Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 47 of 189
Found at i:13632219 original size:41 final size:41
Alignment explanation
Indices: 13632174--13632452 Score: 506
Period size: 41 Copynumber: 6.8 Consensus size: 41
13632164 TGATTCAGTA
13632174 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13632215 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13632256 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13632297 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
*
13632338 CACCGACATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
*
13632379 CACCGGCATTAAGCCTGCTAGACATATAGTCTTAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
13632420 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
13632453 TATTACATTC
Statistics
Matches: 231, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
40 2 0.01
41 229 0.99
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:13634153 original size:12 final size:12
Alignment explanation
Indices: 13634138--13634163 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13634128 CCGAAACTTC
13634138 AAAAGAAAAGAA
1 AAAAGAAAAGAA
13634150 AAAAGAAAAGAA
1 AAAAGAAAAGAA
13634162 AA
1 AA
13634164 GTTAGGTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:13634896 original size:44 final size:44
Alignment explanation
Indices: 13634829--13634952 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 44
13634819 GCTGAAATGT
*
13634829 GATTT-CGTGTAAGACCACA-TCTGGGACGTTGGCATCG-ATTTGA
1 GATTTACGTGTAAGACCA-AGTCTGGGACGTTGGCATCGTATAT-A
* * *
13634872 GATTTACGTGTAAGACCAAGTCTGGGACATTAGCGTCGTATATA
1 GATTTACGTGTAAGACCAAGTCTGGGACGTTGGCATCGTATATA
**
13634916 -A-TTACGTGTAAGACCCTGTCTGGGACAG-TGGCATCGT
1 GATTTACGTGTAAGACCAAGTCTGGGAC-GTTGGCATCGT
13634953 TATTTAATTA
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
42 30 0.44
43 7 0.10
44 28 0.41
45 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (44 bp):
GATTTACGTGTAAGACCAAGTCTGGGACGTTGGCATCGTATATA
Found at i:13634972 original size:43 final size:43
Alignment explanation
Indices: 13634834--13635035 Score: 164
Period size: 43 Copynumber: 4.7 Consensus size: 43
13634824 AATGTGATTT
**
13634834 CGTGTAAGACCACATCTGGGAC-GTTGGCATCG--ATTTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACAG-TGGCATCGTTATTT-A-A-TTA
* * * * *
13634878 CGTGTAAGACCAAGTCTGGGACATTAGCGTCG-TATATAATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGTTATTTAATTA
*
13634920 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGTTATTTAATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGTTATTTAATTA
* * * * * *
13634963 TGTGTAAGACTC-TGTATGAGACAATGGCATCATTATTTGATTA
1 CGTGTAAGAC-CATGTCTGGGACAGTGGCATCGTTATTTAATTA
* *
13635006 CATGTAAGACCATGGCTGGGAC-GTTGGCAT
1 CGTGTAAGACCATGTCTGGGACAG-TGGCAT
13635036 TGTATGAACT
Statistics
Matches: 128, Mismatches: 24, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
42 31 0.24
43 66 0.52
44 28 0.22
45 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGTTATTTAATTA
Found at i:13637719 original size:4 final size:4
Alignment explanation
Indices: 13637710--13637757 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
13637700 CTCTTAATCC
* * * *
13637710 TTTA TTTA TTTA TTTA GTTA TTTG TTTG TTTA TTTA TATA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
13637758 AAATTTTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:13637993 original size:16 final size:16
Alignment explanation
Indices: 13637972--13638006 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13637962 CTTTTACATG
*
13637972 TATTTCATTATTTTCA
1 TATTTCATAATTTTCA
*
13637988 TATTTCATAATTTTTA
1 TATTTCATAATTTTCA
13638004 TAT
1 TAT
13638007 ACCTACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTCATAATTTTCA
Found at i:13646768 original size:25 final size:25
Alignment explanation
Indices: 13646717--13646769 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
13646707 TATTTTTTTA
* * **
13646717 TTTTAAAATAATTTTAAAATACTTT
1 TTTTAAAAAAATTTCAAAATAAATT
13646742 TTTTAAAAAAATTTCAAAATAAATT
1 TTTTAAAAAAATTTCAAAATAAATT
13646767 TTT
1 TTT
13646770 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
TTTTAAAAAAATTTCAAAATAAATT
Found at i:13655516 original size:11 final size:11
Alignment explanation
Indices: 13655494--13655551 Score: 80
Period size: 11 Copynumber: 5.2 Consensus size: 11
13655484 AACTAATCAT
13655494 CTCTCAAATTTC
1 CTCTC-AATTTC
13655506 CTCTCAATTTC
1 CTCTCAATTTC
*
13655517 CTCTAAATTTC
1 CTCTCAATTTC
*
13655528 CTCTCAATTTG
1 CTCTCAATTTC
*
13655539 CTCTCAAATTC
1 CTCTCAATTTC
13655550 CT
1 CT
13655552 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:13655524 original size:22 final size:23
Alignment explanation
Indices: 13655494--13655570 Score: 99
Period size: 22 Copynumber: 3.4 Consensus size: 23
13655484 AACTAATCAT
13655494 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
13655517 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
13655539 CTCTCAAA-TTCCT-TCCAAATTT-
1 CTCTCAAATTTCCTCT-C-AATTTC
13655561 CTCTCAAATT
1 CTCTCAAATT
13655571 CATATTTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
21 1 0.02
22 35 0.71
23 13 0.27
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:13655543 original size:33 final size:33
Alignment explanation
Indices: 13655493--13655567 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
13655483 AAACTAATCA
* *
13655493 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
*
13655526 TCCTCTCAATTTGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
13655560 TCTCTCAA
1 TCTCTCAA
13655568 ATTCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.43
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:13655568 original size:11 final size:11
Alignment explanation
Indices: 13655493--13655570 Score: 74
Period size: 11 Copynumber: 7.0 Consensus size: 11
13655483 AAACTAATCA
13655493 TCTCTCAAATT
1 TCTCTCAAATT
13655504 TCCTCTC-AATT
1 T-CTCTCAAATT
13655515 TC-CTCTAAATT
1 TCTCTC-AAATT
13655526 TCCTCTC-AATT
1 T-CTCTCAAATT
13655537 TGCTCTCAAATT
1 T-CTCTCAAATT
*
13655549 CCT-TCCAAATT
1 TCTCT-CAAATT
13655560 TCTCTCAAATT
1 TCTCTCAAATT
13655571 CATATTTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
9 3 0.05
10 2 0.04
11 37 0.66
12 11 0.20
13 3 0.05
ACGTcount: A:0.24, C:0.31, G:0.01, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:13657505 original size:18 final size:18
Alignment explanation
Indices: 13657478--13657517 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
13657468 CAGGTGCGTT
*
13657478 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
13657496 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
13657514 TCCT
1 TCCT
13657518 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:13659855 original size:21 final size:24
Alignment explanation
Indices: 13659807--13659872 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
13659797 CAAATAATAA
*
13659807 AATAATACAGCATAACTTTTAAGT
1 AATAATACAGAATAACTTTTAAGT
* *
13659831 AATAATACATAATAA-TTTTAGAAT
1 AATAATACAGAATAACTTTTA-AGT
13659855 AATAATACACG-ATAACTT
1 AATAATACA-GAATAACTT
13659873 CAAAAATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 5 0.14
24 28 0.80
25 2 0.06
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (24 bp):
AATAATACAGAATAACTTTTAAGT
Found at i:13660753 original size:13 final size:13
Alignment explanation
Indices: 13660735--13660759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13660725 AAAATAATCC
13660735 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
13660748 AAAGAAGAAAAA
1 AAAGAAGAAAAA
13660760 TCTGCAATCA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:13661646 original size:87 final size:88
Alignment explanation
Indices: 13661473--13661721 Score: 412
Period size: 87 Copynumber: 2.9 Consensus size: 88
13661463 GGACCATTGG
* *
13661473 CTTCGATCTGCTTCACTATCGATGCAGGAAGGCAAGA-CCGCTATCTTCAACCTGCTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
*
13661537 ATCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* *
13661560 CTTCGATCTGCTTCACTGTTGATGCAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
*
13661625 ACCGAGGGAGGCAATGC-TGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* *
13661647 CTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
13661712 ACCGAGGGAG
66 ACCGAGGGAG
13661722 ATAAGATCTG
Statistics
Matches: 151, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
87 110 0.73
88 41 0.27
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (88 bp):
CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
ACCGAGGGAGGCAAGGCTTGTGT
Found at i:13661789 original size:44 final size:44
Alignment explanation
Indices: 13661741--13662080 Score: 364
Period size: 44 Copynumber: 7.7 Consensus size: 44
13661731 GTAATTTTCA
* * *
13661741 ACCTACTCTACAGCTGCTCAGGGAGCTAGGACTTACAATCTTCT
1 ACCTATTCCACAGCTGGTCAGGGAGCTAGGACTTACAATCTTCT
* *
13661785 ACCTATTCCACTA-CTGGTCAGGGAGCTAGGACTTACAGTCTTCC
1 ACCTATTCCAC-AGCTGGTCAGGGAGCTAGGACTTACAATCTTCT
* * *
13661829 ACATATTCCACTA-CTGGTCAGAGAGATAGGA-TTAACAATCTTCT
1 ACCTATTCCAC-AGCTGGTCAGGGAGCTAGGACTT-ACAATCTTCT
* * *
13661873 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
1 ACCTATTCCACAGCTGGTCAGGGAGCTAGGACTTACAATCTTCT
* * * *
13661917 ACCTATTCCACTGTTGGTCAGGGAGCTAGGATTTACAATCTTCC
1 ACCTATTCCACAGCTGGTCAGGGAGCTAGGACTTACAATCTTCT
* ** * * *
13661961 GCCTATTCCA-ATGCTTTTCAGGGAGTTAGGACTTTCAGTCTTCT
1 ACCTATTCCACA-GCTGGTCAGGGAGCTAGGACTTACAATCTTCT
* * * *
13662005 ACCTATTCTACTGTTGGTCAGGGAGCTAGGACTCACAATCTTCT
1 ACCTATTCCACAGCTGGTCAGGGAGCTAGGACTTACAATCTTCT
* * *
13662049 ACCTATTCCACTGCTGTTCAGGGAGATAGGAC
1 ACCTATTCCACAGCTGGTCAGGGAGCTAGGAC
13662081 ATATAGTTTC
Statistics
Matches: 247, Mismatches: 43, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.01
44 242 0.98
45 3 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (44 bp):
ACCTATTCCACAGCTGGTCAGGGAGCTAGGACTTACAATCTTCT
Found at i:13661870 original size:88 final size:87
Alignment explanation
Indices: 13661758--13662080 Score: 448
Period size: 88 Copynumber: 3.7 Consensus size: 87
13661748 CTACAGCTGC
*
13661758 TCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTACTGGTCAGGGAGCTAGGACTTACAG
1 TCAGGGAGCTAGGA-TTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAG
* **
13661823 TCTTCCACATATTCCACTACTGG
65 TCTTCCACCTATTCCACTGTTGG
* *
13661846 TCAGAGAGATAGGATTAACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAG
1 TCAGGGAGCTAGGATT-ACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAG
13661911 TCTTCCACCTATTCCACTGTTGG
65 TCTTCCACCTATTCCACTGTTGG
** * ** * *
13661934 TCAGGGAGCTAGGATTTACAATCTTCCGCCTATTCCAATGCTTTTCAGGGAGTTAGGACTTTCAG
1 TCAGGGAGCTAGGA-TTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAG
* *
13661999 TCTTCTACCTATTCTACTGTTGG
65 TCTTCCACCTATTCCACTGTTGG
* * *
13662022 TCAGGGAGCTAGGACTCACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGATAGGAC
1 TCAGGGAGCTAGGA-TTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGAC
13662081 ATATAGTTTC
Statistics
Matches: 209, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 2 0.01
88 205 0.98
89 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (87 bp):
TCAGGGAGCTAGGATTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGT
CTTCCACCTATTCCACTGTTGG
Found at i:13661928 original size:132 final size:132
Alignment explanation
Indices: 13661753--13662080 Score: 442
Period size: 132 Copynumber: 2.5 Consensus size: 132
13661743 CTACTCTACA
* *
13661753 GCTGCTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTACTGGTCAGGGAGCTAGGACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACT
* *
13661818 TACAGTCTTCCACATATTCCACTACTGGTCAGAGAGATAGGA-TTAACAATCTTCTACCTATTCC
66 TACAATCTTCCACATATTCCAATACTGGTCAGAGAGATAGGACTT-ACAATCTTCTACCTATTCC
13661882 ACT
130 ACT
* * * *
13661885 GCTGGTCAGGGAGCTAGGACTTACAGTCTTCCACCTATTCCACTGTTGGTCAGGGAGCTAGGATT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACT
* * * ** * * * * *
13661950 TACAATCTTCCGCCTATTCCAATGCTTTTCAGGGAGTTAGGACTTTCAGTCTTCTACCTATTCTA
66 TACAATCTTCCACATATTCCAATACTGGTCAGAGAGATAGGACTTACAATCTTCTACCTATTCCA
13662015 CT
131 CT
* * * *
13662017 GTTGGTCAGGGAGCTAGGACTCACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGATAGGAC
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGAC
13662081 ATATAGTTTC
Statistics
Matches: 169, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
132 167 0.99
133 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (132 bp):
GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACT
TACAATCTTCCACATATTCCAATACTGGTCAGAGAGATAGGACTTACAATCTTCTACCTATTCCA
CT
Found at i:13663448 original size:47 final size:46
Alignment explanation
Indices: 13663380--13663468 Score: 124
Period size: 47 Copynumber: 1.9 Consensus size: 46
13663370 TCATTTTTCA
* * *
13663380 TTTTTTGGACTCAAAGTGCCCTTTGAGGGTTTTCACTTTGATATTT
1 TTTTTTGAACTCAAAGCGCCCTTTGAGGGTTTTCACATTGATATTT
* *
13663426 TTTTTTCGAACTCAAAGCGCCCTTTGTGGTTTTTCACATTGAT
1 TTTTTT-GAACTCAAAGCGCCCTTTGAGGGTTTTCACATTGAT
13663469 CCTTTCTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 6 0.16
47 31 0.84
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (46 bp):
TTTTTTGAACTCAAAGCGCCCTTTGAGGGTTTTCACATTGATATTT
Found at i:13667974 original size:13 final size:13
Alignment explanation
Indices: 13667956--13667981 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13667946 CCCGAGAGGG
13667956 AGCTTTTTATTTA
1 AGCTTTTTATTTA
13667969 AGCTTTTTATTTA
1 AGCTTTTTATTTA
13667982 TACGAAGAAC
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:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
AGCTTTTTATTTA
Found at i:13668102 original size:24 final size:25
Alignment explanation
Indices: 13668073--13668141 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
13668063 CAAATAATAA
13668073 AATAATAATACATCATAACTTTTA-
1 AATAATAATACATCATAACTTTTAG
* *
13668097 AGTAATAATACATAATAA-TTTTAG
1 AATAATAATACATCATAACTTTTAG
*
13668121 AATGATAATACA-CGATAACTT
1 AATAATAATACATC-ATAACTT
13668142 CAAAAATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 5 0.14
24 30 0.81
25 2 0.05
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (25 bp):
AATAATAATACATCATAACTTTTAG
Found at i:13669023 original size:13 final size:13
Alignment explanation
Indices: 13669005--13669029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13668995 AAAAAAATCC
13669005 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
13669018 AAAGAAGAAAAA
1 AAAGAAGAAAAA
13669030 TCTGCAATCA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:13672019 original size:125 final size:125
Alignment explanation
Indices: 13671643--13672020 Score: 589
Period size: 125 Copynumber: 3.0 Consensus size: 125
13671633 CCCAAACATG
13671643 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
* *
13671708 TAGAAGCGATTTTATACTATTTGCTCAGAAGCGTCAACTCAAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * *
13671768 CAACTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * * *
13671832 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATAATTT-TTTCAGGAC
65 GTAGAAGCG-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* *
13671893 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAACATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
*
13671958 TAAAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
13672018 CTA
1 CTA
13672021 AAAACCTTAA
Statistics
Matches: 224, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
124 41 0.18
125 144 0.64
126 39 0.17
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:13680151 original size:161 final size:159
Alignment explanation
Indices: 13679903--13680225 Score: 567
Period size: 161 Copynumber: 2.0 Consensus size: 159
13679893 GAGCTTATAA
13679903 GAGCATAAACTACACCACATCAATATGCACTAAAGTAGAGAGAGAGAGAGAGAGATTGGAATCAT
1 GAGCATAAACTACACCACATCAATATGCACTAAAGTAGAGAGAGAGAGAGAGAGATTGGAATCAT
* *
13679968 GAATGTAAAGTTGTTTTTAAGCTTGATTTATGAAA-GAATCATGTTGGGAAAATATTGGGATTAG
66 GAATGTAAAATTGTTTTTAAGCTTGATTTAT-AAAGGAATCATGTTGGGAAAATACTGGGATTAG
*
13680032 TAGTAAGTGAGGCTTTATTTAGGGCTATTT
130 TAGTAAGTGAAGCTTTATTTAGGGCTATTT
*
13680062 GAGCATAAACTACACCACATCAATATGTACTAAAGTAGAGAGAGAGAGAGAAAGAGATTGGAATC
1 GAGCATAAACTACACCACATCAATATGCACTAAAGTAGAGAGAGAGAGAG--AGAGATTGGAATC
*
13680127 ATGAATGTAAAATTGTTTTTAAGCTTGATTTATAAAGGAATCATGTTGGGAAAATACTGGGTTTA
64 ATGAATGTAAAATTGTTTTTAAGCTTGATTTATAAAGGAATCATGTTGGGAAAATACTGGGATTA
13680192 GTAGTAAGTGAAGCTTTATTTAGGGCTATTT
129 GTAGTAAGTGAAGCTTTATTTAGGGCTATTT
13680223 GAG
1 GAG
13680226 TAACCATTGG
Statistics
Matches: 156, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
159 49 0.31
160 3 0.02
161 104 0.67
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (159 bp):
GAGCATAAACTACACCACATCAATATGCACTAAAGTAGAGAGAGAGAGAGAGAGATTGGAATCAT
GAATGTAAAATTGTTTTTAAGCTTGATTTATAAAGGAATCATGTTGGGAAAATACTGGGATTAGT
AGTAAGTGAAGCTTTATTTAGGGCTATTT
Found at i:13690714 original size:118 final size:118
Alignment explanation
Indices: 13690572--13690790 Score: 429
Period size: 118 Copynumber: 1.9 Consensus size: 118
13690562 TGTCTAAAAA
13690572 GTATTTAGTTAGTATTTGACTTTTTTTTTACTTAGTTGGTACTTAAATTTGTATTTCGTCACATA
1 GTATTTAGTTAGTATTTGACTTTTTTTTTACTTAGTTGGTACTTAAATTTGTATTTCGTCACATA
*
13690637 CATTGCTCCAATTTGTTAACAATATTAATTTTTTAAATTTGGTACTTAAATTT
66 CATTGCTCCAATTTGTTAACAACATTAATTTTTTAAATTTGGTACTTAAATTT
13690690 GTATTTAGTTAGTATTTGACTTTTTTTTTACTTAGTTGGTACTTAAATTTGTATTTCGTCACATA
1 GTATTTAGTTAGTATTTGACTTTTTTTTTACTTAGTTGGTACTTAAATTTGTATTTCGTCACATA
13690755 CATTGCTCCAATTTGTTAACAACATTAATTTTTTAA
66 CATTGCTCCAATTTGTTAACAACATTAATTTTTTAA
13690791 GGGTTAACAT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 100 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (118 bp):
GTATTTAGTTAGTATTTGACTTTTTTTTTACTTAGTTGGTACTTAAATTTGTATTTCGTCACATA
CATTGCTCCAATTTGTTAACAACATTAATTTTTTAAATTTGGTACTTAAATTT
Found at i:13696392 original size:13 final size:13
Alignment explanation
Indices: 13696374--13696398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13696364 ACTATTTCTA
13696374 AATAAGTATTTTT
1 AATAAGTATTTTT
13696387 AATAAGTATTTT
1 AATAAGTATTTT
13696399 ATTAGTTTTT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AATAAGTATTTTT
Found at i:13704245 original size:27 final size:27
Alignment explanation
Indices: 13704215--13704276 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
13704205 CCTATTTAAT
*
13704215 AGGCGTGACTAGTTGAGCCTATCTCAG
1 AGGCGTGACTAGTTGAGCCTAACTCAG
* * *
13704242 AGGCGCGACTAGTTGTGTCTAACTCAG
1 AGGCGTGACTAGTTGAGCCTAACTCAG
13704269 AGGCGTGA
1 AGGCGTGA
13704277 ATGGTGGGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
AGGCGTGACTAGTTGAGCCTAACTCAG
Found at i:13704598 original size:20 final size:19
Alignment explanation
Indices: 13704574--13704619 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
13704564 TTTTATGTAA
*
13704574 TTTTTTTGCATTTTGAAAT
1 TTTTTTTGAATTTTGAAAT
**
13704593 TGTTTTAAGAATTTTGAAAT
1 T-TTTTTTGAATTTTGAAAT
13704613 TTTTTTT
1 TTTTTTT
13704620 ATCAGATCTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.63
Consensus pattern (19 bp):
TTTTTTTGAATTTTGAAAT
Found at i:13709632 original size:7 final size:7
Alignment explanation
Indices: 13709622--13709647 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13709612 ACTAAACATA
13709622 AATAATT
1 AATAATT
13709629 AATAATT
1 AATAATT
13709636 AATAATT
1 AATAATT
13709643 AATAA
1 AATAA
13709648 CAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATAATT
Found at i:13709733 original size:4 final size:4
Alignment explanation
Indices: 13709720--13709785 Score: 63
Period size: 4 Copynumber: 17.8 Consensus size: 4
13709710 TAATACATTA
13709720 CTTT -TTT CTTT CTTT CTTT CTTT CTTT C-TT C-TT C-TT C-TT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* *
13709763 -TTT CTCT CTTTT CTTT CTCT CTT
1 CTTT CTTT C-TTT CTTT CTTT CTT
13709786 CCGGTGGATG
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
3 18 0.33
4 33 0.61
5 3 0.06
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:13710166 original size:19 final size:21
Alignment explanation
Indices: 13710137--13710195 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
13710127 TATATATTTA
13710137 AATATTTTTA-TTAAAAAATT
1 AATATTTTTATTTAAAAAATT
13710157 AATA-TTTTATTTAAAAAA-T
1 AATATTTTTATTTAAAAAATT
*
13710176 -AT-TTTTTAATATAAAAAATT
1 AATATTTTT-ATTTAAAAAATT
13710196 GATTCGCACC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 6 0.18
19 15 0.44
20 13 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTTATTTAAAAAATT
Found at i:13712913 original size:14 final size:13
Alignment explanation
Indices: 13712891--13712926 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
13712881 TAAATTTAGC
13712891 TTAAATTTTTTCAA
1 TTAAATTTTTT-AA
*
13712905 TTTAATTTTTTAA
1 TTAAATTTTTTAA
13712918 TTAAATTTT
1 TTAAATTTT
13712927 AATTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAAATTTTTTAA
Found at i:13713512 original size:2 final size:2
Alignment explanation
Indices: 13713505--13713538 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13713495 TTATGTTTTC
13713505 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13713539 CGAAAATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13717082 original size:23 final size:23
Alignment explanation
Indices: 13717035--13717082 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13717025 AAAATTTATT
**
13717035 TATTTATTCAATAAGTTTTTTAA
1 TATTTATTCAATAAGTTTTAAAA
*
13717058 TATTTATTTAATAAGTTTTAAAA
1 TATTTATTCAATAAGTTTTAAAA
13717081 TA
1 TA
13717083 ATTCAAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTTATTCAATAAGTTTTAAAA
Found at i:13721344 original size:19 final size:21
Alignment explanation
Indices: 13721320--13721364 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13721310 ACATCGTTTT
*
13721320 CAGAAGC-CCGAAG-GCTAAA
1 CAGAAGCACAGAAGCGCTAAA
*
13721339 CAGAAGCACATAAGCGCTAAA
1 CAGAAGCACAGAAGCGCTAAA
13721360 CAGAA
1 CAGAA
13721365 ACCCATAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.47, C:0.24, G:0.22, T:0.07
Consensus pattern (21 bp):
CAGAAGCACAGAAGCGCTAAA
Found at i:13721359 original size:21 final size:21
Alignment explanation
Indices: 13721333--13721373 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13721323 AAGCCCGAAG
*
13721333 GCTAAACAGAAGCACATAAGC
1 GCTAAACAGAAACACATAAGC
*
13721354 GCTAAACAGAAACCCATAAG
1 GCTAAACAGAAACACATAAG
13721374 GGTTGAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (21 bp):
GCTAAACAGAAACACATAAGC
Found at i:13721382 original size:21 final size:21
Alignment explanation
Indices: 13721358--13721476 Score: 73
Period size: 21 Copynumber: 5.7 Consensus size: 21
13721348 ATAAGCGCTA
13721358 AACAGAAACCCATAAGGGTTG
1 AACAGAAACCCATAAGGGTTG
* * * *
13721379 AACA-AAAGCTCATTAGAGCTG
1 AACAGAAA-CCCATAAGGGTTG
* *
13721400 AACAGAAACCTATAAGGGTTA
1 AACAGAAACCCATAAGGGTTG
* * *
13721421 AACA-AAAGCTCA-ATAGAGCTG
1 AACAGAAA-CCCATA-AGGGTTG
** *
13721442 AATGGAAACCCATTAGGGTTG
1 AACAGAAACCCATAAGGGTTG
*
13721463 AACAGAAACTCATA
1 AACAGAAACCCATA
13721477 TGAGTTAAAT
Statistics
Matches: 67, Mismatches: 25, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
20 7 0.10
21 54 0.81
22 6 0.09
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.18
Consensus pattern (21 bp):
AACAGAAACCCATAAGGGTTG
Found at i:13721417 original size:42 final size:42
Alignment explanation
Indices: 13721358--13721475 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
13721348 ATAAGCGCTA
13721358 AACAGAAACCCATAAGGGTTGAACAAAAGCTCATTAGAGCTG
1 AACAGAAACCCATAAGGGTTGAACAAAAGCTCATTAGAGCTG
* * *
13721400 AACAGAAACCTATAAGGGTTAAACAAAAGCTCAATAGAGCTG
1 AACAGAAACCCATAAGGGTTGAACAAAAGCTCATTAGAGCTG
** *
13721442 AATGGAAACCCATTAGGGTTGAACAGAAA-CTCAT
1 AACAGAAACCCATAAGGGTTGAACA-AAAGCTCAT
13721476 ATGAGTTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 63 0.95
43 3 0.05
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (42 bp):
AACAGAAACCCATAAGGGTTGAACAAAAGCTCATTAGAGCTG
Found at i:13728687 original size:18 final size:20
Alignment explanation
Indices: 13728650--13728688 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
13728640 TTTCCCTCTA
*
13728650 TTCTCTATATATTTTGCTTT
1 TTCTCTATATATTTTCCTTT
13728670 TTCTCT-TAT-TTTTCCTTT
1 TTCTCTATATATTTTCCTTT
13728688 T
1 T
13728689 CTTTTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.10, C:0.18, G:0.03, T:0.69
Consensus pattern (20 bp):
TTCTCTATATATTTTCCTTT
Found at i:13729619 original size:24 final size:25
Alignment explanation
Indices: 13729586--13729635 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
13729576 TGTAAATCAG
13729586 AAAAATATCTC-TAGA-AATTTTCT
1 AAAAATATCTCTTAGATAATTTTCT
13729609 AAAAATAATCTCTTTAGATAATTTTCT
1 AAAAAT-ATCTC-TTAGATAATTTTCT
13729636 CTCTACAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.26
24 5 0.22
26 4 0.17
27 8 0.35
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (25 bp):
AAAAATATCTCTTAGATAATTTTCT
Found at i:13731756 original size:28 final size:28
Alignment explanation
Indices: 13731717--13731875 Score: 122
Period size: 28 Copynumber: 5.7 Consensus size: 28
13731707 GTGTCCACTG
* * *
13731717 TTTTCAAATTTTATAGTTTTGCCCCTAT
1 TTTTCAGATTTTACAGTTTTACCCCTAT
* *
13731745 TTTTCAGATTTTATAGTTTTACCTCTAT
1 TTTTCAGATTTTACAGTTTTACCCCTAT
* * *
13731773 TTTTTAAATTTTACAATTTTACCCCTAAT
1 TTTTCAGATTTTACAGTTTTACCCCT-AT
** * **
13731802 TTTT-AGATTTTACAAATTTGCCTTTAT
1 TTTTCAGATTTTACAGTTTTACCCCTAT
* * * *
13731829 TTTCCAGATTTTACAGTTTTTCCCTTGT
1 TTTTCAGATTTTACAGTTTTACCCCTAT
* * *
13731857 TATTCATATTTTATAGTTT
1 TTTTCAGATTTTACAGTTT
13731876 GGACCTAGAA
Statistics
Matches: 106, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
27 5 0.05
28 95 0.90
29 6 0.06
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.55
Consensus pattern (28 bp):
TTTTCAGATTTTACAGTTTTACCCCTAT
Found at i:13731830 original size:56 final size:56
Alignment explanation
Indices: 13731717--13731848 Score: 140
Period size: 56 Copynumber: 2.4 Consensus size: 56
13731707 GTGTCCACTG
* * * * **
13731717 TTTTCAAATTTTATAGTTTTGCCCCTATTTTTCAGATTTTATAGTTTTACCTCTAT
1 TTTTCAAATTTTACAATTTTACCCCTATTTTTCAGATTTTACAAATTTACCTCTAT
* * *
13731773 TTTTTAAATTTTACAATTTTACCCCTAATTTTT-AGATTTTACAAATTTGCCTTTAT
1 TTTTCAAATTTTACAATTTTACCCCT-ATTTTTCAGATTTTACAAATTTACCTCTAT
* * *
13731829 TTTCCAGATTTTACAGTTTT
1 TTTTCAAATTTTACAATTTT
13731849 TCCCTTGTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
56 56 0.90
57 6 0.10
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (56 bp):
TTTTCAAATTTTACAATTTTACCCCTATTTTTCAGATTTTACAAATTTACCTCTAT
Found at i:13733160 original size:24 final size:21
Alignment explanation
Indices: 13733131--13733181 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
13733121 TATTTAGCAT
13733131 GCATGACATTTAACTTAATTTAA
1 GCATGACATTTAA-TTAA-TTAA
**
13733154 GACATGATTTTTAATTAATTAA
1 G-CATGACATTTAATTAATTAA
13733176 GCATGA
1 GCATGA
13733182 AATATAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 5 0.20
23 5 0.20
24 10 0.40
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
GCATGACATTTAATTAATTAA
Found at i:13733175 original size:22 final size:23
Alignment explanation
Indices: 13733139--13733181 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
13733129 ATGCATGACA
13733139 TTTAACTTAATTTAAGACATGATT
1 TTTAACTTAATTTAAG-CATGATT
13733163 TTTAA-TTAA-TTAAGCATGA
1 TTTAACTTAATTTAAGCATGA
13733182 AATATAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 4 0.21
24 5 0.26
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTAACTTAATTTAAGCATGATT
Found at i:13743482 original size:23 final size:26
Alignment explanation
Indices: 13743428--13743484 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 26
13743418 TACAAGGACT
13743428 TATGACATATTTTAACCTAGTATAAAA
1 TATGA-ATATTTTAACCTAGTATAAAA
*
13743455 TATGAATATTTTAA-TTA-TAT-AAA
1 TATGAATATTTTAACCTAGTATAAAA
13743478 TATGAAT
1 TATGAAT
13743485 GTTTAGCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 10 0.34
24 3 0.10
25 2 0.07
26 9 0.31
27 5 0.17
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (26 bp):
TATGAATATTTTAACCTAGTATAAAA
Found at i:13753292 original size:22 final size:22
Alignment explanation
Indices: 13753252--13753293 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13753242 ATGTTTTTTA
***
13753252 ATTTAATTTAATTTGAAAATAT
1 ATTTAATTTAATAAAAAAATAT
13753274 ATTTAATTTAATAAAAAAAT
1 ATTTAATTTAATAAAAAAAT
13753294 GTTAGCCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTAATTTAATAAAAAAATAT
Found at i:13757166 original size:15 final size:15
Alignment explanation
Indices: 13757143--13757172 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13757133 TAATCCTTAA
*
13757143 TAATTATCTTAATAT
1 TAATCATCTTAATAT
13757158 TAATCATCTTAATAT
1 TAATCATCTTAATAT
13757173 AATTAAAATA
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATCATCTTAATAT
Found at i:13757750 original size:10 final size:10
Alignment explanation
Indices: 13757735--13757785 Score: 75
Period size: 10 Copynumber: 5.1 Consensus size: 10
13757725 TTATATATTC
13757735 TTTTTCTTTT
1 TTTTTCTTTT
13757745 TTTTTCTTTT
1 TTTTTCTTTT
*
13757755 TCTTTCTTTT
1 TTTTTCTTTT
*
13757765 TCTTTCTTTT
1 TTTTTCTTTT
*
13757775 TTTTTATTTT
1 TTTTTCTTTT
13757785 T
1 T
13757786 ATTTATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 38 1.00
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:13757753 original size:16 final size:16
Alignment explanation
Indices: 13757732--13757785 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
13757722 AAATTATATA
13757732 TTCTTTTTCTTTTTTT
1 TTCTTTTTCTTTTTTT
*
13757748 TTCTTTTTCTTTCTTT
1 TTCTTTTTCTTTTTTT
13757764 TTC--TTTCTTTTTTT
1 TTCTTTTTCTTTTTTT
*
13757778 TTATTTTT
1 TTCTTTTT
13757786 ATTTATTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 12 0.36
16 21 0.64
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (16 bp):
TTCTTTTTCTTTTTTT
Found at i:13757790 original size:4 final size:4
Alignment explanation
Indices: 13757783--13757824 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
13757773 TTTTTTTATT
13757783 TTTA TTTA TTTA TTTA TTTA -TT- TTTA TTTA TTTA -TTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
13757825 ATTTTTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 7 0.20
4 28 0.80
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:13757790 original size:10 final size:10
Alignment explanation
Indices: 13757741--13757834 Score: 82
Period size: 10 Copynumber: 9.1 Consensus size: 10
13757731 ATTCTTTTTC
* *
13757741 TTTTTTTTTC
1 TTTTTATTTA
* *
13757751 TTTTTCTTTC
1 TTTTTATTTA
* *
13757761 TTTTTCTTTC
1 TTTTTATTTA
*
13757771 TTTTTTTTTA
1 TTTTTATTTA
13757781 TTTTTATTTA
1 TTTTTATTTA
13757791 TTTATTTATTTA
1 -TT-TTTATTTA
13757803 TTTTTATTTA
1 TTTTTATTTA
13757813 TTTATTATTTA
1 TTT-TTATTTA
13757824 TATTTT-TTTA
1 T-TTTTATTTA
13757834 T
1 T
13757835 ACTTTAGGAA
Statistics
Matches: 76, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
10 52 0.68
11 14 0.18
12 10 0.13
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:13757794 original size:14 final size:13
Alignment explanation
Indices: 13757772--13757834 Score: 60
Period size: 14 Copynumber: 4.8 Consensus size: 13
13757762 TTTTCTTTCT
13757772 TTTTTTTTATTT-
1 TTTTTTTTATTTA
13757784 TTATTTATTTATTTA
1 TT-TTT-TTTATTTA
13757799 TTTATTTTTATTTA
1 TTT-TTTTTATTTA
*
13757813 --TTTATTATTTA
1 TTTTTTTTATTTA
13757824 TATTTTTTTAT
1 T-TTTTTTTAT
13757835 ACTTTAGGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
11 9 0.21
12 3 0.07
13 3 0.07
14 23 0.55
15 4 0.10
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTTTATTTA
Found at i:13757803 original size:22 final size:21
Alignment explanation
Indices: 13757777--13757834 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 21
13757767 TTTCTTTTTT
13757777 TTTATTTTTATTTATTTATTTA
1 TTTATTTTTATTTATTTA-TTA
13757799 TTTATTTTTATTTATTTATTA
1 TTTATTTTTATTTATTTATTA
13757820 TTTATATTTT-TTTAT
1 TTTAT-TTTTATTTAT
13757835 ACTTTAGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.37
22 22 0.63
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTTTTATTTATTTATTA
Found at i:13757840 original size:17 final size:17
Alignment explanation
Indices: 13757777--13757834 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
13757767 TTTCTTTTTT
13757777 TTTATTT-TTA-TT-TA
1 TTTATTTATTATTTATA
*
13757791 TTTATTTATTTATTTTTA
1 TTTATTTA-TTATTTATA
13757809 TTTATTTATTATTTATA
1 TTTATTTATTATTTATA
*
13757826 TTTTTTTAT
1 TTTATTTAT
13757835 ACTTTAGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
14 7 0.18
16 3 0.08
17 18 0.47
18 10 0.26
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTATTATTTATA
Found at i:13758896 original size:17 final size:17
Alignment explanation
Indices: 13758874--13758943 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
13758864 CCAAATAAGT
13758874 AATAAATAATAAAATAA
1 AATAAATAATAAAATAA
13758891 AATAAAGTAAT-AAATAA
1 AATAAA-TAATAAAATAA
* *
13758908 AGTAAAGAA-ATAAAT--
1 AATAAATAATA-AAATAA
13758923 AATAAATAATAAAAATAA
1 AATAAATAAT-AAAATAA
13758941 AAT
1 AAT
13758944 TTGGTTTGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
15 7 0.17
16 6 0.14
17 22 0.52
18 7 0.17
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (17 bp):
AATAAATAATAAAATAA
Found at i:13758902 original size:25 final size:25
Alignment explanation
Indices: 13758866--13758943 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
13758856 ATTAATATCC
13758866 AAAT-AAGTAATAAATAATAAAATA
1 AAATAAAGTAATAAATAATAAAATA
*
13758890 AAATAAAGTAATAAATAA-AGTAAA-G
1 AAATAAAGTAATAAATAATA--AAATA
13758915 AAATAAA-TAATAAATAATAAAAATA
1 AAATAAAGTAATAAATAAT-AAAATA
13758940 AAAT
1 AAAT
13758944 TTGGTTTGGC
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
24 18 0.39
25 24 0.52
26 4 0.09
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (25 bp):
AAATAAAGTAATAAATAATAAAATA
Found at i:13758908 original size:4 final size:4
Alignment explanation
Indices: 13758874--13758941 Score: 52
Period size: 4 Copynumber: 16.5 Consensus size: 4
13758864 CCAAATAAGT
*
13758874 AATA AAT- AATAA AATAA AATA AAGT- AATA AATA AAGTA AAGA AATA
1 AATA AATA AAT-A AAT-A AATA AA-TA AATA AATA AA-TA AATA AATA
*
13758920 AAT- AATA AATA ATAAA AATA AA
1 AATA AATA AATA A-ATA AATA AA
13758942 ATTTGGTTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
3 7 0.13
4 30 0.57
5 16 0.30
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:13765385 original size:15 final size:14
Alignment explanation
Indices: 13765364--13765399 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
13765354 ATAATCCTTA
*
13765364 ATAATTATCTTAAT
1 ATAATTATCCTAAT
13765378 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
13765393 ATAATTA
1 ATAATTA
13765400 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:13767686 original size:69 final size:69
Alignment explanation
Indices: 13767553--13767837 Score: 204
Period size: 69 Copynumber: 4.2 Consensus size: 69
13767543 TAGCCGAGCT
* * * * * * ** * *
13767553 ATGGTCTTACCCAGATTGAA--CTCATGTTTAATGTCCTGGTGGACTATTTATAATGCCATAGTC
1 ATGGTCTTACACA-ATTGAATGCTCGTGTTTACTGTCCCGATGGACTACTTATGTTGCCATGGCC
*
13767616 AAGCT
65 AAGCC
* * * * *
13767621 ATGGTCTTACACAATTGAATGCCCGTGTTTACTATCCCGATGGACTACCTATGTTGCCAGGGTCA
1 ATGGTCTTACACAATTGAATGCTCGTGTTTACTGTCCCGATGGACTACTTATGTTGCCATGGCCA
13767686 AGCC
66 AGCC
* * * * * * ** * ** *
13767690 AAGGCCTTACAC--TTAAGAT-CTCATATTTAATGTCTTGGTGGACT-CTTTATAATGCCATAGC
1 ATGGTCTTACACAATTGA-ATGCTCGTGTTTACTGTCCCGATGGACTAC-TTATGTTGCCATGGC
*
13767751 CAAGCT
64 CAAGCC
* * *
13767757 ATGATCTTACACAATTGAACGCTCGTGTTTACTGTCCCGATGAACTACTTATGTTGCCATGGCCA
1 ATGGTCTTACACAATTGAATGCTCGTGTTTACTGTCCCGATGGACTACTTATGTTGCCATGGCCA
13767822 AGCC
66 AGCC
*
13767826 AGGGTCTTACAC
1 ATGGTCTTACAC
13767838 TTGAAATCTC
Statistics
Matches: 159, Mismatches: 50, Indels: 15
0.71 0.22 0.07
Matches are distributed among these distances:
66 1 0.01
67 49 0.31
68 15 0.09
69 93 0.58
70 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (69 bp):
ATGGTCTTACACAATTGAATGCTCGTGTTTACTGTCCCGATGGACTACTTATGTTGCCATGGCCA
AGCC
Found at i:13767784 original size:136 final size:136
Alignment explanation
Indices: 13767573--13767856 Score: 426
Period size: 136 Copynumber: 2.1 Consensus size: 136
13767563 CCAGATTGAA
* * *
13767573 CTCATGTTTAATGTCCTGGTGGACTATTTATAATGCCATAGTCAAGCTATGGTCTTACACAATTG
1 CTCATATTTAATGTCCTGGTGGACTATTTATAATGCCATAGCCAAGCTATGATCTTACACAATTG
* * *
13767638 AATGCCCGTGTTTACTATCCCGATGGACTACCTATGTTGCCAGGGTCAAGCCAAGGCCTTACACT
66 AACGCCCGTGTTTACTATCCCGATGAACTACCTATGTTGCCAGGGCCAAGCCAAGGCCTTACACT
13767703 T-AAGAT
131 TGAA-AT
* *
13767709 CTCATATTTAATGTCTTGGTGGACTCTTTATAATGCCATAGCCAAGCTATGATCTTACACAATTG
1 CTCATATTTAATGTCCTGGTGGACTATTTATAATGCCATAGCCAAGCTATGATCTTACACAATTG
* * * * * *
13767774 AACGCTCGTGTTTACTGTCCCGATGAACTACTTATGTTGCCATGGCCAAGCCAGGGTCTTACACT
66 AACGCCCGTGTTTACTATCCCGATGAACTACCTATGTTGCCAGGGCCAAGCCAAGGCCTTACACT
13767839 TGAAAT
131 TGAAAT
13767845 CTCATATTTAAT
1 CTCATATTTAAT
13767857 ATCCCAGCGG
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
136 131 0.98
137 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (136 bp):
CTCATATTTAATGTCCTGGTGGACTATTTATAATGCCATAGCCAAGCTATGATCTTACACAATTG
AACGCCCGTGTTTACTATCCCGATGAACTACCTATGTTGCCAGGGCCAAGCCAAGGCCTTACACT
TGAAAT
Found at i:13769062 original size:25 final size:24
Alignment explanation
Indices: 13769033--13769081 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
13769023 ATTAAGTTAG
*
13769033 TTAAATATATTTATAATATATTATT
1 TTAAATATATATAT-ATATATTATT
*
13769058 TTAAATATATATATATATTTTATT
1 TTAAATATATATATATATATTATT
13769082 ATATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAAATATATATATATATATTATT
Found at i:13769084 original size:18 final size:20
Alignment explanation
Indices: 13769043--13769087 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
13769033 TTAAATATAT
13769043 TTATA-ATATATTATTTTAA
1 TTATATATATATTATTTTAA
*
13769062 ATATATATATA-TATTTT-A
1 TTATATATATATTATTTTAA
13769080 TTATATAT
1 TTATATAT
13769088 TTTAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 8 0.35
19 10 0.43
20 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATATATATATTATTTTAA
Found at i:13769102 original size:69 final size:68
Alignment explanation
Indices: 13768983--13769113 Score: 158
Period size: 69 Copynumber: 1.9 Consensus size: 68
13768973 AATATTTTTA
* *
13768983 ATTATTTTAAATATAATTATATTTTATAATATGTAAGTAGATTAAGTTAGTTAAATATATTTATA
1 ATTATTTTAAATATAATTATATTTTATAATATATAAGTAGAATAAGTTAGTTAAATA-ATTTATA
13769048 ATAT
65 ATAT
* ** * *
13769052 ATTATTTTAAATATATATATATATTTTATTATATAT-TTTA-AATAATTTAGTTAATTAATTTA
1 ATTATTTTAAATATA-AT-TATATTTTATAATATATAAGTAGAATAAGTTAGTTAAATAATTTA
13769114 ATTGATCGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
68 5 0.09
69 29 0.55
70 4 0.08
71 15 0.28
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.53
Consensus pattern (68 bp):
ATTATTTTAAATATAATTATATTTTATAATATATAAGTAGAATAAGTTAGTTAAATAATTTATAA
TAT
Found at i:13783976 original size:11 final size:11
Alignment explanation
Indices: 13783962--13784037 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
13783952 GATAATTACT
13783962 TTAATATTAAA
1 TTAATATTAAA
13783973 TTAATA--AAA
1 TTAATATTAAA
13783982 -TAATATTAAGA
1 TTAATATTAA-A
* *
13783993 TAAACATTAAA
1 TTAATATTAAA
13784004 TTAA-ATTTAATA
1 TTAATA-TTAA-A
13784016 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
13784029 ATAATATTA
1 TTAATATTA
13784038 TTTTTGGAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 5 0.10
9 3 0.06
10 3 0.06
11 20 0.38
12 12 0.23
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:13785646 original size:41 final size:42
Alignment explanation
Indices: 13785601--13785700 Score: 116
Period size: 41 Copynumber: 2.4 Consensus size: 42
13785591 TGATTCAGAA
* * *
13785601 CACCGACATTAAGCTTGCTAGACATATAGTCTGAAA-ATTTT
1 CACCGACATTAAGCCTGCAAGACATATAGTCCGAAATATTTT
* *
13785642 CACCGGCATTAAGCCTGCAAGACGTATAGTCCGAAATATTTT
1 CACCGACATTAAGCCTGCAAGACATATAGTCCGAAATATTTT
*
13785684 -ACC-AGCGTTAAGCCTGC
1 CACCGA-CATTAAGCCTGC
13785701 TAGGCACAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 45 0.90
42 5 0.10
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
CACCGACATTAAGCCTGCAAGACATATAGTCCGAAATATTTT
Found at i:13787538 original size:41 final size:41
Alignment explanation
Indices: 13787493--13787666 Score: 249
Period size: 41 Copynumber: 4.2 Consensus size: 41
13787483 ATTGGCACTT
* * *
13787493 AGCCTGCTGGACATATAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
13787534 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGTGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* *
13787575 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGTCGACA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
** * * *
13787616 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
13787657 AGCCTGCTAG
1 AGCCTGCTAG
13787667 GCACCGAGCC
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 119 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:13789326 original size:28 final size:26
Alignment explanation
Indices: 13789294--13789345 Score: 86
Period size: 28 Copynumber: 1.9 Consensus size: 26
13789284 TTTTTAATGT
13789294 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT-AT-ATATATTATACC
13789322 TTATTATAACATATATATATTATA
1 TTATTATAACATATATATATTATA
13789346 TTAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 12 0.50
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATTATAACATATATATATTATACC
Found at i:13790685 original size:16 final size:13
Alignment explanation
Indices: 13790672--13790700 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13790662 TCAAACGATT
13790672 AAATTTTCACACG
1 AAATTTTCACACG
13790685 AAATTTTCACAC-
1 AAATTTTCACACG
13790697 AAAT
1 AAAT
13790701 AACTTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:13798465 original size:13 final size:14
Alignment explanation
Indices: 13798436--13798482 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
13798426 ATTTTTTTAG
13798436 AAAAATA-GCATTAA
1 AAAAATATG-ATTAA
*
13798450 AAATAAAATGA-TAA
1 AAA-AATATGATTAA
13798464 AAAAATATGATTAA
1 AAAAATATGATTAA
13798478 AAAAA
1 AAAAA
13798483 CATAAAATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 6 0.21
14 17 0.61
15 4 0.14
16 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.21
Consensus pattern (14 bp):
AAAAATATGATTAA
Found at i:13798749 original size:159 final size:155
Alignment explanation
Indices: 13798562--13799339 Score: 512
Period size: 163 Copynumber: 4.9 Consensus size: 155
13798552 TATATTTAAT
* * *
13798562 AAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGAAATCTTTTA
1 AAATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAGAAATTATGAAAT-TTTTA
* *
13798627 AAGTAATAAAATGCGGAGAAAAAAAAAACAAACAAATGGCCGAAGAAAGAGTGTTTTACTAACTT
65 AAGTAATAAAATGCGGAG-AAAAAAATACGAACAAATGGCCGAAGAAAGAGTGTTTTACTAACTT
13798692 TTTTAAAAATTCAGAAATAATTAATACA
129 TTTTAAAAATTCAGAAATAATTAATA-A
* * * * * *
13798720 AATATTTCTAACAAAATGTACTGAAATAATATAAAATAATAAAATACAAAAATAAT-ATATTTTT
1 AA-ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAAT-TAGAAATTATGAAATTTTT
* * * * * * * *
13798784 ATTGGAAGTAATAAAATTCGG-GAAAATAATACGAGCAAA-GAGCAGGAATAAGGATTTTTTTAC
64 A----AAGTAATAAAATGCGGAGAAAAAAATACGAACAAATG-GC-CGAAGAAAGAGTGTTTT--
* * * * *
13798847 ACTAAATTAATTTAAAAA-ACA-CACTAAATTAAT--
121 ACTAACTT-TTTTAAAAATTCAGAAAT-AATTAATAA
* * * *
13798880 AAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTT
1 AAATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAGAAATTATGA-A-ATTTTT
* ** **
13798945 AAAGTAATAAAATGCTGAGAAAAAAATACGAACAAATGGCTAAAGTAAAGAGTGAACACTTACTA
64 AAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAG-AAAGAGTG---TTTTACTA
* *
13799010 ACTTTTTTAAAAATTCGGAAAAAATTAATAGAA
125 ACTTTTTTAAAAATTCAGAAATAATTAAT--AA
* **
13799043 AAATTTCAAA-AAAATGTACTGAAATAATATAAAATAATAAAA-TACGAAAATAATAT-ATTTTT
1 AAATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTA-G-AAAT--TATGAAATTT
* * * * * ** *
13799105 TTGGAAGTAATAAAATTCGG-GAAAATAATACGAGCAAAGGGTAGAA-ATAAGGGTTGGGTTTTT
62 TT-AAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGA-AAGAG-T--G---TT
* * * * *
13799168 TTACACTAAATTAATTTAAAAA-ACA-CACTAAATTAATAA
119 TT--ACTAACTT-TTTTAAAAATTCAGAAAT-AATTAATAA
* * * * *
13799207 AGAA-AT--AACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTT
1 A-AATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAGAAATTATGA-A-ATTTT
* *
13799269 TAAAGTAATAAAATTTC-GAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTAGTAA
63 TAAAGTAATAAAA-TGCGGAGAAAAAAATACGAACAAATGGCCGAAG-AAAGAGTGTTTTACTAA
13799333 CTTTTTT
126 CTTTTTT
13799340 TTCAACTTGC
Statistics
Matches: 474, Mismatches: 96, Indels: 103
0.70 0.14 0.15
Matches are distributed among these distances:
155 3 0.01
156 6 0.01
157 16 0.03
158 49 0.10
159 95 0.20
160 29 0.06
161 29 0.06
162 91 0.19
163 104 0.22
164 22 0.05
165 7 0.01
166 15 0.03
167 8 0.02
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.30
Consensus pattern (155 bp):
AAATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAGAAATTATGAAATTTTTAA
AGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGAAAGAGTGTTTTACTAACTTTT
TTAAAAATTCAGAAATAATTAATAA
Found at i:13799245 original size:325 final size:319
Alignment explanation
Indices: 13798569--13799339 Score: 1167
Period size: 325 Copynumber: 2.4 Consensus size: 319
13798559 AATAAATTTC
* *
13798569 AAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGA-AATCTTTTAAAGTAA
1 AAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAA
* * * **
13798633 TAAAATGCGGAGAAAAAAAAAACAAACAAATGGCCGAAG-AAAGAGTGTTTTACTAACTTTTTTA
66 TAAAATGCTGAG-AAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGACTTACTAACTTTTTTA
* * *
13798697 AAAATTCAGAAATAATTAATACAAATATTTCTAACAAAATGTACTGAAATAATATAAAATAATAA
130 AAAATTCAGAAAAAATTAATACAAAAATTTCTAAAAAAATGTACTGAAATAATATAAAATAATAA
13798762 AATACAAAAATAATATATTTTTATTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGAGC
195 AATACAAAAATAATATATTTTTATTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGAGC
* ***
13798827 AGGAATAAGGATTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAATTTC
260 AGAAATAAGGATTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAATGAA
13798887 AAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAA
1 AAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAA
**
13798952 TAAAATGCTGAGAAAAAAATACGAACAAATGGCTAAAGTAAAGAGTGAACACTTACTAACTTTTT
66 TAAAATGCTGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTG---ACTTACTAACTTTTT
* *
13799017 TAAAAATTCGGAAAAAATTAATAGAAAAATTTC-AAAAAAATGTACTGAAATAATATAAAATAAT
128 TAAAAATTCAGAAAAAATTAATACAAAAATTTCTAAAAAAATGTACTGAAATAATATAAAATAAT
* *
13799081 AAAATACGAAAATAATATATTTTT-TTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGG
193 AAAATACAAAAATAATATATTTTTATTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGA
* *
13799145 GTAGAAATAAGGGTTGGGTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAA-G
258 GCAGAAATAA-----GGATTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAATG
13799209 AA
318 AA
13799211 ATAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTA
1 A-AACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTA
* ** *
13799276 ATAAAAT-TTCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTAGTAACTTTTTT
65 ATAAAATGCT-GAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGACTTACTAACTTTTTT
13799340 TTCAACTTGC
Statistics
Matches: 413, Mismatches: 28, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
318 71 0.17
319 32 0.08
320 47 0.11
321 53 0.13
322 55 0.13
324 2 0.00
325 153 0.37
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.30
Consensus pattern (319 bp):
AAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAA
TAAAATGCTGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGACTTACTAACTTTTTTAA
AAATTCAGAAAAAATTAATACAAAAATTTCTAAAAAAATGTACTGAAATAATATAAAATAATAAA
ATACAAAAATAATATATTTTTATTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGAGCA
GAAATAAGGATTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAATGAA
Found at i:13802027 original size:46 final size:46
Alignment explanation
Indices: 13801925--13802122 Score: 330
Period size: 46 Copynumber: 4.4 Consensus size: 46
13801915 TATGTATGAT
* *
13801925 CACTTATCAC-TTGTCTC-TGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
13801968 CACTTATCACTTTGTCACTTGATCTGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
13802014 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAATCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
13802060 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
13802106 CACTTATCACTTTGTCA
1 CACTTATCACTTTGTCA
13802123 TTTGTCACTG
Statistics
Matches: 145, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
43 10 0.07
44 6 0.04
45 18 0.12
46 111 0.77
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:13807230 original size:6 final size:6
Alignment explanation
Indices: 13807221--13807246 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13807211 CCCTCCCTAT
13807221 TTTCAC TTTCAC TTTCAC TTTCAC TT
1 TTTCAC TTTCAC TTTCAC TTTCAC TT
13807247 AACACCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTCAC
Found at i:13813120 original size:21 final size:21
Alignment explanation
Indices: 13813096--13813138 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13813086 AATGAATATA
13813096 AATGGAGAATATTAAAAACTT
1 AATGGAGAATATTAAAAACTT
13813117 AATGGAGAATATTAAAAACTT
1 AATGGAGAATATTAAAAACTT
13813138 A
1 A
13813139 CATTTCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (21 bp):
AATGGAGAATATTAAAAACTT
Found at i:13813266 original size:37 final size:37
Alignment explanation
Indices: 13813157--13813269 Score: 165
Period size: 37 Copynumber: 3.1 Consensus size: 37
13813147 TTATGTGTTA
*
13813157 ATTC-AAGACTTATGTAATGTTTTTAATTATGTAGTA
1 ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
* * * *
13813193 ATTCAAAGGCTTATGTAATATTTTTAGTCATGTAGTG
1 ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
*
13813230 ATTCAAAGATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
13813267 ATT
1 ATT
13813270 TTATTCGGGT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
36 4 0.06
37 62 0.94
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
Found at i:13813290 original size:9 final size:9
Alignment explanation
Indices: 13813276--13813342 Score: 80
Period size: 9 Copynumber: 7.0 Consensus size: 9
13813266 GATTTTATTC
13813276 GGGTAATTT
1 GGGTAATTT
13813285 GGGTAATTTT
1 GGGTAA-TTT
*
13813295 CGGGTAATTC
1 -GGGTAATTT
13813305 GGGTAATTT
1 GGGTAATTT
13813314 GGGTAATTTT
1 GGGTAA-TTT
*
13813324 CGGGTAATTC
1 -GGGTAATTT
13813334 GGGTAATTT
1 GGGTAATTT
13813343 TTAACCAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
9 28 0.56
10 10 0.20
11 12 0.24
ACGTcount: A:0.21, C:0.06, G:0.31, T:0.42
Consensus pattern (9 bp):
GGGTAATTT
Found at i:13813314 original size:29 final size:29
Alignment explanation
Indices: 13813272--13813342 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
13813262 TAGTGATTTT
13813272 ATTCGGGTAATTTGGGTAATTTTCGGGTA
1 ATTCGGGTAATTTGGGTAATTTTCGGGTA
13813301 ATTCGGGTAATTTGGGTAATTTTCGGGTA
1 ATTCGGGTAATTTGGGTAATTTTCGGGTA
13813330 ATTCGGGTAATTT
1 ATTCGGGTAATTT
13813343 TTAACCAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.21, C:0.07, G:0.30, T:0.42
Consensus pattern (29 bp):
ATTCGGGTAATTTGGGTAATTTTCGGGTA
Found at i:13813343 original size:20 final size:19
Alignment explanation
Indices: 13813272--13813342 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
13813262 TAGTGATTTT
13813272 ATTCGGGTAATTT-GGGTA
1 ATTCGGGTAATTTCGGGTA
13813290 ATTTTCGGGTAA-TTCGGGTA
1 A--TTCGGGTAATTTCGGGTA
*
13813310 ATTTGGGTAATTTTCGGGTA
1 ATTCGGGTAA-TTTCGGGTA
13813330 ATTCGGGTAATTT
1 ATTCGGGTAATTT
13813343 TTAACCAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
18 9 0.20
19 5 0.11
20 32 0.70
ACGTcount: A:0.21, C:0.07, G:0.30, T:0.42
Consensus pattern (19 bp):
ATTCGGGTAATTTCGGGTA
Found at i:13813479 original size:28 final size:27
Alignment explanation
Indices: 13813435--13813512 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 27
13813425 ATTATTTTTA
* *
13813435 AAAAAATTCGGTTCGGTTAACGGTTA-
1 AAAAATTTCGGGTCGGTTAACGGTTAT
*
13813461 AAAAATTTGGGAGGTCGGTTAATTCGGTTAT
1 AAAAATTT-CG-GGTCGGTTAA--CGGTTAT
*
13813492 AACAATTTCGGGTCGGTTAAC
1 AAAAATTTCGGGTCGGTTAAC
13813513 CGACTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 7 0.17
27 2 0.05
28 9 0.21
29 10 0.24
30 7 0.17
31 7 0.17
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.32
Consensus pattern (27 bp):
AAAAATTTCGGGTCGGTTAACGGTTAT
Found at i:13815104 original size:17 final size:16
Alignment explanation
Indices: 13815082--13815115 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
13815072 ATCCAAGTCG
13815082 GCTACTTTATTCTCAGT
1 GCTACTTTATTC-CAGT
13815099 GCTACTTTATTCCAGT
1 GCTACTTTATTCCAGT
13815115 G
1 G
13815116 TACAAGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (16 bp):
GCTACTTTATTCCAGT
Found at i:13820226 original size:2 final size:2
Alignment explanation
Indices: 13820219--13820271 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
13820209 CAAGAACTAT
*
13820219 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA CA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
13820261 GA GA GA GA GA G
1 GA GA GA GA GA G
13820272 GGAGGGAGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13825058 original size:22 final size:23
Alignment explanation
Indices: 13825005--13825060 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
13824995 TTTAATTAAA
* * *
13825005 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
13825028 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
13825050 ATTAAAATTAA
1 ATTAAAATTAA
13825061 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:13825073 original size:16 final size:16
Alignment explanation
Indices: 13825036--13825075 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
13825026 TTAATAAAAT
* *
13825036 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
13825052 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
13825068 TAAAATTA
1 TAAAATTA
13825076 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:13825145 original size:66 final size:66
Alignment explanation
Indices: 13825064--13825328 Score: 454
Period size: 66 Copynumber: 4.1 Consensus size: 66
13825054 AAATTAATTG
*
13825064 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
13825129 A
66 A
*
13825130 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTATAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
13825195 A
66 A
13825196 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
13825261 A
66 A
*
13825262 TTAGTAAATTTATC-AA--ATT-A---TTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
13825320 A
66 A
13825321 TTAGTAAA
1 TTAGTAAA
13825329 ACAAACTTGA
Statistics
Matches: 195, Mismatches: 4, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
59 46 0.24
62 1 0.01
63 3 0.02
65 2 0.01
66 143 0.73
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.46
Consensus pattern (66 bp):
TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
A
Found at i:13825423 original size:23 final size:24
Alignment explanation
Indices: 13825395--13825439 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
13825385 AAATAAACTT
*
13825395 AAAATAAAAACTAT-TATATTTTA
1 AAAATAAAAAATATATATATTTTA
13825418 AAAATAAAAAATATATATATTT
1 AAAATAAAAAATATATATATTT
13825440 AATATCCTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATAAAAAATATATATATTTTA
Found at i:13826165 original size:22 final size:22
Alignment explanation
Indices: 13826139--13826212 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
13826129 ATTATACAAG
13826139 TAATACCAAAAAAACTGTCAAA
1 TAATACCAAAAAAACTGTCAAA
13826161 TAATACC---AAAACTGT-AAA
1 TAATACCAAAAAAACTGTCAAA
*
13826179 -AAAACTGCAAAAAAACTGTCAAA
1 TAATAC--CAAAAAAACTGTCAAA
13826202 TAATACCAAAA
1 TAATACCAAAA
13826213 CTGTCAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
17 4 0.09
18 3 0.07
19 9 0.21
22 20 0.47
23 3 0.07
24 4 0.09
ACGTcount: A:0.59, C:0.18, G:0.05, T:0.18
Consensus pattern (22 bp):
TAATACCAAAAAAACTGTCAAA
Found at i:13826171 original size:19 final size:19
Alignment explanation
Indices: 13826149--13826219 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
13826139 TAATACCAAA
13826149 AAAACTGTCAAATAATACC
1 AAAACTGTCAAATAATACC
* * **
13826168 AAAACTGTAAAAAAACTGCAAA
1 AAAACTGTCAAATAA-T--ACC
13826190 AAAACTGTCAAATAATACC
1 AAAACTGTCAAATAATACC
13826209 AAAACTGTCAA
1 AAAACTGTCAA
13826220 TTTAAATATT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
19 25 0.61
20 1 0.02
21 1 0.02
22 14 0.34
ACGTcount: A:0.56, C:0.18, G:0.07, T:0.18
Consensus pattern (19 bp):
AAAACTGTCAAATAATACC
Found at i:13826184 original size:11 final size:11
Alignment explanation
Indices: 13826168--13826197 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13826158 AAATAATACC
13826168 AAAACTGTAAA
1 AAAACTGTAAA
*
13826179 AAAACTGCAAA
1 AAAACTGTAAA
13826190 AAAACTGT
1 AAAACTGT
13826198 CAAATAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.10, T:0.17
Consensus pattern (11 bp):
AAAACTGTAAA
Found at i:13826625 original size:9 final size:9
Alignment explanation
Indices: 13826604--13826640 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13826594 CGAAGAAACA
*
13826604 TCATCATCC
1 TCATCGTCC
*
13826613 TCATCGTCG
1 TCATCGTCC
13826622 TCATCGTCC
1 TCATCGTCC
13826631 TCATCGTCC
1 TCATCGTCC
13826640 T
1 T
13826641 TTTTGCAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.14, C:0.41, G:0.11, T:0.35
Consensus pattern (9 bp):
TCATCGTCC
Found at i:13829113 original size:13 final size:13
Alignment explanation
Indices: 13829095--13829225 Score: 126
Period size: 13 Copynumber: 10.2 Consensus size: 13
13829085 AATTTAAAAT
*
13829095 TTAAAACATTATA
1 TTAAAACAGTATA
*
13829108 TTAAAACAATATAA
1 TTAAAACAGTAT-A
*
13829122 TTATAACAGTATA
1 TTAAAACAGTATA
*
13829135 TTAAAACAATATA
1 TTAAAACAGTATA
*
13829148 TTAAAAAAGTATA
1 TTAAAACAGTATA
* *
13829161 TTTATAATAGTATA
1 -TTAAAACAGTATA
*
13829175 TTAAAACAATATA
1 TTAAAACAGTATA
*
13829188 TTATAA-A-T-T-
1 TTAAAACAGTATA
13829197 TTAAAACAGTATA
1 TTAAAACAGTATA
*
13829210 TTAAAATAGTATA
1 TTAAAACAGTATA
13829223 TTA
1 TTA
13829226 CATTAAAAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 2 0.02
12 2 0.02
13 64 0.66
14 22 0.23
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (13 bp):
TTAAAACAGTATA
Found at i:13829140 original size:40 final size:40
Alignment explanation
Indices: 13829095--13829190 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
13829085 AATTTAAAAT
*
13829095 TTAAAACATTATATTAAAACAA-TATAATTATAACAGTATA
1 TTAAAACAATATATTAAAA-AAGTATAATTATAACAGTATA
* *
13829135 TTAAAACAATATATTAAAAAAGTATATTTATAATAGTATA
1 TTAAAACAATATATTAAAAAAGTATAATTATAACAGTATA
13829175 TTAAAACAATATATTA
1 TTAAAACAATATATTA
13829191 TAAATTTTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
39 2 0.04
40 50 0.96
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.36
Consensus pattern (40 bp):
TTAAAACAATATATTAAAAAAGTATAATTATAACAGTATA
Found at i:13829146 original size:27 final size:27
Alignment explanation
Indices: 13829063--13829215 Score: 115
Period size: 27 Copynumber: 5.9 Consensus size: 27
13829053 AAATTAAATG
* * **
13829063 TATATTTATAACAGTATATTAAAA-TT
1 TATAATTAAAACAGTATATTAAAACAA
* *
13829089 TAAAATTTAAAACATTATATTAAAACAA
1 TATAA-TTAAAACAGTATATTAAAACAA
*
13829117 TATAATTATAACAGTATATTAAAACAA
1 TATAATTAAAACAGTATATTAAAACAA
* * * *
13829144 TAT-ATTAAAAAAGTATATTTATAATAG
1 TATAATTAAAACAGTATA-TTAAAACAA
* *
13829171 TAT-ATTAAAACAATATATT-ATA-AA
1 TATAATTAAAACAGTATATTAAAACAA
13829195 T-T--TTAAAACAGTATATTAAAA
1 TATAATTAAAACAGTATATTAAAA
13829216 TAGTATATTA
Statistics
Matches: 102, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
22 14 0.14
23 3 0.03
24 2 0.02
25 1 0.01
26 17 0.17
27 61 0.60
28 4 0.04
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (27 bp):
TATAATTAAAACAGTATATTAAAACAA
Found at i:13829203 original size:22 final size:21
Alignment explanation
Indices: 13829175--13829216 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
13829165 TAATAGTATA
13829175 TTAAAACAATATATTATAAATT
1 TTAAAACAATATATTA-AAATT
*
13829197 TTAAAACAGTATATTAAAAT
1 TTAAAACAATATATTAAAAT
13829217 AGTATATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
TTAAAACAATATATTAAAATT
Found at i:13829334 original size:14 final size:14
Alignment explanation
Indices: 13829315--13829350 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
13829305 TTTATGTTAA
13829315 AAAATAAAGTATAG
1 AAAATAAAGTATAG
13829329 AAAATAAAGTATAG
1 AAAATAAAGTATAG
*
13829343 AAACTAAA
1 AAAATAAA
13829351 ATTTAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.67, C:0.03, G:0.11, T:0.19
Consensus pattern (14 bp):
AAAATAAAGTATAG
Found at i:13829377 original size:15 final size:15
Alignment explanation
Indices: 13829353--13829386 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
13829343 AAACTAAAAT
*
13829353 TTAATTTGTTACAAA
1 TTAATGTGTTACAAA
13829368 TTAATGTGTTACAAA
1 TTAATGTGTTACAAA
13829383 TTAA
1 TTAA
13829387 ATGTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (15 bp):
TTAATGTGTTACAAA
Found at i:13829440 original size:13 final size:13
Alignment explanation
Indices: 13829422--13829551 Score: 126
Period size: 13 Copynumber: 10.2 Consensus size: 13
13829412 AAGTTAAAAG
*
13829422 TTAAAACATTATA
1 TTAAAACAGTATA
*
13829435 TTAAAACAATATAA
1 TTAAAACAGTAT-A
* *
13829449 TTATAATAGTATA
1 TTAAAACAGTATA
*
13829462 TTAAAACAATATA
1 TTAAAACAGTATA
13829475 TTAAAA-AGTATA
1 TTAAAACAGTATA
* *
13829487 TTTATAATAGTATA
1 -TTAAAACAGTATA
13829501 TTAAAACAGTATA
1 TTAAAACAGTATA
*
13829514 TTACAA-A-T-T-
1 TTAAAACAGTATA
*
13829523 TTATAACAGTATA
1 TTAAAACAGTATA
13829536 TTAAAACAGTATA
1 TTAAAACAGTATA
13829549 TTA
1 TTA
13829552 CATTAAAAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 2 0.02
12 7 0.07
13 64 0.67
14 16 0.17
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (13 bp):
TTAAAACAGTATA
Found at i:13829503 original size:39 final size:38
Alignment explanation
Indices: 13829422--13829551 Score: 167
Period size: 39 Copynumber: 3.4 Consensus size: 38
13829412 AAGTTAAAAG
* *
13829422 TTAAAACATTATATTAAAACAATATAATTATAATAGTATA
1 TTAAAACAGTATATT-AAA-AATATATTTATAATAGTATA
*
13829462 TTAAAACAATATATTAAAAAGTATATTTATAATAGTATA
1 TTAAAACAGTATATTAAAAA-TATATTTATAATAGTATA
* *
13829501 TTAAAACAGTATATT-ACAA-AT-TTTATAACAGTATA
1 TTAAAACAGTATATTAAAAATATATTTATAATAGTATA
13829536 TTAAAACAGTATATTA
1 TTAAAACAGTATATTA
13829552 CATTAAAAAT
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
35 28 0.34
36 2 0.02
38 5 0.06
39 34 0.41
40 14 0.17
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (38 bp):
TTAAAACAGTATATTAAAAATATATTTATAATAGTATA
Found at i:13829534 original size:35 final size:37
Alignment explanation
Indices: 13829422--13829553 Score: 151
Period size: 35 Copynumber: 3.5 Consensus size: 37
13829412 AAGTTAAAAG
* * *
13829422 TTAAAACATTATATTAAAACAATATAATTATAATAGTATA
1 TTAAAACAGTATATT---ACAAGATATTTATAATAGTATA
* *
13829462 TTAAAACAATATATTAAAAAGTATATTTATAATAGTATA
1 TTAAAACAGTATATT-ACAAG-ATATTTATAATAGTATA
*
13829501 TTAAAACAGTATATTACAA-AT-TTTATAACAGTATA
1 TTAAAACAGTATATTACAAGATATTTATAATAGTATA
13829536 TTAAAACAGTATATTACA
1 TTAAAACAGTATATTACA
13829554 TTAAAAATTA
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
35 31 0.37
36 2 0.02
38 7 0.08
39 30 0.36
40 14 0.17
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (37 bp):
TTAAAACAGTATATTACAAGATATTTATAATAGTATA
Found at i:13829638 original size:327 final size:327
Alignment explanation
Indices: 13829041--13829665 Score: 1126
Period size: 327 Copynumber: 1.9 Consensus size: 327
13829031 ACATCAACAC
* * *
13829041 TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATATTAAAATTTAAAATTTAAAACATTA
1 TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATACTAAAAGTTAAAAGTTAAAACATTA
13829106 TATTAAAACAATATAATTATAACAGTATATTAAAACAATATATTAAAAAAGTATATTTATAATAG
66 TATTAAAACAATATAATTATAACAGTATATTAAAACAATATATTAAAAAAGTATATTTATAATAG
* *
13829171 TATATTAAAACAATATATTATAAATTTTAAAACAGTATATTAAAATAGTATATTACATTAAAAAT
131 TATATTAAAACAATATATTACAAATTTTAAAACAGTATATTAAAACAGTATATTACATTAAAAAT
13829236 TATTGTTTTAATAAAAAATTAACAATATTAATTATTTAGTTAATAACATTATAAAAATATAAGCA
196 TATTGTTTTAATAAAAAATTAACAATATTAATTATTTAGTTAATAACATTATAAAAATATAAGCA
*
13829301 CCATTTTATGTTAAAAAATAAAGTATAGAAAATAAAGTATAGAAACTAAAATTTAATTTGTTACA
261 CCAATTTATGTTAAAAAATAAAGTATAGAAAATAAAGTATAGAAACTAAAATTTAATTTGTTACA
13829366 AA
326 AA
13829368 TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATACTAAAAGTTAAAAGTTAAAACATTA
1 TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATACTAAAAGTTAAAAGTTAAAACATTA
*
13829433 TATTAAAACAATATAATTATAATAGTATATTAAAACAATATATT-AAAAAGTATATTTATAATAG
66 TATTAAAACAATATAATTATAACAGTATATTAAAACAATATATTAAAAAAGTATATTTATAATAG
* *
13829497 TATATTAAAACAGTATATTACAAATTTTATAACAGTATATTAAAACAGTATATTACATTAAAAAT
131 TATATTAAAACAATATATTACAAATTTTAAAACAGTATATTAAAACAGTATATTACATTAAAAAT
13829562 TATTGTTTTAATCAAAAAATTAACAATATTAATTATTTAGTTAATAACATTATAAAAATATAAGC
196 TATTGTTTTAAT-AAAAAATTAACAATATTAATTATTTAGTTAATAACATTATAAAAATATAAGC
* * *
13829627 ACCAATTTATGTTTAAAAATAATGTATAGAAACTAAAGT
260 ACCAATTTATGTTAAAAAATAAAGTATAGAAAATAAAGT
13829666 TTAATCATTT
Statistics
Matches: 285, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
326 93 0.33
327 192 0.67
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.37
Consensus pattern (327 bp):
TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATACTAAAAGTTAAAAGTTAAAACATTA
TATTAAAACAATATAATTATAACAGTATATTAAAACAATATATTAAAAAAGTATATTTATAATAG
TATATTAAAACAATATATTACAAATTTTAAAACAGTATATTAAAACAGTATATTACATTAAAAAT
TATTGTTTTAATAAAAAATTAACAATATTAATTATTTAGTTAATAACATTATAAAAATATAAGCA
CCAATTTATGTTAAAAAATAAAGTATAGAAAATAAAGTATAGAAACTAAAATTTAATTTGTTACA
AA
Found at i:13830825 original size:29 final size:30
Alignment explanation
Indices: 13830793--13830860 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
13830783 CACAACCATT
* *
13830793 AACAACATTAACAGC-AAAATCCAAATCAG
1 AACAACATTAACAGCAAAAATCAAAATCAC
*
13830822 AACACCATTAACAGCAAAAATCAAAATCAC
1 AACAACATTAACAGCAAAAATCAAAATCAC
13830852 AACCAACAT
1 AA-CAACAT
13830861 CAAAAAGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 14 0.42
30 14 0.42
31 5 0.15
ACGTcount: A:0.56, C:0.26, G:0.04, T:0.13
Consensus pattern (30 bp):
AACAACATTAACAGCAAAAATCAAAATCAC
Found at i:13832683 original size:15 final size:16
Alignment explanation
Indices: 13832665--13832694 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13832655 CTTCCTCATG
13832665 ATTTTCTTT-TTTATC
1 ATTTTCTTTGTTTATC
13832680 ATTTTCTTTGTTTAT
1 ATTTTCTTTGTTTAT
13832695 TCCCACCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.73
Consensus pattern (16 bp):
ATTTTCTTTGTTTATC
Found at i:13832709 original size:13 final size:13
Alignment explanation
Indices: 13832691--13832716 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13832681 TTTTCTTTGT
13832691 TTATTCCCACCGG
1 TTATTCCCACCGG
13832704 TTATTCCCACCGG
1 TTATTCCCACCGG
13832717 CCGAATGTTG
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:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (13 bp):
TTATTCCCACCGG
Found at i:13833726 original size:54 final size:54
Alignment explanation
Indices: 13833662--13833769 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
13833652 GATTACATAG
13833662 ACATGTACTGTGTTTGATAAATCTGTGTAGGCACTTTGACTGAGCAAAAATGTT
1 ACATGTACTGTGTTTGATAAATCTGTGTAGGCACTTTGACTGAGCAAAAATGTT
13833716 ACATGTACTGTGTTTGATAAATCTGTGTAGGCACTTTGACTGAGCAAAAATGTT
1 ACATGTACTGTGTTTGATAAATCTGTGTAGGCACTTTGACTGAGCAAAAATGTT
13833770 GATGGATTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (54 bp):
ACATGTACTGTGTTTGATAAATCTGTGTAGGCACTTTGACTGAGCAAAAATGTT
Found at i:13834285 original size:25 final size:25
Alignment explanation
Indices: 13834237--13834285 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13834227 TTGCAGTGGC
* *
13834237 TGATTTCTCTTTTGTTAGCTCTGAT
1 TGATTTCTCTTTTGTCAGCGCTGAT
13834262 TGATTTCTCTTTTG-CAGCGGCTGA
1 TGATTTCTCTTTTGTCAGC-GCTGA
13834286 CAATGCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (25 bp):
TGATTTCTCTTTTGTCAGCGCTGAT
Found at i:13834855 original size:57 final size:56
Alignment explanation
Indices: 13834783--13834989 Score: 222
Period size: 57 Copynumber: 3.5 Consensus size: 56
13834773 TTATTAGTTG
13834783 AGAAAA-TTTTAACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTAGT
1 AGAAAATTTTTAACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTA-T
* * *
13834839 TG-TAATGTTTTAACAATATGATAAACAATCTAAATAAAGGGTAATTGTATTATTAT
1 AGAAAAT-TTTTAACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTAT
* *
13834895 AGAAAATTTGTACAATATGATAAACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATT
1 AGAAAA--T-T----T-T--T-AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATT
13834960 AT
55 AT
*
13834962 AGAAAATTTGT-ACAATATGATAAACAAT
1 AGAAAATTTTTAACAATATGATAAACAAT
13834990 ATGATAAACC
Statistics
Matches: 128, Mismatches: 10, Indels: 27
0.78 0.06 0.16
Matches are distributed among these distances:
55 18 0.14
56 3 0.02
57 50 0.39
59 3 0.02
60 1 0.01
63 1 0.01
64 2 0.02
65 1 0.01
66 1 0.01
67 48 0.38
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.33
Consensus pattern (56 bp):
AGAAAATTTTTAACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTAT
Found at i:13834922 original size:67 final size:67
Alignment explanation
Indices: 13834850--13834998 Score: 271
Period size: 67 Copynumber: 2.2 Consensus size: 67
13834840 GTAATGTTTT
* *
13834850 AACAATATGATAAACAATCTAAATAAAGGGTAATTGTATTATTATAGAAAATTTGTACAATATGA
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATAATATTATAGAAAATTTGTACAATATGA
13834915 TA
66 TA
*
13834917 AACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTATAGAAAATTTGTACAATATGA
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATAATATTATAGAAAATTTGTACAATATGA
13834982 TA
66 TA
13834984 AACAATATGATAAAC
1 AACAATATGATAAAC
13834999 CTTGTATACA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 78 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (67 bp):
AACAATATGATAAACAATCTAAATAAAGGGTAATTATAATATTATAGAAAATTTGTACAATATGA
TA
Found at i:13834990 original size:12 final size:12
Alignment explanation
Indices: 13834973--13834998 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13834963 GAAAATTTGT
13834973 ACAATATGATAA
1 ACAATATGATAA
13834985 ACAATATGATAA
1 ACAATATGATAA
13834997 AC
1 AC
13834999 CTTGTATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.23
Consensus pattern (12 bp):
ACAATATGATAA
Found at i:13838697 original size:26 final size:28
Alignment explanation
Indices: 13838643--13838724 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 28
13838633 TAAGAATAAG
* * *
13838643 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
13838671 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
* *
13838697 AATTATATTTTATAGTATTATATATTAT
1 AATTATATTTAATAATA-TAT-TATTAT
13838725 GATTTTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 18 0.40
27 6 0.13
28 16 0.36
29 4 0.09
30 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:13838723 original size:110 final size:115
Alignment explanation
Indices: 13838556--13838818 Score: 378
Period size: 120 Copynumber: 2.3 Consensus size: 115
13838546 AATAAAGTAG
13838556 ATTA-TAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA-T
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
*
13838618 T-GTAGTAAATTCATATAAG-A-A-TAAGAATTTTATTAAATTATATATT
66 TAGTAGTAAATTCATATAAGAATATTAACAATTTTATTAAATTATATATT
13838664 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA-T
*
13838729 TTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
65 TTAGTAGTAAATTCATATAAG-A-A--TATTAACAATTTTATTAAATTATATATT
* * * *
13838784 TTTATTAAATTATATGTAATAACAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTATTTTAAA
13838819 ATATGATTAA
Statistics
Matches: 137, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
108 4 0.03
109 23 0.17
110 34 0.25
112 2 0.01
113 17 0.12
116 1 0.01
119 1 0.01
120 55 0.40
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (115 bp):
ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
TAGTAGTAAATTCATATAAGAATATTAACAATTTTATTAAATTATATATT
Found at i:13838990 original size:39 final size:42
Alignment explanation
Indices: 13838947--13839046 Score: 116
Period size: 44 Copynumber: 2.4 Consensus size: 42
13838937 TCTTTATGCT
*
13838947 ATTACACCTCTATTTT-ATTCAACCAAACACAAGAA-TAC-C
1 ATTACACCTCTATTTTAATTCAACCAAACAAAAGAATTACTC
* *
13838986 ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTACTT
1 ATTACACCTCTATT---TTA-ATTCAACCAAACAAAAGAATTACTC
13839032 ATTACACCTCTATTT
1 ATTACACCTCTATTT
13839047 CATTACGCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
39 13 0.26
42 2 0.04
43 1 0.02
44 18 0.36
45 3 0.06
46 13 0.26
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (42 bp):
ATTACACCTCTATTTTAATTCAACCAAACAAAAGAATTACTC
Found at i:13839013 original size:44 final size:46
Alignment explanation
Indices: 13838963--13839052 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
13838953 CCTCTATTTT
* *
13838963 ATTCAACCAAACACAAGAA-TAC-CATTACGCCTCTATTCCATTAC
1 ATTCAACCAAACAAAAGAATTACTCATTACACCTCTATTCCATTAC
* *
13839007 ATTCAACCAAACAAAAGAATTACTTATTACACCTCTATTTCATTAC
1 ATTCAACCAAACAAAAGAATTACTCATTACACCTCTATTCCATTAC
13839053 GCCTCTATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.45
45 3 0.08
46 19 0.47
ACGTcount: A:0.40, C:0.28, G:0.03, T:0.29
Consensus pattern (46 bp):
ATTCAACCAAACAAAAGAATTACTCATTACACCTCTATTCCATTAC
Found at i:13839057 original size:16 final size:16
Alignment explanation
Indices: 13839032--13839069 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
13839022 AGAATTACTT
*
13839032 ATTACACCTCTATTTC
1 ATTACACCTCTATTCC
*
13839048 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
13839064 ATTACA
1 ATTACA
13839070 ACGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:13849999 original size:47 final size:47
Alignment explanation
Indices: 13849930--13850024 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
13849920 AATCTTTGTC
13849930 TCCGTGTTTAAGTAAATAAGGCTAGCGGTGGTCTTTCTGAACACCTT
1 TCCGTGTTTAAGTAAATAAGGCTAGCGGTGGTCTTTCTGAACACCTT
*
13849977 TCCGTGTTTAAGTAAATAAGGCTAGTGGTGGTCTTTCTGAACACCTT
1 TCCGTGTTTAAGTAAATAAGGCTAGCGGTGGTCTTTCTGAACACCTT
13850024 T
1 T
13850025 ACGTTTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (47 bp):
TCCGTGTTTAAGTAAATAAGGCTAGCGGTGGTCTTTCTGAACACCTT
Found at i:13851212 original size:15 final size:16
Alignment explanation
Indices: 13851179--13851212 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
13851169 ATAAAGAACT
*
13851179 TTTGTTTTGATAATGC
1 TTTGTTTTGATAATAC
13851195 TTTGTTTT-ATAATAC
1 TTTGTTTTGATAATAC
13851210 TTT
1 TTT
13851213 TATTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (16 bp):
TTTGTTTTGATAATAC
Found at i:13852339 original size:18 final size:18
Alignment explanation
Indices: 13852316--13852354 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13852306 ATGAGTTTTT
13852316 AAATTACAA-AAATTTTAA
1 AAATTA-AATAAATTTTAA
*
13852334 AAATTAAATAATTTTTAA
1 AAATTAAATAAATTTTAA
13852352 AAA
1 AAA
13852355 AAATTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATTAAATAAATTTTAA
Found at i:13852353 original size:17 final size:18
Alignment explanation
Indices: 13852311--13852353 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
13852301 TCTACATGAG
13852311 TTTTT-AAATTACAAAAA
1 TTTTTAAAATTACAAAAA
* *
13852328 TTTTAAAAATTA-AATAA
1 TTTTTAAAATTACAAAAA
13852345 TTTTTAAAA
1 TTTTTAAAA
13852354 AAAATTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTTAAAATTACAAAAA
Found at i:13865883 original size:26 final size:26
Alignment explanation
Indices: 13865853--13865905 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
13865843 GCTTTAACTC
13865853 TATCTATA-ATTAAATATGCAGGGATA
1 TATCTATATA-TAAATATGCAGGGATA
*
13865879 TATCTATATATAAATGTGCAGGGATA
1 TATCTATATATAAATATGCAGGGATA
13865905 T
1 T
13865906 GCTAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.36
Consensus pattern (26 bp):
TATCTATATATAAATATGCAGGGATA
Found at i:13874191 original size:28 final size:28
Alignment explanation
Indices: 13874151--13874206 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13874141 GGCTACTTAG
13874151 CCTTATCTCTCCATGATTGGAACCACCA
1 CCTTATCTCTCCATGATTGGAACCACCA
13874179 CCTTATCTCTCCATGATTGGAACCACCA
1 CCTTATCTCTCCATGATTGGAACCACCA
13874207 AGTAATACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.36, G:0.11, T:0.29
Consensus pattern (28 bp):
CCTTATCTCTCCATGATTGGAACCACCA
Found at i:13881203 original size:17 final size:17
Alignment explanation
Indices: 13881178--13881214 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
13881168 TTTTTAATTT
*
13881178 TTTTTAAAAATTAT-AA
1 TTTTTAAAAAATATAAA
13881194 TTTTTAAAAAATATAAA
1 TTTTTAAAAAATATAAA
13881211 TTTT
1 TTTT
13881215 GGAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTTAAAAAATATAAA
Found at i:13881235 original size:20 final size:21
Alignment explanation
Indices: 13881192--13881259 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 21
13881182 TAAAAATTAT
13881192 AATTTTTAAAAAATATAAATTTTGG
1 AATTTTT-AAAAAT-T--ATTTTGG
*
13881217 AATTTTTATAAA-TATTTT-G
1 AATTTTTAAAAATTATTTTGG
*
13881236 AA-TTTTAAAAATTATTTTGA
1 AATTTTTAAAAATTATTTTGG
13881256 AATT
1 AATT
13881260 ATTTTTATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 9 0.24
20 7 0.19
21 1 0.03
22 1 0.03
24 4 0.11
25 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (21 bp):
AATTTTTAAAAATTATTTTGG
Done.