Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 69 of 113
Found at i:16040813 original size:46 final size:46
Alignment explanation
Indices: 16040761--16040851 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
16040751 CAATTTCAGT
**
16040761 AACGTAATCGCATAAATCACTCACCAAAATTTCTTGCAAAATTTTC
1 AACGTAATCGCATAAATCAAGCACCAAAATTTCTTGCAAAATTTTC
* * *
16040807 AACGTAATTGCATAAATCAAGCACCAAAATTTTTTGCAACATTTT
1 AACGTAATCGCATAAATCAAGCACCAAAATTTCTTGCAAAATTTT
16040852 TTTCGAACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (46 bp):
AACGTAATCGCATAAATCAAGCACCAAAATTTCTTGCAAAATTTTC
Found at i:16041804 original size:69 final size:69
Alignment explanation
Indices: 16041729--16041858 Score: 188
Period size: 69 Copynumber: 1.9 Consensus size: 69
16041719 TTTATAGAGA
* * *
16041729 TGCAAGGTTCGTAAGGACTTTCAAATTTGCAAGAAAGAAAGATTCACAAGATTTCAAGTTTCACA
1 TGCAAGGTTCGCAAGGACTTTCAAATTCGCAAGAAAGAAAGATTCACAAGATTCCAAGTTTCACA
16041794 AAAG
66 AAAG
* * * * *
16041798 TGCAAGGTTTGCAAGGATTTTCAGATTCGTAAGAAAGAAAGATTCATAAGATTCCAAGTTT
1 TGCAAGGTTCGCAAGGACTTTCAAATTCGCAAGAAAGAAAGATTCACAAGATTCCAAGTTT
16041859 TGCAAATGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (69 bp):
TGCAAGGTTCGCAAGGACTTTCAAATTCGCAAGAAAGAAAGATTCACAAGATTCCAAGTTTCACA
AAAG
Found at i:16042165 original size:121 final size:121
Alignment explanation
Indices: 16041873--16042166 Score: 321
Period size: 121 Copynumber: 2.4 Consensus size: 121
16041863 AATGTTAGAA
** * * * * *
16041873 AAATGATCT-GAACTAAGCCAAGAT-TGGATGATCAGTACGAAACCATGAGTCAAAAAATAAAGT
1 AAATGATCTAG-ACTAAGCCAAGATCAAG-TGATCAGGATGAAACCACGAGTTAAAAAATAAAGC
* * * *
16041936 GACAATGACCAAGTCAAGGTAAAAGATAAATGATCGAGATGAAACTACGAGTCATAAG
64 GACAAGGACCAAGTCAAGGTAAAAGATAAATGACCGAGATAAAACCACGAGTCATAAG
* ** *
16041994 AAATGATCTGGACTAAGCCAAGATCAAGTGATCAGGATGAAATTACGAGTTAAAAAATAAAGCGG
1 AAATGATCTAGACTAAGCCAAGATCAAGTGATCAGGATGAAACCACGAGTTAAAAAATAAAGCGA
* * *
16042059 CCAGGACCGAGTCAAGGTCAAAA-ATAAATGACC-AGGATAAAACCATGAGTCATAAG
66 CAAGGACCAAGTCAAGGT-AAAAGATAAATGACCGA-GATAAAACCACGAGTCATAAG
*
16042115 AAATGATCTAGACTAAGCCAAGATCGAA-TGA-CTGGGATGAAACCACGAGTTA
1 AAATGATCTAGACTAAGCCAAGATC-AAGTGATC-AGGATGAAACCACGAGTTA
16042167 TAAGAAATGA
Statistics
Matches: 146, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
120 2 0.01
121 136 0.93
122 8 0.05
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (121 bp):
AAATGATCTAGACTAAGCCAAGATCAAGTGATCAGGATGAAACCACGAGTTAAAAAATAAAGCGA
CAAGGACCAAGTCAAGGTAAAAGATAAATGACCGAGATAAAACCACGAGTCATAAG
Found at i:16042203 original size:56 final size:56
Alignment explanation
Indices: 16042085--16042212 Score: 159
Period size: 56 Copynumber: 2.3 Consensus size: 56
16042075 GTCAAAAATA
* *
16042085 AATGACCAGGATAAAACCATGAGTCATAAGAAATGATCTAGACTAAGCCAAGATCG
1 AATGACTAGGATAAAACCACGAGTCATAAGAAATGATCTAGACTAAGCCAAGATCG
* * * * *
16042141 AATGACTGGGATGAAACCACGAGTTATAAGAAATGATCT-GAACTGAGCCAAGATTG
1 AATGACTAGGATAAAACCACGAGTCATAAGAAATGATCTAG-ACTAAGCCAAGATCG
**
16042197 CGTGACTAGGATAAAA
1 AATGACTAGGATAAAA
16042213 TTATGAGTCA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 1 0.02
56 59 0.98
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.20
Consensus pattern (56 bp):
AATGACTAGGATAAAACCACGAGTCATAAGAAATGATCTAGACTAAGCCAAGATCG
Found at i:16042228 original size:177 final size:177
Alignment explanation
Indices: 16041971--16042365 Score: 488
Period size: 177 Copynumber: 2.2 Consensus size: 177
16041961 ATAAATGATC
* * *
16041971 GAGATGAAACTACGAGTCATAAGAAATGATCTGGACTAAGCCAAGATCAAGTGATCAGGATGAAA
1 GAGATGAAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCAGGATAAAA
* * ** * *
16042036 TTACGAGTTAAAAAATAAAGCGGCCAGGACCGAGTCAAGGTCAAAAATAAATGACCAGGATAAAA
66 TTACGAGTCAAAAAATAAAGCGACCAAAACCAAGTCAAGGTCAAAAATAAATGACCAGGACAAAA
* * *
16042101 CCATGAGTCATAAGAAATGATCTAGACTAAGCCAAGATCGAA-TGACT
131 CCACGAATCATAAGAAATGATCTAGACTAAACCAAGATC-AAGTGACT
* * * ***
16042148 GGGATGAAACCACGAGTTATAAGAAATGATCTGAACTGAGCCAAGATTGCGTGA-CTAGGATAAA
1 GAGATGAAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATC-AGGATAAA
* * * * *
16042212 ATTATGAGTCAAAAAATGAAGCGACCAAAATCAAGTCAAGGTTAAAAATAAATGATCAGGACAAA
65 ATTACGAGTCAAAAAATAAAGCGACCAAAACCAAGTCAAGGTCAAAAATAAATGACCAGGACAAA
* * *
16042277 ATCACGAATCATATGAAATGATCTGGACTAAACCAAGATCAAGTGACT
130 ACCACGAATCATAAGAAATGATCTAGACTAAACCAAGATCAAGTGACT
* * *
16042325 GAAATGAAACCACGAGTCAAAATGAAATGATCAGGACTGAG
1 GAGATGAAACCACGAGTCATAA-GAAATGATCTGGACTGAG
16042366 TCTAGGTCGA
Statistics
Matches: 183, Mismatches: 32, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
176 3 0.02
177 164 0.90
178 16 0.09
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.19
Consensus pattern (177 bp):
GAGATGAAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCAGGATAAAA
TTACGAGTCAAAAAATAAAGCGACCAAAACCAAGTCAAGGTCAAAAATAAATGACCAGGACAAAA
CCACGAATCATAAGAAATGATCTAGACTAAACCAAGATCAAGTGACT
Found at i:16042468 original size:56 final size:56
Alignment explanation
Indices: 16042381--16042514 Score: 173
Period size: 56 Copynumber: 2.4 Consensus size: 56
16042371 GTCGAAAATA
* * * *
16042381 AATGATCGAAATAAAACCACGAGTCATAAGAAATGATATAGACTGAGCCAAGAT-C
1 AATGATCGAAATGAAACCATGAGTCATAAGAAATGATATAGACTAAGCCAAAATCC
* *
16042436 AGATGATCGAAATGAAACCATGAGTCATAAGAATTGATCTAGACTAAGCCAAAATCC
1 A-ATGATCGAAATGAAACCATGAGTCATAAGAAATGATATAGACTAAGCCAAAATCC
*
16042493 AATGATC-AGGATGAAACCATGA
1 AATGATCGA-AATGAAACCATGA
16042515 ATAAAAAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
55 2 0.03
56 65 0.94
57 2 0.03
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (56 bp):
AATGATCGAAATGAAACCATGAGTCATAAGAAATGATATAGACTAAGCCAAAATCC
Found at i:16043384 original size:24 final size:21
Alignment explanation
Indices: 16043364--16043456 Score: 87
Period size: 21 Copynumber: 4.4 Consensus size: 21
16043354 CCATTGTCTC
*
16043364 TTTTTATTTTTTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTGT
**
16043385 TTTTTTTTTTTTTTTTTTCCT
1 TTTTTTTTTTTTTTTTTTTGT
* *
16043406 TTTTTTCTTTTTCTTCTTTTGT
1 TTTTTT-TTTTTTTTTTTTTGT
** ** *
16043428 TTTTGCTTTTGCTTTTTTTCT
1 TTTTTTTTTTTTTTTTTTTGT
16043449 TTTTTTTT
1 TTTTTTTT
16043457 ACATTTTTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
21 42 0.74
22 15 0.26
ACGTcount: A:0.01, C:0.09, G:0.04, T:0.86
Consensus pattern (21 bp):
TTTTTTTTTTTTTTTTTTTGT
Found at i:16043387 original size:19 final size:18
Alignment explanation
Indices: 16043365--16043456 Score: 78
Period size: 20 Copynumber: 4.9 Consensus size: 18
16043355 CATTGTCTCT
16043365 TTTTATTTTTTTTTTTTTG
1 TTTT-TTTTTTTTTTTTTG
16043384 TTTTTTTTTTTTTTTTT-
1 TTTTTTTTTTTTTTTTTG
** * *
16043401 TTCCTTTTTTTCTTTTTC
1 TTTTTTTTTTTTTTTTTG
**
16043419 TTCTTTTGTTTTTGCTTTTG
1 TT-TTTT-TTTTTTTTTTTG
16043439 CTTTTTTTCTTTTTTTTT
1 -TTTTTTT-TTTTTTTTT
16043457 ACATTTTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
17 14 0.24
18 15 0.26
19 7 0.12
20 20 0.34
21 2 0.03
ACGTcount: A:0.01, C:0.09, G:0.04, T:0.86
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTTTG
Found at i:16043417 original size:35 final size:34
Alignment explanation
Indices: 16043370--16043456 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 34
16043360 TCTCTTTTTA
* * **
16043370 TTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTCC
1 TTTTTTTCTTTTT-TTTTTTTGTTTTTGCTTTTCC
* *
16043405 TTTTTTTCTTTTTCTTCTTTTGTTTTTGCTTTTGC
1 TTTTTTTCTTTTT-TTTTTTTGTTTTTGCTTTTCC
16043440 TTTTTTTCTTTTTTTTT
1 TTTTTTTCTTTTTTTTT
16043457 ACATTTTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 3 0.07
35 41 0.93
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (34 bp):
TTTTTTTCTTTTTTTTTTTTGTTTTTGCTTTTCC
Found at i:16043463 original size:20 final size:18
Alignment explanation
Indices: 16043364--16043478 Score: 96
Period size: 18 Copynumber: 6.4 Consensus size: 18
16043354 CCATTGTCTC
*
16043364 TTTTTATTTTTTT-TTTT
1 TTTTTCTTTTTTTCTTTT
16043381 TTGTTT-TTTTTTT-TTTT
1 TT-TTTCTTTTTTTCTTTT
16043398 TTTTTCCTTTTTTTC-TTT
1 TTTTT-CTTTTTTTCTTTT
* **
16043416 TTCTTCTTTTGTTT-TTGC
1 TTTTTCTTTT-TTTCTTTT
*
16043434 TTTTGCTTTTTTTCTTTT
1 TTTTTCTTTTTTTCTTTT
*
16043452 TTTTTACATTTTTTTCTTAT
1 TTTTT-C-TTTTTTTCTTTT
16043472 TTTTTCT
1 TTTTTCT
16043479 CTTTCTCCTT
Statistics
Matches: 80, Mismatches: 9, Indels: 17
0.75 0.08 0.16
Matches are distributed among these distances:
16 3 0.04
17 23 0.29
18 36 0.45
19 2 0.03
20 16 0.20
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTTTCTTTT
Found at i:16043474 original size:10 final size:9
Alignment explanation
Indices: 16043364--16043478 Score: 87
Period size: 9 Copynumber: 12.8 Consensus size: 9
16043354 CCATTGTCTC
*
16043364 TTTTTATTT
1 TTTTTCTTT
16043373 TTTTT-TTT
1 TTTTTCTTT
16043381 TTGTTT-TTT
1 TT-TTTCTTT
16043390 TTTTT-TTT
1 TTTTTCTTT
*
16043398 TTTTTCCTT
1 TTTTTCTTT
16043407 TTTTTCTTT
1 TTTTTCTTT
*
16043416 TTCTTCTTT
1 TTTTTCTTT
**
16043425 TGTTTT-TGC
1 T-TTTTCTTT
*
16043434 TTTTGC-TT
1 TTTTTCTTT
16043442 TTTTTCTTTT
1 TTTTTC-TTT
*
16043452 TTTTTACATT
1 TTTTT-CTTT
16043462 TTTTTCTTAT
1 TTTTTCTT-T
16043472 TTTTTCT
1 TTTTTCT
16043479 CTTTCTCCTT
Statistics
Matches: 86, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
8 24 0.28
9 36 0.42
10 25 0.29
11 1 0.01
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.83
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:16043476 original size:1 final size:1
Alignment explanation
Indices: 16043364--16043456 Score: 69
Period size: 1 Copynumber: 93.0 Consensus size: 1
16043354 CCATTGTCTC
* * ** * * * *
16043364 TTTTTATTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTCCTTTTTTTCTTTTTCTTCTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** *
16043429 TTTGCTTTTGCTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
16043457 ACATTTTTTT
Statistics
Matches: 70, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.01, C:0.09, G:0.04, T:0.86
Consensus pattern (1 bp):
T
Found at i:16043753 original size:13 final size:13
Alignment explanation
Indices: 16043730--16043776 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
16043720 CATTAAATTT
16043730 TTTTTTGTTTTTG
1 TTTTTTGTTTTTG
16043743 -TTTTTGTTTTTTG
1 TTTTTTG-TTTTTG
* *
16043756 CTTTTTTCTTTTTC
1 -TTTTTTGTTTTTG
16043770 TTTTTTG
1 TTTTTTG
16043777 GTGGAACACA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 6 0.21
13 12 0.43
14 5 0.18
15 5 0.18
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (13 bp):
TTTTTTGTTTTTG
Found at i:16050236 original size:20 final size:19
Alignment explanation
Indices: 16050200--16050283 Score: 71
Period size: 19 Copynumber: 4.2 Consensus size: 19
16050190 TGGACACACA
*
16050200 AAAGAAAAAGGAAAAAAGG
1 AAAGAAAAAGAAAAAAAGG
*
16050219 AAAGAAAAGAGAAAAAAAGA
1 AAAGAAAA-AGAAAAAAAGG
* *
16050239 AAAGCAAGAAG-AAAAAATG
1 AAAG-AAAAAGAAAAAAAGG
16050258 AAATGAAAGAAAAGAAAAAAAGG
1 AAA-G--A-AAAAGAAAAAAAGG
16050281 AAA
1 AAA
16050284 AAATCTTTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
19 17 0.33
20 16 0.31
21 4 0.08
22 4 0.08
23 10 0.20
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.02
Consensus pattern (19 bp):
AAAGAAAAAGAAAAAAAGG
Found at i:16050848 original size:14 final size:14
Alignment explanation
Indices: 16050797--16050858 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
16050787 GAAAAAAATT
16050797 AAAAAAATGAGAAAA
1 AAAAAAATG-GAAAA
*
16050812 TAAAAAGAATTAGGAAAC
1 -AAAAA-AA-T-GGAAAA
*
16050830 CAAAAAATGGAAAA
1 AAAAAAATGGAAAA
*
16050844 AAAAAAAGGGAAAA
1 AAAAAAATGGAAAA
16050858 A
1 A
16050859 TGAAAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
14 18 0.47
15 1 0.03
16 7 0.18
17 6 0.16
18 5 0.13
19 1 0.03
ACGTcount: A:0.73, C:0.03, G:0.16, T:0.08
Consensus pattern (14 bp):
AAAAAAATGGAAAA
Found at i:16050858 original size:22 final size:22
Alignment explanation
Indices: 16050831--16050889 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
16050821 TTAGGAAACC
16050831 AAAAAATGGAAAAAAAAAAAGG
1 AAAAAATGGAAAAAAAAAAAGG
* *
16050853 GAAAAATGAAAAAAAAAAAAGG
1 AAAAAATGGAAAAAAAAAAAGG
* *
16050875 AAAAAAAGGGAAAAA
1 AAAAAATGGAAAAAA
16050890 GGAAGAACAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (22 bp):
AAAAAATGGAAAAAAAAAAAGG
Found at i:16050866 original size:31 final size:30
Alignment explanation
Indices: 16050840--16050903 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
16050830 CAAAAAATGG
16050840 AAAA-AAAAAAAGGGAAAAATGAAAAAAAA
1 AAAAGAAAAAAAGGGAAAAATGAAAAAAAA
* * *
16050869 AAAAGGAAAAAAAGGGAAAAAGGAAGAACAA
1 AAAA-GAAAAAAAGGGAAAAATGAAAAAAAA
16050900 AAAA
1 AAAA
16050904 CAAATGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 4 0.13
31 26 0.87
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.02
Consensus pattern (30 bp):
AAAAGAAAAAAAGGGAAAAATGAAAAAAAA
Found at i:16051312 original size:15 final size:16
Alignment explanation
Indices: 16051281--16051322 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
16051271 ATAAAAACAG
16051281 ACAAAAAGAAAATGAA
1 ACAAAAAGAAAATGAA
* *
16051297 AGAAAAAGAAGA-GAA
1 ACAAAAAGAAAATGAA
16051312 ACAAAAA-AAAA
1 ACAAAAAGAAAA
16051323 AGATGAATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 3 0.14
15 9 0.41
16 10 0.45
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (16 bp):
ACAAAAAGAAAATGAA
Found at i:16052541 original size:32 final size:32
Alignment explanation
Indices: 16052504--16052564 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
16052494 TTGTATGAAA
*
16052504 CATTTGCATCAGGGAA-AAGACATTTGCATTTG
1 CATTTGCATC-GGAAAGAAGACATTTGCATTTG
*
16052536 CATTTGCATCTGAAAGAAGACATTTGCAT
1 CATTTGCATCGGAAAGAAGACATTTGCAT
16052565 ATTCACATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 3 0.12
32 23 0.88
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (32 bp):
CATTTGCATCGGAAAGAAGACATTTGCATTTG
Found at i:16057783 original size:15 final size:15
Alignment explanation
Indices: 16057763--16057792 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16057753 AATGAGCTTC
16057763 AAAATATCAAAAATA
1 AAAATATCAAAAATA
*
16057778 AAAATATTAAAAATA
1 AAAATATCAAAAATA
16057793 TTAAGCTCTG
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:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATCAAAAATA
Found at i:16059993 original size:16 final size:16
Alignment explanation
Indices: 16059974--16060004 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16059964 ATAACATATC
16059974 TTTAACAATTGGTATT
1 TTTAACAATTGGTATT
16059990 TTTAACAATTGGTAT
1 TTTAACAATTGGTAT
16060005 GAGCTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (16 bp):
TTTAACAATTGGTATT
Found at i:16065875 original size:98 final size:98
Alignment explanation
Indices: 16065697--16065887 Score: 265
Period size: 98 Copynumber: 1.9 Consensus size: 98
16065687 CTTGATTATG
* * * * * *
16065697 ATTTAGTACTTGGTTGAAATTTTAGAATTTTGTCAAGAAAATTATAAAATTAATTTGATTTTTAT
1 ATTTAGTACTTGGTTGAAAATTTAAAATTTTATCAAAAAAATTATAAAATTAATTTGACTTATAT
16065762 TAAGTAAACATGATTGTGATTTAAAATTATAAA
66 TAAGTAAACATGATTGTGATTTAAAATTATAAA
* * * *
16065795 ATTTGGTATTTGGTTGAAAATTTAAAATTTTATCAAAAAAATTATAAAATTTATTTTACTTATAT
1 ATTTAGTACTTGGTTGAAAATTTAAAATTTTATCAAAAAAATTATAAAATTAATTTGACTTATAT
* * *
16065860 TAATTAAATATGATTGTGATTTCAAATT
66 TAAGTAAACATGATTGTGATTTAAAATT
16065888 TATTATAAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
98 80 1.00
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (98 bp):
ATTTAGTACTTGGTTGAAAATTTAAAATTTTATCAAAAAAATTATAAAATTAATTTGACTTATAT
TAAGTAAACATGATTGTGATTTAAAATTATAAA
Found at i:16067206 original size:5 final size:5
Alignment explanation
Indices: 16067196--16067239 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
16067186 AAATGTTAAT
* * *
16067196 AAAGG AAAGG AAAGA AAAAG AAAGG AAAGG AAAGG AAAAG AAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
16067240 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:16067221 original size:20 final size:20
Alignment explanation
Indices: 16067196--16067239 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
16067186 AAATGTTAAT
16067196 AAAGGAAAGGAAAGAAAAAG
1 AAAGGAAAGGAAAGAAAAAG
*
16067216 AAAGGAAAGGAAAGGAAAAG
1 AAAGGAAAGGAAAGAAAAAG
16067236 AAAG
1 AAAG
16067240 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
AAAGGAAAGGAAAGAAAAAG
Found at i:16068372 original size:17 final size:17
Alignment explanation
Indices: 16068352--16068392 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
16068342 TTTCAAATTG
16068352 AAATATTAAAAAAATAA
1 AAATATTAAAAAAATAA
16068369 AAAT-TATAAAAAAATAA
1 AAATAT-TAAAAAAATAA
16068386 AAA-ATTA
1 AAATATTA
16068393 TTGAGAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATATTAAAAAAATAA
Found at i:16068382 original size:18 final size:18
Alignment explanation
Indices: 16068358--16068393 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
16068348 ATTGAAATAT
16068358 TAAAAAAAT-AAAAATTA
1 TAAAAAAATAAAAAATTA
16068375 TAAAAAAATAAAAAATTA
1 TAAAAAAATAAAAAATTA
16068393 T
1 T
16068394 TGAGAACCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAAAATAAAAAATTA
Found at i:16078077 original size:114 final size:112
Alignment explanation
Indices: 16077874--16078106 Score: 351
Period size: 114 Copynumber: 2.1 Consensus size: 112
16077864 GTTAGGAGCT
* * * * *
16077874 TAAAACAGAATTTAAGTTTTGAGTACAAGCACGAGATTTTAGATCCTATGTTTTTTTATCATTAA
1 TAAACCAGAATTTAAGTTTTGAGTACAAGCAAGAGAATTCAGATCCTATGTTTTTTTATCAGTAA
* *
16077939 AATTTAATTTAGAACTAATCTAAACAGATGCAGTTTTCCTGCTAATA
66 AACTTAATTTAGAACTAATCTAAACAGATGAAGTTTTCCTGCTAATA
*
16077986 TAAACCAGAATTTAAGTTTTTGAGTACAA-CATAAGTGAATTCAGATCCTATGTTTTTTTATCAG
1 TAAACCAGAATTTAAG-TTTTGAGTACAAGC--AAGAGAATTCAGATCCTATGTTTTTTTATCAG
*
16078050 TAAAACTTAATTTAGAACTAATCTAAACAGATGAAGTTTTCCTGTTAATA
63 TAAAACTTAATTTAGAACTAATCTAAACAGATGAAGTTTTCCTGCTAATA
16078100 TAAACCA
1 TAAACCA
16078107 TGATTATGTC
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
112 16 0.15
113 12 0.11
114 81 0.74
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (112 bp):
TAAACCAGAATTTAAGTTTTGAGTACAAGCAAGAGAATTCAGATCCTATGTTTTTTTATCAGTAA
AACTTAATTTAGAACTAATCTAAACAGATGAAGTTTTCCTGCTAATA
Found at i:16080486 original size:1 final size:1
Alignment explanation
Indices: 16080480--16080509 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
16080470 TTTGTCAAGC
*
16080480 AAAAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16080510 TGCATATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:16083946 original size:22 final size:22
Alignment explanation
Indices: 16083919--16083966 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
16083909 TTTATACAAT
*
16083919 TAATTTTAAA-TTTAATATTTAA
1 TAATTTTAAATTTTAACATTT-A
16083941 TAATTTTAAATTTTAACATTTA
1 TAATTTTAAATTTTAACATTTA
16083963 TAAT
1 TAAT
16083967 CTTTTCTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATTTTAAATTTTAACATTTA
Found at i:16085306 original size:18 final size:18
Alignment explanation
Indices: 16085270--16085305 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16085260 TTTTTACGAG
*
16085270 TAATTGAATAATATATTT
1 TAATTCAATAATATATTT
16085288 TAATTCAATAATAT-TTT
1 TAATTCAATAATATATTT
16085305 T
1 T
16085306 TTGAAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TAATTCAATAATATATTT
Found at i:16086230 original size:21 final size:21
Alignment explanation
Indices: 16086191--16086231 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16086181 CTGATCCATT
* * *
16086191 TCCAAAGATACTTATATACTC
1 TCCAAAGACACATACATACTC
16086212 TCCAAAGACACATACATACT
1 TCCAAAGACACATACATACT
16086232 TTCTTTTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (21 bp):
TCCAAAGACACATACATACTC
Found at i:16087601 original size:108 final size:109
Alignment explanation
Indices: 16087464--16087747 Score: 295
Period size: 113 Copynumber: 2.6 Consensus size: 109
16087454 ATTATTATAA
* * * * *
16087464 AAAGAAGACGGTTGTTTATAAAAACTGTCATCTATTCTATAAAAAGATGATATTTGTTTATAACA
1 AAAGAAGATGATTG-TTATAAAAATTGTCATCTATTCCATAAAAAGATAAT-TTTGTTTATAACA
*
16087529 ATCATCATCTATTCCAT-AAAAAA-TAGCATATGCATGATTTAGTT
64 ACCATCATCTATTCCATAAAAAAAGTAGCATATGCATGATTTAGTT
* * *
16087573 AAAGAAGATGATTGTTATAACAATTGTCATCTATTCCATAAAAAAATAATGGTTGTTTATAACAA
1 AAAGAAGATGATTGTTATAAAAATTGTCATCTATTCCATAAAAAGATAAT-TTTGTTTATAACAA
* * * * *
16087638 CCTTCGTCTATTCTATAAAAAAAAAAGTAGTATGTGCATGATTTAGTT
65 CCATCATCTATTCCAT---AAAAAAAGTAGCATATGCATGATTTAGTT
* * ** * *
16087686 AAACATA-ATGATTGTTATAATAATCATCATTTATTCCATAAAAAGATTATTGTTGTTTATAA
1 AAAGA-AGATGATTGTTATAAAAATTGTCATCTATTCCATAAAAAGATAATT-TTGTTTATAA
16087748 AAATTCTCAC
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
108 56 0.39
109 12 0.08
112 6 0.04
113 70 0.48
114 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (109 bp):
AAAGAAGATGATTGTTATAAAAATTGTCATCTATTCCATAAAAAGATAATTTTGTTTATAACAAC
CATCATCTATTCCATAAAAAAAGTAGCATATGCATGATTTAGTT
Found at i:16089145 original size:15 final size:15
Alignment explanation
Indices: 16089127--16089156 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16089117 TAGACAAAAT
*
16089127 TTAAATCAAAATAAA
1 TTAAATAAAAATAAA
16089142 TTAAATAAAAATAAA
1 TTAAATAAAAATAAA
16089157 AATAAAGTTA
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:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
TTAAATAAAAATAAA
Found at i:16089405 original size:46 final size:47
Alignment explanation
Indices: 16089338--16089428 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 47
16089328 ATCCCAAAAT
* *
16089338 GGTGCCATTTGGTTATGGGTATATAAAACTAAAATTT-CTTTTTTAC
1 GGTGCCATTTGGTTATAGGTATATAAAACCAAAATTTCCTTTTTTAC
* *
16089384 GGTGCCATTTGGTTATAGGTATATAAAGCCCAAATTTCCTTTTTT
1 GGTGCCATTTGGTTATAGGTATATAAAACCAAAATTTCCTTTTTT
16089429 TGCTCAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 33 0.82
47 7 0.17
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (47 bp):
GGTGCCATTTGGTTATAGGTATATAAAACCAAAATTTCCTTTTTTAC
Found at i:16090706 original size:18 final size:18
Alignment explanation
Indices: 16090651--16090707 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
16090641 ATTCCAAAAC
*
16090651 TCTAAGATTCACAAAAGAT
1 TCTAAAATTCAC-AAAGAT
* ** *
16090670 TCAAAAATTCGTAATGAT
1 TCTAAAATTCACAAAGAT
16090688 TCTAAAATTCACAAAGAT
1 TCTAAAATTCACAAAGAT
16090706 TC
1 TC
16090708 AAGATTTGTA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.30
Consensus pattern (18 bp):
TCTAAAATTCACAAAGAT
Found at i:16090761 original size:18 final size:18
Alignment explanation
Indices: 16090699--16090763 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
16090689 CTAAAATTCA
*
16090699 CAAAGATT-CAAGATTTG
1 CAAAGATTCCAAGTTTTG
* * * *
16090716 TAAAGGTTCTAGGTTTTG
1 CAAAGATTCCAAGTTTTG
16090734 CAAA-ATTTCCAAGTTTTG
1 CAAAGA-TTCCAAGTTTTG
16090752 CAAAGATTCCAA
1 CAAAGATTCCAA
16090764 AAGTTCATAA
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
17 6 0.17
18 29 0.81
19 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (18 bp):
CAAAGATTCCAAGTTTTG
Found at i:16090795 original size:17 final size:18
Alignment explanation
Indices: 16090773--16090806 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16090763 AAAGTTCATA
16090773 AATGATT-CAAGATTCTC
1 AATGATTCCAAGATTCTC
16090790 AATGATTCCAAGATTCT
1 AATGATTCCAAGATTCT
16090807 TAAAGGTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (18 bp):
AATGATTCCAAGATTCTC
Found at i:16090819 original size:18 final size:18
Alignment explanation
Indices: 16090778--16090966 Score: 75
Period size: 18 Copynumber: 10.6 Consensus size: 18
16090768 TCATAAATGA
*
16090778 TTCAAGATTCTCAATGAT
1 TTCAAGATTCTCAAAGAT
* * *
16090796 TCCAAGATTCTTAAAGGT
1 TTCAAGATTCTCAAAGAT
* *
16090814 TTCAAGATTCACAAA-AG
1 TTCAAGATTCTCAAAGAT
* *
16090831 TTCTAAGATTCACAAA-AA
1 TTC-AAGATTCTCAAAGAT
* * *
16090849 ATCTAAGATT-TGTAAAAAT
1 TTC-AAGATTCT-CAAAGAT
* *
16090868 TTCAAGATTCTCAGAGGT
1 TTCAAGATTCTCAAAGAT
* ** *
16090886 TCCAAGATTCAAAAAGAC
1 TTCAAGATTCTCAAAGAT
* * *
16090904 TCCAATATT-TGTAAAGAT
1 TTCAAGATTCT-CAAAGAT
* * *
16090922 TTC-ATATTCGCAAAGAC
1 TTCAAGATTCTCAAAGAT
*
16090939 TTCAAGATTCACAAAGA-
1 TTCAAGATTCTCAAAGAT
16090956 TTCAAAGATTC
1 TTC-AAGATTC
16090967 GTAAGAATTT
Statistics
Matches: 128, Mismatches: 35, Indels: 16
0.72 0.20 0.09
Matches are distributed among these distances:
17 19 0.15
18 105 0.82
19 4 0.03
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (18 bp):
TTCAAGATTCTCAAAGAT
Found at i:16090871 original size:54 final size:52
Alignment explanation
Indices: 16090813--16090983 Score: 146
Period size: 54 Copynumber: 3.2 Consensus size: 52
16090803 TTCTTAAAGG
*
16090813 TTTCAAGATTCACAAAAGTTCTAAGATTCACAAAAAATCTAAGATTTGTAAAAA
1 TTTC-AGATTCACAAAAGTTC-AAGATTCACAAAAAATCAAAGATTTGTAAAAA
* * * * * * *
16090867 TTTCAAGATTCTCAGAGGTTCCAAGATTCA-AAAAGACTCCAATATTTGTAAAGA
1 TTTC-AGATTCACAAAAGTT-CAAGATTCACAAAA-AATCAAAGATTTGTAAAAA
* * * * * * *
16090921 TTTCATATTCGCAAAGACTTCAAGATTCACAAAGATTCAAAGATTCGTAAGAA
1 TTTCAGATTCACAAA-AGTTCAAGATTCACAAAAAATCAAAGATTTGTAAAAA
16090974 TTTCAGATTC
1 TTTCAGATTC
16090984 GTATGAATTT
Statistics
Matches: 93, Mismatches: 20, Indels: 9
0.76 0.16 0.07
Matches are distributed among these distances:
53 43 0.46
54 49 0.53
55 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (52 bp):
TTTCAGATTCACAAAAGTTCAAGATTCACAAAAAATCAAAGATTTGTAAAAA
Found at i:16090981 original size:17 final size:17
Alignment explanation
Indices: 16090969--16091051 Score: 87
Period size: 17 Copynumber: 4.9 Consensus size: 17
16090959 AAAGATTCGT
* *
16090969 AAGAATTTCAGATTCGT
1 AAGAATTTCAGATTTGC
* *
16090986 ATGAATTTTA-ATTTTGC
1 AAGAATTTCAGA-TTTGC
*
16091003 AAAAATTTCAGATTTGC
1 AAGAATTTCAGATTTGC
*
16091020 AAGACTTTCAGATTTGC
1 AAGAATTTCAGATTTGC
*
16091037 AAGACTTTCAGATTT
1 AAGAATTTCAGATTT
16091052 ACAAAAATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
16 1 0.02
17 53 0.96
18 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (17 bp):
AAGAATTTCAGATTTGC
Found at i:16091384 original size:46 final size:46
Alignment explanation
Indices: 16091315--16091507 Score: 165
Period size: 46 Copynumber: 4.2 Consensus size: 46
16091305 TTTTCATTTG
* * *
16091315 AAAAAC-TTAGGGATTCACATCCAAATTTTCAAATATTCACATTAA
1 AAAAACTTTAGGGTTTCACATCCAAAATTTCAAAAATTCACATTAA
* * ** ** *
16091360 AAAAACTTTAGTGTTTGACATCCAAAATTTCAAAGGTTCTTATTCA
1 AAAAACTTTAGGGTTTCACATCCAAAATTTCAAAAATTCACATTAA
* **
16091406 AAAAAGTTTAGGGTTTCACATCCAAAATTTCAAAAATTCACATTTG
1 AAAAACTTTAGGGTTTCACATCCAAAATTTCAAAAATTCACATTAA
* * *** * * **
16091452 ACAAATTTTAGAAATTCACAAT-CAAAATTTTAAAAATTCTCATTTG
1 AAAAACTTTAGGGTTTCAC-ATCCAAAATTTCAAAAATTCACATTAA
16091498 AAAAACTTTA
1 AAAAACTTTA
16091508 ATGATTATGC
Statistics
Matches: 119, Mismatches: 27, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
45 6 0.05
46 111 0.93
47 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (46 bp):
AAAAACTTTAGGGTTTCACATCCAAAATTTCAAAAATTCACATTAA
Found at i:16091445 original size:22 final size:21
Alignment explanation
Indices: 16091420--16091490 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 21
16091410 AGTTTAGGGT
*
16091420 TTCACATCCAAAATTTCAAAAA
1 TTCACAT-CAAAATTTTAAAAA
* *
16091442 TTCACATTTGACAAATTTTAGAAA
1 TTCACA--TCA-AAATTTTAAAAA
16091466 TTCACAATCAAAATTTTAAAAA
1 TTCAC-ATCAAAATTTTAAAAA
16091488 TTC
1 TTC
16091491 TCATTTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
22 20 0.50
23 3 0.08
24 16 0.40
25 1 0.03
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (21 bp):
TTCACATCAAAATTTTAAAAA
Found at i:16091466 original size:24 final size:23
Alignment explanation
Indices: 16091429--16091501 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 23
16091419 TTTCACATCC
*
16091429 AAAATTTCAAAAATTCACATTTG
1 AAAATTTTAAAAATTCACATTTG
* * *
16091452 ACAAATTTTAGAAATTCACA-ATC
1 A-AAATTTTAAAAATTCACATTTG
*
16091475 AAAATTTTAAAAATTCTCATTTG
1 AAAATTTTAAAAATTCACATTTG
16091498 AAAA
1 AAAA
16091502 ACTTTAATGA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 16 0.40
23 8 0.20
24 16 0.40
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.34
Consensus pattern (23 bp):
AAAATTTTAAAAATTCACATTTG
Found at i:16091502 original size:92 final size:91
Alignment explanation
Indices: 16091253--16091507 Score: 228
Period size: 92 Copynumber: 2.8 Consensus size: 91
16091243 ACATACAGAA
* * * * ** * *
16091253 TTCAAAGATTCTCATT-CAAAAATTCTAGAAATTCACACCCAAAAGTTT-AAGATTTTCATTTGA
1 TTCAAAAATTCACATTAAAAAAATTTTAGAAATTCACAATCAAAATTTTAAAGATTCTCATTTGA
* *
16091316 AAAACTTAGGGATTCACATCCAAATT
66 AAAATTTAGGGATTCACATCCAAAAT
* * *** * * * * **
16091342 TTCAAATATTCACATTAAAAAAACTTTAGTGTTTGAC-ATCCAAAATTTCAAAGGTTCTTATTCA
1 TTCAAAAATTCACATTAAAAAAATTTTAGAAATTCACAAT-CAAAATTTTAAAGATTCTCATTTG
*
16091406 AAAAAGTTTAGGGTTTCACATCCAAAAT
65 AAAAA-TTTAGGGATTCACATCCAAAAT
** * *
16091434 TTCAAAAATTCACATTTGACAAATTTTAGAAATTCACAATCAAAATTTTAAAAATTCTCATTTGA
1 TTCAAAAATTCACATTAAAAAAATTTTAGAAATTCACAATCAAAATTTTAAAGATTCTCATTTGA
16091499 AAAACTTTA
66 AAAA-TTTA
16091508 ATGATTATGC
Statistics
Matches: 124, Mismatches: 37, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
89 14 0.11
90 20 0.16
91 14 0.11
92 74 0.60
93 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.35
Consensus pattern (91 bp):
TTCAAAAATTCACATTAAAAAAATTTTAGAAATTCACAATCAAAATTTTAAAGATTCTCATTTGA
AAAATTTAGGGATTCACATCCAAAAT
Found at i:16095439 original size:8 final size:8
Alignment explanation
Indices: 16095426--16095450 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16095416 ATGCATGAAA
16095426 ATGAATGC
1 ATGAATGC
16095434 ATGAATGC
1 ATGAATGC
16095442 ATGAATGC
1 ATGAATGC
16095450 A
1 A
16095451 ATAAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (8 bp):
ATGAATGC
Found at i:16097459 original size:19 final size:20
Alignment explanation
Indices: 16097435--16097472 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16097425 GTTTAGTAGG
*
16097435 ATTTTTTT-TTAAAAATTTT
1 ATTTTTTTCATAAAAATTTT
16097454 ATTTTTTTCATAAAAATTT
1 ATTTTTTTCATAAAAATTT
16097473 GGTTATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTTTCATAAAAATTTT
Found at i:16097643 original size:13 final size:13
Alignment explanation
Indices: 16097625--16097649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16097615 ATTTAAAGCA
16097625 AAATAAATTAAAG
1 AAATAAATTAAAG
16097638 AAATAAATTAAA
1 AAATAAATTAAA
16097650 AAAAAGTTAT
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAATAAATTAAAG
Found at i:16098770 original size:6 final size:6
Alignment explanation
Indices: 16098761--16098813 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
16098751 ATCAAATTGG
* * * * * *
16098761 AAATTA AAATTT AAATTT AAATCA AAGTTA AAATTA AAATCA ACATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
16098809 AAATT
1 AAATT
16098814 GTAGATTCTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (6 bp):
AAATTA
Found at i:16098942 original size:33 final size:33
Alignment explanation
Indices: 16098905--16098970 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
16098895 TTCCTAGATA
16098905 AATTGAGTTTACAACATCTTTATTAAATAAAAT
1 AATTGAGTTTACAACATCTTTATTAAATAAAAT
16098938 AATTGAGTTTACAACATCTTTATTAAATAAAAT
1 AATTGAGTTTACAACATCTTTATTAAATAAAAT
16098971 CAAATTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (33 bp):
AATTGAGTTTACAACATCTTTATTAAATAAAAT
Found at i:16101243 original size:17 final size:17
Alignment explanation
Indices: 16101221--16101253 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16101211 CTATATGATA
16101221 CTTATGAGTAAAAAGAC
1 CTTATGAGTAAAAAGAC
16101238 CTTATGAGTAAAAAGA
1 CTTATGAGTAAAAAGA
16101254 ACGAAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.24
Consensus pattern (17 bp):
CTTATGAGTAAAAAGAC
Found at i:16106275 original size:51 final size:51
Alignment explanation
Indices: 16106196--16106297 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
16106186 ACCATTAAAT
*
16106196 CTTAGCACTTGCAAGATAAAAATTGAAACCTCTAGTCTAAAATCGAAAGTC
1 CTTAGCACTTGCAAGATAAAAATCGAAACCTCTAGTCTAAAATCGAAAGTC
16106247 CTTAGCACTTGCAAGATAAAAATCGAAACCTCTAGTCTAAAATCGAAAGTC
1 CTTAGCACTTGCAAGATAAAAATCGAAACCTCTAGTCTAAAATCGAAAGTC
16106298 TTAATGGAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.25
Consensus pattern (51 bp):
CTTAGCACTTGCAAGATAAAAATCGAAACCTCTAGTCTAAAATCGAAAGTC
Found at i:16107791 original size:29 final size:30
Alignment explanation
Indices: 16107741--16107812 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
16107731 CTGACCTGGT
* *
16107741 ATATATAAATTTT-TTTATTATTT-ATTTA
1 ATATATATATTTTATATATTATTTAATTTA
*
16107769 ATTATATATATTTTATATA-TATTTAATTTT
1 A-TATATATATTTTATATATTATTTAATTTA
*
16107799 ATATTTATATTTTA
1 ATATATATATTTTA
16107813 AAAATAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.03
29 28 0.76
30 8 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
ATATATATATTTTATATATTATTTAATTTA
Found at i:16107795 original size:25 final size:23
Alignment explanation
Indices: 16107753--16107808 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 23
16107743 ATATAAATTT
*
16107753 TTTTATTATTTATTTAATTATATATA
1 TTTTA-TATATATTTAATT-T-TATA
16107779 TTTTATATATATTTAATTTTATA
1 TTTTATATATATTTAATTTTATA
16107802 -TTTATAT
1 TTTTATAT
16107809 TTTAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 7 0.24
23 4 0.14
24 1 0.03
25 12 0.41
26 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTATATATATTTAATTTTATA
Found at i:16107828 original size:21 final size:23
Alignment explanation
Indices: 16107802--16107850 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
16107792 TAATTTTATA
16107802 TTTATA-TTTT-AAAAATAATAT
1 TTTATATTTTTAAAAAATAATAT
16107823 TTTATATTTTTAAAAAATAATAT
1 TTTATATTTTTAAAAAATAATAT
16107846 TTTAT
1 TTTAT
16107851 TAATTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 6 0.23
22 4 0.15
23 16 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTATATTTTTAAAAAATAATAT
Found at i:16110217 original size:147 final size:147
Alignment explanation
Indices: 16109967--16110258 Score: 401
Period size: 147 Copynumber: 2.0 Consensus size: 147
16109957 TTGAAACTCT
* *
16109967 AAAAAGAATGTTAACTCATTCATGCTTATTTTAAGTTCTCTAGCATTTAGACTTAGAAAAAAAAA
1 AAAAAGAATGTTAACTCATTCATGCTCATTTCAAGTTCTCTAGCA-TTAGACTTAG--AAAAAAA
* *
16110032 TCTTGACAAAAATATTCATTAGTAGTATCAAGAATACCAATTGATAAAAATTATATCAATTGTTA
63 TCTTGACAAAAATATTAATTAGTAGCATCAAGAATACCAATTGATAAAAATTATATCAATTGTTA
16110097 GAAACGATTTCTATAATTCC
128 GAAACGATTTCTATAATTCC
* * *
16110117 AAAAAGAATGTTTATTCATTCATGCTCATTTCAAGTTCTCCTTA-CA-TAGATTTAG-AAAAAAT
1 AAAAAGAATGTTAACTCATTCATGCTCATTTCAAGTTCT-C-TAGCATTAGACTTAGAAAAAAAT
* * * *
16110179 TTTGACAAAAAATATTAATTAGTAGCATCATGAATACCAATTGATGAAAATTATATTAATTGTTA
64 CTTGAC-AAAAATATTAATTAGTAGCATCAAGAATACCAATTGATAAAAATTATATCAATTGTTA
*
16110244 GAAATGATTTCTATA
128 GAAACGATTTCTATA
16110259 TTCGAAGTCA
Statistics
Matches: 127, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
146 12 0.09
147 67 0.53
149 8 0.06
150 35 0.28
151 3 0.02
152 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (147 bp):
AAAAAGAATGTTAACTCATTCATGCTCATTTCAAGTTCTCTAGCATTAGACTTAGAAAAAAATCT
TGACAAAAATATTAATTAGTAGCATCAAGAATACCAATTGATAAAAATTATATCAATTGTTAGAA
ACGATTTCTATAATTCC
Found at i:16110455 original size:29 final size:29
Alignment explanation
Indices: 16110423--16110485 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
16110413 AGTGGTGGTG
16110423 CTAAAGTTAAAGTTCTCAATGTAATGTGC
1 CTAAAGTTAAAGTTCTCAATGTAATGTGC
16110452 CTAAAGTTAAAGTTCTCAATGTAATGTGC
1 CTAAAGTTAAAGTTCTCAATGTAATGTGC
*
16110481 ATAAA
1 CTAAA
16110486 TCAAACTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (29 bp):
CTAAAGTTAAAGTTCTCAATGTAATGTGC
Found at i:16116835 original size:46 final size:48
Alignment explanation
Indices: 16116762--16116857 Score: 142
Period size: 46 Copynumber: 2.0 Consensus size: 48
16116752 ATTTCTCTCA
*
16116762 ATATTGTCAAAATATTAGAATATTTTTGAAAATTTTTCAATACACAAG
1 ATATTGTCAAAATATTAAAATATTTTTGAAAATTTTTCAATACACAAG
* * *
16116810 ATATTG-CAAAGTATTAAAAT-TTTTTGAAGATTTTTCGATACACAAG
1 ATATTGTCAAAATATTAAAATATTTTTGAAAATTTTTCAATACACAAG
16116856 AT
1 AT
16116858 TCTTATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 26 0.59
47 12 0.27
48 6 0.14
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (48 bp):
ATATTGTCAAAATATTAAAATATTTTTGAAAATTTTTCAATACACAAG
Found at i:16118955 original size:30 final size:30
Alignment explanation
Indices: 16118921--16118982 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
16118911 GAATAAGTTG
* *
16118921 AAACATCTATTTTCATCCAATTGAACCTTT
1 AAACATCTATTTTCATCCAATTAAACCCTT
*
16118951 AAACATCTATTTTCATTCAATTAAACCCTT
1 AAACATCTATTTTCATCCAATTAAACCCTT
16118981 AA
1 AA
16118983 TTGTACATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.39
Consensus pattern (30 bp):
AAACATCTATTTTCATCCAATTAAACCCTT
Found at i:16119241 original size:38 final size:37
Alignment explanation
Indices: 16119190--16119264 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 37
16119180 CATCAGCCTA
16119190 AGAAATTCCAATCATTAGAAATCAAACAGAAAATTTGG
1 AGAAATTCCAATCATTAGAAATCAAACAG-AAATTTGG
16119228 AGAAATTCCAATCATTAGAAATCAAACAGAAATTTGG
1 AGAAATTCCAATCATTAGAAATCAAACAGAAATTTGG
16119265 TGGGACACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 8 0.22
38 29 0.78
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.24
Consensus pattern (37 bp):
AGAAATTCCAATCATTAGAAATCAAACAGAAATTTGG
Found at i:16122801 original size:62 final size:61
Alignment explanation
Indices: 16122723--16122904 Score: 226
Period size: 59 Copynumber: 3.0 Consensus size: 61
16122713 TTTCTCTTTT
* * * *
16122723 GAATTTCTAAATTTTCCACCATTTGTGCCTATTTAGAAATTCTCTTTATTTATTTTTTTGTT-
1 GAATTTCTAAATTTTCCATCATTTGGGTCTATTTAGAAATTCT-TTTCTTT-TTTTTTTGTTA
* * *
16122785 GGATTTCTAAATTTTCCATCATTTGGGTCAATTTAGAAA-TATTTTCTTTTTTTTTT-TTA
1 GAATTTCTAAATTTTCCATCATTTGGGTCTATTTAGAAATTCTTTTCTTTTTTTTTTGTTA
* * *
16122844 GAATTTCTAAATTTTTCATCATTTGGGTCTATTTAAAAATTCTTTTTCCTTTTTTTTTGTT
1 GAATTTCTAAATTTTCCATCATTTGGGTCTATTTAGAAATTC-TTTTCTTTTTTTTTTGTT
16122905 TTCGAAAAGA
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
58 2 0.02
59 42 0.41
60 7 0.07
61 16 0.16
62 36 0.35
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.57
Consensus pattern (61 bp):
GAATTTCTAAATTTTCCATCATTTGGGTCTATTTAGAAATTCTTTTCTTTTTTTTTTGTTA
Found at i:16123453 original size:15 final size:16
Alignment explanation
Indices: 16123433--16123463 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16123423 CAAAATAATA
16123433 TTTTATT-TTTTATTT
1 TTTTATTATTTTATTT
16123448 TTTTATTATTTTATTT
1 TTTTATTATTTTATTT
16123464 AATATCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTATTATTTTATTT
Found at i:16123464 original size:12 final size:12
Alignment explanation
Indices: 16123431--16123464 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
16123421 CTCAAAATAA
*
16123431 TATTTTATTTTT
1 TATTTTATTTAT
16123443 TATTTT-TTTAT
1 TATTTTATTTAT
16123454 TATTTTATTTA
1 TATTTTATTTA
16123465 ATATCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TATTTTATTTAT
Found at i:16124841 original size:15 final size:15
Alignment explanation
Indices: 16124802--16124841 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
16124792 TCATTTGAAT
16124802 TCAAAGATTCACATC
1 TCAAAGATTCACATC
*
16124817 -CAATAAATTCACATC
1 TCAA-AGATTCACATC
16124832 TCAAAGATTC
1 TCAAAGATTC
16124842 TTATTTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.14
15 15 0.71
16 3 0.14
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (15 bp):
TCAAAGATTCACATC
Found at i:16124868 original size:21 final size:22
Alignment explanation
Indices: 16124832--16125158 Score: 113
Period size: 21 Copynumber: 14.8 Consensus size: 22
16124822 AATTCACATC
*
16124832 TCAAAGATTCTTATTTGAAACT
1 TCAAAGATTCTCATTTGAAACT
*
16124854 TGAAA-ATTCTCATTTGAAAAC-
1 TCAAAGATTCTCATTTG-AAACT
16124875 TCAAAGATTCTCATTT-AAGAC-
1 TCAAAGATTCTCATTTGAA-ACT
*
16124896 TCAAAGGTTCTCATTTGAAAACAT
1 TCAAAGATTCTCATTTG-AAAC-T
* *
16124920 ATTAACA-ATTCTCATTTAAAAC-
1 -TCAA-AGATTCTCATTTGAAACT
*
16124942 TCAAAGGTTCTCA--T----CT
1 TCAAAGATTCTCATTTGAAACT
*
16124958 T-AAATATTCTCATTTGAAAACAT
1 TCAAAGATTCTCATTTG-AAAC-T
* *
16124981 CTTAAAGATTCTTATTT-AAGAC-
1 -TCAAAGATTCTCATTTGAA-ACT
16125003 TCAAAGAATT-TCATTTGAAAACAT
1 TCAAAG-ATTCTCATTTG-AAAC-T
* * * *
16125027 CTTAAATATTCTGATTTGAGAC-
1 -TCAAAGATTCTCATTTGAAACT
* * * *
16125049 TCAAAGATTCTTATATGAGGATT
1 TCAAAGATTCTCATTTGA-AACT
16125072 TCTTAAAGATTCTCATTT-AAGA-T
1 TC--AAAGATTCTCATTTGAA-ACT
*
16125095 TCAAA-ACTTCTCATTTGAGAATT
1 TCAAAGA-TTCTCATTTGA-AACT
16125118 TCTTAAAGATTCTCATTT-AAGAC-
1 TC--AAAGATTCTCATTTGAA-ACT
* *
16125141 TAAAAAATTCTCATTTGA
1 TCAAAGATTCTCATTTGA
16125159 TGAATCAGGA
Statistics
Matches: 232, Mismatches: 30, Indels: 86
0.67 0.09 0.25
Matches are distributed among these distances:
15 10 0.04
16 1 0.00
17 1 0.00
19 1 0.00
20 4 0.02
21 89 0.38
22 31 0.13
23 18 0.08
24 17 0.07
25 58 0.25
26 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (22 bp):
TCAAAGATTCTCATTTGAAACT
Found at i:16124981 original size:25 final size:25
Alignment explanation
Indices: 16124953--16125045 Score: 97
Period size: 25 Copynumber: 3.9 Consensus size: 25
16124943 CAAAGGTTCT
16124953 CATCTTAAATATTCTCATTTGAAAA
1 CATCTTAAATATTCTCATTTGAAAA
* * *
16124978 CATCTTAAAGATTCTTATTT-AAGA
1 CATCTTAAATATTCTCATTTGAAAA
*
16125002 C-TC--AAAGAATT-TCATTTGAAAA
1 CATCTTAAA-TATTCTCATTTGAAAA
*
16125024 CATCTTAAATATTCTGATTTGA
1 CATCTTAAATATTCTCATTTGA
16125046 GACTCAAAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
21 8 0.15
22 7 0.13
23 4 0.07
24 7 0.13
25 28 0.52
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.40
Consensus pattern (25 bp):
CATCTTAAATATTCTCATTTGAAAA
Found at i:16125005 original size:107 final size:104
Alignment explanation
Indices: 16124859--16125059 Score: 280
Period size: 107 Copynumber: 1.9 Consensus size: 104
16124849 AAACTTGAAA
*
16124859 ATTCTCATTTGAAAACTCAAAGATTCTCATTTAAGACTCAAAG-GTTCTCATTTGAAAACATATT
1 ATTCTCATTTGAAAACTCAAAGATTCTCATTTAAGACTCAAAGAATT-TCATTTGAAAACATATT
*
16124923 AACA-ATTCTCATTTAAAACTCAAAGGTTCTCATCTTAAAT
65 AA-ATATTCTCATTTAAAACTCAAAGATTCTCATCTTAAAT
* *
16124963 ATTCTCATTTGAAAACATCTTAAAGATTCTTATTTAAGACTCAAAGAATTTCATTTGAAAACATC
1 ATTCTCATTTGAAAAC-TC--AAAGATTCTCATTTAAGACTCAAAGAATTTCATTTGAAAACATA
* * *
16125028 TTAAATATTCTGATTTGAGACTCAAAGATTCT
63 TTAAATATTCTCATTTAAAACTCAAAGATTCT
16125060 TATATGAGGA
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
104 16 0.19
105 2 0.02
106 1 0.01
107 64 0.75
108 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (104 bp):
ATTCTCATTTGAAAACTCAAAGATTCTCATTTAAGACTCAAAGAATTTCATTTGAAAACATATTA
AATATTCTCATTTAAAACTCAAAGATTCTCATCTTAAAT
Found at i:16125020 original size:46 final size:47
Alignment explanation
Indices: 16124963--16125158 Score: 220
Period size: 46 Copynumber: 4.3 Consensus size: 47
16124953 CATCTTAAAT
*
16124963 ATTCTCATTTGAAAACATCTTAAAGATTCTTATTTAAGACTCAAAGA
1 ATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGA
* * *
16125010 ATT-TCATTTGAAAACATCTTAAATATTCTGATTTGAGACTCAAAG-
1 ATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGA
* * ** ** *
16125055 ATTCTTATATGAGGATTTCTTAAAGATTCTCATTTAAGATTCAAA-A
1 ATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGA
* * ** *
16125101 CTTCTCATTTGAGAATTTCTTAAAGATTCTCATTTAAGACT-AAAAA
1 ATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGA
16125147 ATTCTCATTTGA
1 ATTCTCATTTGA
16125159 TGAATCAGGA
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
45 6 0.05
46 118 0.93
47 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (47 bp):
ATTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCAAAGA
Found at i:16125545 original size:23 final size:23
Alignment explanation
Indices: 16125510--16125553 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
16125500 TTAGAACAAG
*
16125510 TTTCATCAATTGATCATCATTAT
1 TTTCATCAATTGATCACCATTAT
16125533 TTTCAT-AATTTGATCACCATT
1 TTTCATCAA-TTGATCACCATT
16125554 CACAAGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.48
Consensus pattern (23 bp):
TTTCATCAATTGATCACCATTAT
Found at i:16126435 original size:17 final size:18
Alignment explanation
Indices: 16126411--16126453 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
16126401 CTCTCCTTTT
16126411 TATT-TTTCTATTTTTCC
1 TATTCTTTCTATTTTTCC
16126428 -ATTCTTTC-ATTTTTCC
1 TATTCTTTCTATTTTTCC
*
16126444 TTTTCTTTCT
1 TATTCTTTCT
16126454 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTCTTTCTATTTTTCC
Found at i:16128681 original size:16 final size:17
Alignment explanation
Indices: 16128660--16128700 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
16128650 ATCAAAAACC
16128660 AAATAAAAAT-A-TAAA
1 AAATAAAAATCATTAAA
16128675 AATATAAAAATCATTAAA
1 AA-ATAAAAATCATTAAA
16128693 AAATAAAA
1 AAATAAAA
16128701 CAAACTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.09
16 8 0.35
17 7 0.30
18 6 0.26
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATAAAAATCATTAAA
Found at i:16128693 original size:17 final size:16
Alignment explanation
Indices: 16128660--16128700 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
16128650 ATCAAAAACC
16128660 AAATAAAAATATAAAA
1 AAATAAAAATATAAAA
* *
16128676 ATATAAAAATCATTAAA
1 AAATAAAAAT-ATAAAA
16128693 AAATAAAA
1 AAATAAAA
16128701 CAAACTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAAAATATAAAA
Found at i:16128694 original size:10 final size:8
Alignment explanation
Indices: 16128662--16128700 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
16128652 CAAAAACCAA
16128662 ATAAAAAT
1 ATAAAAAT
16128670 ATAAAAAT
1 ATAAAAAT
16128678 ATAAAAAT
1 ATAAAAAT
16128686 CATTAAAAA-
1 -A-TAAAAAT
16128695 ATAAAA
1 ATAAAA
16128701 CAAACTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.17
8 17 0.59
9 1 0.03
10 6 0.21
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (8 bp):
ATAAAAAT
Found at i:16130483 original size:3 final size:3
Alignment explanation
Indices: 16130472--16130549 Score: 66
Period size: 3 Copynumber: 25.3 Consensus size: 3
16130462 AAAAGGTTAA
* * * * * *
16130472 AAT ATAT AAT AAT AAAT AAT AAT AAT AAC AAC AAC AAC AAC AAC AAT
1 AAT A-AT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
16130519 AAT AAT AGT AAT AAT AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16130550 TTTTTATAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
3 61 0.91
4 6 0.09
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:16130495 original size:13 final size:14
Alignment explanation
Indices: 16130471--16130499 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16130461 AAAAAGGTTA
16130471 AAATATATAATAAT
1 AAATATATAATAAT
16130485 AAATA-ATAATAAT
1 AAATATATAATAAT
16130498 AA
1 AA
16130500 CAACAACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATATATAATAAT
Found at i:16130684 original size:15 final size:15
Alignment explanation
Indices: 16130664--16130710 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
16130654 AGGAATTATT
16130664 AAATAATAAAAATAA
1 AAATAATAAAAATAA
16130679 AAATAATCAAAGAAT--
1 AAATAAT-AAA-AATAA
*
16130694 AAATAAGAAAAATAA
1 AAATAATAAAAATAA
16130709 AA
1 AA
16130711 TTTTAAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.11
14 3 0.11
15 15 0.56
16 3 0.11
17 3 0.11
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (15 bp):
AAATAATAAAAATAA
Found at i:16130871 original size:26 final size:26
Alignment explanation
Indices: 16130840--16130921 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
16130830 AACCCTAAAT
16130840 CCTAAAAATGAAA-TCATAAATGAAAC
1 CCTAAAAATGAAACT-ATAAATGAAAC
* *
16130866 CTTAAAAATGAAACTTTAAATGAAAC
1 CCTAAAAATGAAACTATAAATGAAAC
* *
16130892 CCT--AAATGAAACTCTAAGTGAAAC
1 CCTAAAAATGAAACTATAAATGAAAC
*
16130916 TCTAAA
1 CCTAAA
16130922 TTCTTGGTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 21 0.45
26 25 0.53
27 1 0.02
ACGTcount: A:0.52, C:0.16, G:0.09, T:0.23
Consensus pattern (26 bp):
CCTAAAAATGAAACTATAAATGAAAC
Found at i:16130879 original size:14 final size:14
Alignment explanation
Indices: 16130857--16130897 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
16130847 ATGAAATCAT
16130857 AAATGAAACCTTAA
1 AAATGAAACCTTAA
*
16130871 AAATGAAA-CTT-T
1 AAATGAAACCTTAA
*
16130883 AAATGAAACCCTAA
1 AAATGAAACCTTAA
16130897 A
1 A
16130898 TGAAACTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 8 0.36
13 5 0.23
14 9 0.41
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATGAAACCTTAA
Found at i:16130908 original size:12 final size:12
Alignment explanation
Indices: 16130845--16130922 Score: 79
Period size: 12 Copynumber: 6.3 Consensus size: 12
16130835 TAAATCCTAA
16130845 AAATGAAA-TCAT
1 AAATGAAACTC-T
16130857 AAATGAAAC-CTT
1 AAATGAAACTC-T
*
16130869 AAAAATGAAACTTT
1 --AAATGAAACTCT
*
16130883 AAATGAAACCCT
1 AAATGAAACTCT
16130895 AAATGAAACTCT
1 AAATGAAACTCT
*
16130907 AAGTGAAACTCT
1 AAATGAAACTCT
16130919 AAAT
1 AAAT
16130923 TCTTGGTGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
12 45 0.82
14 10 0.18
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.24
Consensus pattern (12 bp):
AAATGAAACTCT
Found at i:16130952 original size:51 final size:50
Alignment explanation
Indices: 16130888--16131004 Score: 189
Period size: 51 Copynumber: 2.3 Consensus size: 50
16130878 ACTTTAAATG
* *
16130888 AAACCCTAAATGAAACTCTAAGTGAAACTCTAAATTCTTGGTGAAACCTAA
1 AAACCCTAAATGAAACTCTAAGTGAAACCCTAAATTCTAGGTGAAACC-AA
* *
16130939 AAACCCTAAATGAAACTTTAAGTGAAACCCTAAATTCTAGGTGAAACCCA
1 AAACCCTAAATGAAACTCTAAGTGAAACCCTAAATTCTAGGTGAAACCAA
16130989 AAACCCTAAATGAAAC
1 AAACCCTAAATGAAAC
16131005 CTTAAATCTT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 17 0.27
51 45 0.73
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.22
Consensus pattern (50 bp):
AAACCCTAAATGAAACTCTAAGTGAAACCCTAAATTCTAGGTGAAACCAA
Found at i:16131002 original size:19 final size:19
Alignment explanation
Indices: 16130980--16131076 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
16130970 AAATTCTAGG
*
16130980 TGAAACCCAAAACCCTAAA
1 TGAAACCCGAAACCCTAAA
** * *
16130999 TGAAACCTTAAATCTTAAA
1 TGAAACCCGAAACCCTAAA
**
16131018 TGATAA-CCGAAACTTTAAA
1 TGA-AACCCGAAACCCTAAA
* * *
16131037 TGAAACCCTAAATCCTAGA
1 TGAAACCCGAAACCCTAAA
16131056 TGAAACCCTGAAACCCTAAA
1 TGAAACCC-GAAACCCTAAA
16131076 T
1 T
16131077 CCGCTCAGAA
Statistics
Matches: 59, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
18 2 0.03
19 46 0.78
20 11 0.19
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (19 bp):
TGAAACCCGAAACCCTAAA
Found at i:16134990 original size:4 final size:4
Alignment explanation
Indices: 16134981--16135007 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
16134971 GTCATTCGTG
16134981 CATT CATT CATT CATT CATT CATT CAT
1 CATT CATT CATT CATT CATT CATT CAT
16135008 GCACTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (4 bp):
CATT
Found at i:16137932 original size:19 final size:19
Alignment explanation
Indices: 16137910--16137946 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16137900 AAAAAGTGAA
16137910 AAAAAAGAACAAAAGAAAG
1 AAAAAAGAACAAAAGAAAG
* *
16137929 AAAAAATAGCAAAAGAAA
1 AAAAAAGAACAAAAGAAA
16137947 ATAAAAAAAA
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:0.78, C:0.05, G:0.14, T:0.03
Consensus pattern (19 bp):
AAAAAAGAACAAAAGAAAG
Found at i:16137933 original size:21 final size:20
Alignment explanation
Indices: 16137907--16137956 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
16137897 AAGAAAAAGT
16137907 GAAAAAAAAGAACAAAAG-AAA
1 GAAAAAAAAG--CAAAAGAAAA
*
16137928 GAAAAAATAGCAAAAGAAAA
1 GAAAAAAAAGCAAAAGAAAA
*
16137948 TAAAAAAAA
1 GAAAAAAAA
16137957 TGAAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 10 0.40
21 9 0.36
ACGTcount: A:0.80, C:0.04, G:0.12, T:0.04
Consensus pattern (20 bp):
GAAAAAAAAGCAAAAGAAAA
Found at i:16138826 original size:18 final size:18
Alignment explanation
Indices: 16138803--16138895 Score: 168
Period size: 18 Copynumber: 5.2 Consensus size: 18
16138793 AAGGTTTTTT
16138803 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
16138821 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
16138839 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
*
16138857 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
16138875 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
16138893 TAT
1 TAT
16138896 CGATTGTGAC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 71 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:16139345 original size:32 final size:32
Alignment explanation
Indices: 16139273--16139599 Score: 160
Period size: 32 Copynumber: 10.4 Consensus size: 32
16139263 CAATCATTTG
*
16139273 GAAAATTTAAGTCC-AATTTA-CTTAGCACCTAT
1 GAAAATTTAAG-CCTAGTTTAGCTT-GCACCTAT
* * *
16139305 GAACATTTAAGCCCAGTTTAGCTTGCACTTAT
1 GAAAATTTAAGCCTAGTTTAGCTTGCACCTAT
* * * * *
16139337 AAAAATTTAAACTTAGTTAATC-TGACACCTAT
1 GAAAATTTAAGCCTAGTTTAGCTTG-CACCTAT
* * *
16139369 GAAAATTTAAGGCTAGTCTAGCTTGAACC--T
1 GAAAATTTAAGCCTAGTTTAGCTTGCACCTAT
** * ** *
16139399 -AAGTTTTAAGCCCAGTTTCTCTGGCA-C---
1 GAAAATTTAAGCCTAGTTTAGCTTGCACCTAT
* * *
16139426 GCAAATTTTAAGCCTAGTTTAGCTAGCACTTGA-
1 G-AAAATTTAAGCCTAGTTTAGCTTGCACCT-AT
* * *
16139459 GAAAAGATTAAGCCTAATTTAG-TTGGTACCTAT
1 GAAAA-TTTAAGCCTAGTTTAGCTT-GCACCTAT
* * * *
16139492 GAAAATTTAAGCCTAGTTTACCTGGTACCAAT
1 GAAAATTTAAGCCTAGTTTAGCTTGCACCTAT
** *
16139524 G-AAATTTAAGCCTAGTTTTTCTAGCACCTAT
1 GAAAATTTAAGCCTAGTTTAGCTTGCACCTAT
* * * *
16139555 GAAAATTTAAG-ATCAGTTTAACTAGCACTTAT
1 GAAAATTTAAGCCT-AGTTTAGCTTGCACCTAT
*
16139587 AAAAATTTAAGCC
1 GAAAATTTAAGCC
16139600 CAATTTATCT
Statistics
Matches: 222, Mismatches: 56, Indels: 33
0.71 0.18 0.11
Matches are distributed among these distances:
28 1 0.00
29 38 0.17
30 1 0.00
31 31 0.14
32 121 0.55
33 30 0.14
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (32 bp):
GAAAATTTAAGCCTAGTTTAGCTTGCACCTAT
Found at i:16139878 original size:31 final size:31
Alignment explanation
Indices: 16139843--16139970 Score: 107
Period size: 31 Copynumber: 4.1 Consensus size: 31
16139833 AGATTAGCGA
* * *
16139843 TCACCTCATTTGACTTTTGATTCAATCCTAG
1 TCACCTCACTTGACTTGTGATTCAGTCCTAG
* * *
16139874 TCACCTCACTTGACATGTAATTCAGT-CTCAA
1 TCACCTCACTTGACTTGTGATTCAGTCCT-AG
* *
16139905 TCACCTTACTTGACTTGTGATTTAGTCCT-G
1 TCACCTCACTTGACTTGTGATTCAGTCCTAG
* * * * *
16139935 ATCACCTCATTTAACTTATGATTTAGTCTTAG
1 -TCACCTCACTTGACTTGTGATTCAGTCCTAG
16139967 TCAC
1 TCAC
16139971 AATCACCTCA
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
30 2 0.03
31 72 0.94
32 3 0.04
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (31 bp):
TCACCTCACTTGACTTGTGATTCAGTCCTAG
Found at i:16140037 original size:31 final size:31
Alignment explanation
Indices: 16140002--16140079 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
16139992 GTTCAATCTT
*
16140002 GATCACTTTATTCAACCTAC-GATTTAGTCCC
1 GATCACTTCATTCAACCTACAG-TTTAGTCCC
**
16140033 GATCACTTCATTTGACCTACAGTTTAGTCCC
1 GATCACTTCATTCAACCTACAGTTTAGTCCC
* *
16140064 AATCACCTCATTCAAC
1 GATCACTTCATTCAAC
16140080 TGGCAATTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (31 bp):
GATCACTTCATTCAACCTACAGTTTAGTCCC
Found at i:16140385 original size:12 final size:12
Alignment explanation
Indices: 16140368--16140426 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
16140358 TGTTGGCTAT
16140368 TAAATAAAAAAC
1 TAAATAAAAAAC
16140380 TAAATAAAAAA-
1 TAAATAAAAAAC
*
16140391 T--ATAAAAATCAT
1 TAAATAAAAA--AC
16140403 TAAATAAAAAAC
1 TAAATAAAAAAC
*
16140415 CAAATATAAAAA
1 TAAATA-AAAAA
16140427 TCATTACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 7 0.18
11 2 0.05
12 18 0.46
13 5 0.13
14 7 0.18
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAATAAAAAAC
Found at i:16140451 original size:28 final size:25
Alignment explanation
Indices: 16140381--16140448 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 25
16140371 ATAAAAAACT
16140381 AAATAAAAAATATAAAAATCATTAA
1 AAATAAAAAATATAAAAATCATTAA
*
16140406 ATAAAAAACCAAATATAAAAATCATTACA
1 A-AATAAA--AAATATAAAAATCATTA-A
*
16140435 AAATAAAATATATA
1 AAATAAAAAATATA
16140449 TAATTAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
25 1 0.03
26 11 0.31
28 22 0.61
29 2 0.06
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (25 bp):
AAATAAAAAATATAAAAATCATTAA
Found at i:16141477 original size:13 final size:13
Alignment explanation
Indices: 16141459--16141483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16141449 TATTGCCTCT
16141459 ATCCCTATTTTTC
1 ATCCCTATTTTTC
16141472 ATCCCTATTTTT
1 ATCCCTATTTTT
16141484 TATTTTTAAA
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:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (13 bp):
ATCCCTATTTTTC
Found at i:16143751 original size:13 final size:13
Alignment explanation
Indices: 16143735--16143796 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
16143725 ATTCCTAACC
16143735 TGAAACCCTAAAA
1 TGAAACCCTAAAA
16143748 TGAAACCCTAAAA
1 TGAAACCCTAAAA
* * * *
16143761 -CAAAACTTTAAA
1 TGAAACCCTAAAA
*
16143773 TGAAA-CCTTAAA
1 TGAAACCCTAAAA
*
16143785 TGAAACTCTAAA
1 TGAAACCCTAAA
16143797 TAAAAGTTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 19 0.49
13 20 0.51
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.21
Consensus pattern (13 bp):
TGAAACCCTAAAA
Found at i:16143796 original size:24 final size:24
Alignment explanation
Indices: 16143735--16143815 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 24
16143725 ATTCCTAACC
* *
16143735 TGAAACCCTAAAATGAAACCCTAAAA
1 TGAAACTCT-AAATGAAA-CCTTAAA
** *
16143761 CAAAACTTTAAATGAAACCTTAAA
1 TGAAACTCTAAATGAAACCTTAAA
* ** *
16143785 TGAAACTCTAAATAAAAGTTTAAG
1 TGAAACTCTAAATGAAACCTTAAA
16143809 TGAAACT
1 TGAAACT
16143816 TTTAGTTATA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 30 0.70
25 8 0.19
26 5 0.12
ACGTcount: A:0.52, C:0.16, G:0.09, T:0.23
Consensus pattern (24 bp):
TGAAACTCTAAATGAAACCTTAAA
Found at i:16143797 original size:12 final size:12
Alignment explanation
Indices: 16143735--16143797 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
16143725 ATTCCTAACC
16143735 TGAAACCCTAAAA
1 TGAAACCCT-AAA
16143748 TGAAACCCTAAAA
1 TGAAACCCT-AAA
** **
16143761 CAAAACTTTAAA
1 TGAAACCCTAAA
*
16143773 TGAAACCTTAAA
1 TGAAACCCTAAA
*
16143785 TGAAACTCTAAA
1 TGAAACCCTAAA
16143797 T
1 T
16143798 AAAAGTTTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
12 23 0.56
13 18 0.44
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.22
Consensus pattern (12 bp):
TGAAACCCTAAA
Found at i:16143888 original size:19 final size:18
Alignment explanation
Indices: 16143866--16143991 Score: 74
Period size: 19 Copynumber: 6.6 Consensus size: 18
16143856 AAAATCTAGG
16143866 TGAAACCTAAAACCCTTAA
1 TGAAACCT-AAACCCTTAA
* *
16143885 TGAAACCCTAAATCCTAAA
1 TGAAA-CCTAAACCCTTAA
* *
16143904 TGAAACCCAAAACCTTAAA
1 TGAAACCTAAACCCTT-AA
* **
16143923 TGGAACCCTAAACCCCGAA
1 T-GAAACCTAAACCCTTAA
* *
16143942 TGAAACCCTCAA-TCTTGAA
1 TGAAA-CCTAAACCCTT-AA
* *
16143961 TGAAACCCTGAACCCTGAA
1 TGAAA-CCTAAACCCTTAA
16143980 TGAAACCCTAAA
1 TGAAA-CCTAAA
16143992 ATCCTAAATC
Statistics
Matches: 82, Mismatches: 19, Indels: 12
0.73 0.17 0.11
Matches are distributed among these distances:
18 12 0.15
19 55 0.67
20 15 0.18
ACGTcount: A:0.44, C:0.29, G:0.10, T:0.18
Consensus pattern (18 bp):
TGAAACCTAAACCCTTAA
Found at i:16143891 original size:38 final size:38
Alignment explanation
Indices: 16143824--16143934 Score: 111
Period size: 38 Copynumber: 2.9 Consensus size: 38
16143814 CTTTTAGTTA
* * *
16143824 TAGGTGAAACCAGAAACGCTTAGTTAAACCCTAAAAT-C
1 TAGGTGAAACCA-AAACCCTTAATGAAACCCTAAAATCC
16143862 TAGGTGAAACCTAAAACCCTTAATGAAACCCT-AAATCC
1 TAGGTGAAACC-AAAACCCTTAATGAAACCCTAAAATCC
** *
16143900 TAAATGAAACCCAAAA-CCTTAAATGGAACCCTAAA
1 TAGGTGAAA-CCAAAACCCTT-AATGAAACCCTAAA
16143935 CCCCGAATGA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
37 8 0.13
38 49 0.79
39 5 0.08
ACGTcount: A:0.45, C:0.23, G:0.12, T:0.20
Consensus pattern (38 bp):
TAGGTGAAACCAAAACCCTTAATGAAACCCTAAAATCC
Found at i:16143944 original size:38 final size:39
Alignment explanation
Indices: 16143866--16144000 Score: 134
Period size: 38 Copynumber: 3.5 Consensus size: 39
16143856 AAAATCTAGG
* * *
16143866 TGAAACCTAAAACCCTT-AATGAAACCCTAAATCCTAAA
1 TGAAACCCAAAACCCTTAAATGAAACCCTAAACCCTGAA
* *
16143904 TGAAACCCAAAA-CCTTAAATGGAACCCTAAACCCCGAA
1 TGAAACCCAAAACCCTTAAATGAAACCCTAAACCCTGAA
** * * *
16143942 TGAAACCCTCAA-TCTTGAATGAAACCCTGAACCCTGAA
1 TGAAACCCAAAACCCTTAAATGAAACCCTAAACCCTGAA
*
16143980 TGAAACCCTAAAATCC-TAAAT
1 TGAAACCC-AAAACCCTTAAAT
16144001 CTATTCAAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
37 4 0.05
38 67 0.86
39 6 0.08
40 1 0.01
ACGTcount: A:0.44, C:0.28, G:0.09, T:0.19
Consensus pattern (39 bp):
TGAAACCCAAAACCCTTAAATGAAACCCTAAACCCTGAA
Found at i:16143987 original size:57 final size:57
Alignment explanation
Indices: 16143866--16143991 Score: 146
Period size: 57 Copynumber: 2.2 Consensus size: 57
16143856 AAAATCTAGG
** *
16143866 TGAAA-CCTAAAACCCTTAATGAAACCCTAAATCCTAAATGAAACCCAAAACCTTAAA
1 TGAAACCCT-AAACCCCGAATGAAACCCTAAATCCTAAATGAAACCCAAAACCCTAAA
* * * * ** *
16143923 TGGAACCCTAAACCCCGAATGAAACCCTCAATCTTGAATGAAACCCTGAACCCTGAA
1 TGAAACCCTAAACCCCGAATGAAACCCTAAATCCTAAATGAAACCCAAAACCCTAAA
16143980 TGAAACCCTAAA
1 TGAAACCCTAAA
16143992 ATCCTAAATC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 54 0.95
58 3 0.05
ACGTcount: A:0.44, C:0.29, G:0.10, T:0.18
Consensus pattern (57 bp):
TGAAACCCTAAACCCCGAATGAAACCCTAAATCCTAAATGAAACCCAAAACCCTAAA
Found at i:16149510 original size:48 final size:47
Alignment explanation
Indices: 16149346--16149601 Score: 230
Period size: 47 Copynumber: 5.4 Consensus size: 47
16149336 TTTAAAAAAG
* * *
16149346 AAAAATTGTCTGAAAAAGGGCT-TATATGAAATAGGTATCAAA-TTTA
1 AAAAATTATCTGGAAAAGGGCTCT-TATAAAATAGGTATCAAACTTTA
* * * *
16149392 ACAAAATATGTCTGG-AAAGGGCTCCTATATAATAGGCATCAAACTTTA
1 A-AAAAT-TATCTGGAAAAGGGCTCTTATAAAATAGGTATCAAACTTTA
* * *
16149440 AAAAATTATCTAGAAAATGGCTCTTATAAAATAGGTATCAAACTTCA
1 AAAAATTATCTGGAAAAGGGCTCTTATAAAATAGGTATCAAACTTTA
* * *
16149487 AAAAATCTATCTGGAAAAGGGCTCCTATCAAATAGGTATGAAACTTTTA
1 AAAAAT-TATCTGGAAAAGGGCTCTTATAAAATAGGTATCAAAC-TTTA
* ** * *** *
16149536 AAAAATATATCTTGAAAAAAGTTCTTATAAAATACACATCAAACTTCA
1 AAAAAT-TATCTGGAAAAGGGCTCTTATAAAATAGGTATCAAACTTTA
*
16149584 AAAAATCTATCTAGAAAA
1 AAAAAT-TATCTGGAAAA
16149602 TGACTGATCG
Statistics
Matches: 171, Mismatches: 32, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
46 6 0.04
47 67 0.39
48 62 0.36
49 36 0.21
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (47 bp):
AAAAATTATCTGGAAAAGGGCTCTTATAAAATAGGTATCAAACTTTA
Found at i:16149569 original size:49 final size:47
Alignment explanation
Indices: 16149346--16149601 Score: 214
Period size: 48 Copynumber: 5.4 Consensus size: 47
16149336 TTTAAAAAAG
* *
16149346 AAAAATTGTCT-GAAAAAGGGCT-TATATGAAATAGGTATCAAA-TTTA
1 AAAAATTATCTAGAAAAA-GGCTCT-TATAAAATAGGTATCAAACTTTA
* * * * * *
16149392 ACAAAATATGTCT-GGAAAGGGCTCCTATATAATAGGCATCAAACTTTA
1 A-AAAAT-TATCTAGAAAAAGGCTCTTATAAAATAGGTATCAAACTTTA
* *
16149440 AAAAATTATCTAGAAAATGGCTCTTATAAAATAGGTATCAAACTTCA
1 AAAAATTATCTAGAAAAAGGCTCTTATAAAATAGGTATCAAACTTTA
* * * * *
16149487 AAAAATCTATCTGGAAAAGGGCTCCTATCAAATAGGTATGAAACTTTTA
1 AAAAAT-TATCTAGAAAAAGGCTCTTATAAAATAGGTATCAAAC-TTTA
* * * *** *
16149536 AAAAATATATCTTGAAAAAAGTTCTTATAAAATACACATCAAACTTCA
1 AAAAAT-TATCTAGAAAAAGGCTCTTATAAAATAGGTATCAAACTTTA
16149584 AAAAATCTATCTAGAAAA
1 AAAAAT-TATCTAGAAAA
16149602 TGACTGATCG
Statistics
Matches: 170, Mismatches: 33, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
46 5 0.03
47 64 0.38
48 65 0.38
49 36 0.21
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (47 bp):
AAAAATTATCTAGAAAAAGGCTCTTATAAAATAGGTATCAAACTTTA
Found at i:16149577 original size:97 final size:95
Alignment explanation
Indices: 16149402--16149601 Score: 269
Period size: 97 Copynumber: 2.1 Consensus size: 95
16149392 ACAAAATATG
**
16149402 TCTGG-AAAGGGCTCCTATATAATAGGCATCAAACTTTAAAAAATTATCTAGAAAATGGCTCTTA
1 TCTGGAAAAGGGCTCCTATATAATAGGCATCAAACTTTAAAAAATTATCTAGAAAAAAGCTCTTA
***
16149466 TAAAATAGGTATCAAACTTCAAAAAATCTA
66 TAAAATACACATCAAACTTCAAAAAATCTA
* * * *
16149496 TCTGGAAAAGGGCTCCTATCA-AATAGGTATGAAACTTTTAAAAAATATATCTTGAAAAAAGTTC
1 TCTGGAAAAGGGCTCCTAT-ATAATAGGCATCAAAC-TTTAAAAAAT-TATCTAGAAAAAAGCTC
16149560 TTATAAAATACACATCAAACTTCAAAAAATCTA
63 TTATAAAATACACATCAAACTTCAAAAAATCTA
*
16149593 TCTAGAAAA
1 TCTGGAAAA
16149602 TGACTGATCG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
94 5 0.05
95 25 0.27
96 11 0.12
97 51 0.55
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (95 bp):
TCTGGAAAAGGGCTCCTATATAATAGGCATCAAACTTTAAAAAATTATCTAGAAAAAAGCTCTTA
TAAAATACACATCAAACTTCAAAAAATCTA
Found at i:16151842 original size:16 final size:16
Alignment explanation
Indices: 16151821--16151854 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16151811 TATTTAAAAT
*
16151821 TAAATACATAAATAAA
1 TAAATACAAAAATAAA
16151837 TAAATACAAAAATAAA
1 TAAATACAAAAATAAA
16151853 TA
1 TA
16151855 TGTAAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATACAAAAATAAA
Found at i:16153141 original size:43 final size:41
Alignment explanation
Indices: 16153093--16153506 Score: 161
Period size: 43 Copynumber: 9.8 Consensus size: 41
16153083 ACAAAATGGA
* * * *
16153093 CTCCTCTACATTGAGGTATAGCAATCTTAAATGAAGAAATTGG
1 CTCCTCTATATAGAGGCAAAGCAA-CTTAAAT-AAGAAATTGG
* *
16153136 CTCCTCTATATAGAGGCAAAACAACTTTAAATTAAGAAATGGG
1 CTCCTCTATATAGAGGCAAAGCAAC-TTAAA-TAAGAAATTGG
16153179 CTCCTCTATATAGAGGCAAAGCAACCTTAAACTAAGAAA-TGAG
1 CTCCTCTATATAGAGGCAAAGCAA-CTTAAA-TAAGAAATTG-G
* * * * * * **
16153222 CTCCTTTAAAAAAAGGTTAAA-CAACTTTACATTAAGAAATAAG
1 CTCCTCTATATAGAGG-CAAAGCAAC-TTA-AATAAGAAATTGG
* * * * *
16153265 CTACTCTATGTAGAGGGTAAA-TAACTTTAAATTAA-AAAGTGGG
1 CTCCTCTATATAGA-GGCAAAGCAAC-TTAAA-TAAGAAA-TTGG
* * *
16153308 CTCCTCTATACAGAGGCTAAA-CAACCTTAAATTAAGAAGTAGG
1 CTCCTCTATATAGAGGC-AAAGCAA-CTTAAA-TAAGAAATTGG
* * ** *
16153351 CTCCTCCATATAGAGGCTAAGCAGTTTTAAATTGAA-AAATGGG
1 CTCCTCTATATAGAGGCAAAGCA-ACTTAAA-T-AAGAAATTGG
* * *
16153394 CTCCT-T-TAT--AGGCTAAGCAACCTTAAAATAAAAAATGGG
1 CTCCTCTATATAGAGGCAAAGCAA-CTT-AAATAAGAAATTGG
* * * * **
16153433 CTACTTTATATAGAGGCTAAA-CAATATTAAATTAGAAATAAG
1 CTCCTCTATATAGAGGC-AAAGCAA-CTTAAATAAGAAATTGG
*
16153475 CTCCT-TCATATAAAGGCTAAA-CAACTTTAAAT
1 CTCCTCT-ATATAGAGGC-AAAGCAAC-TTAAAT
16153507 TAAAATCCTC
Statistics
Matches: 289, Mismatches: 55, Indels: 55
0.72 0.14 0.14
Matches are distributed among these distances:
38 2 0.01
39 24 0.08
40 4 0.01
41 7 0.02
42 47 0.16
43 190 0.66
44 15 0.05
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (41 bp):
CTCCTCTATATAGAGGCAAAGCAACTTAAATAAGAAATTGG
Found at i:16153244 original size:86 final size:83
Alignment explanation
Indices: 16153135--16153509 Score: 308
Period size: 86 Copynumber: 4.4 Consensus size: 83
16153125 GAAGAAATTG
* * * * *
16153135 GCTCCTCTATATAGAGGCAAAACAACTTTAAATTAAGAAATGGGCTCCTCTATATAGAGGCAAAG
1 GCTCCTTTATA-AAAGGCTAAACAACTTTAAATTAAGAAATAGGCTACTCTATATAGAGGCAAA-
* *
16153200 CAACCTTAAACTAAGAAATGA
64 CAACTTTAAATTAA-AAATGA
* * * * * *
16153221 GCTCCTTTAAAAAAAGGTTAAACAACTTTACATTAAGAAATAAGCTACTCTATGTAGAGGGTAAA
1 GCTCCTTT-ATAAAAGGCTAAACAACTTTAAATTAAGAAATAGGCTACTCTATATAGA-GGCAAA
* *
16153286 TAACTTTAAATTAAAAAGTGG
64 CAACTTTAAATTAAAAA-TGA
* * * * * * *
16153307 GCTCCTCTATACAGAGGCTAAACAACCTTAAATTAAGAAGTAGGCTCCTCCATATAGAGGCTAAG
1 GCTCCTTTATA-AAAGGCTAAACAACTTTAAATTAAGAAATAGGCTACTCTATATAGAGGC-AAA
** *
16153372 CAGTTTTAAATTGAAAAATGG
64 CAACTTTAAATT-AAAAATGA
* * * * * *
16153393 GCTCCTTTAT---AGGCTAAGCAACCTTAAAATAAAAAATGGGCTACTTTATATAGAGGCTAAAC
1 GCTCCTTTATAAAAGGCTAAACAACTTTAAATTAAGAAATAGGCTACTCTATATAGAGGC-AAAC
* *
16153455 AA-TATTAAATTAGAAATAA
65 AACT-TTAAATTAAAAATGA
*
16153474 GCTCCTTCATATAAAGGCTAAACAACTTTAAATTAA
1 GCTCCTTTATA-AAAGGCTAAACAACTTTAAATTAA
16153510 AATCCTCTAA
Statistics
Matches: 229, Mismatches: 49, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
81 15 0.07
82 51 0.22
85 26 0.11
86 125 0.55
87 12 0.05
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (83 bp):
GCTCCTTTATAAAAGGCTAAACAACTTTAAATTAAGAAATAGGCTACTCTATATAGAGGCAAACA
ACTTTAAATTAAAAATGA
Found at i:16164349 original size:4 final size:4
Alignment explanation
Indices: 16164293--16164337 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
16164283 TATTTAAAAT
* * *
16164293 TAAA TAGA TAAA TAAA TAAA TACA TAAA TAAA TCAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
16164338 TACGTAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:16174160 original size:25 final size:25
Alignment explanation
Indices: 16174130--16174285 Score: 179
Period size: 25 Copynumber: 6.2 Consensus size: 25
16174120 AACAATAAAT
16174130 AAATGACATAATTAAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
**
16174155 AAATGACATAATTAAAATACACATG
1 AAATGACATAATTAAAATATGCATG
*
16174180 AAATGACATAATTAAAATATGCATA
1 AAATGACATAATTAAAATATGCATG
* * * *
16174205 AAATAACATATTTACAATAAGCAATGG
1 AAATGACATAATTAAAATATGC-AT-G
* *
16174232 AAA-GACATAATTACAATATGTATG
1 AAATGACATAATTAAAATATGCATG
* * *
16174256 AAATAACTTAATTAAAATATGCATA
1 AAATGACATAATTAAAATATGCATG
16174281 AAATG
1 AAATG
16174286 TAAAACATAC
Statistics
Matches: 108, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
24 4 0.04
25 85 0.79
26 16 0.15
27 3 0.03
ACGTcount: A:0.54, C:0.09, G:0.10, T:0.28
Consensus pattern (25 bp):
AAATGACATAATTAAAATATGCATG
Found at i:16174997 original size:8 final size:8
Alignment explanation
Indices: 16174984--16175029 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
16174974 AACAAAACTA
16174984 TTTTTTAT
1 TTTTTTAT
16174992 TTTTTTA-
1 TTTTTTAT
16174999 TTTTTTA-
1 TTTTTTAT
*
16175006 TTTTTTGT
1 TTTTTTAT
16175014 TTTTTTAT
1 TTTTTTAT
16175022 GTTTTTTA
1 -TTTTTTA
16175030 AACAAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 13 0.38
8 14 0.41
9 7 0.21
ACGTcount: A:0.11, C:0.00, G:0.04, T:0.85
Consensus pattern (8 bp):
TTTTTTAT
Found at i:16175002 original size:6 final size:7
Alignment explanation
Indices: 16174982--16175018 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
16174972 AAAACAAAAC
16174982 TATTTTT
1 TATTTTT
16174989 TATTTTTT
1 TA-TTTTT
16174997 TATTTTT
1 TATTTTT
16175004 TATTTTT
1 TATTTTT
*
16175011 TGTTTTT
1 TATTTTT
16175018 T
1 T
16175019 TATGTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (7 bp):
TATTTTT
Found at i:16175002 original size:15 final size:15
Alignment explanation
Indices: 16174982--16175029 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
16174972 AAAACAAAAC
16174982 TATTTTTTATTTTTT
1 TATTTTTTATTTTTT
16174997 TATTTTTTATTTTTT
1 TATTTTTTATTTTTT
16175012 GT-TTTTTTATGTTTTT
1 -TATTTTTTAT-TTTTT
16175028 TA
1 TA
16175030 AACAAAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 24 0.80
16 6 0.20
ACGTcount: A:0.12, C:0.00, G:0.04, T:0.83
Consensus pattern (15 bp):
TATTTTTTATTTTTT
Found at i:16175010 original size:22 final size:23
Alignment explanation
Indices: 16174982--16175027 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
16174972 AAAACAAAAC
16174982 TATTTTTTATTTTTTTAT-TTTT
1 TATTTTTTATTTTTTTATGTTTT
*
16175004 TATTTTTTGTTTTTTTATGTTTT
1 TATTTTTTATTTTTTTATGTTTT
16175027 T
1 T
16175028 TAAACAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.11, C:0.00, G:0.04, T:0.85
Consensus pattern (23 bp):
TATTTTTTATTTTTTTATGTTTT
Found at i:16175497 original size:7 final size:7
Alignment explanation
Indices: 16175487--16175620 Score: 64
Period size: 7 Copynumber: 19.7 Consensus size: 7
16175477 TTAGTTTGTA
16175487 GTTTAGG
1 GTTTAGG
*
16175494 GTTTAGCA
1 GTTTAG-G
* *
16175502 TTTTATG
1 GTTTAGG
*
16175509 GTTTAGA
1 GTTTAGG
16175516 G-TTAGG
1 GTTTAGG
16175522 GTTTAGG
1 GTTTAGG
*
16175529 G-TTAGC
1 GTTTAGG
* *
16175535 G-TAAAG
1 GTTTAGG
*
16175541 GATTAGG
1 GTTTAGG
* *
16175548 GATTAGA
1 GTTTAGG
*
16175555 GATTAGG
1 GTTTAGG
*
16175562 GCTTAGG
1 GTTTAGG
*
16175569 GCTTA-G
1 GTTTAGG
16175575 GTTTAGG
1 GTTTAGG
16175582 GTTTA-G
1 GTTTAGG
16175588 GTTTAGG
1 GTTTAGG
*
16175595 GTTT-GA
1 GTTTAGG
*
16175601 ATTTATGG
1 GTTTA-GG
*
16175609 TTTTAGG
1 GTTTAGG
16175616 GTTTA
1 GTTTA
16175621 AGATTTAAAG
Statistics
Matches: 97, Mismatches: 23, Indels: 14
0.72 0.17 0.10
Matches are distributed among these distances:
6 28 0.29
7 60 0.62
8 9 0.09
ACGTcount: A:0.22, C:0.03, G:0.34, T:0.41
Consensus pattern (7 bp):
GTTTAGG
Found at i:16175531 original size:20 final size:21
Alignment explanation
Indices: 16175503--16175593 Score: 66
Period size: 19 Copynumber: 4.6 Consensus size: 21
16175493 GGTTTAGCAT
*
16175503 TTTATGGTTTAGAG-TTAGGG
1 TTTAGGGTTTAGAGATTAGGG
* * *
16175523 TTTAGGG-TTAGCG-TAAAGG
1 TTTAGGGTTTAGAGATTAGGG
* *
16175542 ATTAGGGATTAGAGATTAGGG
1 TTTAGGGTTTAGAGATTAGGG
* * *
16175563 CTTAGGGCTTAG-GTTTAGGG
1 TTTAGGGTTTAGAGATTAGGG
16175583 TTTA-GGTTTAG
1 TTTAGGGTTTAG
16175594 GGTTTGAATT
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
19 21 0.38
20 21 0.38
21 14 0.25
ACGTcount: A:0.23, C:0.03, G:0.36, T:0.37
Consensus pattern (21 bp):
TTTAGGGTTTAGAGATTAGGG
Found at i:16175596 original size:13 final size:13
Alignment explanation
Indices: 16175564--16175598 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
16175554 AGATTAGGGC
*
16175564 TTAGGGCTTAGGT
1 TTAGGGTTTAGGT
16175577 TTAGGGTTTAGGT
1 TTAGGGTTTAGGT
16175590 TTAGGGTTT
1 TTAGGGTTT
16175599 GAATTTATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.03, G:0.37, T:0.46
Consensus pattern (13 bp):
TTAGGGTTTAGGT
Found at i:16175646 original size:14 final size:14
Alignment explanation
Indices: 16175629--16175662 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16175619 TAAGATTTAA
16175629 AGTTTCAAATTTGG
1 AGTTTCAAATTTGG
**
16175643 AGTTTCACGTTTGG
1 AGTTTCAAATTTGG
16175657 AGTTTC
1 AGTTTC
16175663 GATTTTAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.44
Consensus pattern (14 bp):
AGTTTCAAATTTGG
Found at i:16175850 original size:23 final size:24
Alignment explanation
Indices: 16175824--16175868 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
16175814 ACAAACATGT
*
16175824 AATGCATGAAA-ATTCAAAACTAA
1 AATGCATCAAACATTCAAAACTAA
* *
16175847 AATGGATCAAACATTGAAAACT
1 AATGCATCAAACATTCAAAACT
16175869 TTAAATTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.22
Consensus pattern (24 bp):
AATGCATCAAACATTCAAAACTAA
Found at i:16177012 original size:15 final size:13
Alignment explanation
Indices: 16176981--16177037 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
16176971 AGCACTAAAG
*
16176981 TTTTTTCTTCTCT
1 TTTTTTCTTCTCA
16176994 TTTTTTCTTCTCACA
1 TTTTTTCTTCT--CA
* *
16177009 TTTTTTCTTTTCC
1 TTTTTTCTTCTCA
*
16177022 TTTTCTCTTCT-A
1 TTTTTTCTTCTCA
16177034 TTTT
1 TTTT
16177038 CTCACCTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
12 4 0.11
13 21 0.58
15 11 0.31
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTCTTCTCA
Found at i:16178863 original size:12 final size:12
Alignment explanation
Indices: 16178845--16178890 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
16178835 TTTCAATTAA
16178845 ACTAAATGAAGG
1 ACTAAATGAAGG
*
16178857 CCTAAATGAAGG
1 ACTAAATGAAGG
*
16178869 ACTAATTGAA-G
1 ACTAAATGAAGG
16178880 ATCTAAATGAA
1 A-CTAAATGAA
16178891 CATGCAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 2 0.07
12 27 0.93
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (12 bp):
ACTAAATGAAGG
Found at i:16178878 original size:24 final size:24
Alignment explanation
Indices: 16178845--16178890 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16178835 TTTCAATTAA
*
16178845 ACTAAATGAAGGCCTAAATGAAGG
1 ACTAAATGAAGACCTAAATGAAGG
* *
16178869 ACTAATTGAAGATCTAAATGAA
1 ACTAAATGAAGACCTAAATGAA
16178891 CATGCAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (24 bp):
ACTAAATGAAGACCTAAATGAAGG
Found at i:16179713 original size:15 final size:14
Alignment explanation
Indices: 16179692--16179738 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
16179682 AGCAATTAAG
16179692 AAAATGAAAAAAAC
1 AAAATGAAAAAAAC
*
16179706 ATAAATGAAAATAAAG
1 A-AAATGAAAA-AAAC
*
16179722 AAAAT-AAAAAAAG
1 AAAATGAAAAAAAC
16179735 AAAA
1 AAAA
16179739 ATTTAAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 8 0.27
14 5 0.17
15 13 0.43
16 4 0.13
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.11
Consensus pattern (14 bp):
AAAATGAAAAAAAC
Found at i:16179716 original size:21 final size:19
Alignment explanation
Indices: 16179691--16179729 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
16179681 TAGCAATTAA
16179691 GAAAATGAAAAAAACATAAAT
1 GAAAAT-AAAAAAA-ATAAAT
*
16179712 GAAAATAAAGAAAATAAA
1 GAAAATAAAAAAAATAAA
16179730 AAAAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (19 bp):
GAAAATAAAAAAAATAAAT
Found at i:16180274 original size:9 final size:9
Alignment explanation
Indices: 16180260--16180285 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16180250 AATTGAGGCC
16180260 ATTTGCACA
1 ATTTGCACA
16180269 ATTTGCACA
1 ATTTGCACA
16180278 ATTTGCAC
1 ATTTGCAC
16180286 CAAAAATGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (9 bp):
ATTTGCACA
Done.