT
1 -TATATTATAATATAAT
*
13971 TATATTATTAATTTAAT
1 TATATTA-TAATATAAT
*
13988 TATATAATAATATTAAT
1 TATATTATAATA-TAAT
*
14005 TTTATTA
1 TATATTA
14012 AACAATTGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
13 6 0.14
14 4 0.10
15 2 0.05
16 5 0.12
17 25 0.60
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATTATAATATAAT
Found at i:14508 original size:19 final size:20
Alignment explanation
Indices: 14479--14522 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
14469 TAATTTATAT
*
14479 TAATTATAATAGATA-ATACA
1 TAATTATAATAAATAGATA-A
14499 TAATTA-AATAAATAGATAA
1 TAATTATAATAAATAGATAA
14518 TAATT
1 TAATT
14523 TATCATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (20 bp):
TAATTATAATAAATAGATAA
Found at i:15228 original size:16 final size:17
Alignment explanation
Indices: 15196--15228 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15186 GACCAGTGCA
15196 AACAATTATGACTATTTG
1 AACAATTAT-ACTATTTG
15214 AACAATTAT-CTATTT
1 AACAATTATACTATTT
15229 CAAATTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
AACAATTATACTATTTG
Found at i:15241 original size:181 final size:181
Alignment explanation
Indices: 15020--15416 Score: 460
Period size: 181 Copynumber: 2.2 Consensus size: 181
15010 AGTTCATTAG
* * * * * * *
15020 TTATAACTATTTGACCAAATATTTATTTCAAATCGTTATGATCATTTGTTTTATCATAAAACAAT
1 TTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCATTTGTTTTATCACAAAACAAT
* * ***
15085 TGTTGTTGTTCATATAATCTTATTC-GAAATAAAATAATACTAATTAATTAATATTTTGAAAATT
66 TGTTGTTGTTCATACAAGCTTATTCAG-AATAAAATAATACTAATTAATTAATATTCCAAAAATT
* * *
15149 AATAAGTAATG-GA-TTTAGAAAATGTATCTGTTGGCTTG-ACCAGTGCAAACAA
130 AATAAGTAA-GAGATTTTA-AAAATGAATCTGTTGAC-TGAACAAGTGCAAACAA
* *
15201 TTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTCTCACAAAACAAT
1 TTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCATTTGTTTTATCACAAAACAAT
* * ** *
15266 TGTTTTTGTTCATACAAGCTTATTCAGAATAACATAATTGTAATTTATTAATATTCCAAAAATTA
66 TGTTGTTGTTCATACAAGCTTATTCAGAATAAAATAATACTAATTAATTAATATTCCAAAAATTA
* * * * * *
15331 CTAAGTGAGAGATTTTAAAAATGAATTTGTTTACTGAACAAGTTCAAATAA
131 ATAAGTAAGAGATTTTAAAAATGAATCTGTTGACTGAACAAGTGCAAACAA
* *
15382 TTATGGCTATTTGAACAATTATCTACTTCAAATTG
1 TTATGACTATTTGAACAATTATCTATTTCAAATTG
15417 CTATAACCTT
Statistics
Matches: 182, Mismatches: 30, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
180 3 0.02
181 174 0.96
182 5 0.03
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (181 bp):
TTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCATTTGTTTTATCACAAAACAAT
TGTTGTTGTTCATACAAGCTTATTCAGAATAAAATAATACTAATTAATTAATATTCCAAAAATTA
ATAAGTAAGAGATTTTAAAAATGAATCTGTTGACTGAACAAGTGCAAACAA
Found at i:15783 original size:182 final size:178
Alignment explanation
Indices: 15473--15872 Score: 480
Period size: 182 Copynumber: 2.2 Consensus size: 178
15463 AGCTTGTTGC
* * * *
15473 AAATCTGTTTACCAAATAATTTTAAATAGTTATAACTATTAACAATTATTTATTTCAAATAGTTA
1 AAATCTGTTTACCAAACAAGTTCAAATAGTTATAACTATTAACAATTATCTATTTCAAATAGTTA
* * * * *** * *
15538 TGACCTTTTGTTTTGTCATAAAACAATTATTTTTGTTCATATTAGCTTATTCAAATTAAAATAAT
66 TAACCTTTTGTTTCGCCATAAAACAATTATATCAATTCACATTAGCTTATTCAAATTAAAATAAC
* * * *
15603 ATTAATTTATTAATATTTCAACAATTAATAAGTAAAAGATTTAAAAAAAT
131 ACTAACTTATTAATATTCCAAAAATTAATAAGTAAAAGATTT--AAAAAT
* * * * *
15653 AAATATGTTTACCGAACAAGTTCAAATAGTAATAACTATCTGAATAATTATCTATTTCAAATCGT
1 AAATCTGTTTACCAAACAAGTTCAAATAGTTATAACTAT-T-AACAATTATCTATTTCAAATAGT
15718 TATAACCTTTTGTTTCGCCATAAAACAATTATATCAATTCACA-TAGGCTTATTCGAAA-TAAAA
64 TATAACCTTTTGTTTCGCCATAAAACAATTATATCAATTCACATTA-GCTTATTC-AAATTAAAA
* * *
15781 TAACACTAACTTATTACTATTCCAAAAATTAATGAGTAAGAGATTTAAAAAT
127 TAACACTAACTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAT
* * *
15833 GAATCTATTTACCAAACAAGTTCAAATAGTTATGACTATT
1 AAATCTGTTTACCAAACAAGTTCAAATAGTTATAACTATT
15873 TATATTATAA
Statistics
Matches: 185, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
179 1 0.01
180 72 0.39
181 3 0.02
182 106 0.57
183 3 0.02
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (178 bp):
AAATCTGTTTACCAAACAAGTTCAAATAGTTATAACTATTAACAATTATCTATTTCAAATAGTTA
TAACCTTTTGTTTCGCCATAAAACAATTATATCAATTCACATTAGCTTATTCAAATTAAAATAAC
ACTAACTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAT
Found at i:18064 original size:16 final size:16
Alignment explanation
Indices: 18027--18074 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
18017 TATTAATATT
18027 TATAATATTACTAATAA
1 TATAATATTA-TAATAA
**
18044 T-TAATATTATTGTAA
1 TATAATATTATAATAA
18059 TATAATAATTATAATA
1 TATAAT-ATTATAATA
18075 TTTTTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 5 0.20
16 12 0.48
17 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TATAATATTATAATAA
Found at i:18389 original size:19 final size:18
Alignment explanation
Indices: 18365--18403 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
18355 TGTTTGAAAT
*
18365 ATTAATACTTAATATTTTA
1 ATTAATAATTAAT-TTTTA
*
18384 ATTAATAATTTATTTTTA
1 ATTAATAATTAATTTTTA
18402 AT
1 AT
18404 AAAATAACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAATAATTAATTTTTA
Found at i:19301 original size:19 final size:18
Alignment explanation
Indices: 19259--19294 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
19249 TTATGTTTAT
*
19259 TTAATTATATATATAATA
1 TTAATTATATACATAATA
19277 TTAATTAATATACATAAT
1 TTAATT-ATATACATAAT
19295 TATAATTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTATATACATAATA
Found at i:19423 original size:18 final size:17
Alignment explanation
Indices: 19400--19450 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
19390 TTAGGTTATG
19400 TATATATACTTAAAATTT
1 TATATATACTTAAAA-TT
19418 TATATATTA-TTAATTAATT
1 TATATA-TACTTAA--AATT
19437 TATATAT-CTTAAAA
1 TATATATACTTAAAA
19451 GGATCTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.07
18 15 0.52
19 10 0.34
20 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATATACTTAAAATT
Found at i:19518 original size:13 final size:12
Alignment explanation
Indices: 19482--19560 Score: 55
Period size: 10 Copynumber: 6.9 Consensus size: 12
19472 TTAATTAATT
19482 TAATA-ATTAT-
1 TAATATATTATA
19492 TAATATATTCATA
1 TAATATATT-ATA
19505 TAATTATATTATA
1 TAA-TATATTATA
*
19518 TAA-AT-TTAAA
1 TAATATATTATA
*
19528 TAGTATA-T-TA
1 TAATATATTATA
19538 TAAT-TATTATA
1 TAATATATTATA
*
19549 TTAATAAATTAT
1 -TAATATATTAT
19561 TAGTAGTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
9 2 0.04
10 16 0.30
11 10 0.19
12 6 0.11
13 14 0.26
14 6 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
TAATATATTATA
Found at i:19565 original size:33 final size:33
Alignment explanation
Indices: 19461--19565 Score: 96
Period size: 36 Copynumber: 3.2 Consensus size: 33
19451 GGATCTATAA
19461 ATTAGTATA--CAT-TAATTA-ATTTAAT-AATT
1 ATTAGTATATTCATATAATTATA-TTAATAAATT
*
19490 ATTAATATATTCATATAATTATATTATATAAATTT
1 ATTAGTATATTCATATAATTATATTA-ATAAA-TT
* *
19525 AAATAGTATATT-ATAATTATTATATTAATAAATT
1 -ATTAGTATATTCAT-ATAATTATATTAATAAATT
19559 ATTAGTA
1 ATTAGTA
19566 GTTAAATTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
29 8 0.13
31 3 0.05
32 9 0.15
33 9 0.15
34 4 0.06
35 9 0.15
36 20 0.32
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (33 bp):
ATTAGTATATTCATATAATTATATTAATAAATT
Found at i:19577 original size:19 final size:16
Alignment explanation
Indices: 19471--19577 Score: 57
Period size: 14 Copynumber: 6.7 Consensus size: 16
19461 ATTAGTATAC
*
19471 ATTAATTAATT-TAAT
1 ATTAATTAATTATTAT
19486 AATT-ATTAATATATTCAT
1 -ATTAATTAAT-TATT-AT
19504 A-TAATT-A-TATTAT
1 ATTAATTAATTATTAT
* * *
19517 ATAAATTTAAATAGTAT
1 ATTAA-TTAATTATTAT
19534 ATT-A-TAATTATTAT
1 ATTAATTAATTATTAT
*
19548 ATTAATAAATTATTAGT
1 ATTAATTAATTATTA-T
19565 AGTTAAATTAATT
1 A-TT-AATTAATT
19578 GTATTAATTA
Statistics
Matches: 70, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
13 3 0.04
14 17 0.24
15 9 0.13
16 16 0.23
17 14 0.20
18 4 0.06
19 7 0.10
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTAATTAATTATTAT
Found at i:19670 original size:15 final size:15
Alignment explanation
Indices: 19650--19692 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
19640 ATTTTTACTA
19650 TAATTAATAATATAT
1 TAATTAATAATATAT
19665 TAATT-ATAAATATAT
1 TAATTAAT-AATATAT
*
19680 T-ATAAATAATATA
1 TAATTAATAATATA
19693 ATTATCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTAATAATATAT
Found at i:19813 original size:19 final size:18
Alignment explanation
Indices: 19780--19818 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
19770 TAATTAAGTG
*
19780 TAATAATAAATACTATAT
1 TAATAAGAAATACTATAT
19798 TAATAAGAAGATACTATAT
1 TAATAAGAA-ATACTATAT
19817 TA
1 TA
19819 TAGTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (18 bp):
TAATAAGAAATACTATAT
Found at i:20089 original size:15 final size:16
Alignment explanation
Indices: 20056--20098 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
20046 TTATTACATG
* *
20056 TATTATAAATTATTTA
1 TATTATAAATTAATAA
20072 TATT-TAAATTAATAA
1 TATTATAAATTAATAA
*
20087 TATTATTAATTA
1 TATTATAAATTA
20099 TAACTAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATAAATTAATAA
Found at i:20887 original size:70 final size:68
Alignment explanation
Indices: 20795--20926 Score: 219
Period size: 70 Copynumber: 1.9 Consensus size: 68
20785 CCCTTCCAAA
20795 AAATAAAAAAATAAAAAAAATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATCCAAATAA
1 AAATAAAAAAATAAAAAAAATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATCCAAATAA
20860 AAT
66 AAT
* * *
20863 AAATAATAATAAATAAAGAGAATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATTCAAA
1 AAATAA-AA-AAATAAAAAAAATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATCCAAA
20927 AGAGAATATT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
68 6 0.10
69 2 0.03
70 51 0.86
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.23
Consensus pattern (68 bp):
AAATAAAAAAATAAAAAAAATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATCCAAATAA
AAT
Found at i:21493 original size:25 final size:25
Alignment explanation
Indices: 21459--21547 Score: 151
Period size: 25 Copynumber: 3.6 Consensus size: 25
21449 TCTGAGTCAT
21459 AAATGAGAATCTTTAAGAAATCCTC
1 AAATGAGAATCTTTAAGAAATCCTC
* *
21484 AAATGAGAATCGTTAAGAAATCCTT
1 AAATGAGAATCTTTAAGAAATCCTC
21509 AAATGAGAATCTTTAAGAAATCCTC
1 AAATGAGAATCTTTAAGAAATCCTC
*
21534 AAATAAGAATCTTT
1 AAATGAGAATCTTT
21548 GAGTCCTCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (25 bp):
AAATGAGAATCTTTAAGAAATCCTC
Found at i:21524 original size:14 final size:14
Alignment explanation
Indices: 21458--21544 Score: 57
Period size: 12 Copynumber: 6.9 Consensus size: 14
21448 ATCTGAGTCA
21458 TAAATGAGAAT-CT
1 TAAATGAGAATCCT
*
21471 TTAA-GA-AATCCT
1 TAAATGAGAATCCT
* *
21483 CAAATGAGAATCGT
1 TAAATGAGAATCCT
21497 T-AA-GA-AATCCT
1 TAAATGAGAATCCT
21508 TAAATGAGAAT-CT
1 TAAATGAGAATCCT
*
21521 TTAA-GA-AATCCT
1 TAAATGAGAATCCT
* *
21533 CAAATAAGAATC
1 TAAATGAGAATC
21545 TTTGAGTCCT
Statistics
Matches: 55, Mismatches: 10, Indels: 17
0.67 0.12 0.21
Matches are distributed among these distances:
11 12 0.22
12 16 0.29
13 15 0.27
14 12 0.22
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
Consensus pattern (14 bp):
TAAATGAGAATCCT
Found at i:21564 original size:22 final size:22
Alignment explanation
Indices: 21509--21637 Score: 107
Period size: 22 Copynumber: 5.8 Consensus size: 22
21499 AGAAATCCTT
* *
21509 AAATGAGAATCTTTAAGAAATCCTC
1 AAATGAGAATCTTT--G-AGTCTTC
* *
21534 AAATAAGAATCTTTGAGTCCTC
1 AAATGAGAATCTTTGAGTCTTC
* * *
21556 TAGTGAGAATCTTTGAATCTTC
1 AAATGAGAATCTTTGAGTCTTC
* * *
21578 AAATAAGAATATTTGAGTTTTC
1 AAATGAGAATCTTTGAGTCTTC
*
21600 AAATGAGAATCTTTGAGT-TTT
1 AAATGAGAATCTTTGAGTCTTC
* *
21621 AAATAAGAATTTTTGAG
1 AAATGAGAATCTTTGAG
21638 ATTTGAAACC
Statistics
Matches: 86, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
21 17 0.20
22 55 0.64
23 1 0.01
25 13 0.15
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (22 bp):
AAATGAGAATCTTTGAGTCTTC
Found at i:21586 original size:44 final size:44
Alignment explanation
Indices: 21504--21637 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 44
21494 CGTTAAGAAA
* * *
21504 TCCTTAAATGAGAATCTTTAAGAAATCCTCAAATAAGAATCTTTGAG
1 TCCTCAAATGAGAATCTTT--G-AATCTTCAAATAAGAATATTTGAG
* *
21551 TCCTCTAGTGAGAATCTTTGAATCTTCAAATAAGAATATTTGAG
1 TCCTCAAATGAGAATCTTTGAATCTTCAAATAAGAATATTTGAG
** * * *
21595 TTTTCAAATGAGAATCTTTGAGT-TTTAAATAAGAATTTTTGAG
1 TCCTCAAATGAGAATCTTTGAATCTTCAAATAAGAATATTTGAG
21638 ATTTGAAACC
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
43 18 0.24
44 40 0.53
45 1 0.01
47 16 0.21
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (44 bp):
TCCTCAAATGAGAATCTTTGAATCTTCAAATAAGAATATTTGAG
Found at i:23276 original size:54 final size:52
Alignment explanation
Indices: 23202--23315 Score: 174
Period size: 54 Copynumber: 2.2 Consensus size: 52
23192 AAAAAAAAGA
*
23202 ATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCAAAAAGAGAAAAT
1 ATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAA-TTC-AAAAGAGAAAAT
* * *
23256 ATTTCTAAATTGACCTAAATGGTGGAAAATTTAGAAATTCAAAAGAGAAAAT
1 ATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTCAAAAGAGAAAAT
23308 ATTTCTAA
1 ATTTCTAA
23316 TTTGGCCCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
52 20 0.36
53 3 0.05
54 33 0.59
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (52 bp):
ATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTCAAAAGAGAAAAT
Found at i:23342 original size:52 final size:54
Alignment explanation
Indices: 23202--23339 Score: 199
Period size: 52 Copynumber: 2.6 Consensus size: 54
23192 AAAAAAAAGA
* *
23202 ATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCAAAAAGAGAAAAT
1 ATTTCTAAATTGGCCCAAATGGTGGAAAATTTAGAAATTTCAAAAAGAGAAAAT
* *
23256 ATTTCTAAATTGACCTAAATGGTGGAAAATTTAGAAA-TTC-AAAAGAGAAAAT
1 ATTTCTAAATTGGCCCAAATGGTGGAAAATTTAGAAATTTCAAAAAGAGAAAAT
* *
23308 ATTTCTAATTTGGCCCAAATAGTGGAATAATT
1 ATTTCTAAATTGGCCCAAATGGTGGAA-AATT
23340 AGATATATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
52 35 0.47
53 7 0.09
54 33 0.44
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (54 bp):
ATTTCTAAATTGGCCCAAATGGTGGAAAATTTAGAAATTTCAAAAAGAGAAAAT
Found at i:23651 original size:9 final size:9
Alignment explanation
Indices: 23637--23661 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23627 TTTTAGTTTG
23637 TATAATTAC
1 TATAATTAC
23646 TATAATTAC
1 TATAATTAC
23655 TATAATT
1 TATAATT
23662 TTATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (9 bp):
TATAATTAC
Found at i:23737 original size:19 final size:18
Alignment explanation
Indices: 23712--23756 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
23702 TATATTTATA
*
23712 TTATAATATATATTTAAT
1 TTATAATATATATTAAAT
*
23730 TGTATAATTATTTATTAAAT
1 T-TATAA-TATATATTAAAT
23750 TTATAAT
1 TTATAAT
23757 TTTGGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 10 0.43
20 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TTATAATATATATTAAAT
Found at i:23757 original size:19 final size:19
Alignment explanation
Indices: 23712--23757 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
23702 TATATTTATA
*
23712 TTATAA-TATATATTTAAT
1 TTATAATTATATATTAAAT
*
23730 TGTATAATTATTTATTAAAT
1 T-TATAATTATATATTAAAT
23750 TTATAATT
1 TTATAATT
23758 TTGGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTATAATTATATATTAAAT
Found at i:24057 original size:18 final size:17
Alignment explanation
Indices: 24013--24067 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
24003 TTTTTAAACA
*
24013 ATTAATAATTAAAA-AT
1 ATTATTAATTAAAATAT
*
24029 ATTTTTTAATTAAAATAGT
1 A-TTATTAATTAAAATA-T
*
24048 ATTATTAATTATAATA-
1 ATTATTAATTAAAATAT
24064 ATTA
1 ATTA
24068 AATATTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 5 0.16
17 11 0.34
18 14 0.44
19 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
ATTATTAATTAAAATAT
Found at i:24442 original size:66 final size:71
Alignment explanation
Indices: 24362--24496 Score: 158
Period size: 66 Copynumber: 2.0 Consensus size: 71
24352 TTATATACTA
* *
24362 AATATATACTATTTATTA-ATAATTAGTATTTAATAAA-A-A-TTAA-TAATAT-AAATATATTA
1 AATATATAC-ATTTAATATATAATAAG-ATTTAATAAATATAGTTAATTAATATAAAATATATTA
24421 TAATTAATG
64 -AATTAATG
* *
24430 AATATATA-ATTTAATATATTATAAGATTTAATAAATATAGTTAATTATTATAAAATATATTAAA
1 AATATATACATTTAATATATAATAAGATTTAATAAATATAGTTAATTAATATAAAATATATTAAA
24494 TTA
66 TTA
24497 TAATAATATT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
66 17 0.30
67 7 0.12
68 9 0.16
69 4 0.07
70 10 0.18
71 10 0.18
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (71 bp):
AATATATACATTTAATATATAATAAGATTTAATAAATATAGTTAATTAATATAAAATATATTAAA
TTAATG
Found at i:24467 original size:33 final size:32
Alignment explanation
Indices: 24389--24468 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 32
24379 AATAATTAGT
*
24389 ATTTAATAAAAATTAATAATATAAATATATTATA
1 ATTTAATAAATA-T-ATAATATAAATATATTATA
* *
24423 A-TTAATGAATATATAAT-TTAATATATTATAA
1 ATTTAATAAATATATAATATAAATATATTAT-A
24454 GATTTAATAAATATA
1 -ATTTAATAAATATA
24469 GTTAATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 11 0.28
31 6 0.15
32 2 0.05
33 19 0.49
34 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (32 bp):
ATTTAATAAATATATAATATAAATATATTATA
Found at i:24482 original size:19 final size:19
Alignment explanation
Indices: 24409--24502 Score: 62
Period size: 20 Copynumber: 5.2 Consensus size: 19
24399 AATTAATAAT
24409 ATAAATATATTATAA-T-TA
1 ATAAATATATTA-AATTATA
*
24427 ATGAATATA-T-AATT-TA
1 ATAAATATATTAAATTATA
*
24443 ATATAT-TA-TAAGATT-TA
1 ATAAATATATTAA-ATTATA
*
24460 ATAAATATAGTT-AATTATT
1 ATAAATATA-TTAAATTATA
24479 ATAAAATATATTAAATTATA
1 AT-AAATATATTAAATTATA
24499 ATAA
1 ATAA
24503 TATTAACATG
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
15 5 0.08
16 8 0.13
17 11 0.18
18 13 0.21
19 8 0.13
20 16 0.26
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATAAATATATTAAATTATA
Found at i:24508 original size:16 final size:17
Alignment explanation
Indices: 24462--24505 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
24452 AAGATTTAAT
24462 AAATATAGTTAATTATTATA
1 AAATATA-TTAA--ATTATA
24482 AAATATATTAAATTATA
1 AAATATATTAAATTATA
24499 ATAATAT
1 A-AATAT
24506 TAACATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.30
18 5 0.22
19 4 0.17
20 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AAATATATTAAATTATA
Found at i:24561 original size:15 final size:16
Alignment explanation
Indices: 24543--24576 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24533 ATTATAATAC
24543 AATTAAATTAA-TATT
1 AATTAAATTAATTATT
*
24558 AATTATATTAATTATT
1 AATTAAATTAATTATT
24574 AAT
1 AAT
24577 ATTTAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTAAATTAATTATT
Found at i:24614 original size:15 final size:15
Alignment explanation
Indices: 24594--24665 Score: 53
Period size: 15 Copynumber: 5.0 Consensus size: 15
24584 ATTCAATACA
*
24594 TTTAATTTAATTAAT
1 TTTAATTAAATTAAT
*
24609 TTTAATTAAATTAAA
1 TTTAATTAAATTAAT
* *
24624 TCT-ATT-CATT-AT
1 TTTAATTAAATTAAT
*
24636 CTTTAATT-AATAAAT
1 -TTTAATTAAATTAAT
*
24651 ATTAATTAAATTAAT
1 TTTAATTAAATTAAT
24666 GTAACTATAA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
12 1 0.02
13 5 0.12
14 14 0.33
15 23 0.53
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTAATTAAATTAAT
Found at i:26006 original size:25 final size:25
Alignment explanation
Indices: 25958--26035 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
25948 TAATAAATTT
*
25958 TATTTTATATAAATT-TA-T-TCAAA
1 TATTTTATAT-AATTATAGTATTAAA
25981 TATTTTATATAATTATAGTATTAAA
1 TATTTTATATAATTATAGTATTAAA
** *
26006 TATTATTA-ATAAAAATAGTAATAATA
1 TATT-TTATATAATTATAGTATTAA-A
26032 TATT
1 TATT
26036 ACTTAATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 4 0.09
23 12 0.26
24 1 0.02
25 21 0.46
26 8 0.17
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (25 bp):
TATTTTATATAATTATAGTATTAAA
Found at i:26051 original size:21 final size:20
Alignment explanation
Indices: 26026--26064 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26016 AAAAATAGTA
26026 ATAATATATTACTTAATTAAT
1 ATAATATA-TACTTAATTAAT
*
26047 ATAATATATATTTAATTA
1 ATAATATATACTTAATTA
26065 TAACATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATATATACTTAATTAAT
Found at i:26383 original size:27 final size:27
Alignment explanation
Indices: 26359--26455 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 27
26349 CTATTATACT
26359 TAAATATAATAT-ATT-GTTATTTATA
1 TAAATATAATATAATTAGTTATTTATA
* *
26384 TAAATATATTATAATTATTTATTTATA
1 TAAATATAATATAATTAGTTATTTATA
* *
26411 TATATAATTATATATAATTATATTATTTA-A
1 TAAAT-A-TA-ATATAATTA-GTTATTTATA
*
26441 TTAAT-TAATAATAAT
1 TAAATATAAT-ATAAT
26456 ATATGATACT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
25 11 0.19
26 5 0.09
27 20 0.34
28 1 0.02
29 2 0.03
30 12 0.21
31 7 0.12
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
TAAATATAATATAATTAGTTATTTATA
Found at i:26423 original size:31 final size:31
Alignment explanation
Indices: 26362--26439 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
26352 TTATACTTAA
* *
26362 ATATAA-TATATT-GTTATTTATATAAATAT
1 ATATAATTATATTATTTATATATATAAATAT
*
26391 ATTATAATTAT-TTATTTATATATATAATTAT
1 A-TATAATTATATTATTTATATATATAAATAT
26422 ATATAATTATATTATTTA
1 ATATAATTATATTATTTA
26440 ATTAATTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 1 0.02
30 16 0.38
31 25 0.60
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
ATATAATTATATTATTTATATATATAAATAT
Found at i:26894 original size:17 final size:17
Alignment explanation
Indices: 26856--26945 Score: 56
Period size: 17 Copynumber: 4.9 Consensus size: 17
26846 TAATTAATAT
*
26856 ATTAATAAATTT-TAATA
1 ATTAAT-AATTTATTATA
*
26873 TTTAATAATTTATTATA
1 ATTAATAATTTATTATA
*
26890 ATTAATAATTATTTATATCA
1 ATTAATAATT-TAT-TAT-A
* * *
26910 ATTGTATCATTTAATATA
1 ATT-AATAATTTATTATA
26928 ATTAATTAATTATATTAT
1 ATTAA-TAATT-TATTAT
26946 TAAACTTATA
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
16 5 0.09
17 19 0.35
18 10 0.18
19 11 0.20
20 5 0.09
21 5 0.09
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (17 bp):
ATTAATAATTTATTATA
Found at i:27244 original size:18 final size:18
Alignment explanation
Indices: 27191--27244 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
27181 ACATACTTAT
27191 TTAATT-AT-TATAGTATA
1 TTAATTAATATATAGTA-A
* *
27208 TTAAGTAAAATACTA-TAA
1 TTAATTAATATA-TAGTAA
27226 TTAATTAATATATAGTAA
1 TTAATTAATATATAGTAA
27244 T
1 T
27245 GATTAAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 7 0.24
18 16 0.55
19 4 0.14
20 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (18 bp):
TTAATTAATATATAGTAA
Found at i:27304 original size:14 final size:15
Alignment explanation
Indices: 27278--27306 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27268 TACTTATTTT
27278 TTAATATAATAATTG
1 TTAATATAATAATTG
27293 TTAATA-AATAATTG
1 TTAATATAATAATTG
27307 ATTTAAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
TTAATATAATAATTG
Found at i:27966 original size:14 final size:15
Alignment explanation
Indices: 27947--28107 Score: 66
Period size: 15 Copynumber: 10.9 Consensus size: 15
27937 AGAAATATTA
27947 TAATATATTTAT-AT
1 TAATATATTTATAAT
27961 TAATATA-TTATAAT
1 TAATATATTTATAAT
* *
27975 TAATAAAATTATTAA-
1 TAATATATTTA-TAAT
* *
27990 TATTAAATTTATAAT
1 TAATATATTTATAAT
* * *
28005 TAATATAATTAACAAA
1 TAATAT-ATTTATAAT
* * *
28021 TATTTTTATTTGTAAT
1 TA-ATATATTTATAAT
* * * *
28037 GAATAAATATATTTAT
1 TAATATATTTA-TAAT
28053 TAATAT-TTTATTAAT
1 TAATATATTTA-TAAT
*
28068 TAAT-TAATT-TAAT
1 TAATATATTTATAAT
* *
28081 TAAT-TATATACAAT
1 TAATATATTTATAAT
*
28095 TCATATATTTATA
1 TAATATATTTATA
28108 TACAAATATA
Statistics
Matches: 105, Mismatches: 32, Indels: 19
0.67 0.21 0.12
Matches are distributed among these distances:
13 15 0.14
14 25 0.24
15 39 0.37
16 24 0.23
17 2 0.02
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (15 bp):
TAATATATTTATAAT
Found at i:28004 original size:30 final size:32
Alignment explanation
Indices: 27952--28015 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 32
27942 TATTATAATA
*
27952 TATTTATATTAATATATTATAATTAATAAAAT
1 TATTAATATTAATATATTATAATTAATAAAAT
*
27984 TATTAATATTAA-AT-TTATAATTAATATAAT
1 TATTAATATTAATATATTATAATTAATAAAAT
28014 TA
1 TA
28016 ACAAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 17 0.57
31 2 0.07
32 11 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
TATTAATATTAATATATTATAATTAATAAAAT
Found at i:28406 original size:22 final size:20
Alignment explanation
Indices: 28379--28436 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
28369 TAATTATCGT
*
28379 AATAATAATATGTCAATATTAC
1 AATAATAATATAT-AATATT-C
* *
28401 AATAATTATA-ATAATATTT
1 AATAATAATATATAATATTC
*
28420 AATAATAATATTTAATA
1 AATAATAATATATAATA
28437 ATATTAATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.30
20 11 0.37
21 1 0.03
22 9 0.30
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
AATAATAATATATAATATTC
Found at i:28426 original size:13 final size:13
Alignment explanation
Indices: 28408--28439 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
28398 TACAATAATT
28408 ATAATAATATTTA
1 ATAATAATATTTA
28421 ATAATAATATTTA
1 ATAATAATATTTA
28434 ATAATA
1 ATAATA
28440 TTAATCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATAATATTTA
Found at i:28438 original size:23 final size:23
Alignment explanation
Indices: 28401--28468 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
28391 TCAATATTAC
*
28401 AATAAT-TATAATAATATTTAAT
1 AATAATATTTAATAATATTTAAT
28423 AATAATATTTAATAATA-TTAATCT
1 AATAATATTTAATAATATTTAA--T
* *
28447 AAT-TTAATTAATAATATTTAAT
1 AATAATATTTAATAATATTTAAT
28469 CTTCATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 11 0.28
23 20 0.51
24 8 0.21
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
AATAATATTTAATAATATTTAAT
Found at i:28483 original size:24 final size:23
Alignment explanation
Indices: 28433--28483 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
28423 AATAATATTT
*
28433 AATAATATTAATCTAATTTAATT
1 AATAATATTAATCTAATTTAATA
*
28456 AATAATATTTAATCTTCATTT-ATA
1 AATAATA-TTAATC-TAATTTAATA
28480 AATA
1 AATA
28484 TAGTATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.29
24 12 0.50
25 5 0.21
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (23 bp):
AATAATATTAATCTAATTTAATA
Found at i:28551 original size:19 final size:19
Alignment explanation
Indices: 28523--28563 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
28513 ATAATTTTCA
* *
28523 AAATATTATTAACTATTTT
1 AAATAATATTAACTATTAT
*
28542 AAATAATATTTACTATTAT
1 AAATAATATTAACTATTAT
28561 AAA
1 AAA
28564 CAACAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATATTAACTATTAT
Found at i:28763 original size:15 final size:15
Alignment explanation
Indices: 28745--28774 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28735 ATTCTAATCT
*
28745 ATTATAATTATAATA
1 ATTATAATTACAATA
28760 ATTATAATTACAATA
1 ATTATAATTACAATA
28775 TTACAAAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTATAATTACAATA
Found at i:29506 original size:182 final size:180
Alignment explanation
Indices: 29027--29599 Score: 592
Period size: 182 Copynumber: 3.2 Consensus size: 180
29017 TTAATAAGAC
* * * * *
29027 AATTAACAAGTAAAAG-ATTTAAAAAATAAATCTATTTATTGAACAAATTCAAATCGTTATGACT
1 AATTAAAAAGTAAAAGAATTTAAAAAATAAATATGTTTATCGAACAAATTCAAATAGTTATGACT
* * * *
29091 ATCTAAATAATTATTTATTTCAAATTC-TTATGACTTTTTTGTTTTGTCATAAAACAATTGTTTC
66 ATCTTAATAATTATCTATTTCAAA-TCATTATAAC-ATTTTGTTTTGTCATAAAACAATTGTTTC
* * * * * * * * *
29155 TATCCATATGAGTTTATTCGGATTAAAATAATATTGATTTATTAATATTTCAAC
129 TATTCAT-TAAGCTTATTTGAAATAAAATAATA-TAATTTATTAATATTCCAAA
** * * * *
29209 AATTAATAAA-TAAAAGCCTTTTAAAAAAT--A-A-GTTTACCAAACAAGTTCAAATAGTCATGA
1 AATTAA-AAAGTAAAAG-AATTTAAAAAATAAATATGTTTATCGAACAAATTCAAATAGTTATGA
* * *
29269 CTAT-TTGAATAATTATCTACTTCAAATCATTGTAACATTTTGTTTTGTAATAAAACAATTGTTT
64 CTATCTT-AATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTT
* *
29333 CAATTCATGTTAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAA
128 CTATTCAT-TAAGCTTATTTGAAATAAAATAATA-TAATTTATTAATATTCCAAA
* * * *
29388 AATTAAAAAGTAAGAGAATTAAAAAAATAAATATGTTTATCGAACAATTTCAAATAGTTATAACT
1 AATTAAAAAGTAAAAGAATTTAAAAAATAAATATGTTTATCGAACAAATTCAAATAGTTATGACT
* * * *
29453 ATCTTAATAATTATCTATTTCAAAACATTACAACCTTTTGTTTTGTCATAAAACAATTGGTTCTA
66 ATCTTAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCTA
* *
29518 TTCATTCAAGCTTATTT-AAAAAATAATAATATAAATTTATTAATGTTCCAAA
131 TTCATT-AAGCTTATTTGAAATAA-AATAATAT-AATTTATTAATATTCCAAA
* *
29570 AATTAATAAGT-AAA-AATTTTAAAAATAAAT
1 AATTAAAAAGTAAAAGAATTTAAAAAATAAAT
29600 TTATTTAAAA
Statistics
Matches: 324, Mismatches: 53, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
178 12 0.04
179 83 0.26
180 63 0.19
181 10 0.03
182 142 0.44
183 4 0.01
184 10 0.03
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (180 bp):
AATTAAAAAGTAAAAGAATTTAAAAAATAAATATGTTTATCGAACAAATTCAAATAGTTATGACT
ATCTTAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCTA
TTCATTAAGCTTATTTGAAATAAAATAATATAATTTATTAATATTCCAAA
Found at i:31210 original size:38 final size:39
Alignment explanation
Indices: 31158--31231 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 39
31148 TATTTAAAGA
**
31158 TTTGTTTGTCATAAAACAAT-TGTTTTTATTAATATAAG
1 TTTGTTTGAAATAAAACAATATGTTTTTATTAATATAAG
* *
31196 TTTGTTTGAAATAAAATAATATTTTTTTATTAATAT
1 TTTGTTTGAAATAAAACAATATGTTTTTATTAATAT
31232 TTAGAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 17 0.55
39 14 0.45
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (39 bp):
TTTGTTTGAAATAAAACAATATGTTTTTATTAATATAAG
Found at i:31676 original size:13 final size:13
Alignment explanation
Indices: 31655--31696 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
31645 TAATATATAT
*
31655 TATATATTAATTA
1 TATAAATTAATTA
31668 TATAAATTAATTA
1 TATAAATTAATTA
*
31681 -ATAATATTTATTA
1 TATAA-ATTAATTA
31694 TAT
1 TAT
31697 GCTATCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 4 0.16
13 19 0.76
14 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAAATTAATTA
Found at i:31693 original size:17 final size:17
Alignment explanation
Indices: 31636--31696 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
31626 ATTTAATAAC
31636 TATTACTATTAATATATAT
1 TATTA-TATTAATATAT-T
*
31655 TA-TATATTAATTATATA
1 TATTATATTAA-TATATT
*
31672 AATTA-ATTAATAATATT
1 TATTATATTAAT-ATATT
31689 TATTATAT
1 TATTATAT
31697 GCTATCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
16 1 0.03
17 20 0.59
18 11 0.32
19 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTATATTAATATATT
Found at i:31909 original size:15 final size:16
Alignment explanation
Indices: 31889--31929 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
31879 ATAATGATTA
31889 TATTAATTATAATA-T
1 TATTAATTATAATAGT
*
31904 TATTAAATATAATAGT
1 TATTAATTATAATAGT
31920 TATTAATTAT
1 TATTAATTAT
31930 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTAATTATAATAGT
Found at i:32047 original size:21 final size:22
Alignment explanation
Indices: 31996--32050 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
31986 TTATTCACAT
31996 TATAA-TATT-AATTATATAAA
1 TATAATTATTAAATTATATAAA
32016 TATAATTATTAAATT-TATAAA
1 TATAATTATTAAATTATATAAA
*
32037 -ATTATTAATTAAAT
1 TATAATT-ATTAAAT
32051 CGTCAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 10 0.32
21 17 0.55
22 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAATTATTAAATTATATAAA
Found at i:32245 original size:11 final size:11
Alignment explanation
Indices: 32229--32262 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
32219 TAATAATTGT
32229 TATTAATATAA
1 TATTAATATAA
*
32240 TATTAATATTA
1 TATTAATATAA
*
32251 TAATAATATAA
1 TATTAATATAA
32262 T
1 T
32263 TATAAAGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATTAATATAA
Found at i:32895 original size:21 final size:20
Alignment explanation
Indices: 32863--32908 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
32853 ATTTTATTTG
32863 ATTATTATTTAAAAATAATA
1 ATTATTATTTAAAAATAATA
* *
32883 ATTATTAATTTAATAATACTA
1 ATTATT-ATTTAAAAATAATA
32904 ATTAT
1 ATTAT
32909 GATAGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATTATTTAAAAATAATA
Found at i:33598 original size:19 final size:20
Alignment explanation
Indices: 33561--33598 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
33551 ACATTGATTT
*
33561 TTTTATTAATTATAATATAG
1 TTTTATTAATAATAATATAG
*
33581 TTTTA-TAATAATAGTATA
1 TTTTATTAATAATAATATA
33599 AATTTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTTATTAATAATAATATAG
Found at i:33645 original size:38 final size:33
Alignment explanation
Indices: 33578--33646 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 33
33568 AATTATAATA
*
33578 TAGTTTTATAATAATAGTATAAATTTAATAAAT
1 TAGTTTTATAATAATAATATAAATTTAATAAAT
33611 TAGTTATTATTAATAATAAATATAACATTATAATAA
1 TAGTT-TTA-TAATAAT-AATATAA-ATT-TAATAA
33647 TTAATGTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 5 0.17
34 3 0.10
35 7 0.23
36 6 0.20
37 3 0.10
38 6 0.20
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (33 bp):
TAGTTTTATAATAATAATATAAATTTAATAAAT
Found at i:34449 original size:181 final size:175
Alignment explanation
Indices: 33848--34841 Score: 637
Period size: 181 Copynumber: 5.5 Consensus size: 175
33838 TCAAATCATA
* * * *** * * ** **
33848 ATGATCTTTATTTTGTCCATACAACAATTGTTTCCTTTCATACAAGCTTATTCAGATTAAAATGG
1 ATGATCTTTGTTTTAT-CATAAAACAATTGTTTTAGTTCATATAAGCTTA-TCAAAAGAAAATAA
* * * ** **
33913 TACTAATTTAATAATATTTCAAAAATTAAT----AAGAGATTTAAAAAATAAATATGTTAGCTGA
64 TACTAATTTATTAATATTTAAAAAATTAATAAGCAAGAGATTTAAAAACT-AA-ATGTTTTCCAA
** ** *
33974 ACTAGTTCAAATAGTTAAAACTATCAGAATAATTATCTATTTTAAATCATT
127 AC-AGTTCAAATAGTTATGACTATTTGAATAATTATCTA-TTTAAATCGTT
* * * * *** *
34025 CT-ATGCTTT-TGTTTAGTCATAAAACAATTATTTTAGTTCACACAAGCTTATTTGGAATAAAAT
1 ATGAT-CTTTGT-TTTA-TCATAAAACAATTGTTTTAGTTCATATAAGCTTA-TCAAAAGAAAAT
* * * * *
34088 AATACTAATTTATTAACA-TTCAAAAATTAA-AA-TAAGAGATTTAAAAAAATAAATCTATTTAC
62 AATACTAATTTATTAATATTTAAAAAATTAATAAGCAAGAGATTT-AAAAACTAAATGT-TTT-C
** * * * **
34150 TGAACAATTTCAAATAGATATGACTATTTAAATAATTATCTATTTAAAATTATT
124 CAAAC-AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTT-AAATCGTT
* * * * * * * ** *
34204 TTGA-CATTTTGTTTTGTCATGAAACAATTGTTTCAGTTAATAAAAACTTATTTGAAATAAAATA
1 ATGATC--TTTGTTTTATCATAAAACAATTGTTTTAGTTCATATAAGCTTA-TCAAAAGAAAATA
* * *
34268 ATACTACTTTATTAATATTTAAAAAATTATTAAGCAAGAGATTTAAAAACTAAAGCTGTTTTTCA
63 ATACTAATTTATTAATATTTAAAAAATTAATAAGCAAGAGATTTAAAAACTAAA--TGTTTTCCA
* * *
34333 AAGCAGTTCTAATAATTATGACTATTTGAATAAATAT-TAATCTTAAATCGTT
126 AA-CAGTTCAAATAGTTATGACTATTTGAATAATTATCT-AT-TTAAATCGTT
* ** * *
34385 ATGATCTTTGTTTTATCATAAAACAATTTTTTTTTTATCATATAAGCTTATTTAGATA-AAAATA
1 ATGATCTTTGTTTTATCATAAAACAATTGTTTTAGT-TCATATAAGCTTA-TCA-AAAGAAAATA
* ** * * *
34449 ATACTAATTTAATAATATTTTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCCG
63 ATACTAATTTATTAATATTTAAAAAATTAATAAGCAAGAGATTTAAAAACTAAATGT-TTT-CCA
* * * *
34514 ATCAGTTCAAATAGTTAAGATTATTAGAATAATTATCTATTTTAAATCGTT
126 AACAGTTCAAATAGTTATGACTATTTGAATAATTATCTA-TTTAAATCGTT
* * * * * *
34565 CTGACCTTTTGTTTAATCATCAAATAATTGTTTCAGTTCATATAAGCTTATCAAAAGAAAATAAT
1 ATGATC-TTTGTTTTATCATAAAACAATTGTTTTAGTTCATATAAGCTTATCAAAAGAAAATAAT
* * * * *
34630 ACTAATTTATTAACT-TTTGAAAGATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCA
65 ACTAATTTATTAA-TATTTAAAAAATTAATAAGCAAGAGATTT-AAAAACTAAA--TGTTTTCCA
** *
34694 AACAAGTTCAAATAGTTATGACTATTTGAGCAATTATCTATTTAAAATCATT
126 AAC-AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTT-AAATCGTT
* * * * * * *
34746 GTGAATTTTTGTTTTGTCATAAAACAATTGTTTTAGTTCACAAAAGTTTATCCAAAAATAAAATA
1 ATG-ATCTTTGTTTTATCATAAAACAATTGTTTTAGTTCATATAAGCTTAT-C-AAAAGAAAATA
* * **
34811 ATACTACTTTTCTTAATATTTTGAAAATTAA
63 ATACTA-ATTTATTAATATTTAAAAAATTAA
34842 GAGATTTAAA
Statistics
Matches: 647, Mismatches: 128, Indels: 77
0.76 0.15 0.09
Matches are distributed among these distances:
176 15 0.02
177 62 0.10
178 19 0.03
179 151 0.23
180 118 0.18
181 223 0.34
182 23 0.04
183 19 0.03
184 17 0.03
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (175 bp):
ATGATCTTTGTTTTATCATAAAACAATTGTTTTAGTTCATATAAGCTTATCAAAAGAAAATAATA
CTAATTTATTAATATTTAAAAAATTAATAAGCAAGAGATTTAAAAACTAAATGTTTTCCAAACAG
TTCAAATAGTTATGACTATTTGAATAATTATCTATTTAAATCGTT
Found at i:34597 original size:361 final size:360
Alignment explanation
Indices: 34007--34816 Score: 845
Period size: 361 Copynumber: 2.2 Consensus size: 360
33997 TCAGAATAAT
* *
34007 TATCTATTTTAAATCATTCT--ATGCTTT-TGTTTAGTCATAAAACAATTATTTTAGTTCACACA
1 TATCTATTTAAAATCATTATGAAT-CTTTGT-TTTA-TCATAAAACAATTATTTTAGTTCACACA
* *
34069 AGCTTATTTGGAATAAAATAATACTAATTTATTAACATTCAAAAATTAAAATAAGAGATTTAAAA
63 AGCTTATTTAGAATAAAATAATACTAATTTAATAACATTCAAAAATTAAAATAAGAGATTTAAAA
* * *
34134 AAATAAATCTATTTACTGAACAATTTCAAATAGATATGACTATTTAAATAATTATCTATTTAAAA
128 AAATAAATCTATTTACCGAACAAGTTCAAATAGATAAGACTATTTAAATAATTATCTATTTAAAA
* * ** * ** *
34199 TTATTTTGACATTTTGTTTTGTCATGAAACAATTGTTTCAGTTAATAAAAACTTATTTGAAATAA
193 TCATTCTGACATTTTGTTTAATCATCAAACAATTGTTTCAGTTAATAAAAACTTA-TCAAAAGAA
* *
34264 AATAATACTACTTTATTAA-TATTTAAAAAATTATTAAGCAAGAGATTT-AAAAACTAAAGCTGT
257 AATAATACTAATTTATTAACT-TTTAAAAAATTAATAAGCAAGAGATTTGAAAAACTAAAGCTGT
** * *
34327 TTTTCAAAGC-AGTTCTAATAATTATGACTATTTGAATAAA
321 TTACCAAA-CAAGTTCAAATAATTATGACTATTTGAACAAA
* * ** * *
34367 TAT-TAATCTT-AAATCGTTATG-ATCTTTGTTTTATCATAAAACAATTTTTTTTTTATCATATA
1 TATCT-AT-TTAAAATCATTATGAATCTTTGTTTTATCATAAAACAATTATTTTAGT-TCACACA
* **
34429 AGCTTATTTAG-ATAAAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGTAAGAGATTT
63 AGCTTATTTAGAAT-AAAATAATACTAATTTAATAACA-TTCAAAAATTAA-AA-TAAGAGATTT
* * * * * *
34493 -AAAAAATAAATGTGTTTGCCGATC-AGTTCAAATAGTTAAGATTA-TTAGAATAATTATCTATT
124 AAAAAAATAAATCTATTTACCGAACAAGTTCAAATAGATAAGACTATTTA-AATAATTATCTATT
* * * * * * *
34555 TTAAATCGTTCTGACCTTTTGTTTAATCATCAAATAATTGTTTCAGTTCATATAAGCTTATCAAA
188 TAAAATCATTCTGACATTTTGTTTAATCATCAAACAATTGTTTCAGTTAATAAAAACTTATCAAA
* * * * **
34620 AGAAAATAATACTAATTTATTAACTTTTGAAAGATTAATAAGCAGGATATTTGAAAAACTAAATT
253 AGAAAATAATACTAATTTATTAACTTTTAAAAAATTAATAAGCAAGAGATTTGAAAAACTAAAGC
* * *
34685 TGTTTACCAAACAAGTTCAAATAGTTATGACTATTTGAGCAAT
318 TGTTTACCAAACAAGTTCAAATAATTATGACTATTTGAACAAA
* * * * * *
34728 TATCTATTTAAAATCATTGTGAATTTTTGTTTTGTCATAAAACAATTGTTTTAGTTCACAAAAGT
1 TATCTATTTAAAATCATTATGAATCTTTGTTTTATCATAAAACAATTATTTTAGTTCACACAAGC
** *
34793 TTATCCAAAAATAAAATAATACTA
66 TTAT-TTAGAATAAAATAATACTA
34817 CTTTTCTTAA
Statistics
Matches: 368, Mismatches: 64, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
359 21 0.06
360 109 0.30
361 163 0.44
362 63 0.17
363 12 0.03
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (360 bp):
TATCTATTTAAAATCATTATGAATCTTTGTTTTATCATAAAACAATTATTTTAGTTCACACAAGC
TTATTTAGAATAAAATAATACTAATTTAATAACATTCAAAAATTAAAATAAGAGATTTAAAAAAA
TAAATCTATTTACCGAACAAGTTCAAATAGATAAGACTATTTAAATAATTATCTATTTAAAATCA
TTCTGACATTTTGTTTAATCATCAAACAATTGTTTCAGTTAATAAAAACTTATCAAAAGAAAATA
ATACTAATTTATTAACTTTTAAAAAATTAATAAGCAAGAGATTTGAAAAACTAAAGCTGTTTACC
AAACAAGTTCAAATAATTATGACTATTTGAACAAA
Found at i:35005 original size:21 final size:22
Alignment explanation
Indices: 34971--35017 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
34961 TATTTAATTT
34971 TATTATATATAATTCTTTAAAG
1 TATTATATATAATTCTTTAAAG
* *
34993 TATTA-ATTTAATTCTTTAAAT
1 TATTATATATAATTCTTTAAAG
35014 TATT
1 TATT
35018 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTATATATAATTCTTTAAAG
Found at i:35022 original size:10 final size:10
Alignment explanation
Indices: 35018--35060 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
35008 TTAAATTATT
35018 TTAAAA-TAA
1 TTAAAATTAA
35027 TTAAAATTAA
1 TTAAAATTAA
35037 TTAAAATTAA
1 TTAAAATTAA
* *
35047 TTGAATTTAA
1 TTAAAATTAA
35057 TTAA
1 TTAA
35061 TTATTTTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 6 0.20
10 24 0.80
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
TTAAAATTAA
Found at i:36216 original size:39 final size:38
Alignment explanation
Indices: 36126--36216 Score: 92
Period size: 39 Copynumber: 2.3 Consensus size: 38
36116 TATTATAAGC
* * * *
36126 TTTAATAATAATTTATAATCAATTATATATAATTAATA
1 TTTAATAATAATTAAAAATCAATAATATATAAATAATA
* * * *
36164 TTAAAAAATTAATTAAAAATTAATAATATATAAATATTA
1 TTTAATAA-TAATTAAAAATCAATAATATATAAATAATA
36203 TTTAATAAGTAATT
1 TTTAATAA-TAATT
36217 TAAATTATTA
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
38 6 0.15
39 35 0.85
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (38 bp):
TTTAATAATAATTAAAAATCAATAATATATAAATAATA
Done.