Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 66 of 126
Found at i:13432631 original size:25 final size:27
Alignment explanation
Indices: 13432588--13432638 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 27
13432578 TCTTATTTTC
13432588 GTTTTTGTTTTTTTGTTTGTTTTGTTT
1 GTTTTTGTTTTTTTGTTTGTTTTGTTT
13432615 GTTTTT-TTTTTTT-TTTGTTTTGTT
1 GTTTTTGTTTTTTTGTTTGTTTTGTT
13432639 AAATATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 11 0.46
26 7 0.29
27 6 0.25
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (27 bp):
GTTTTTGTTTTTTTGTTTGTTTTGTTT
Found at i:13433276 original size:22 final size:23
Alignment explanation
Indices: 13433248--13433304 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
13433238 AATAAATCCT
*
13433248 TAAA-TTTTAATTCGTA-TTAAAA
1 TAAACTTTTAATTCGTACCT-AAA
* *
13433270 TAAATTTTTAATTTGTACCTAAA
1 TAAACTTTTAATTCGTACCTAAA
13433293 TAAACTTTTAAT
1 TAAACTTTTAAT
13433305 ATAAATCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.13
23 25 0.83
24 1 0.03
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAACTTTTAATTCGTACCTAAA
Found at i:13443384 original size:18 final size:19
Alignment explanation
Indices: 13443363--13443398 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
13443353 TTTTGTATTG
13443363 TTTCATTTT-TTTTTTGTA
1 TTTCATTTTATTTTTTGTA
13443381 TTTCATTTTATTTTTTGT
1 TTTCATTTTATTTTTTGT
13443399 GCTAAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.78
Consensus pattern (19 bp):
TTTCATTTTATTTTTTGTA
Found at i:13448892 original size:16 final size:14
Alignment explanation
Indices: 13448863--13448912 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
13448853 AATATGACAC
13448863 AAATATATAATAAA
1 AAATATATAATAAA
**
13448877 AAATATATAATTTA
1 AAATATATAATAAA
*
13448891 AAAT-TTTAATAAA
1 AAATATATAATAAA
*
13448904 AATTATATA
1 AAATATATA
13448913 TGAATTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATATATAATAAA
Found at i:13449082 original size:15 final size:17
Alignment explanation
Indices: 13449064--13449098 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
13449054 AACTTTTTTT
13449064 AAAAT-AAAATTTTA-A
1 AAAATGAAAATTTTAGA
13449079 AAAATGAAAATTTTAGA
1 AAAATGAAAATTTTAGA
13449096 AAA
1 AAA
13449099 GAATCCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 9 0.50
17 4 0.22
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAATGAAAATTTTAGA
Found at i:13451407 original size:159 final size:158
Alignment explanation
Indices: 13451115--13451407 Score: 430
Period size: 157 Copynumber: 1.8 Consensus size: 158
13451105 ATGATTTCCT
*
13451115 TTTATATCAATACCTGGATCAATGCTATCCCTTTCTGCCTACAGTAGTCTTATCCAACGCTAGAA
1 TTTATATCAATACCTGGATCAATGCTATCCC-TTCTGCCTACAGTAATCTTATCCAACGCTAGAA
* *
13451180 TGAAAAGTGATGTTCTTCATTATAAGTAGAAGCTTAATCTGGAGGCTGTACCAATACATTGTAAT
65 TGAAAAGTCATGTTCTTCATCATAAGTAGAAGCTTAATCTGGAGGCTGTACCAATACATTGTAAT
13451245 GCATTACATTCAACGTGTTTTCATGTCTA
130 GCATTACATTCAACGTGTTTTCATGTCTA
* ** *
13451274 TTTATATCAATACCTGGATCAATGCTATCCC-TCTGCCTACAGTAATCTTATCTATTGTTAGAAT
1 TTTATATCAATACCTGGATCAATGCTATCCCTTCTGCCTACAGTAATCTTATCCAACGCTAGAAT
* * *
13451338 GAAACA-TCTTGTTCTTCGTCATAAGTAGAAGCTTAATCTTAGGAGGCTGTACGAATACACTT-T
66 GAAA-AGTCATGTTCTTCATCATAAGTAGAAGCTTAATC-T-GGAGGCTGTACCAATACA-TTGT
13451401 AATGCAT
127 AATGCAT
13451408 CATAAATAGA
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
157 60 0.50
158 2 0.02
159 56 0.47
160 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (158 bp):
TTTATATCAATACCTGGATCAATGCTATCCCTTCTGCCTACAGTAATCTTATCCAACGCTAGAAT
GAAAAGTCATGTTCTTCATCATAAGTAGAAGCTTAATCTGGAGGCTGTACCAATACATTGTAATG
CATTACATTCAACGTGTTTTCATGTCTA
Found at i:13462381 original size:2 final size:2
Alignment explanation
Indices: 13462374--13462399 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13462364 TTTCATGATA
13462374 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13462400 TTATCCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13470133 original size:22 final size:21
Alignment explanation
Indices: 13470100--13470140 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
13470090 ATATATTTTT
*
13470100 TAATTTTATTAAATTTTTATA
1 TAATTTTATTAAAATTTTATA
13470121 TAATTATTATTAAAATTTTA
1 TAATT-TTATTAAAATTTTA
13470141 AGTTATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATTTTATTAAAATTTTATA
Found at i:13470898 original size:13 final size:13
Alignment explanation
Indices: 13470880--13470913 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13470870 TTAAAATATG
**
13470880 ATAAAAATATTAT
1 ATAAAAATAAAAT
13470893 ATAAAAATAAAAT
1 ATAAAAATAAAAT
13470906 ATAAAAAT
1 ATAAAAAT
13470914 GATGGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:13471857 original size:30 final size:29
Alignment explanation
Indices: 13471823--13471914 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 29
13471813 TATACTTTTA
*
13471823 TTATATCTAAATAAGTTATTAATTTTTAAT
1 TTATATTTAAATAAGTT-TTAATTTTTAAT
**
13471853 TTATATTTAAATATA-TCTTTAAACTTTAAT
1 TTATATTTAAATA-AGT-TTTAATTTTTAAT
*
13471883 TTACATTTAAATAAGTTTTAATCTTTTAAT
1 TTATATTTAAATAAGTTTTAAT-TTTTAAT
13471913 TT
1 TT
13471915 GTATATAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
29 6 0.12
30 44 0.85
31 2 0.04
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.54
Consensus pattern (29 bp):
TTATATTTAAATAAGTTTTAATTTTTAAT
Found at i:13471989 original size:22 final size:22
Alignment explanation
Indices: 13471958--13472004 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
13471948 TGTTTGAAAT
* *
13471958 AAAAATTTATTTGA-ATATAATA
1 AAAAAATTATTT-ATATACAATA
13471980 AAAAAATTATTTATATACAATA
1 AAAAAATTATTTATATACAATA
13472002 AAA
1 AAA
13472005 TAATAAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAAAATTATTTATATACAATA
Found at i:13475424 original size:75 final size:75
Alignment explanation
Indices: 13475301--13475514 Score: 266
Period size: 75 Copynumber: 2.9 Consensus size: 75
13475291 CTGATTCATG
* * * * *
13475301 TGAATGTTCAGTAAGCCACCAATAGTAACTATGTGTTAGTGGCCTTTTTTCATAGTGAAAATATG
1 TGAATGGTCAATAAACCGCCAATAGTAACCATGTGTTAGTGGCCTTTTTTCATAGTGAAAATATG
13475366 GTGACTCGCA
66 GTGACTCGCA
* *
13475376 TGAATGGTCAATAAACTGCCAATAGTAACCATGTGTTAGTGGCCTTTTTTCATAGTGAAAATATT
1 TGAATGGTCAATAAACCGCCAATAGTAACCATGTGTTAGTGGCCTTTTTTCATAGTGAAAATATG
* **
13475441 GTGATTCGTG
66 GTGACTCGCA
* * * * * ** *
13475451 TGAATGGTCAGTAAGCCGCCGATGGTAACCATGTGTTGGTGGCAATTCTTCATAGTGAAAATAT
1 TGAATGGTCAATAAACCGCCAATAGTAACCATGTGTTAGTGGCCTTTTTTCATAGTGAAAATAT
13475515 AGCTCTATTT
Statistics
Matches: 120, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 120 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (75 bp):
TGAATGGTCAATAAACCGCCAATAGTAACCATGTGTTAGTGGCCTTTTTTCATAGTGAAAATATG
GTGACTCGCA
Found at i:13477285 original size:28 final size:28
Alignment explanation
Indices: 13477245--13477302 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
13477235 CTCAAATCAA
13477245 ATTTTCATACATAACTGATACGAGATTT
1 ATTTTCATACATAACTGATACGAGATTT
* **
13477273 ATTTTTATACATAACTGATTTGAGATTT
1 ATTTTCATACATAACTGATACGAGATTT
13477301 AT
1 AT
13477303 CACTTTTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (28 bp):
ATTTTCATACATAACTGATACGAGATTT
Found at i:13482146 original size:15 final size:15
Alignment explanation
Indices: 13482128--13482180 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
13482118 TCAGTTTAAA
13482128 TAAATATTATTTATT
1 TAAATATTATTTATT
*
13482143 TAAATATCTAAATTCATT
1 TAAATAT-T--ATTTATT
* *
13482161 AAAATATTTTTTATT
1 TAAATATTATTTATT
13482176 TAAAT
1 TAAAT
13482181 TTTTTGTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 16 0.53
16 1 0.03
17 1 0.03
18 12 0.40
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAATATTATTTATT
Found at i:13483360 original size:23 final size:22
Alignment explanation
Indices: 13483316--13483361 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
13483306 ATACATTTTT
*
13483316 TAATTGATTTATTTTTATATTA
1 TAATTGATTTATTTTTAAATTA
13483338 TAATT-ATATTATATTTTAAATTA
1 TAATTGAT-TTAT-TTTTAAATTA
13483361 T
1 T
13483362 CATATCTACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 9 0.43
23 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TAATTGATTTATTTTTAAATTA
Found at i:13483588 original size:21 final size:21
Alignment explanation
Indices: 13483542--13483603 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
13483532 TATGATATAA
*
13483542 TAATATAATT-TAAA-AT-TT
1 TAATAAAATTATAAATATATT
*
13483560 TAAAAAAATTATAAATATATT
1 TAATAAAATTATAAATATATT
* * *
13483581 TAATAAAATCAAAAATTTATT
1 TAATAAAATTATAAATATATT
13483602 TA
1 TA
13483604 TATTTTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
18 8 0.23
19 4 0.11
20 2 0.06
21 21 0.60
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAAAATTATAAATATATT
Found at i:13485100 original size:13 final size:14
Alignment explanation
Indices: 13485079--13485126 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
13485069 GGATAATCTA
13485079 AAAATAATATGAAT
1 AAAATAATATGAAT
13485093 AAAA-AATATG---
1 AAAATAATATGAAT
*
13485103 AAAATGATATGATAT
1 AAAATAATATGA-AT
13485118 AAAATAATA
1 AAAATAATA
13485127 ACAATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
10 4 0.15
11 5 0.19
13 6 0.22
14 4 0.15
15 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (14 bp):
AAAATAATATGAAT
Found at i:13485106 original size:24 final size:26
Alignment explanation
Indices: 13485079--13485126 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
13485069 GGATAATCTA
13485079 AAAATAATATGA-ATAAAA-AATATG
1 AAAATAATATGATATAAAATAATATG
*
13485103 AAAATGATATGATATAAAATAATA
1 AAAATAATATGATATAAAATAATA
13485127 ACAATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 6 0.29
26 4 0.19
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (26 bp):
AAAATAATATGATATAAAATAATATG
Found at i:13485141 original size:22 final size:22
Alignment explanation
Indices: 13485114--13485155 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13485104 AAATGATATG
13485114 ATATAAA-ATAATAACAATAATT
1 ATATAAATATAATAA-AATAATT
*
13485136 ATATAAATTTAATAAAATAA
1 ATATAAATATAATAAAATAA
13485156 AAAATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATAAATATAATAAAATAATT
Found at i:13491532 original size:69 final size:69
Alignment explanation
Indices: 13491348--13491524 Score: 273
Period size: 69 Copynumber: 2.6 Consensus size: 69
13491338 CCGGCCTTGC
* * * * *
13491348 TCTCTGAATCTGAGGTCGCACTTGTGAGACTGAGGGTGTTGGTGAGGGTGTCAGTGTCTGTTTCT
1 TCTCTGAAACTGAGGTTGCACTTGTGAGACTGAGGGTGTTGGTGAGGATGCCAGTGTCGGTTTCT
13491413 GAAA
66 GAAA
* *
13491417 TCTGTGAAACTGAGGTTGCACTTGTGAGACTGAGGGTGTTGGTGAGGATGCCGGTGTCGGTTTCT
1 TCTCTGAAACTGAGGTTGCACTTGTGAGACTGAGGGTGTTGGTGAGGATGCCAGTGTCGGTTTCT
13491482 GAAA
66 GAAA
* *
13491486 TCTCTGAAACTGAGGTTGTACTTGTGAGACCGAGGGTGT
1 TCTCTGAAACTGAGGTTGCACTTGTGAGACTGAGGGTGT
13491525 CAATGAGGGA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 98 1.00
ACGTcount: A:0.19, C:0.14, G:0.36, T:0.32
Consensus pattern (69 bp):
TCTCTGAAACTGAGGTTGCACTTGTGAGACTGAGGGTGTTGGTGAGGATGCCAGTGTCGGTTTCT
GAAA
Found at i:13495421 original size:18 final size:18
Alignment explanation
Indices: 13495374--13495413 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
13495364 GGGAAATGGT
*
13495374 AAAGAAAAAG-GAAAAGA
1 AAAGACAAAGAGAAAAGA
*
13495391 AAAGACAAAGAGAAACGA
1 AAAGACAAAGAGAAAAGA
13495409 AAAGA
1 AAAGA
13495414 GAGAGAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.72, C:0.05, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAGACAAAGAGAAAAGA
Found at i:13500947 original size:20 final size:20
Alignment explanation
Indices: 13500900--13500947 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
13500890 ATAAAAATAA
13500900 ATTTG-ATTAATATATTTAT
1 ATTTGAATTAATATATTTAT
* *
13500919 TTTTAAATT-ATATTATTTAT
1 ATTTGAATTAATA-TATTTAT
13500939 ATTTGAATT
1 ATTTGAATT
13500948 CGAATTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
ATTTGAATTAATATATTTAT
Found at i:13501083 original size:21 final size:21
Alignment explanation
Indices: 13501054--13501104 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
13501044 ATTCAAGAAT
* *
13501054 TATTCAAATTAAA-TATTATGA
1 TATTTAAATTAAATTATT-TAA
13501075 TATTTAAATTAAATTATTTAA
1 TATTTAAATTAAATTATTTAA
13501096 T-TTTAAATT
1 TATTTAAATT
13501105 TAACTCGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
21 15 0.56
22 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTAAATTAAATTATTTAA
Found at i:13502755 original size:21 final size:21
Alignment explanation
Indices: 13502703--13502758 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
13502693 TATTGATATA
*
13502703 TTATTTTA-ATAAATTATTAAT
1 TTATTTTATA-AAATAATTAAT
* *
13502724 ATATTTATATAAAATAATTATT
1 TTATTT-TATAAAATAATTAAT
13502746 TTATTTTATAAAA
1 TTATTTTATAAAA
13502759 ATTTAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 12 0.41
22 16 0.55
23 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATTTTATAAAATAATTAAT
Found at i:13502957 original size:6 final size:6
Alignment explanation
Indices: 13502948--13502976 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13502938 CGTGCATCTC
13502948 TGCCAT TGCCAT TGCCAT TGCCAT TGCCA
1 TGCCAT TGCCAT TGCCAT TGCCAT TGCCA
13502977 GGCAGCCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.31
Consensus pattern (6 bp):
TGCCAT
Found at i:13503962 original size:13 final size:13
Alignment explanation
Indices: 13503944--13503968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13503934 CGTCTCCCTC
13503944 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
13503957 TCTTTTTTTTTT
1 TCTTTTTTTTTT
13503969 CTCTATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:13505736 original size:2 final size:2
Alignment explanation
Indices: 13505725--13505779 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
13505715 TGCTGCCTCT
* * *
13505725 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
13505766 TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA
13505780 AAACCATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:13514418 original size:15 final size:15
Alignment explanation
Indices: 13514398--13514433 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
13514388 AGAATTCGTT
**
13514398 AAAATTAATGATTAA
1 AAAATTAAAAATTAA
13514413 AAAATTAAAAATTAA
1 AAAATTAAAAATTAA
13514428 AAAATT
1 AAAATT
13514434 TTACTCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAATTAAAAATTAA
Found at i:13515006 original size:22 final size:24
Alignment explanation
Indices: 13514978--13515024 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
13514968 TTTAACGATC
*
13514978 AAATTAAAA-G-ACAAAATATGAA
1 AAATTAAAAGGAAAAAAATATGAA
13515000 AAATTAAAAGGAAAAAAATATGAA
1 AAATTAAAAGGAAAAAAATATGAA
13515024 A
1 A
13515025 GTAAAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 1 0.05
24 12 0.55
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (24 bp):
AAATTAAAAGGAAAAAAATATGAA
Found at i:13515022 original size:24 final size:22
Alignment explanation
Indices: 13514978--13515038 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
13514968 TTTAACGATC
*
13514978 AAATTAAAAGACAAAATATGAA
1 AAATTAAAAGAAAAAATATGAA
13515000 AAATTAAAAGGAAAAAAATATG--
1 AAATTAAAA-G-AAAAAATATGAA
*
13515022 AAAGTAAAAGAAAAAAT
1 AAATTAAAAGAAAAAAT
13515039 TAGACTAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 7 0.20
21 1 0.03
22 17 0.49
23 1 0.03
24 9 0.26
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.16
Consensus pattern (22 bp):
AAATTAAAAGAAAAAATATGAA
Found at i:13520843 original size:42 final size:41
Alignment explanation
Indices: 13520764--13520887 Score: 108
Period size: 42 Copynumber: 3.0 Consensus size: 41
13520754 TATAATATGT
** * *
13520764 ATAAAATTTTATTTTTAATATAAATT-ATATTTTAATTATA-C
1 ATAAAATAATATTTTT-AT-TAAATTAATATTTAAATTAAAGC
*
13520805 ATAAATATAATATTTTTATTAAATTAATATCTTAAATTAAAGT
1 ATAAA-ATAATATTTTTATTAAATTAATAT-TTAAATTAAAGC
* * * *
13520848 ATTAAATAATAATTTTATTAAAATAATATATAAATATAAA
1 ATAAAATAATATTTTTATTAAATTAATATTTAAAT-TAAA
13520888 ATTAAATAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
40 6 0.09
41 16 0.23
42 43 0.62
43 4 0.06
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.47
Consensus pattern (41 bp):
ATAAAATAATATTTTTATTAAATTAATATTTAAATTAAAGC
Found at i:13521581 original size:18 final size:18
Alignment explanation
Indices: 13521541--13521583 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
13521531 AATATAATAT
* *
13521541 TTATAAAATATTTTTTAA
1 TTATAAATTATATTTTAA
*
13521559 -CATAAATTATATTTTAA
1 TTATAAATTATATTTTAA
13521576 TTATAAAT
1 TTATAAAT
13521584 AAATATAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATAAATTATATTTTAA
Found at i:13521618 original size:42 final size:41
Alignment explanation
Indices: 13521567--13521680 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 41
13521557 AACATAAATT
*
13521567 ATATTTTAATTATAAATA-AATATAATATTTTTGTTAAGT-TA
1 ATATTTTAATTATAAATATAA-ATAATAATTTTGTTAA-TATA
13521608 ATATCTTTAATTA-AAATATTAAATAATAATTTTGTTAATATA
1 ATAT-TTTAATTATAAATA-TAAATAATAATTTTGTTAATATA
*
13521650 ATATTTATAAATATAAA-ATTAAATAAATAAT
1 ATATTT-TAATTATAAATA-TAAAT-AATAAT
13521681 ATATATATAT
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
41 12 0.19
42 41 0.64
43 11 0.17
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (41 bp):
ATATTTTAATTATAAATATAAATAATAATTTTGTTAATATA
Found at i:13524628 original size:2 final size:2
Alignment explanation
Indices: 13524616--13524653 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
13524606 TGTTATTGTA
*
13524616 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13524654 ATATATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:13524658 original size:2 final size:2
Alignment explanation
Indices: 13524653--13524683 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13524643 TCTCTCTCTC
13524653 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13524684 CAATACTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13525943 original size:21 final size:21
Alignment explanation
Indices: 13525917--13525958 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13525907 AGTGCTTCAA
13525917 TTCAACTTTTGCTCATTATCT
1 TTCAACTTTTGCTCATTATCT
13525938 TTCAACTTTTGCTCATTATCT
1 TTCAACTTTTGCTCATTATCT
13525959 CTATCTTTTA
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:0.19, C:0.24, G:0.05, T:0.52
Consensus pattern (21 bp):
TTCAACTTTTGCTCATTATCT
Found at i:13527066 original size:2 final size:2
Alignment explanation
Indices: 13527021--13527050 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13527011 AGATCATTTG
13527021 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13527051 TCTTAATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13527076 original size:25 final size:26
Alignment explanation
Indices: 13527029--13527089 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
13527019 TGATATATAT
13527029 ATATATATATATATATATATATTCTTA
1 ATATA-ATATATATATATATATTCTTA
* * *
13527056 ATCTAATATAT-TTTATATATTTTTA
1 ATATAATATATATATATATATTCTTA
13527081 ATATAATAT
1 ATATAATAT
13527090 CTAAATCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 20 0.67
26 6 0.20
27 4 0.13
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (26 bp):
ATATAATATATATATATATATTCTTA
Found at i:13533626 original size:32 final size:32
Alignment explanation
Indices: 13533585--13533655 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
13533575 GAATTATCAC
*
13533585 ATAT-AATTTTTATATAAAATATAATATAAAT
1 ATATAAATTTTAATATAAAATATAATATAAAT
*** *
13533616 ATATAAATTTTAATATTTTATATTATATAAAT
1 ATATAAATTTTAATATAAAATATAATATAAAT
13533648 ATATAAAT
1 ATATAAAT
13533656 GACCGTATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 4 0.12
32 30 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
ATATAAATTTTAATATAAAATATAATATAAAT
Found at i:13535904 original size:13 final size:13
Alignment explanation
Indices: 13535886--13535911 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13535876 AATTAAAAAT
13535886 AATTAAAATTAAA
1 AATTAAAATTAAA
13535899 AATTAAAATTAAA
1 AATTAAAATTAAA
13535912 TCAATAAATT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAAAATTAAA
Found at i:13536011 original size:22 final size:22
Alignment explanation
Indices: 13535957--13536012 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
13535947 ATGTACAATT
* *
13535957 TAAAATTTTTTAATAAATTTTAA
1 TAAAA-TTTTTAAAAAATATTAA
*
13535980 T-ATATATTTTAAAAAATATTAA
1 TAAAAT-TTTTAAAAAATATTAA
13536002 TAAAATTTTTA
1 TAAAATTTTTA
13536013 TCATTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 1 0.04
22 22 0.81
23 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAAATTTTTAAAAAATATTAA
Found at i:13545536 original size:2 final size:2
Alignment explanation
Indices: 13545529--13545554 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13545519 TGAGAATCAG
13545529 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13545555 GTAAAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13554985 original size:12 final size:12
Alignment explanation
Indices: 13554970--13555012 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
13554960 ATTTATCTCA
13554970 AAATTTTAATAT
1 AAATTTTAATAT
*
13554982 AAATTATAA-AT
1 AAATTTTAATAT
*
13554993 AAATTTAAATAT
1 AAATTTTAATAT
*
13555005 ATATTTTA
1 AAATTTTA
13555013 TATTTTTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATTTTAATAT
Found at i:13555526 original size:18 final size:18
Alignment explanation
Indices: 13555473--13555526 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
13555463 ATTATAAGTG
*
13555473 ATATCAAATTAATTAAA-A
1 ATATCAAA-TAATAAAATA
*
13555491 ATAT-AAATAA-AATTATA
1 ATATCAAATAATAA-AATA
13555508 ATATCAAATAATAAAATA
1 ATATCAAATAATAAAATA
13555526 A
1 A
13555527 AAGTATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
15 1 0.03
16 4 0.14
17 8 0.28
18 14 0.48
19 2 0.07
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATCAAATAATAAAATA
Found at i:13557501 original size:116 final size:117
Alignment explanation
Indices: 13557304--13557530 Score: 368
Period size: 116 Copynumber: 1.9 Consensus size: 117
13557294 ACCAAAACAA
* *
13557304 AATATAAATATCTAATCACAATTTTTTTTATAAATATTAAATAGCAAAAAAAATAATATAATTCA
1 AATACAAATATCTAATCACAATTTTTTTTATAAATATTAAATAGCAAAAAAAATAATATAATCCA
* *
13557369 ATAACTAAATAACATGTTAACAACTCATTGAAGTTAAAATAAAAAAAACAGT
66 AGAACTAAATAACATGTTAACAACTCATTGAACTTAAAATAAAAAAAACAGT
* *
13557421 AATACAAATATCTAATCATAATTTTTTTTATAAATATTATAA-AG-TAAAAAAATAATATAATCC
1 AATACAAATATCTAATCACAATTTTTTTTATAAATATTA-AATAGCAAAAAAAATAATATAATCC
*
13557484 AAGAATTAAATAACATGTTAACAACTCATTGAACTTAAAATAAAAAA
65 AAGAACTAAATAACATGTTAACAACTCATTGAACTTAAAATAAAAAA
13557531 TACAAAACTA
Statistics
Matches: 102, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
116 61 0.60
117 39 0.38
118 2 0.02
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (117 bp):
AATACAAATATCTAATCACAATTTTTTTTATAAATATTAAATAGCAAAAAAAATAATATAATCCA
AGAACTAAATAACATGTTAACAACTCATTGAACTTAAAATAAAAAAAACAGT
Found at i:13557529 original size:58 final size:56
Alignment explanation
Indices: 13557351--13557532 Score: 131
Period size: 58 Copynumber: 3.1 Consensus size: 56
13557341 TAAATAGCAA
* *
13557351 AAAAAATAATATAATTCAATAACTAAATAACATGTTAACAACTCATTGAAGTTAAAAT
1 AAAAAATAATATAATACAA-AATTAAATAACATGTTAACAACTCATTGAA-TTAAAAT
* ** * * * * *
13557409 AAAAAA-AACAGTAATACAAATATCTAATCATAATTTTTTTTATAAAT-ATT--A-TAAAGT
1 AAAAAATAATA-TAATACAAA-AT-TAA--ATAA-CATGTTAACAACTCATTGAATTAAAAT
*
13557466 AAAAAAATAATATAATCCAAGAATTAAATAACATGTTAACAACTCATTGAACTTAAAAT
1 -AAAAAATAATATAATACAA-AATTAAATAACATGTTAACAACTCATTGAA-TTAAAAT
13557525 AAAAAATA
1 AAAAAATA
13557533 CAAAACTATA
Statistics
Matches: 91, Mismatches: 19, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
54 7 0.08
55 7 0.08
57 13 0.14
58 37 0.41
59 13 0.14
61 7 0.08
62 7 0.08
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.30
Consensus pattern (56 bp):
AAAAAATAATATAATACAAAATTAAATAACATGTTAACAACTCATTGAATTAAAAT
Found at i:13558344 original size:196 final size:194
Alignment explanation
Indices: 13558003--13558381 Score: 677
Period size: 196 Copynumber: 1.9 Consensus size: 194
13557993 TGTTGATTCA
13558003 AGCCAAATATGTATGTAAATAATTATAAATTAAGGTTTTTAGATAATTTTCGTTGGAAATTTTGA
1 AGCCAAATATGTATGTAAATAATTATAAATTAAGGTTTTTAGATAATTTTCGTTGGAAATTTTGA
*
13558068 ATTAAATCGACATTTTTTTATTTATTGTTCGAGTAACAACTGAAAATCTATTAAAATTAATTCCA
66 ATTAAATCGACATTTTTTTATTTATTGTTCGAGTAACAACTCAAAATCTATTAAAATTAATTCCA
13558133 AATATAATTATTTCGATTTTTTAAAAATATTTATATTTAAAATAGATTTTCAGGGAGAGTTTCG
131 AATATAATTATTTCGATTTTTTAAAAATATTTATATTTAAAATAGATTTTCAGGGAGAGTTTCG
* * * * *
13558197 AGCCAATTATGTATGTAAATAATTGTAGATTAGGGTTTTTAGGTAATTTTCGTTGGAAATTTTGA
1 AGCCAAATATGTATGTAAATAATTATAAATTAAGGTTTTTAGATAATTTTCGTTGGAAATTTTGA
13558262 ATTAAATCGACATTTTTTTTTATTTATTGTTCGAGTAACAACTCAAAATCTATTAAAATTAATTC
66 ATTAAATCGACA--TTTTTTTATTTATTGTTCGAGTAACAACTCAAAATCTATTAAAATTAATTC
*
13558327 TAAATATAATTATTTCGATTTTTTAAAAATATTTATATTTAAAATAGATTTTCAG
129 CAAATATAATTATTTCGATTTTTTAAAAATATTTATATTTAAAATAGATTTTCAG
13558382 TGGGATTTTT
Statistics
Matches: 176, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
194 72 0.41
196 104 0.59
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (194 bp):
AGCCAAATATGTATGTAAATAATTATAAATTAAGGTTTTTAGATAATTTTCGTTGGAAATTTTGA
ATTAAATCGACATTTTTTTATTTATTGTTCGAGTAACAACTCAAAATCTATTAAAATTAATTCCA
AATATAATTATTTCGATTTTTTAAAAATATTTATATTTAAAATAGATTTTCAGGGAGAGTTTCG
Found at i:13562096 original size:9 final size:9
Alignment explanation
Indices: 13562084--13562108 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13562074 AAATTTATAA
13562084 ATTTTAATT
1 ATTTTAATT
13562093 ATTTTAATT
1 ATTTTAATT
13562102 ATTTTAA
1 ATTTTAA
13562109 AAAATATATA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTAATT
Found at i:13563153 original size:10 final size:9
Alignment explanation
Indices: 13563133--13563175 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
13563123 CAAAGTGAAC
13563133 TATATATTTT
1 TATA-ATTTT
13563143 TATTAATTTT
1 TA-TAATTTT
13563153 TATATATTTT
1 TATA-ATTTT
*
13563163 TAAAATTTT
1 TATAATTTT
13563172 TATA
1 TATA
13563176 CAATAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 10 0.34
10 17 0.59
11 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TATAATTTT
Found at i:13563158 original size:20 final size:19
Alignment explanation
Indices: 13563133--13563175 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
13563123 CAAAGTGAAC
*
13563133 TATATATTTTTATTAATTTT
1 TATATATTTTTA-AAATTTT
13563153 TATATATTTTTAAAATTTT
1 TATATATTTTTAAAATTTT
13563172 TATA
1 TATA
13563176 CAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATATATTTTTAAAATTTT
Found at i:13566371 original size:22 final size:23
Alignment explanation
Indices: 13566323--13566371 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
13566313 GGAAAGATGA
* * *
13566323 AAATTTTTTAAGTAAAATTTATG
1 AAATTTTTTAACTAAAAATAATG
*
13566346 AAATTTTTT-ACTAAAAATAATT
1 AAATTTTTTAACTAAAAATAATG
13566368 AAAT
1 AAAT
13566372 CAAAATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (23 bp):
AAATTTTTTAACTAAAAATAATG
Found at i:13569862 original size:11 final size:11
Alignment explanation
Indices: 13569846--13569953 Score: 51
Period size: 11 Copynumber: 9.5 Consensus size: 11
13569836 ATAAAATTTA
13569846 TATATTTATAT
1 TATATTTATAT
13569857 TATATTTTATAT
1 TATA-TTTATAT
* * *
13569869 AAAAATTAAATAT
1 -TATATT-TATAT
13569882 TATAATTTATAT
1 TAT-ATTTATAT
** * *
13569894 TA-ATGAAAAAA
1 TATAT-TTATAT
13569905 TATATTTATAT
1 TATATTTATAT
* *
13569916 TATATTAATTT
1 TATATTTATAT
13569927 TAT-TTTATAT
1 TATATTTATAT
13569937 T-TATATTATATT
1 TATAT-TTATA-T
13569949 TATAT
1 TATAT
13569954 CAAATTATAT
Statistics
Matches: 69, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
9 1 0.01
10 9 0.13
11 27 0.39
12 20 0.29
13 12 0.17
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.56
Consensus pattern (11 bp):
TATATTTATAT
Found at i:13569916 original size:6 final size:6
Alignment explanation
Indices: 13569905--13569953 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 6
13569895 AATGAAAAAA
*
13569905 TATATT TATA-T TATATT AAT-TT TAT-TT TATATT TATA-T TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
13569949 TATAT
1 TATAT
13569954 CAAATTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 19 0.50
6 19 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATATT
Found at i:13569961 original size:27 final size:27
Alignment explanation
Indices: 13569846--13569963 Score: 94
Period size: 27 Copynumber: 4.2 Consensus size: 27
13569836 ATAAAATTTA
*
13569846 TATATTTATATTATATTTTATATAAAAAT
1 TATATTTATATTATA-TTAATAT-AAAAT
* *
13569875 TAAATATTATAATTTATATTAATGA-AAAAA
1 TATAT-TTAT-A-TTATATTAAT-ATAAAAT
* * **
13569905 TATATTTATATTATATTAATTTTATTT
1 TATATTTATATTATATTAATATAAAAT
* *
13569932 TATATTTATATTATATTTATATCAAAT
1 TATATTTATATTATATTAATATAAAAT
13569959 TATAT
1 TATAT
13569964 ATCTAATTTT
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
27 38 0.54
28 1 0.01
29 8 0.11
30 12 0.17
31 5 0.07
32 6 0.09
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
TATATTTATATTATATTAATATAAAAT
Found at i:13570297 original size:10 final size:11
Alignment explanation
Indices: 13570277--13570307 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
13570267 TGATTTTTGC
13570277 ATTTTTAAAAA
1 ATTTTTAAAAA
13570288 ATTTTTAAAAA
1 ATTTTTAAAAA
13570299 ATTTTTAAA
1 ATTTTTAAA
13570308 TCCCTAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTTTAAAAA
Found at i:13570641 original size:20 final size:19
Alignment explanation
Indices: 13570616--13570659 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
13570606 TTGAATTGAA
*
13570616 TTATATATTTTTATTAATTT
1 TTATATATTTTT-TAAATTT
13570636 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
13570655 TTATA
1 TTATA
13570660 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Found at i:13570663 original size:11 final size:10
Alignment explanation
Indices: 13570616--13570661 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
13570606 TTGAATTGAA
*
13570616 TTATATATTT
1 TTATAAATTT
*
13570626 TTATTAATTT
1 TTATAAATTT
*
13570636 TTATATATTT
1 TTATAAATTT
13570646 TT-TAAATTT
1 TTATAAATTT
13570655 TTATAAA
1 TTATAAA
13570662 ATAAAAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATAAATTT
Found at i:13570809 original size:19 final size:20
Alignment explanation
Indices: 13570785--13570828 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
13570775 ATTTGATTCG
13570785 AATTAAATC-AATTTTAAAA
1 AATTAAATCAAATTTTAAAA
*
13570804 AATTAATTCAAATTTTAAAA
1 AATTAAATCAAATTTTAAAA
13570824 AATTA
1 AATTA
13570829 TAATATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTAAATCAAATTTTAAAA
Found at i:13572329 original size:23 final size:23
Alignment explanation
Indices: 13572314--13572384 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
13572304 TAACTGAATT
13572314 TATTTATAAATATTAAATAAATA
1 TATTTATAAATATTAAATAAATA
* *
13572337 TATTTATAAATAATAAAAAAATTA
1 TATTTATAAATATTAAATAAA-TA
*
13572361 TAATTAAATAAAT-TTAAATAAATA
1 T-ATT-TATAAATATTAAATAAATA
13572385 AACTTAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 19 0.47
24 5 0.12
25 10 0.25
26 6 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TATTTATAAATATTAAATAAATA
Found at i:13572370 original size:19 final size:20
Alignment explanation
Indices: 13572325--13572373 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
13572315 ATTTATAAAT
* *
13572325 ATTAAATAAATATATTTATA
1 ATTAAATAAATAAAATTATA
*
13572345 AAT-AATAAA-AAAATTATA
1 ATTAAATAAATAAAATTATA
13572363 ATTAAATAAAT
1 ATTAAATAAAT
13572374 TTAAATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.39
19 12 0.52
20 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTAAATAAATAAAATTATA
Found at i:13572382 original size:14 final size:14
Alignment explanation
Indices: 13572348--13572427 Score: 56
Period size: 14 Copynumber: 5.4 Consensus size: 14
13572338 ATTTATAAAT
*
13572348 AATAAAAAAATTATA
1 AATAAATAAATT-TA
*
13572363 ATTAAATAAATTTA
1 AATAAATAAATTTA
*
13572377 AATAAATAAACTTAA
1 AATAAATAAA-TTTA
13572392 AATGAACATAAA--TA
1 AAT-AA-ATAAATTTA
*
13572406 AATCTAAATAAATATA
1 AA--TAAATAAATTTA
13572422 AATAAA
1 AATAAA
13572428 ATTTAAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
14 23 0.43
15 18 0.34
16 7 0.13
17 5 0.09
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (14 bp):
AATAAATAAATTTA
Found at i:13572392 original size:10 final size:10
Alignment explanation
Indices: 13572319--13572427 Score: 62
Period size: 10 Copynumber: 10.5 Consensus size: 10
13572309 GAATTTATTT
13572319 ATAAATATTAA
1 ATAAATA-TAA
*
13572330 ATAAATATATTT
1 ATAAATATA--A
13572342 ATAAATAATAA
1 ATAAAT-ATAA
*
13572353 AAAAATTATAA
1 ATAAA-TATAA
*
13572364 TTAAATA-AA
1 ATAAATATAA
* *
13572373 TTTAA-ATAA
1 ATAAATATAA
13572382 ATAAACT-TAAA
1 ATAAA-TAT-AA
* *
13572393 ATGAACATAA
1 ATAAATATAA
*
13572403 ATAAATCTAA
1 ATAAATATAA
13572413 ATAAATATAA
1 ATAAATATAA
13572423 ATAAA
1 ATAAA
13572428 ATTTAAAATA
Statistics
Matches: 75, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
8 1 0.01
9 11 0.15
10 28 0.37
11 25 0.33
12 7 0.09
13 3 0.04
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (10 bp):
ATAAATATAA
Found at i:13572413 original size:21 final size:21
Alignment explanation
Indices: 13572378--13572437 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
13572368 ATAAATTTAA
*
13572378 ATAAATAAA-CTTAAAATGAAC
1 ATAAATAAATC-TAAAATAAAC
*
13572399 ATAAATAAATCT-AAATAAAT
1 ATAAATAAATCTAAAATAAAC
*
13572419 ATAAATAAAATTTAAAATA
1 ATAAAT-AAATCTAAAATA
13572438 GATTAGAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 12 0.36
21 15 0.45
22 6 0.18
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (21 bp):
ATAAATAAATCTAAAATAAAC
Found at i:13578502 original size:2 final size:2
Alignment explanation
Indices: 13578497--13578531 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13578487 ATTGGAATTA
13578497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13578532 AAAGCCTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13578788 original size:21 final size:20
Alignment explanation
Indices: 13578764--13578807 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
13578754 CCTTGAAAAA
13578764 TAATTGTTT-ATATAAAATATT
1 TAATT-TTTAATATAAAA-ATT
13578785 TAATTTTTAAATATAAAAATT
1 TAATTTTT-AATATAAAAATT
13578806 TA
1 TA
13578808 TATCGAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 10 0.48
22 8 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATTTTTAATATAAAAATT
Found at i:13579482 original size:31 final size:31
Alignment explanation
Indices: 13579444--13579536 Score: 102
Period size: 31 Copynumber: 3.0 Consensus size: 31
13579434 ATTAAATAAT
* *
13579444 TTATATATTCGTATTAT-TTAAAATATTAAAA
1 TTATATATTCATATTATATT-AAATATAAAAA
* **
13579475 TTATATATTTATATTATATTTTATATAAAAA
1 TTATATATTCATATTATATTAAATATAAAAA
13579506 TTATATATT-ATAATTATATT-AATATAAAAA
1 TTATATATTCAT-ATTATATTAAATATAAAAA
13579536 T
1 T
13579537 ATAAAATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
30 12 0.22
31 40 0.74
32 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
TTATATATTCATATTATATTAAATATAAAAA
Found at i:13579546 original size:29 final size:31
Alignment explanation
Indices: 13579465--13579546 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 31
13579455 TATTATTTAA
* * *
13579465 AATATTAAAATTAT-ATATTTATATTATATTT
1 AATATAAAAATTATAAAATATA-ATTATATTT
* * *
13579496 TATATAAAAATTATATATTATAATTATA-TT
1 AATATAAAAATTATAAAATATAATTATATTT
13579526 AATATAAAAA-TATAAAATATA
1 AATATAAAAATTATAAAATATA
13579547 TATTTAATTT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
29 9 0.22
30 11 0.27
31 18 0.44
32 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
AATATAAAAATTATAAAATATAATTATATTT
Found at i:13579565 original size:20 final size:20
Alignment explanation
Indices: 13579507--13579582 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
13579497 ATATAAAAAT
* *
13579507 TATATATTATAATTA-T-AT
1 TATATATAATAATTATTAAA
* *
13579525 TA-ATATAA-AAATATAAAA
1 TATATATAATAATTATTAAA
*
13579543 TATATAT-TTAATTTATTAAA
1 TATATATAATAA-TTATTAAA
13579563 TATATATAATAATTATTAAA
1 TATATATAATAATTATTAAA
13579583 ATTTTAAATC
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
16 4 0.09
17 5 0.11
18 5 0.11
19 6 0.14
20 21 0.48
21 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATATAATAATTATTAAA
Found at i:13579579 original size:29 final size:28
Alignment explanation
Indices: 13579507--13579596 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
13579497 ATATAAAAAT
*
13579507 TATATATTATAATTATATTAA-TA-TAAA
1 TATATATAATAATTAT-TTAATTATTAAA
* *
13579534 AATATAAAAT-ATATATTTAATTTATTAAA
1 TATATATAATAAT-TATTTAA-TTATTAAA
*
13579563 TATATATAATAATTATTAAAATT-TTAAA
1 TATATATAATAATTATT-TAATTATTAAA
13579591 TCATAT
1 T-ATAT
13579597 TATTTTTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
26 6 0.12
27 10 0.20
28 8 0.16
29 22 0.44
30 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (28 bp):
TATATATAATAATTATTTAATTATTAAA
Found at i:13583306 original size:28 final size:28
Alignment explanation
Indices: 13583265--13583342 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 28
13583255 AATTATAAAA
**
13583265 AATATTATTT-ATAATTTAAATTTAATC
1 AATATTATTTAATAATAAAAATTTAATC
* *
13583292 GATATTATTTAATAATAAAAATTTCATC
1 AATATTATTTAATAATAAAAATTTAATC
* *
13583320 AATATT-TTTATTAA-AAATATTTA
1 AATATTATTTAATAATAAAAATTTA
13583343 TCTAAAAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.17
27 16 0.38
28 19 0.45
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (28 bp):
AATATTATTTAATAATAAAAATTTAATC
Found at i:13585065 original size:13 final size:13
Alignment explanation
Indices: 13585044--13585080 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13585034 ATAATACTAT
*
13585044 TATACAAATAAAA
1 TATAAAAATAAAA
13585057 TATAAAAATAAAA
1 TATAAAAATAAAA
*
13585070 TATGAAAATAA
1 TATAAAAATAA
13585081 TTCAACTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (13 bp):
TATAAAAATAAAA
Found at i:13585442 original size:2 final size:2
Alignment explanation
Indices: 13585435--13585466 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13585425 GTTTAAATCT
13585435 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13585467 AAGTTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13586307 original size:15 final size:15
Alignment explanation
Indices: 13586287--13586316 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13586277 ATTTTATATT
13586287 CTATAACTCTAATTC
1 CTATAACTCTAATTC
13586302 CTATAACTCTAATTC
1 CTATAACTCTAATTC
13586317 AACTATATAT
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:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (15 bp):
CTATAACTCTAATTC
Found at i:13586327 original size:2 final size:2
Alignment explanation
Indices: 13586320--13586347 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13586310 CTAATTCAAC
13586320 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13586348 AAACATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13591731 original size:36 final size:36
Alignment explanation
Indices: 13591684--13591752 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
13591674 ATAGATATAT
13591684 TTATTTATTT-AAATAATCAATTTTTCATATAAAAAA
1 TTATTTATTTAAAATAAT-AATTTTTCATATAAAAAA
* * *
13591720 TTATTTTTTTAAAATTATAATTTTTTATATAAA
1 TTATTTATTTAAAATAATAATTTTTCATATAAA
13591753 TTAGTCGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 23 0.79
37 6 0.21
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (36 bp):
TTATTTATTTAAAATAATAATTTTTCATATAAAAAA
Found at i:13609188 original size:21 final size:21
Alignment explanation
Indices: 13609133--13609182 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
13609123 TAAATAAGTG
13609133 ATGAGTCATTGTACCATAGTA
1 ATGAGTCATTGTACCATAGTA
*
13609154 ATGAGTCATTGTACCATAGTT
1 ATGAGTCATTGTACCATAGTA
13609175 ATGAGTCA
1 ATGAGTCA
13609183 CCGTACTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (21 bp):
ATGAGTCATTGTACCATAGTA
Found at i:13625489 original size:45 final size:42
Alignment explanation
Indices: 13625421--13625503 Score: 103
Period size: 45 Copynumber: 1.9 Consensus size: 42
13625411 TCACTATGGT
* * *
13625421 TTTTATTTAAAATTAGATTTGATAACTTGTATATTTATATCATA
1 TTTTATTAAAAATTAGATGTGATAA-TT-TATATTAATATCATA
*
13625465 TTTTATATAAAAATTATATGTGATAATTTATATTAATAT
1 TTTTAT-TAAAAATTAGATGTGATAATTTATATTAATAT
13625504 AAAAATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 10 0.29
44 8 0.24
45 16 0.47
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (42 bp):
TTTTATTAAAAATTAGATGTGATAATTTATATTAATATCATA
Found at i:13625557 original size:22 final size:23
Alignment explanation
Indices: 13625518--13625560 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
13625508 ATATAAAATA
13625518 TATTTATTAAATTTTATTAAACT
1 TATTTATTAAATTTTATTAAACT
*
13625541 TATTTA-TAATTTTTATTAAA
1 TATTTATTAAATTTTATTAAA
13625561 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTATTAAATTTTATTAAACT
Found at i:13626612 original size:19 final size:18
Alignment explanation
Indices: 13626588--13626623 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13626578 TCATAAATTT
13626588 ATTTTTAGAAAAATTTATA
1 ATTTTTAG-AAAATTTATA
*
13626607 ATTTTTTGAAAATTTAT
1 ATTTTTAGAAAATTTAT
13626624 TTATTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
ATTTTTAGAAAATTTATA
Found at i:13626669 original size:18 final size:17
Alignment explanation
Indices: 13626646--13626693 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
13626636 ATATAATTAA
13626646 AATTTTGAAAAATTTTAT
1 AATTTT-AAAAATTTTAT
*
13626664 AATTTTCAAAAACTTTAT
1 AATTTT-AAAAATTTTAT
13626682 --TTTTAAAAATTT
1 AATTTTAAAAATTT
13626694 ATGAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 7 0.26
16 4 0.15
18 16 0.59
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (17 bp):
AATTTTAAAAATTTTAT
Found at i:13630385 original size:2 final size:2
Alignment explanation
Indices: 13630378--13630407 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13630368 TCCAAAAATA
13630378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13630408 TGTGTTCGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13631701 original size:2 final size:2
Alignment explanation
Indices: 13631696--13631731 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13631686 TGTTTTTTCT
13631696 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13631732 GTTTTCTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13632193 original size:22 final size:22
Alignment explanation
Indices: 13632152--13632193 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13632142 TTTTAATATT
*
13632152 TTATAATTTTTTTATTTTTTAA
1 TTATAATTTTTTTATGTTTTAA
13632174 TTATAATTTCTTTT-TGTTTT
1 TTATAATTT-TTTTATGTTTT
13632194 GAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTATAATTTTTTTATGTTTTAA
Found at i:13632553 original size:20 final size:20
Alignment explanation
Indices: 13632525--13632565 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13632515 AAATAAACAA
* *
13632525 ACCTTAAACGAATATAAACG
1 ACCTCAAACAAATATAAACG
13632545 ACCTCAAACAAATATAAACG
1 ACCTCAAACAAATATAAACG
13632565 A
1 A
13632566 ATCTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.22, G:0.07, T:0.17
Consensus pattern (20 bp):
ACCTCAAACAAATATAAACG
Found at i:13633281 original size:16 final size:16
Alignment explanation
Indices: 13633247--13633279 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13633237 AATATAATAT
*
13633247 AATAATATGATATAAA
1 AATAAAATGATATAAA
13633263 AATAAAATGA-ATAAA
1 AATAAAATGATATAAA
13633278 AA
1 AA
13633280 ATGTATAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AATAAAATGATATAAA
Found at i:13635209 original size:32 final size:32
Alignment explanation
Indices: 13635183--13635251 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
13635173 TATAAATTAT
*
13635183 AATATA-TAATTTTTATATAAAATATAATATA
1 AATATATTAATTTTAATATAAAATATAATATA
***
13635214 AATATATTAATTTTAATATTTTATATAATATA
1 AATATATTAATTTTAATATAAAATATAATATA
13635246 AATATA
1 AATATA
13635252 AGAATTTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 6 0.18
32 27 0.82
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
AATATATTAATTTTAATATAAAATATAATATA
Found at i:13635249 original size:18 final size:19
Alignment explanation
Indices: 13635180--13635250 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 19
13635170 TGATATAAAT
13635180 TATAATATATAAT-TTTTA
1 TATAATATATAATATTTTA
* **
13635198 TATAAAATATAATATAAATA
1 TATAATATATAATAT-TTTA
*
13635218 TATTAAT-TTTAATATTTTA
1 TA-TAATATATAATATTTTA
13635237 TATAATATA-AATAT
1 TATAATATATAATAT
13635251 AAGAATTTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
18 21 0.51
19 6 0.15
20 11 0.27
21 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATAATATATAATATTTTA
Found at i:13638014 original size:24 final size:21
Alignment explanation
Indices: 13637961--13638015 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
13637951 AATATAAAAT
*
13637961 ATATATT-TTATTAAATTTAT
1 ATATATTATTATTAAATTTAA
13637981 ATATAGTTATTATTAAAATTTTAA
1 ATATA-TTATTATT-AAA-TTTAA
13638005 ATCATATTATT
1 AT-ATATTATT
13638016 TTTATATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 5 0.17
21 2 0.07
22 5 0.17
23 3 0.10
24 11 0.38
25 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
ATATATTATTATTAAATTTAA
Found at i:13638035 original size:24 final size:24
Alignment explanation
Indices: 13638008--13638076 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
13637998 ATTTTAAATC
*
13638008 ATATTATTTTTATATCTTATTTTT
1 ATATTATTTTTATATCTTATTATT
* * *
13638032 ATATTATATTTGTATCATATTATT
1 ATATTATTTTTATATCTTATTATT
13638056 ATATTATATTTTA-AT-TTATTA
1 ATATTAT-TTTTATATCTTATTA
13638077 AGTTTAATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 5 0.14
24 29 0.78
25 3 0.08
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (24 bp):
ATATTATTTTTATATCTTATTATT
Found at i:13638041 original size:13 final size:13
Alignment explanation
Indices: 13638012--13638067 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
13638002 TAAATCATAT
13638012 TATTTTTATATCT-
1 TATTTTTATAT-TA
13638025 TATTTTTATATTA
1 TATTTTTATATTA
* *
13638038 TA--TTTGTATCA
1 TATTTTTATATTA
*
13638049 TATTATTATATTA
1 TATTTTTATATTA
13638062 TATTTT
1 TATTTT
13638068 AATTTATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 9 0.26
12 1 0.03
13 24 0.71
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (13 bp):
TATTTTTATATTA
Found at i:13638486 original size:25 final size:23
Alignment explanation
Indices: 13638453--13638507 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
13638443 TAAATGTATA
*
13638453 AAAATAATATAATTTAAAATTTTAAC
1 AAAATAATATAA-ATAAAA--TTAAC
13638479 AAAA-AATATAAATAAAATTAAC
1 AAAATAATATAAATAAAATTAAC
13638501 AAAATAA
1 AAAATAA
13638508 AAAATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 9 0.33
23 2 0.07
24 5 0.19
25 7 0.26
26 4 0.15
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAATAATATAAATAAAATTAAC
Found at i:13640068 original size:25 final size:24
Alignment explanation
Indices: 13640010--13640069 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
13640000 TTTAATTTTA
* *
13640010 TTAATTGATTTTTAAATTTAAAAT
1 TTAATTTATTTTTAAATATAAAAT
* *
13640034 TT-TTTATATTATTTTAATATAAAAT
1 TTAATT-TATT-TTTAAATATAAAAT
13640059 TTAATTTATTT
1 TTAATTTATTT
13640070 AAATAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
23 2 0.07
24 6 0.21
25 18 0.64
26 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTAATTTATTTTTAAATATAAAAT
Found at i:13647573 original size:15 final size:15
Alignment explanation
Indices: 13647553--13647583 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13647543 AAGAAAAGAA
13647553 AACAAAGACCAACAG
1 AACAAAGACCAACAG
13647568 AACAAAGACCAACAG
1 AACAAAGACCAACAG
13647583 A
1 A
13647584 TCTAATCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.26, G:0.13, T:0.00
Consensus pattern (15 bp):
AACAAAGACCAACAG
Found at i:13657077 original size:2 final size:2
Alignment explanation
Indices: 13657070--13657112 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
13657060 CAAAAGGGAC
13657070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13657112 A
1 A
13657113 ACACGATGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13659587 original size:61 final size:63
Alignment explanation
Indices: 13659522--13659643 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
13659512 TTATAGCAAG
*
13659522 TTTATGCTAAATCT-A-ACATATATGAAAGATCCAGTAAATTATTGAAATGAAAGCTTGTTTA
1 TTTATGCTAAATCTAATACATATATGAAAGATCCAGTAAATTATTAAAATGAAAGCTTGTTTA
* * *
13659583 TTTATGCTAAATCTAATATATATATGAAAGGTCCCGTAAATTATTAAAATGAAAGCTTGTT
1 TTTATGCTAAATCTAATACATATATGAAAGATCCAGTAAATTATTAAAATGAAAGCTTGTT
13659644 GTTCATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 14 0.25
62 1 0.02
63 40 0.73
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (63 bp):
TTTATGCTAAATCTAATACATATATGAAAGATCCAGTAAATTATTAAAATGAAAGCTTGTTTA
Found at i:13661802 original size:8 final size:7
Alignment explanation
Indices: 13661789--13661852 Score: 56
Period size: 7 Copynumber: 8.0 Consensus size: 7
13661779 TTGCATACAT
13661789 ATAAAATA
1 ATAAAA-A
13661797 ATAAAAA
1 ATAAAAA
13661804 ATAAAAA
1 ATAAAAA
13661811 ATATATATAA
1 ATA-A-A-AA
13661821 ATAAAAAA
1 AT-AAAAA
13661829 ATAAAAA
1 ATAAAAA
13661836 TTATATAAAA
1 --ATA-AAAA
13661846 ATAAAAA
1 ATAAAAA
13661853 TCAAGTTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
7 20 0.41
8 14 0.29
9 5 0.10
10 9 0.18
11 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
ATAAAAA
Found at i:13661813 original size:17 final size:17
Alignment explanation
Indices: 13661791--13661849 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
13661781 GCATACATAT
13661791 AAAATAATAAAAAATAA
1 AAAATAATAAAAAATAA
*
13661808 AAAAT-ATATATAAAT-A
1 AAAATAATA-AAAAATAA
13661824 AAAA-AATAAAAATTATATA
1 AAAATAATAAAAA--ATA-A
13661843 AAAATAA
1 AAAATAA
13661850 AAATCAAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
15 3 0.09
16 11 0.33
17 12 0.36
19 5 0.15
20 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAATAAAAAATAA
Found at i:13661833 original size:25 final size:25
Alignment explanation
Indices: 13661787--13661852 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
13661777 TTTTGCATAC
13661787 ATATA-AAATAAT-AAAAAATAAAAA
1 ATATATAAA-AATAAAAAAATAAAAA
*
13661811 ATATATATAAATAAAAAAATAAAAA
1 ATATATAAAAATAAAAAAATAAAAA
*
13661836 TTATATAAAAATAAAAA
1 ATATATAAAAATAAAAA
13661853 TCAAGTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 8 0.22
25 29 0.78
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (25 bp):
ATATATAAAAATAAAAAAATAAAAA
Found at i:13661914 original size:2 final size:2
Alignment explanation
Indices: 13661909--13661975 Score: 81
Period size: 2 Copynumber: 35.5 Consensus size: 2
13661899 CGAATTAATT
*
13661909 TA TA TA TA -A T- TCA TA T- TA TA TA TA AA TA -A TA -A TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13661947 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13661976 CCGAATGAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
1 5 0.09
2 51 0.89
3 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13664044 original size:24 final size:23
Alignment explanation
Indices: 13663996--13664051 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
13663986 TACATATAAA
*
13663996 ATATTTTTATTATTTATTTAATTT
1 ATATTTATATTATTTATTT-ATTT
13664020 ATATTTATATATATTTAATTT-TTT
1 ATATTTATAT-TATTT-ATTTATTT
13664044 ATATTTAT
1 ATATTTAT
13664052 TTAAAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 20 0.69
25 5 0.17
26 4 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
ATATTTATATTATTTATTTATTT
Found at i:13664070 original size:18 final size:17
Alignment explanation
Indices: 13664049--13664099 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 17
13664039 TTTTTATATT
13664049 TATTTAAAATTATATTTA
1 TATTTAAAATTAT-TTTA
* *
13664067 TATTAAAAAATATTTTA
1 TATTTAAAATTATTTTA
13664084 TA-TTAAAATT-TTTTA
1 TATTTAAAATTATTTTA
13664099 T
1 T
13664100 TAATTTCAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 6 0.21
16 6 0.21
17 6 0.21
18 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTAAAATTATTTTA
Found at i:13664074 original size:17 final size:17
Alignment explanation
Indices: 13664042--13664093 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
13664032 ATTTAATTTT
13664042 TTATATTTAT-TTAAAA
1 TTATATTTATATTAAAA
13664058 TTATATTTATATTAAAA
1 TTATATTTATATTAAAA
*
13664075 -AATATTTTATATTAAAA
1 TTATA-TTTATATTAAAA
13664092 TT
1 TT
13664094 TTTTATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 13 0.42
17 18 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATATTTATATTAAAA
Found at i:13664083 original size:39 final size:39
Alignment explanation
Indices: 13663989--13664087 Score: 112
Period size: 39 Copynumber: 2.5 Consensus size: 39
13663979 AACCTTGTAC
* *
13663989 ATATAAAATAT-TTTTATTATTTATTTAATTTATATTTAT
1 ATATAAAAAATATTTTA-TATTTATTTAAATTATATTTAT
*** *
13664028 ATATATTTAATTTTTTATATTTATTTAAAATTATATTTAT
1 ATATAAAAAATATTTTATATTTATTT-AAATTATATTTAT
13664068 AT-TAAAAAATATTTTATATT
1 ATATAAAAAATATTTTATATT
13664088 AAAATTTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 30 0.61
40 19 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (39 bp):
ATATAAAAAATATTTTATATTTATTTAAATTATATTTAT
Found at i:13664097 original size:15 final size:15
Alignment explanation
Indices: 13664047--13664099 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
13664037 ATTTTTTATA
13664047 TTTAT-TTAAAATTAT
1 TTTATATTAAAATT-T
*
13664062 ATTTATATTAAAAAATAT
1 -TTTATATT--AAAATTT
13664080 TTTATATTAAAATTT
1 TTTATATTAAAATTT
13664095 TTTAT
1 TTTAT
13664100 TAATTTCAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 11 0.34
16 5 0.16
17 10 0.31
18 1 0.03
19 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATATTAAAATTT
Found at i:13664100 original size:13 final size:15
Alignment explanation
Indices: 13664047--13664102 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 15
13664037 ATTTTTTATA
13664047 TTTAT-TTAAAATTAT
1 TTTATATTAAAA-TAT
13664062 ATTTATATTAAAAAATAT
1 -TTTATATT--AAAATAT
13664080 TTTATATTAAAAT-T
1 TTTATATTAAAATAT
13664094 TTT-TATTAA
1 TTTATATTAA
13664103 TTTCAGGTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.16
14 4 0.11
15 5 0.14
16 5 0.14
17 10 0.27
18 3 0.08
19 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATTAAAATAT
Found at i:13667612 original size:18 final size:18
Alignment explanation
Indices: 13667577--13667613 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13667567 CTCTTTCATA
*
13667577 TATTTCCTTGTGTAAAGT
1 TATTTCCTTGTATAAAGT
*
13667595 TATTTCCTTGTATCAAGT
1 TATTTCCTTGTATAAAGT
13667613 T
1 T
13667614 GATCAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTTCCTTGTATAAAGT
Found at i:13680735 original size:2 final size:2
Alignment explanation
Indices: 13680728--13680758 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13680718 CAAAAGGGAC
13680728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13680759 AAACACGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13683081 original size:61 final size:63
Alignment explanation
Indices: 13683015--13683136 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
13683005 TTATAGCAAG
*
13683015 TTTATGCTAAATCT-A-ACATATATGAAAGATCCAGTAAATTATTGAAATGAAAGCTTGTTTA
1 TTTATGCTAAATCTAATACATATATGAAAGATCCAGTAAATTATTAAAATGAAAGCTTGTTTA
* * *
13683076 TTTATGCTAAATCTAATATATATATGAAAGGTCCCGTAAATTATTAAAATGAAAGCTTGTT
1 TTTATGCTAAATCTAATACATATATGAAAGATCCAGTAAATTATTAAAATGAAAGCTTGTT
13683137 GTTCATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 14 0.25
62 1 0.02
63 40 0.73
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (63 bp):
TTTATGCTAAATCTAATACATATATGAAAGATCCAGTAAATTATTAAAATGAAAGCTTGTTTA
Found at i:13685322 original size:26 final size:26
Alignment explanation
Indices: 13685275--13685346 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 26
13685265 TCAATTTGCA
13685275 TATATATATAAAATAATTAAAAATAAAAAT
1 TATATATAT-AAAT-A--AAAAATAAAAAT
13685305 TATATATATAAATAAAAAATAAAAAT
1 TATATATATAAATAAAAAATAAAAAT
13685331 TATATA-A-AAATAAAAA
1 TATATATATAAATAAAAA
13685347 TCAAGTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.21
25 1 0.02
26 18 0.43
28 1 0.02
29 4 0.10
30 9 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
TATATATATAAATAAAAAATAAAAAT
Found at i:13691055 original size:18 final size:18
Alignment explanation
Indices: 13691032--13691068 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13691022 TTCTTTCATA
13691032 TATTTCCTTGTATAAAGT
1 TATTTCCTTGTATAAAGT
*
13691050 TATTTCCTTGTATCAAGT
1 TATTTCCTTGTATAAAGT
13691068 T
1 T
13691069 GATCAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (18 bp):
TATTTCCTTGTATAAAGT
Found at i:13694106 original size:2 final size:2
Alignment explanation
Indices: 13694094--13694131 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
13694084 TCATTAACTG
*
13694094 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13694132 CATTTATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13694436 original size:18 final size:18
Alignment explanation
Indices: 13694415--13694449 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13694405 TTTAAATGAA
*
13694415 TTTTTTATTATTAGACTT
1 TTTTTTATAATTAGACTT
13694433 TTTTTTATAATTAGACT
1 TTTTTTATAATTAGACT
13694450 AAAAAAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (18 bp):
TTTTTTATAATTAGACTT
Found at i:13695684 original size:22 final size:22
Alignment explanation
Indices: 13695659--13695714 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
13695649 TATCAATTAA
*
13695659 TTACTATTAAACTGA-AACTGAT
1 TTACTATTAAA-TGATAACTAAT
* *
13695681 TTACTATTAAATTATCACTAAT
1 TTACTATTAAATGATAACTAAT
13695703 TTACTATTAAAT
1 TTACTATTAAAT
13695715 TATCATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (22 bp):
TTACTATTAAATGATAACTAAT
Found at i:13695715 original size:22 final size:22
Alignment explanation
Indices: 13695679--13695770 Score: 94
Period size: 22 Copynumber: 4.2 Consensus size: 22
13695669 ACTGAAACTG
13695679 ATTTACTATTAAATTATCACTA
1 ATTTACTATTAAATTATCACTA
* *
13695701 ATTTACTATTAAATTATCATTT
1 ATTTACTATTAAATTATCACTA
* * * *
13695723 ATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAATTATCACTA
* * * *
13695745 ATTAACTATTAATTTGTCACTT
1 ATTTACTATTAAATTATCACTA
13695767 ATTT
1 ATTT
13695771 TTTGTTAAGT
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAATTATCACTA
Found at i:13695780 original size:44 final size:44
Alignment explanation
Indices: 13695649--13695783 Score: 121
Period size: 44 Copynumber: 3.1 Consensus size: 44
13695639 TAATAACTAC
* * * * *
13695649 TATCAATTAATT-ACTATTAAACTGA-AACTGATTTACTATTAAAT
1 TATCAA-TAATTAACTATTAAA-TTATCACTTATTTATTATTAAGT
* * * *
13695693 TATCACTAATTTACTATTAAATTATCATTTATTTATTACTAAGT
1 TATCAATAATTAACTATTAAATTATCACTTATTTATTATTAAGT
* * * *
13695737 TATCAATAATTAACTATTAATTTGTCACTTATTTTTTGTTAAGT
1 TATCAATAATTAACTATTAAATTATCACTTATTTATTATTAAGT
13695781 TAT
1 TAT
13695784 TCTTACTTTA
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
43 7 0.10
44 66 0.90
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.48
Consensus pattern (44 bp):
TATCAATAATTAACTATTAAATTATCACTTATTTATTATTAAGT
Found at i:13695857 original size:11 final size:10
Alignment explanation
Indices: 13695806--13695866 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 10
13695796 ACTGTTATAC
*
13695806 ATTTATAATT
1 ATTTATTATT
*
13695816 ATATTATAATT
1 AT-TTATTATT
13695827 GATTTAATTATGT
1 -ATTT-ATTAT-T
13695840 ATTTATTATT
1 ATTTATTATT
13695850 ATATTATTATT
1 AT-TTATTATT
13695861 GATTTA
1 -ATTTA
13695867 CTAAAAAGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
10 5 0.11
11 26 0.59
12 12 0.27
13 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (10 bp):
ATTTATTATT
Found at i:13695913 original size:22 final size:22
Alignment explanation
Indices: 13695888--13695944 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
13695878 TCAAGTATTA
*
13695888 ACTACTAAATTATTATTCATTT
1 ACTACTAAATTATTATTAATTT
*
13695910 ACTATTAAATTATTATTAATTT
1 ACTACTAAATTATTATTAATTT
*
13695932 ATTACTAAATTAT
1 ACTACTAAATTAT
13695945 CAATGATTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (22 bp):
ACTACTAAATTATTATTAATTT
Found at i:13695926 original size:11 final size:11
Alignment explanation
Indices: 13695893--13695944 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
13695883 TATTAACTAC
13695893 TAAATTATTAT
1 TAAATTATTAT
* * *
13695904 TCATTTACTAT
1 TAAATTATTAT
13695915 TAAATTATTAT
1 TAAATTATTAT
* *
13695926 TAATTTATTAC
1 TAAATTATTAT
13695937 TAAATTAT
1 TAAATTAT
13695945 CAATGATTAC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (11 bp):
TAAATTATTAT
Found at i:13696182 original size:47 final size:47
Alignment explanation
Indices: 13696131--13696363 Score: 153
Period size: 47 Copynumber: 4.8 Consensus size: 47
13696121 TTTAATCGTA
* *
13696131 GTTGAGAGATTTTTGAGATTCAATTTCAAAATCAATTGACATTTGAT
1 GTTGAGAGATTTTTGAGATTTAATTCCAAAATCAATTGACATTTGAT
* ** * * **
13696178 GTTGAGAGATTGTCAAGATTTAATTCCATAATCAATTCACATTAAAAT
1 GTTGAGAGATTTTTGAGATTTAATTCCAAAATCAATTGACATT-TGAT
* * * * *
13696226 GATAGAAATAGATTTTTGGGATTTAATTCCAGAATCAGTTGACATTTGAT
1 G-TTG--AGAGATTTTTGAGATTTAATTCCAAAATCAATTGACATTTGAT
* * * * *
13696276 GTGGAGAGA-TTGTCAGGATTTAATTCCATAATCAATTCACATTAAAATGAT
1 GTTGAGAGATTTTTGA-GATTTAATTCCAAAATCAATTGACATT----TGAT
* * * * * *
13696327 ATGGAGAGATTTTTGGGATTTGATTTCAAAATTAATT
1 GTTGAGAGATTTTTGAGATTTAATTCCAAAATCAATT
13696364 CTCATTAAGA
Statistics
Matches: 140, Mismatches: 36, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
46 3 0.02
47 64 0.46
48 3 0.02
49 4 0.03
50 3 0.02
51 60 0.43
52 3 0.02
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (47 bp):
GTTGAGAGATTTTTGAGATTTAATTCCAAAATCAATTGACATTTGAT
Found at i:13696252 original size:51 final size:50
Alignment explanation
Indices: 13696194--13696371 Score: 182
Period size: 51 Copynumber: 3.6 Consensus size: 50
13696184 AGATTGTCAA
* *
13696194 GATTTAATTCCATAATCAATTCACATTAAAATGATAGAAATAGATTTTTGG
1 GATTTAATTCCATAATCAATTCACATTAAAATGATAG-GAGAGATTTTTGG
* * * ** * **
13696245 GATTTAATTCCAGAATCAGTTGACATT-TGATG-T-GGAGAGATTGTCAG
1 GATTTAATTCCATAATCAATTCACATTAAAATGATAGGAGAGATTTTTGG
13696292 GATTTAATTCCATAATCAATTCACATTAAAATGATATGGAGAGATTTTTGG
1 GATTTAATTCCATAATCAATTCACATTAAAATGATA-GGAGAGATTTTTGG
* * * * *
13696343 GATTTGATTTCAAAATTAATTCTCATTAA
1 GATTTAATTCCATAATCAATTCACATTAA
13696372 GACGAAAATC
Statistics
Matches: 100, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
47 32 0.32
48 4 0.04
49 2 0.02
50 3 0.03
51 59 0.59
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (50 bp):
GATTTAATTCCATAATCAATTCACATTAAAATGATAGGAGAGATTTTTGG
Done.