Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008558.1 Hibiscus syriacus cultivar Beakdansim tig00111463_pilon, 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: 2950132
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 14
Found at i:1910554 original size:76 final size:77
Alignment explanation
Indices: 1910385--1910555 Score: 231
Period size: 76 Copynumber: 2.2 Consensus size: 77
1910375 TATTATATAG
* * *
1910385 TTTTTAAAAATATATATAATATATAGTTTTTGAAAATATTTTTATAAAATATATATAATATATAG
1 TTTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTTAAAAAATATATATAATATATAG
1910450 TTTTTAAAAAAC
66 TTTTTAAAAAAC
* * *
1910462 ATTTTGAAAACATATATAATATATAG-TTTTGAAAACA-TTTTAAAAACATATATGTAATATATA
1 TTTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTTAAAAA-ATATATATAATATATA
*
1910525 GTTTTTGAAAATA-
65 GTTTTT-AAAAAAC
*
1910538 TTTTTGAAAATGTATATA
1 TTTTTGAAAATATATATA
1910556 TAGTTTGAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
75 8 0.10
76 46 0.56
77 28 0.34
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.44
Consensus pattern (77 bp):
TTTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTTAAAAAATATATATAATATATAG
TTTTTAAAAAAC
Found at i:1910585 original size:31 final size:33
Alignment explanation
Indices: 1910509--1910585 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 33
1910499 TTTTAAAAAC
1910509 ATATATGTAATATATAGTTTTTGAAAATATTTTTG
1 ATATATGT-ATATATAG-TTTTGAAAATATTTTTG
* *
1910544 A-AAATGTATATATAG-TTTGAAAATATTTTTT
1 ATATATGTATATATAGTTTTGAAAATATTTTTG
1910575 ATATAT-TATAT
1 ATATATGTATAT
1910586 TAATATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
31 21 0.55
32 3 0.08
33 8 0.21
34 5 0.13
35 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (33 bp):
ATATATGTATATATAGTTTTGAAAATATTTTTG
Found at i:1910590 original size:22 final size:22
Alignment explanation
Indices: 1910565--1910633 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 22
1910555 ATAGTTTGAA
1910565 AATATTTTTTATATATTATATT
1 AATATTTTTTATATATTATATT
* *
1910587 AATATTTTTTATTTTTTATTTTATT
1 AATATTTTTTA---TATATTATATT
*
1910612 AATATTACTTTATATATTATAT
1 AATATT-TTTTATATATTATAT
1910634 ATTTTTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 11 0.29
23 8 0.21
25 15 0.39
26 4 0.11
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (22 bp):
AATATTTTTTATATATTATATT
Found at i:1910638 original size:37 final size:36
Alignment explanation
Indices: 1910567--1910654 Score: 103
Period size: 37 Copynumber: 2.5 Consensus size: 36
1910557 AGTTTGAAAA
* *
1910567 TATTTTTTATATATTATATTAATATTTTTTATTTTT
1 TATTTTTTATATATTATATTAATATTATATATTTTT
1910603 TATTTTATTA-ATATTACT-TTATATATTATATATTTTT
1 TATTTT-TTATATATTA-TATTA-ATATTATATATTTTT
1910640 TATTTTTT-TAT-TTAT
1 TATTTTTTATATATTAT
1910655 TTTTTTATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
34 1 0.02
35 3 0.07
36 19 0.41
37 23 0.50
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (36 bp):
TATTTTTTATATATTATATTAATATTATATATTTTT
Found at i:1910658 original size:12 final size:12
Alignment explanation
Indices: 1910638--1910664 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1910628 TTATATATTT
1910638 TTTATTTTTTTA
1 TTTATTTTTTTA
1910650 TTTATTTTTTTA
1 TTTATTTTTTTA
1910662 TTT
1 TTT
1910665 TGGTCCAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:1911186 original size:37 final size:37
Alignment explanation
Indices: 1911134--1911237 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
1911124 CTTTTCGTCA
* *
1911134 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTC
* *
1911171 TGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTC
* *
1911208 TACTATGATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTTAAACTCCTAAAAATAGGAT
1911238 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (37 bp):
TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTC
Found at i:1913286 original size:20 final size:20
Alignment explanation
Indices: 1913246--1913286 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1913236 ACCTTACTAA
*
1913246 CTCTTTTCATTTTTTTTCAT
1 CTCTTTTCATTTTTTTCCAT
1913266 CTCTTTT-ATTTTATTTCCAT
1 CTCTTTTCATTTT-TTTCCAT
1913286 C
1 C
1913287 ATCTGCATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.12, C:0.22, G:0.00, T:0.66
Consensus pattern (20 bp):
CTCTTTTCATTTTTTTCCAT
Found at i:1916684 original size:8 final size:8
Alignment explanation
Indices: 1916673--1916732 Score: 52
Period size: 8 Copynumber: 7.6 Consensus size: 8
1916663 AAAGGGCAAA
1916673 AAAAAAAG
1 AAAAAAAG
*
1916681 AAAAGAAG
1 AAAAAAAG
*
1916689 CAAAAAAG
1 AAAAAAAG
1916697 -AAAAAAG
1 AAAAAAAG
*
1916704 AAAGAAAG
1 AAAAAAAG
1916712 AACAAAAA-
1 AA-AAAAAG
**
1916720 TCAAAAAG
1 AAAAAAAG
1916728 AAAAA
1 AAAAA
1916733 GGGACAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 12 0.30
8 24 0.60
9 4 0.10
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1916700 original size:7 final size:7
Alignment explanation
Indices: 1916670--1916732 Score: 58
Period size: 7 Copynumber: 8.4 Consensus size: 7
1916660 CAAAAAGGGC
1916670 AAAA-AA
1 AAAAGAA
1916676 AAAAGAA
1 AAAAGAA
1916683 AAGAAGCAA
1 AA-AAG-AA
1916692 AAAAGAA
1 AAAAGAA
1916699 AAAAGAA
1 AAAAGAA
1916706 AGAAAGAA
1 A-AAAGAA
1916714 CAAAA-ATCA
1 -AAAAGA--A
1916723 AAAAGAA
1 AAAAGAA
1916730 AAA
1 AAA
1916733 GGGACAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
6 4 0.08
7 19 0.39
8 19 0.39
9 7 0.14
ACGTcount: A:0.81, C:0.05, G:0.13, T:0.02
Consensus pattern (7 bp):
AAAAGAA
Found at i:1916718 original size:23 final size:23
Alignment explanation
Indices: 1916669--1916731 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
1916659 ACAAAAAGGG
1916669 CAAAAAAAAAAGAAAAGAAGCAA
1 CAAAAAAAAAAGAAAAGAAGCAA
1916692 -AAAAGAAAAAAG-AAAGAAAG-AA
1 CAAAA-AAAAAAGAAAAG-AAGCAA
1916714 CAAAAATCAAAAAGAAAA
1 CAAAAA--AAAAAGAAAA
1916732 AGGGACAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
22 11 0.32
23 14 0.41
24 6 0.18
25 3 0.09
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.02
Consensus pattern (23 bp):
CAAAAAAAAAAGAAAAGAAGCAA
Found at i:1916742 original size:24 final size:25
Alignment explanation
Indices: 1916656--1916744 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 25
1916646 AGATTCAATC
* *
1916656 AGAACAAAAAGGGCAAAAAAAAAAGAAA
1 AGAACAAAAA-AG-AAAAAAGAAAG-AA
1916684 AGAAGCAAAAAAGAAAAAAGAAAGAA
1 AGAA-CAAAAAAGAAAAAAGAAAGAA
**
1916710 AGAAC-AAAAATCAAAAAGAAA-AA
1 AGAACAAAAAAGAAAAAAGAAAGAA
* *
1916733 GGGACAAAAAAG
1 AGAACAAAAAAG
1916745 CACATGCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
23 5 0.10
24 19 0.37
25 1 0.02
26 6 0.12
27 10 0.19
28 5 0.10
29 6 0.12
ACGTcount: A:0.74, C:0.07, G:0.18, T:0.01
Consensus pattern (25 bp):
AGAACAAAAAAGAAAAAAGAAAGAA
Found at i:1917369 original size:22 final size:22
Alignment explanation
Indices: 1917298--1917372 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 22
1917288 GCTACCCCAT
*
1917298 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
* * *
1917320 CAAACATATGAGCATCACATGC
1 CAAACCTTTGAGCATCAAATGC
1917342 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
1917364 CAAACCTTT
1 CAAACCTTT
1917373 AACCAAACAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:1918401 original size:106 final size:106
Alignment explanation
Indices: 1918194--1919673 Score: 1998
Period size: 106 Copynumber: 14.0 Consensus size: 106
1918184 ATATCGTGCC
* * * * *
1918194 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
** * *
1918258 AATTTTGGAGCTAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1918299 ACTACAGAAAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
1918364 AATTTCAGATCTAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1918405 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTT-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCC
*
1918469 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* ** *
1918511 ACTCCAGACAACGCAAGTTAAACTTCACGACGAAGGGACCATTGGTTTTCAACAAACAACGTTT-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA--TTTC
1918575 -CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1918617 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCTCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * * *
1918682 AATTTCAGAGCCAATTTTAGCTTCACAGCGAAGGATACTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1918723 ACTCCAGACAACGCAAGTTCAAATTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
** * *
1918788 AATTTCAGAGATAATTTCAATTTCACAACGAACGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1918829 ACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTTAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1918894 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1918935 ACTCCAGACAACGCAAGTTCAACTTTACGACGAAGGGATCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
** *
1919000 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1919041 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGAGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
1919106 AATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1919147 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
1919212 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
1919253 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
1919318 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
1919359 ATTCAAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * * *
1919424 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * ** *
1919465 AC-CCAAGGCAACACAAGCTCAACTTCACGACGAAGAGG-TGGCTGATTGTCAAC-AA-AATTT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAACAATTTC
* * * *
1919525 -C-A-TTCA-AGTCAATTTCAACTTCACAGCGAATGATATTAG
64 CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
1919564 ACTCGATACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAATAATTTTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCC
** * * * *
1919628 CGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGA
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1919670 ACTC
1 ACTC
1919674 AGAACAATGC
Statistics
Matches: 1225, Mismatches: 133, Indels: 33
0.88 0.10 0.02
Matches are distributed among these distances:
98 3 0.00
99 66 0.05
100 7 0.01
101 6 0.00
102 1 0.00
103 1 0.00
104 6 0.00
105 52 0.04
106 1075 0.88
107 8 0.01
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1920457 original size:37 final size:37
Alignment explanation
Indices: 1920404--1920508 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
1920394 CCTTTTCGTC
*
1920404 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
1920441 TTTCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
1920478 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
1920509 CCACAAGAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:1921053 original size:2 final size:2
Alignment explanation
Indices: 1921048--1921077 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1921038 TTAATATTAT
*
1921048 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1921078 CTTTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1921367 original size:2 final size:2
Alignment explanation
Indices: 1921360--1921400 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1921350 TTTACTCGTT
1921360 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1921401 TAATATTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1922532 original size:2 final size:2
Alignment explanation
Indices: 1922525--1922553 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1922515 CCTTTAAACT
1922525 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1922554 TTATTACTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1928978 original size:86 final size:86
Alignment explanation
Indices: 1928709--1929313 Score: 759
Period size: 86 Copynumber: 7.0 Consensus size: 86
1928699 ATCTCCCAAC
* * * * * *
1928709 CAAAATTACAGCATAGGTCAAGGCGAGAAGGGTTATATATTAACAAAAAAACTTCGAGTTCGATT
1 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATT
* *
1928774 CCATTCAGC-CAATGGAAAAAT
66 CCATTCAGCTCAA-GGACATAT
* * * ** *
1928795 CAAATTTACAGCATAGCTCAAGGCGATAAAGGCTATCTGTCAACAAAAAAAATATTCGAGTTTGA
1 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC--AAAAAACCTTCGAGTTCGA
* *
1928860 TTTCATTCAGCTCAATGACATAT
64 TTCCATTCAGCTCAAGGACATAT
* * * * *
1928883 CAAAATTACAGCATAGCTAAAGGAGAGAAGGGTTATCTGTCAACAAAAAACCTTCAAGTTTGATT
1 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATT
*
1928948 CCATTCAGTTCAAGGACATAT
66 CCATTCAGCTCAAGGACATAT
* * *
1928969 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATTTGTC-A-AAAAAACCTTTGAGTTCGATT
1 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATT
1929032 CCATTCAGCTCAAGGACATAT
66 CCATTCAGCTCAAGGACATAT
* * * * *
1929053 AAAATTTACAGCATAGCTGAAGGTGAAAAGGGATATCTGTCAACAAAAAACCTTCGAGTTCGATT
1 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATT
* *
1929118 CCATTAAGCTCAATGACATAT
66 CCATTCAGCTCAAGGACATAT
* * * *
1929139 CAAATTTACAGTATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAAAACCTTCGAGTTCGATT
1 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATT
1929204 CCATTCAGCTCAAGGACATAT
66 CCATTCAGCTCAAGGACATAT
* * * * *
1929225 CAAATTTACAACATAGCTCAAGGTGAGAAGGGTTATCTGTCAACAAAAAACTTTTGAGTTTGA-T
1 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATT
* *
1929289 CTCATTCAGCTCAATGATATAT
66 C-CATTCAGCTCAAGGACATAT
1929311 CAA
1 CAA
1929314 CCGCATGGTA
Statistics
Matches: 448, Mismatches: 65, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
84 74 0.17
85 4 0.01
86 298 0.67
88 69 0.15
89 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (86 bp):
CAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATT
CCATTCAGCTCAAGGACATAT
Found at i:1929095 original size:170 final size:171
Alignment explanation
Indices: 1928710--1929313 Score: 775
Period size: 170 Copynumber: 3.5 Consensus size: 171
1928700 TCTCCCAACC
* * * * * *
1928710 AAAATTACAGCATAGGTCAAGGCGAGAAGGGTTATATATTAACAAAAAAACTTCGAGTTCGATTC
1 AAAATTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATTC
* * * *
1928775 CATTCAGC-CAATGGAAAAATCAAATTTACAGCATAGCTCAAGGCGATAAAGGCTATCTGTCAAC
66 CATTCAGCTCAA-GGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC
** * * *
1928839 AAAAAAAATATTCGAGTTTGATTTCATTCAGCTCAATGACATAT
130 AAAAAACCT-TT-GAGTTCGATTCCATTCAGCTCAAGGACATAT
* * * *
1928883 CAAAATTACAGCATAGCTAAAGGAGAGAAGGGTTATCTGTCAACAAAAAACCTTCAAGTTTGATT
1 -AAAATTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATT
* * *
1928948 CCATTCAGTTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATTTGTC-A-
65 CCATTCAGCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC
1929011 AAAAAACCTTTGAGTTCGATTCCATTCAGCTCAAGGACATAT
130 AAAAAACCTTTGAGTTCGATTCCATTCAGCTCAAGGACATAT
* * *
1929053 AAAATTTACAGCATAGCTGAAGGTGAAAAGGGATATCTGTCAACAAAAAACCTTCGAGTTCGATT
1 AAAA-TTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATT
* * * * *
1929118 CCATTAAGCTCAATGACATATCAAATTTACAGTATAACTCAAGGCGAGAAGGGCTATCTATCAAC
65 CCATTCAGCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC
*
1929183 AAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGACATAT
130 AAAAAACCTTTGAGTTCGATTCCATTCAGCTCAAGGACATAT
* * * * *
1929225 CAAATTTACAACATAGCTCAAGGTGAGAAGGGTTATCTGTCAACAAAAAACTTTTGAGTTTGA-T
1 -AAAATTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATT
* *
1929289 CTCATTCAGCTCAATGATATATCAA
65 C-CATTCAGCTCAAGGACATATCAA
1929314 CCGCATGGTA
Statistics
Matches: 378, Mismatches: 46, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
169 4 0.01
170 136 0.36
171 5 0.01
172 120 0.32
173 4 0.01
174 106 0.28
175 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (171 bp):
AAAATTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATTC
CATTCAGCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACA
AAAAACCTTTGAGTTCGATTCCATTCAGCTCAAGGACATAT
Found at i:1929206 original size:256 final size:258
Alignment explanation
Indices: 1928709--1929304 Score: 790
Period size: 256 Copynumber: 2.3 Consensus size: 258
1928699 ATCTCCCAAC
* * ** *
1928709 CAAAATTACAGCATAGGTCAAGGCGAGAAGGGTTATATATTAACAAAAAAA-CTTCGAGTTCGAT
1 CAAATTTACAGCATAGCTCAAGGCGAGAAGGG--ATAT-TTGTCAAAAAAACCTTTGAGTTCGAT
* *
1928773 TCCATTCAGC-CAATGGAAAAATCAAATTTACAGCATAGCTCAAGGCGATAAAGGCTATCTGTCA
63 TCCATTCAGCTCAATGGAAAAATAAAATTTACAGCATAGCTCAAGGCGATAAAGGATATCTGTCA
* * * * *
1928837 ACAAAAAAAATATTCGAGTTTGATTTCATTCAGCTCAATGACATATCAAAATTACAGCATAGCTA
128 AC-AAAAAAACATTCGAGTTCGATTCCATTAAGCTCAATGACATATCAAAATTACAGCATAACTA
* * * *
1928902 AAGGAGAGAAGGGTTATCTGTCAACAAAAAACCTTCAAGTTTGATTCCATTCAGTTCAAGGACAT
192 AAGGAGAGAAGGGCTATCTATCAACAAAAAACCTTCAAGTTCGATTCCATTCAGCTCAAGGACAT
1928967 AT
257 AT
1928969 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATTTGTCAAAAAAACCTTTGAGTTCGATTCC
1 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATTTGTCAAAAAAACCTTTGAGTTCGATTCC
* * * *
1929034 ATTCAGCTCAA-GGACATATAAAATTTACAGCATAGCTGAAGGTGA-AAAGGGATATCTGTCAAC
66 ATTCAGCTCAATGGAAAAATAAAATTTACAGCATAGCTCAAGGCGATAAA-GGATATCTGTCAAC
* * * *
1929097 -AAAAAACCTTCGAGTTCGATTCCATTAAGCTCAATGACATATCAAATTTACAGTATAACTCAAG
130 AAAAAAACATTCGAGTTCGATTCCATTAAGCTCAATGACATATCAAAATTACAGCATAACTAAAG
* *
1929161 GCGAGAAGGGCTATCTATCAACAAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGACATAT
195 GAGAGAAGGGCTATCTATCAACAAAAAACCTTCAAGTTCGATTCCATTCAGCTCAAGGACATAT
* * * * * *
1929225 CAAATTTACAACATAGCTCAAGGTGAGAAGGGTTATCTGTCAACAAAAAACTTTTGAGTTTGA-T
1 CAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATTTGTC-A-AAAAAACCTTTGAGTTCGATT
1929289 CTCATTCAGCTCAATG
64 C-CATTCAGCTCAATG
1929305 ATATATCAAC
Statistics
Matches: 297, Mismatches: 32, Indels: 15
0.86 0.09 0.04
Matches are distributed among these distances:
256 150 0.51
257 16 0.05
258 97 0.33
259 4 0.01
260 30 0.10
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (258 bp):
CAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATTTGTCAAAAAAACCTTTGAGTTCGATTCC
ATTCAGCTCAATGGAAAAATAAAATTTACAGCATAGCTCAAGGCGATAAAGGATATCTGTCAACA
AAAAAACATTCGAGTTCGATTCCATTAAGCTCAATGACATATCAAAATTACAGCATAACTAAAGG
AGAGAAGGGCTATCTATCAACAAAAAACCTTCAAGTTCGATTCCATTCAGCTCAAGGACATAT
Found at i:1929983 original size:36 final size:37
Alignment explanation
Indices: 1929943--1930024 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
1929933 AGTTTTTGAA
*
1929943 ATTATATAGTTTTG-AAAACGATTTTTGAAAATATCT
1 ATTATATAGTTTTGAAAAACGATTTTTGAAAATATAT
* * *
1929979 ATTATATAGTTTTGAAAAATGATTTTTTAATATATAT
1 ATTATATAGTTTTGAAAAACGATTTTTGAAAATATAT
1930016 ATATATATA
1 AT-TATATA
1930025 TATATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 14 0.35
37 20 0.50
38 6 0.15
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (37 bp):
ATTATATAGTTTTGAAAAACGATTTTTGAAAATATAT
Found at i:1930013 original size:2 final size:2
Alignment explanation
Indices: 1930008--1930043 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1929998 TGATTTTTTA
1930008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1930044 TATGTTTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1930216 original size:40 final size:39
Alignment explanation
Indices: 1930028--1930208 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 39
1930018 ATATATATAT
*
1930028 ATATATATATATATATTATGTTTTTGAAAACA-TTT-AGAAA
1 ATATATATA-ATATA-TA-GTTTTTGAAAACATTTTGAAAAA
1930068 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAA
**
1930107 ATATATATAATATATAGTTTATAAAAAACATTTTG-AAAA
1 ATATATATAATATATAGTTT-TTGAAAACATTTTGAAAAA
*
1930146 A-ATATATAATATATAG-TTTTGAAAATATTTTGAAAACA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAA-A
1930184 TATATATATAATATATAGTTTTTGA
1 -ATATATATAATATATAGTTTTTGA
1930209 TTTATTTTTT
Statistics
Matches: 127, Mismatches: 6, Indels: 15
0.86 0.04 0.10
Matches are distributed among these distances:
36 11 0.09
37 18 0.14
38 21 0.17
39 35 0.28
40 36 0.28
41 6 0.05
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (39 bp):
ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAA
Found at i:1930299 original size:10 final size:11
Alignment explanation
Indices: 1930248--1930314 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 11
1930238 TGAAATTTTG
1930248 TATATATTATAT
1 TATATATT-TAT
*
1930260 TAATATTATTTGT
1 T-ATA-TATTTAT
*
1930273 T-TTTATTTTAT
1 TATATA-TTTAT
1930284 TA-ATATTT-T
1 TATATATTTAT
1930293 TATATATTTAT
1 TATATATTTAT
1930304 TAT-TATTTAT
1 TATATATTTAT
1930314 T
1 T
1930315 TAATTATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
9 3 0.07
10 19 0.42
11 12 0.27
12 1 0.02
13 6 0.13
14 4 0.09
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (11 bp):
TATATATTTAT
Found at i:1930322 original size:15 final size:14
Alignment explanation
Indices: 1930287--1930330 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1930277 ATTTTATTAA
* *
1930287 TATTTTTATATATT
1 TATTATTATTTATT
1930301 TATTATTATTTATT
1 TATTATTATTTATT
*
1930315 TAATTATTTTTTATT
1 T-ATTATTATTTATT
1930330 T
1 T
1930331 TGGTCCAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTATTATTTATT
Found at i:1930327 original size:45 final size:46
Alignment explanation
Indices: 1930242--1930329 Score: 110
Period size: 45 Copynumber: 1.9 Consensus size: 46
1930232 TAGTTTTGAA
* *
1930242 ATTTTGTATATATTATATTAATATTATTTGTTTTTATTTTATTAAT
1 ATTTTGTATATATTATATTAATATTATTTATTATTATTTTATTAAT
*
1930288 ATTTT-TATATATT-TATTATTATTTATTTAATTATT-TTTTATT
1 ATTTTGTATATATTATATTAATA-TTATTT-ATTATTATTTTATT
1930330 TTGGTCCAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 7 0.19
45 21 0.57
46 9 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (46 bp):
ATTTTGTATATATTATATTAATATTATTTATTATTATTTTATTAAT
Found at i:1931520 original size:2 final size:2
Alignment explanation
Indices: 1931515--1931547 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1931505 AAACATTGTT
1931515 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1931548 TTCTTTACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1933067 original size:3 final size:3
Alignment explanation
Indices: 1933052--1933107 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
1933042 TGAGACTATA
* * * *
1933052 TAT TAT CAT TAT TAT TAT TAT TAT TA- TAT TAT AAT AAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1933099 TAT TAT TAT
1 TAT TAT TAT
1933108 CACCATTACA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:1933079 original size:26 final size:26
Alignment explanation
Indices: 1933050--1933104 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
1933040 TCTGAGACTA
* * *
1933050 TATATTATCATTATTATTATTATTAT
1 TATATTATAATAATAATTATTATTAT
1933076 TATATTATAATAATAATTATTATTAT
1 TATATTATAATAATAATTATTATTAT
1933102 TAT
1 TAT
1933105 TATCACCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TATATTATAATAATAATTATTATTAT
Found at i:1933126 original size:32 final size:32
Alignment explanation
Indices: 1933059--1933122 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
1933049 ATATATTATC
* * *
1933059 ATTATTATTATTATTATTATATTATAATAATA
1 ATTATTATTATTATTATCACATTAAAATAATA
1933091 ATTATTATTATTATTATCACCATTACAAATAA
1 ATTATTATTATTATTATCA-CATTA-AAATAA
1933123 ATTACAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 18 0.67
33 4 0.15
34 5 0.19
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (32 bp):
ATTATTATTATTATTATCACATTAAAATAATA
Found at i:1941628 original size:20 final size:20
Alignment explanation
Indices: 1941600--1941653 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
1941590 TCTAGAAAAT
* * * *
1941600 TAAATCCTCCGGGTGATTTG
1 TAAAACCTCCGGGTCATCTA
*
1941620 TAAAACCTCCTGGTCATCTA
1 TAAAACCTCCGGGTCATCTA
*
1941640 TAAAACCTCAGGGT
1 TAAAACCTCCGGGT
1941654 AGGATGTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (20 bp):
TAAAACCTCCGGGTCATCTA
Found at i:1941649 original size:119 final size:119
Alignment explanation
Indices: 1941496--1941782 Score: 452
Period size: 119 Copynumber: 2.4 Consensus size: 119
1941486 TTTCCCATGC
* * * *
1941496 ATTTGTAAAGCCT-CTGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGGATGAAAATGAGA
1 ATTTGTAAAACCTCCT-GGTCATCTATAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAGA
* *
1941560 AAGCGGTTTTCAAAGTCTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGTG
65 AAGAGATTTTCAAAGTCTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGTG
1941615 ATTTGTAAAACCTCCTGGTCATCTATAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAGAA
1 ATTTGTAAAACCTCCTGGTCATCTATAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAGAA
* *
1941680 AGAGATTTTCAAAGTTTCTCATTTAATGTTCTATAAAATTAAATCCTCCGGGTG
66 AGAGATTTTCAAAGTCTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGTG
* *
1941734 ATTTGTAAAACCTCC-GAGTCATCTATTAAACCTCAGGGTAAGATGTTTT
1 ATTTGTAAAACCTCCTG-GTCATCTATAAAACCTCAGGGTAGGATGTTTT
1941783 TATTTTTTAT
Statistics
Matches: 156, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
118 1 0.01
119 153 0.98
120 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (119 bp):
ATTTGTAAAACCTCCTGGTCATCTATAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAGAA
AGAGATTTTCAAAGTCTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGTG
Found at i:1941925 original size:3 final size:3
Alignment explanation
Indices: 1941917--1941995 Score: 133
Period size: 3 Copynumber: 26.7 Consensus size: 3
1941907 CAAGACTATA
1941917 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
1941964 TAC AAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1941996 AAAATAAATT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 69 0.97
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1943324 original size:16 final size:18
Alignment explanation
Indices: 1943284--1943326 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1943274 TAAGATTAAT
*
1943284 TATAATATTAGTATACTTT
1 TATAATATTAG-ATACTTG
1943303 TATAATATTAG-TA-TTG
1 TATAATATTAGATACTTG
1943319 TATAATAT
1 TATAATAT
1943327 AATTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 2 0.09
19 11 0.48
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (18 bp):
TATAATATTAGATACTTG
Found at i:1945013 original size:28 final size:28
Alignment explanation
Indices: 1944982--1945042 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
1944972 CTCCTTTCAA
* *
1944982 TTTTCTTCCTTTTTTATT-TTTTCTTTTC
1 TTTTCTTCATTTTTTATTCATTT-TTTTC
*
1945010 TTTTCTTCATTTTTTCTTCATTTTTTTC
1 TTTTCTTCATTTTTTATTCATTTTTTTC
1945038 TTTTC
1 TTTTC
1945043 CTCTTCAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.90
29 3 0.10
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTCTTCATTTTTTATTCATTTTTTTC
Found at i:1945023 original size:10 final size:11
Alignment explanation
Indices: 1944997--1945035 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
1944987 TTCCTTTTTT
1944997 ATTTTTTCTT-
1 ATTTTTTCTTC
1945007 -TTCTTTTCTTC
1 ATT-TTTTCTTC
1945018 ATTTTTTCTTC
1 ATTTTTTCTTC
1945029 ATTTTTT
1 ATTTTTT
1945036 TCTTTTCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.08
10 7 0.27
11 15 0.58
12 2 0.08
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTTTCTTC
Found at i:1949003 original size:42 final size:39
Alignment explanation
Indices: 1948914--1949194 Score: 173
Period size: 39 Copynumber: 7.7 Consensus size: 39
1948904 ATATATATAG
* *
1948914 TATATAATATATAGTTTTCTATAAAATTTTGAAAACTTA
1 TATATAATATATAGTTTTCTAAAAAATTTTGAAAACATA
*
1948953 TATGTAATATATAGTTTTCTAAAAAGACGTTTTGAAAACATA
1 TATATAATATATAGTTTTCTAAAAA-A--TTTTGAAAACATA
1948995 TATATAATATATAGTTTT-TAAAAATATTTTG-----A-A
1 TATATAATATATAGTTTTCTAAAAA-ATTTTGAAAACATA
* *
1949028 -A-ATAATATATAGTTTT-TGAAAACATTTTAAAAACATA
1 TATATAATATATAGTTTTCT-AAAAAATTTTGAAAACATA
* * *
1949065 TATATAATATATAATTTT-T-GAAAA---T----ATATA
1 TATATAATATATAGTTTTCTAAAAAATTTTGAAAACATA
* * *
1949095 TA-AT-ATATAGT--TTTT-GAAAACATTTTGAAAAAATA
1 TATATAATATA-TAGTTTTCTAAAAAATTTTGAAAACATA
* * * *
1949130 TATATAATATATAATTTT-TGAAAATATTTTTAAAATATA
1 TATATAATATATAGTTTTCT-AAAAAATTTTGAAAACATA
*
1949169 TATATATTATATAGTTTT-TAAAAAAT
1 TATATAATATATAGTTTTCTAAAAAAT
1949195 ATATTTATAT
Statistics
Matches: 194, Mismatches: 22, Indels: 53
0.72 0.08 0.20
Matches are distributed among these distances:
27 4 0.02
28 8 0.04
29 3 0.02
30 6 0.03
31 22 0.11
32 5 0.03
33 1 0.01
34 2 0.01
35 6 0.03
36 4 0.02
37 9 0.05
38 11 0.06
39 76 0.39
40 1 0.01
41 7 0.04
42 29 0.15
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (39 bp):
TATATAATATATAGTTTTCTAAAAAATTTTGAAAACATA
Found at i:1949068 original size:30 final size:31
Alignment explanation
Indices: 1948998--1949070 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
1948988 AAACATATAT
*
1948998 ATAATATATAGTTTTTAAAAATATTTTGAAA
1 ATAATATATAGTTTTTAAAAACATTTTGAAA
* *
1949029 ATAATATATAGTTTTTGAAAACATTTTAAAA
1 ATAATATATAGTTTTTAAAAACATTTTGAAA
*
1949060 ACATATATATA
1 ATA-ATATATA
1949071 ATATATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 30 0.81
32 7 0.19
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (31 bp):
ATAATATATAGTTTTTAAAAACATTTTGAAA
Found at i:1949083 original size:28 final size:27
Alignment explanation
Indices: 1949051--1949117 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 27
1949041 TTTTGAAAAC
*
1949051 ATTTTAAAAACATATATATAATATATA
1 ATTTTTAAAACATATATATAATATATA
*
1949078 ATTTTTGAAA-ATATATATAATATATA
1 ATTTTTAAAACATATATATAATATATA
*
1949104 GTTTTTGAAAACAT
1 ATTTTT-AAAACAT
1949118 TTTGAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.62
27 11 0.32
28 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (27 bp):
ATTTTTAAAACATATATATAATATATA
Found at i:1949098 original size:26 final size:26
Alignment explanation
Indices: 1949062--1949114 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
1949052 TTTTAAAAAC
1949062 ATATATATAATATATAATTTTTGAAA
1 ATATATATAATATATAATTTTTGAAA
*
1949088 ATATATATAATATATAGTTTTTGAAA
1 ATATATATAATATATAATTTTTGAAA
1949114 A
1 A
1949115 CATTTTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (26 bp):
ATATATATAATATATAATTTTTGAAA
Found at i:1949103 original size:37 final size:38
Alignment explanation
Indices: 1949080--1949217 Score: 147
Period size: 39 Copynumber: 3.6 Consensus size: 38
1949070 AATATATAAT
* *
1949080 TTTTGAAA-ATATATATAATATATAGTTTTTGAAAACA
1 TTTTAAAATATATATATAATATATAGTTTTTGAAAAAA
* * *
1949117 TTTTGAAAAAATATATATAATATATAATTTTTGAAAATAT
1 TTTT-AAAATATATATATAATATATAGTTTTTGAAAA-AA
*
1949157 TTTTAAAATATATATATATTATATAGTTTTT-AAAAAA
1 TTTTAAAATATATATATAATATATAGTTTTTGAAAAAA
* *
1949194 TATATTTATATAT-TATATAATATA
1 T-T-TTAAAATATATATATAATATA
1949218 GTACTATATA
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
37 6 0.07
38 18 0.21
39 57 0.67
40 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (38 bp):
TTTTAAAATATATATATAATATATAGTTTTTGAAAAAA
Found at i:1949110 original size:65 final size:65
Alignment explanation
Indices: 1948940--1949156 Score: 265
Period size: 65 Copynumber: 3.2 Consensus size: 65
1948930 TTCTATAAAA
* * * *
1948940 TTTTGAAAACTTATATGTAATATATAGTTTTCTAAAAAGACGTTTTGAAAACATATATATAATAT
1 TTTTGAAAA--TATATATAATATATAGTTTT-T-GAAA-ACATTTTAAAAACATATATATAATAT
*
1949005 ATAGT
61 ATAAT
* *
1949010 TTTTAAAAATATTTTGAAAATAATATATAGTTTTTGAAAACATTTTAAAAACATATATATAATAT
1 TTTTGAAAATA---T--ATATAATATATAGTTTTTGAAAACATTTTAAAAACATATATATAATAT
1949075 ATAAT
61 ATAAT
1949080 TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAAA-ATATATATAATATATAA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTT-AAAAACATATATATAATATATAA
1949144 T
65 T
1949145 TTTTGAAAATAT
1 TTTTGAAAATAT
1949157 TTTTAAAATA
Statistics
Matches: 132, Mismatches: 9, Indels: 17
0.84 0.06 0.11
Matches are distributed among these distances:
65 58 0.44
66 5 0.04
67 1 0.01
68 2 0.02
70 46 0.35
71 4 0.03
72 1 0.01
73 15 0.11
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (65 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTAAAAACATATATATAATATATAAT
Found at i:1949166 original size:28 final size:28
Alignment explanation
Indices: 1949117--1949170 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
1949107 TTTGAAAACA
*
1949117 TTTTGAAAAAATATATATAATATATAAT
1 TTTTGAAAAAATATATAAAATATATAAT
* * *
1949145 TTTTGAAAATATTTTTAAAATATATA
1 TTTTGAAAAAATATATAAAATATATA
1949171 TATATTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTTTGAAAAAATATATAAAATATATAAT
Found at i:1949192 original size:65 final size:67
Alignment explanation
Indices: 1948982--1949206 Score: 223
Period size: 65 Copynumber: 3.4 Consensus size: 67
1948972 TAAAAAGACG
* * * * *
1948982 TTTTGAAAACATATATATAATATATAGTTTTTAAAAATATTTTGAAAATA-ATATATAGTTTTTG
1 TTTTAAAAACATATATATAATATATAATTTTTGAAAATATTTTTAAAATATATATATA--TTAT-
1949046 AAAACA
63 -AAACA
* * *
1949052 TTTTAAAAACATATATATAATATATAATTTTTGAAAATA--TATATAATATATAGT-TTTTGA-A
1 TTTTAAAAACATATATATAATATATAATTTTTGAAAATATTTTTAAAATATATA-TATATT-ATA
1949113 AACA
64 AACA
*
1949117 TTTTGAAAAA-ATATATATAATATATAATTTTTGAAAATATTTTTAAAATATATATATATTATAT
1 TTTT-AAAAACATATATATAATATATAATTTTTGAAAATATTTTTAAAATATATATATATTATAA
**
1949181 AGT
65 ACA
*
1949184 TTTTAAAAA-ATATAT-TTATATAT
1 TTTTAAAAACATATATATAATATAT
1949207 TATATAATAT
Statistics
Matches: 132, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
65 45 0.34
66 18 0.14
67 22 0.17
68 6 0.05
69 4 0.03
70 37 0.28
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (67 bp):
TTTTAAAAACATATATATAATATATAATTTTTGAAAATATTTTTAAAATATATATATATTATAAA
CA
Found at i:1949210 original size:29 final size:27
Alignment explanation
Indices: 1949156--1949206 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1949146 TTTGAAAATA
*
1949156 TTTTTAAAATATATATATATTATATAG
1 TTTTTAAAAAATATATATATTATATAG
*
1949183 TTTTTAAAAAATATATTTA-TATAT
1 TTTTTAAAAAATATATATATTATAT
1949207 TATATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTTTAAAAAATATATATATTATATAG
Found at i:1949281 original size:20 final size:21
Alignment explanation
Indices: 1949233--1949281 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
1949223 ATATACTATA
* *
1949233 TTTTATTCATTTTATTTTTAT
1 TTTTATTTATTTTATTTTCAT
*
1949254 TTTTATTTA-TTTATTTTCGT
1 TTTTATTTATTTTATTTTCAT
1949274 TTTTATTT
1 TTTTATTT
1949282 CTTTGGTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTATTTATTTTATTTTCAT
Found at i:1955662 original size:19 final size:19
Alignment explanation
Indices: 1955619--1955662 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1955609 TAATGCAAAA
1955619 ATGGTATCGATACCATAAT
1 ATGGTATCGATACCATAAT
* *
1955638 AGGGTATC-AGTACCATAGT
1 ATGGTATCGA-TACCATAAT
1955657 ATGGTA
1 ATGGTA
1955663 GTATAAATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (19 bp):
ATGGTATCGATACCATAAT
Found at i:1956145 original size:47 final size:47
Alignment explanation
Indices: 1956075--1956335 Score: 389
Period size: 47 Copynumber: 5.6 Consensus size: 47
1956065 TAAATTGAAT
* *
1956075 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGAATAAAAGGATG
1 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
1956122 ACATAACCTAAAATG-ATTGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAACTAAAATGCA-TGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
1956169 TCATAAACTAATATGCATGAAATGATGCATTAAGGCATGAAAGGATG
1 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
1956216 CCATAAACTAAAATGCATGAAAGAATGCATTAACGCATGAAAGGATG
1 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
1956263 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATG
1 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
1956310 TCAAAAAATAAAATGCATGAAAGGAT
1 CCATAAACTAAAATGCATGAAAGGAT
1956336 TCCATAAACT
Statistics
Matches: 193, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 1 0.01
47 191 0.99
48 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
Found at i:1956329 original size:141 final size:141
Alignment explanation
Indices: 1956075--1956759 Score: 563
Period size: 141 Copynumber: 4.7 Consensus size: 141
1956065 TAAATTGAAT
* * *
1956075 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGAATAAAAGGATGACATAACCTAAAATGATT
1 CCATAAACTAAAATGCATGAAAGAATGCATTAACGAATAAAAGGATGACATAAACTAAAATGATT
* * * *
1956140 GAAAGGATGCATTAAGGCATGAAAGGATGTCATAAACTAATATGCATGAAATGATGCATTAAGGC
66 GAAAGGATGCATTAAGGCATGAAAAGATGTCAAAAAATAAAATGCATGAAATGATGCATTAAGGC
1956205 ATGAAAGGATG
131 ATGAAAGGATG
* * *
1956216 CCATAAACTAAAATGCATGAAAGAATGCATTAACGCATGAAAGGATGCCATAAACTAAAATGCA-
1 CCATAAACTAAAATGCATGAAAGAATGCATTAACGAATAAAAGGATGACATAAACTAAAATG-AT
* *
1956280 TGAAAGGATGCATTAAGGCATGAAAAGATGTCAAAAAATAAAATGCATGAAAGGATTCCATAAAC
65 TGAAAGGATGCATTAAGGCATGAAAAGATGTCAAAAAATAAAATGCATGAAATGA-TGCAT----
*
1956345 TAAAATGCATGAAAGGATG
125 T--AAGGCATGAAAGGATG
* * * * *
1956364 -CATTAAGGCATGAAAGGATGTCATAAACTAAAATGCATGAATTGATGCATTAAGGCATGAAAGG
1 CCA-TAA-AC-T-AAA--ATG-C----A-T-GAA---A-G-A---ATGCATTAACGAATAAAAGG
* * * * * *
1956428 ATGCCATAAACTAAAAT-ACATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAACTAAAAT
45 ATGACATAAACTAAAATGA-TTGAAAGGATGCATTAAGGCATGAAAAGATGTCAAAAAATAAAAT
* * *
1956492 GCATGAAAGGATTCATTAAGGCATGAAAAGATG
109 GCATGAAATGATGCATTAAGGCATGAAAGGATG
* * * * *
1956525 CCATAAACTAAAATGCATGAAAGGATTCATTAAGGCATGAAAA-GATGCCATAAACTAAAATGCA
1 CCATAAACTAAAATGCATGAAAGAATGCATTAACGAAT-AAAAGGATGACATAAACTAAAATG-A
* * * * * * *
1956589 -TGAAAGAATGTATTAAGGCATGAAAGGATGTCATAAACTAAAATGTATGAAAGGATGCATTAAG
64 TTGAAAGGATGCATTAAGGCATGAAAAGATGTCAAAAAATAAAATGCATGAAATGATGCATTAAG
* *
1956653 TCATGAAAGGATC
129 GCATGAAAGGATG
* * * * * * ** *
1956666 CCATAAACTAAAATACATTAAAGGATGCATTAAGGCATGAAAGGATTTCATAAACTAAGATGCA-
1 CCATAAACTAAAATGCATGAAAGAATGCATTAACGAATAAAAGGATGACATAAACTAAAATG-AT
* *
1956730 TGAAAGGATGCATTAAGGAATGAAAGGATG
65 TGAAAGGATGCATTAAGGCATGAAAAGATG
1956760 CCATAATTTA
Statistics
Matches: 462, Mismatches: 46, Indels: 72
0.80 0.08 0.12
Matches are distributed among these distances:
140 3 0.01
141 286 0.62
142 8 0.02
143 1 0.00
145 1 0.00
146 2 0.00
147 2 0.00
148 18 0.04
149 3 0.01
150 2 0.00
151 4 0.01
153 3 0.01
154 1 0.00
155 1 0.00
156 3 0.01
158 4 0.01
159 2 0.00
160 3 0.01
161 17 0.04
162 2 0.00
163 2 0.00
164 1 0.00
165 1 0.00
166 1 0.00
167 4 0.01
168 87 0.19
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.22
Consensus pattern (141 bp):
CCATAAACTAAAATGCATGAAAGAATGCATTAACGAATAAAAGGATGACATAAACTAAAATGATT
GAAAGGATGCATTAAGGCATGAAAAGATGTCAAAAAATAAAATGCATGAAATGATGCATTAAGGC
ATGAAAGGATG
Found at i:1956330 original size:74 final size:74
Alignment explanation
Indices: 1956250--1956550 Score: 311
Period size: 74 Copynumber: 4.2 Consensus size: 74
1956240 ATGCATTAAC
1956250 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGTCAAA
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGTCAAA
1956315 AAATAAAAT
66 AAATAAAAT
* * *
1956324 GCATGAAAGGATTCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATA
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGTCAAA
*
1956389 AACTAAAAT
66 AAATAAAAT
** * * * *
1956398 GCATGAATTGATG-CAT----T--AAGGCATGAAAGGATGCCA-TAA-AC-TAAAATACATG--A
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATG-CATTAAGGCATGAAA-AGATGTCA
** * *
1956451 AAGGATGCATTAAG
64 AAAAAT--A-AAAT
* * *
1956465 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATTCATTAAGGCATGAAAAGATGCCATA
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGTCAAA
*
1956530 AACTAAAAT
66 AAATAAAAT
1956539 GCATGAAAGGAT
1 GCATGAAAGGAT
1956551 TCATTAAGGC
Statistics
Matches: 179, Mismatches: 31, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
64 3 0.02
65 4 0.02
66 5 0.03
67 31 0.17
68 5 0.03
69 1 0.01
72 1 0.01
73 5 0.03
74 111 0.62
75 6 0.03
76 4 0.02
77 3 0.02
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (74 bp):
GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGTCAAA
AAATAAAAT
Found at i:1956342 original size:121 final size:121
Alignment explanation
Indices: 1956203--1956594 Score: 417
Period size: 121 Copynumber: 3.1 Consensus size: 121
1956193 ATGCATTAAG
1956203 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGAATGCATTAACGCATGAAAGGATGCCATA
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGAATGCATTAACGCATGAAAGGATGCCATA
*
1956268 AACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGTCAAAAAATAAAAT
66 AACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGCCAAAAAATAAAAT
* * * *
1956324 GCATGAAAGGATTCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATA
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGAATGCATTAACGCATGAAAGGATGCCATA
** * * *
1956389 AACTAAAATGCATGAATTGATGCATTAAGGCATGAAAGGATGCCATAAACTAAAAT
66 AACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGCCAAAAAATAAAAT
* * * *
1956445 ACATGAAAGGATG-CATTAAGGCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATTCATT
1 GCATGAAAGGATGCCA-TAA-AC-T-AAA--ATG-C----A-T-GAA---A-G--A--ATGCATT
* * *
1956509 AAGGCATGAAAAGATGCCATAAACTAAAATGCATGAAAGGATTCATTAAGGCATGAAAAGATGCC
45 AACGCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGCC
* *
1956574 ATAAACTAAAAT
110 AAAAAATAAAAT
1956586 GCATGAAAG
1 GCATGAAAG
1956595 AATGTATTAA
Statistics
Matches: 227, Mismatches: 23, Indels: 22
0.83 0.08 0.08
Matches are distributed among these distances:
120 2 0.01
121 125 0.55
122 1 0.00
123 1 0.00
124 3 0.01
126 3 0.01
127 1 0.00
131 1 0.00
132 1 0.00
133 2 0.01
136 1 0.00
137 1 0.00
141 85 0.37
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (121 bp):
GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGAATGCATTAACGCATGAAAGGATGCCATA
AACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGCCAAAAAATAAAAT
Found at i:1956344 original size:168 final size:168
Alignment explanation
Indices: 1956156--1956505 Score: 578
Period size: 168 Copynumber: 2.1 Consensus size: 168
1956146 ATGCATTAAG
* *
1956156 GCATGAAAGGATGT-CATAAACTAATATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCAT
1 GCATGAAAGGAT-TCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT
*
1956220 AAACTAAAATGCATGAA-AGAATGCATTAACGCATGAAAGGATGCCATAAACTAAAATGCATGAA
65 AAACTAAAATGCATGAATAG-ATGCATTAACGCATGAAAGGATGCCATAAACTAAAATACATGAA
*
1956284 AGGATGCATTAAGGCATGAAAAGATGTCAAAAAATAAAAT
129 AGGATGCATTAAGGCATGAAAAGATGCCAAAAAATAAAAT
*
1956324 GCATGAAAGGATTCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATA
1 GCATGAAAGGATTCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
* *
1956389 AACTAAAATGCATGAATTGATGCATTAAGGCATGAAAGGATGCCATAAACTAAAATACATGAAAG
66 AACTAAAATGCATGAATAGATGCATTAACGCATGAAAGGATGCCATAAACTAAAATACATGAAAG
* * *
1956454 GATGCATTAAGGCATGAAAGGATGCCATAAACTAAAAT
131 GATGCATTAAGGCATGAAAAGATGCCAAAAAATAAAAT
1956492 GCATGAAAGGATTC
1 GCATGAAAGGATTC
1956506 ATTAAGGCAT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
167 1 0.01
168 168 0.99
169 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (168 bp):
GCATGAAAGGATTCCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
AACTAAAATGCATGAATAGATGCATTAACGCATGAAAGGATGCCATAAACTAAAATACATGAAAG
GATGCATTAAGGCATGAAAAGATGCCAAAAAATAAAAT
Found at i:1956375 original size:47 final size:47
Alignment explanation
Indices: 1956324--1956765 Score: 695
Period size: 47 Copynumber: 9.4 Consensus size: 47
1956314 AAAATAAAAT
*
1956324 GCATGAAAGGATTCCATAAACTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAG
* **
1956371 GCATGAAAGGATGTCATAAACTAAAATGCATGAATTGATGCATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAG
*
1956418 GCATGAAAGGATGCCATAAACTAAAATACATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAG
*
1956465 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATTCATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAG
* *
1956512 GCATGAAAAGATGCCATAAACTAAAATGCATGAAAGGATTCATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAG
* * *
1956559 GCATGAAAAGATGCCATAAACTAAAATGCATGAAAGAATGTATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAG
* *
1956606 GCATGAAAGGATGTCATAAACTAAAATGTATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAG
* * * *
1956653 TCATGAAAGGATCCCATAAACTAAAATACATTAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAG
** *
1956700 GCATGAAAGGATTTCATAAACTAAGATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAG
*
1956747 GAATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAA
1956766 TTTAAATGTA
Statistics
Matches: 361, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 361 1.00
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (47 bp):
GCATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAG
Found at i:1956457 original size:27 final size:27
Alignment explanation
Indices: 1956418--1956503 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
1956408 ATGCATTAAG
1956418 GCATGAAAGGATGCCATAAACTAAAAT
1 GCATGAAAGGATGCCATAAACTAAAAT
* *
1956445 ACATGAAAGGATG-CAT----T--AAG
1 GCATGAAAGGATGCCATAAACTAAAAT
1956465 GCATGAAAGGATGCCATAAACTAAAAT
1 GCATGAAAGGATGCCATAAACTAAAAT
1956492 GCATGAAAGGAT
1 GCATGAAAGGAT
1956504 TCATTAAGGC
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
20 14 0.29
21 3 0.06
22 1 0.02
25 1 0.02
26 3 0.06
27 26 0.54
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.19
Consensus pattern (27 bp):
GCATGAAAGGATGCCATAAACTAAAAT
Found at i:1963453 original size:20 final size:20
Alignment explanation
Indices: 1963428--1963555 Score: 85
Period size: 20 Copynumber: 5.7 Consensus size: 20
1963418 AAACTAAAAT
1963428 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
1963448 GCATGAAAGGATGCCATAAACTAAAAT
1 GCATGAAAGGATG-CAT----T--AAG
**
1963475 ATATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
1963495 GAATGAAAGGATGCCATAAACTAAAAT
1 GCATGAAAGGATG-CAT----T--AAG
1963522 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
1963542 GCATGAAAGGATGC
1 GCATGAAAGGATGC
1963556 CATAAACTAA
Statistics
Matches: 85, Mismatches: 9, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
20 42 0.49
21 6 0.07
22 2 0.02
25 2 0.02
26 6 0.07
27 27 0.32
ACGTcount: A:0.45, C:0.11, G:0.25, T:0.20
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:1963483 original size:47 final size:47
Alignment explanation
Indices: 1963414--1963628 Score: 351
Period size: 47 Copynumber: 4.6 Consensus size: 47
1963404 TAAATTGAAT
1963414 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
** *
1963461 CCATAAACTAAAATATATGAAAGGATGCATTAAGGAATGAAAGGATG
1 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1963508 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
1963555 CCATAAACTAAAATTCTTGAAATGG-TGCATTAAGGCATGAAAGGATT
1 CCATAAACTAAAATGCATGAAA-GGATGCATTAAGGCATGAAAGGATG
*
1963602 CCATAAACTAAATTGCATGAAAGGATG
1 CCATAAACTAAAATGCATGAAAGGATG
1963629 TCATAAACTA
Statistics
Matches: 154, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 2 0.01
47 150 0.97
48 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (47 bp):
CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
Found at i:1963488 original size:27 final size:26
Alignment explanation
Indices: 1963450--1963535 Score: 85
Period size: 27 Copynumber: 3.5 Consensus size: 26
1963440 GCATTAAGGC
1963450 ATGAAAGGATGCCATAAACTAAAATA
1 ATGAAAGGATGCCATAAACTAAAATA
**
1963476 TATGAAAGGATG-CAT----T-AAGGA
1 -ATGAAAGGATGCCATAAACTAAAATA
*
1963497 ATGAAAGGATGCCATAAACTAAAATGC
1 ATGAAAGGATGCCATAAACTAAAAT-A
1963524 ATGAAAGGATGC
1 ATGAAAGGATGC
1963536 ATTAAGGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
20 11 0.23
21 6 0.13
22 1 0.02
25 1 0.02
26 5 0.11
27 23 0.49
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.20
Consensus pattern (26 bp):
ATGAAAGGATGCCATAAACTAAAATA
Found at i:1963627 original size:27 final size:27
Alignment explanation
Indices: 1963589--1963650 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
1963579 GTGCATTAAG
*
1963589 GCATGAAAGGAT-TCCATAAACTAAATT
1 GCATGAAAGGATGT-CATAAACTAAAAT
1963616 GCATGAAAGGATGTCATAAACTAAAAT
1 GCATGAAAGGATGTCATAAACTAAAAT
1963643 GCATGAAA
1 GCATGAAA
1963651 TAATGCATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.23
Consensus pattern (27 bp):
GCATGAAAGGATGTCATAAACTAAAAT
Found at i:1963668 original size:141 final size:140
Alignment explanation
Indices: 1963414--1963676 Score: 318
Period size: 141 Copynumber: 1.9 Consensus size: 140
1963404 TAAATTGAAT
*
1963414 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAACTAAAATATAT
1 CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAACTAAAATACAT
* * ** *
1963479 GAAAGGATGCATTAAGGAATGAAAGGATGCCATAAACTAAAATGCATGAAAGGATGCATTAAGGC
66 GAAAGGATGCATTAA-GAATAAAAGCATGAAATAAACTAAAAGGCATGAAAGGATGCATTAAGGC
1963544 ATGAAAGGATG
130 ATGAAAGGATG
* * * * *
1963555 CCATAAACTAAAATTCTTGAAATGG-TGCATTAAGGCATGAAAGGATTCCATAAACTAAATTGCA
1 CCATAAACTAAAATGCATGAAA-GGATGCATTAAGGCATGAAAGGATGCCATAAACTAAAATACA
* * *
1963619 TGAAAGGATGTCA-TAA-ACTAAAATGCATGAAATAATGC-ATTAAGGCATGAAAGGATGC
65 TGAAAGGATG-CATTAAGAATAAAA-GCATGAAATAA-ACTA-AAAGGCATGAAAGGATGC
1963677 CATAATTTAA
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
139 5 0.05
140 9 0.09
141 85 0.83
142 4 0.04
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (140 bp):
CCATAAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAACTAAAATACAT
GAAAGGATGCATTAAGAATAAAAGCATGAAATAAACTAAAAGGCATGAAAGGATGCATTAAGGCA
TGAAAGGATG
Found at i:1963688 original size:74 final size:74
Alignment explanation
Indices: 1963542--1963681 Score: 226
Period size: 74 Copynumber: 1.9 Consensus size: 74
1963532 ATGCATTAAG
* * ** *
1963542 GCATGAAAGGATGCCATAAACTAAAATTCTTGAAATGGTGCATTAAGGCATGAAAGGATTCCATA
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAATAATGCATTAAGGCATGAAAGGATGCCATA
1963607 AACTAAATT
66 AACTAAATT
*
1963616 GCATGAAAGGATGTCATAAACTAAAATGCATGAAATAATGCATTAAGGCATGAAAGGATGCCATA
1 GCATGAAAGGATGCCATAAACTAAAATGCATGAAATAATGCATTAAGGCATGAAAGGATGCCATA
1963681 A
66 A
1963682 TTTAAATGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.24
Consensus pattern (74 bp):
GCATGAAAGGATGCCATAAACTAAAATGCATGAAATAATGCATTAAGGCATGAAAGGATGCCATA
AACTAAATT
Found at i:1968800 original size:39 final size:40
Alignment explanation
Indices: 1968744--1968929 Score: 220
Period size: 39 Copynumber: 4.7 Consensus size: 40
1968734 GTGTGTACAT
*
1968744 ATATATATAATATATATAGTTTTTTATAAA-ATTTTGAAAAC
1 ATATATAT-A-ATATATAGTTTTTTAAAAACATTTTGAAAAC
* * *
1968785 ATATATGTAATATATAGTTTTATAAAAAGACGTTTTGAAAAC
1 ATATATATAATATATAGTTTT-TTAAAA-ACATTTTGAAAAC
* *
1968827 ATATATATAATATATA-ATTTTTAAAAATATTTTG-AAA-
1 ATATATATAATATATAGTTTTTTAAAAACATTTTGAAAAC
* *
1968864 ATATATATAATATATAG-TTTTTGAAAACATTTTAAAAAC
1 ATATATATAATATATAGTTTTTTAAAAACATTTTGAAAAC
*
1968903 ATATATATAATATATAGTTTTTGAAAA
1 ATATATATAATATATAGTTTTTTAAAA
1968930 TATATATAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
37 30 0.24
38 6 0.05
39 35 0.28
40 17 0.14
41 11 0.09
42 25 0.20
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (40 bp):
ATATATATAATATATAGTTTTTTAAAAACATTTTGAAAAC
Found at i:1968907 original size:65 final size:65
Alignment explanation
Indices: 1968838--1969086 Score: 199
Period size: 65 Copynumber: 3.7 Consensus size: 65
1968828 TATATATAAT
*
1968838 ATATAATTTTTAAAAATATTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTAAAAAC
1 ATATAATTTTTAAAAATATTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTAAAAAA
* * **
1968903 ATAT-A--TATAATATATAGTTTTTGAAAATATATATAATATATAGTTTTTTTAAACATTTTGAA
1 ATATAATTTTTAA-AAATA--TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTT---
1968965 AATATATATATA
60 -A-A-A-A-A-A
* * *
1968977 ATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTTGAAAATATATGT---
1 ATATA-A-TTTTTAAAAATATTTTGAAAATATATATAATATATAGTTTTTGAAAACAT-TTTAAA
*
1969039 AAT
63 AAA
* * *
1969042 ATATAGTTTTTGAAAATATTTTGTAAATATATAT--TATATAGTTTT
1 ATATAATTTTTAAAAATATTTTGAAAATATATATAATATATAGTTTT
1969087 AAAAAAAATA
Statistics
Matches: 151, Mismatches: 15, Indels: 40
0.73 0.07 0.19
Matches are distributed among these distances:
61 11 0.07
62 4 0.03
63 31 0.21
64 1 0.01
65 48 0.32
66 1 0.01
67 1 0.01
69 1 0.01
70 1 0.01
71 1 0.01
72 1 0.01
73 1 0.01
74 4 0.03
76 36 0.24
77 2 0.01
78 4 0.03
79 3 0.02
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (65 bp):
ATATAATTTTTAAAAATATTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTAAAAAA
Found at i:1968944 original size:37 final size:36
Alignment explanation
Indices: 1968827--1969046 Score: 188
Period size: 37 Copynumber: 6.1 Consensus size: 36
1968817 TTTTGAAAAC
* * * *
1968827 ATATATATAATATATAATTTTTAAAAATATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAATATTAT-AAT
* * *
1968864 ATATATATAATATATAGTTTTTGAAAACATTTTAAAAAC
1 ATATATATAATATATAGTTTTTG-AAA-ATATT-ATAAT
1968903 ATATATATAATATATAGTTTTTGAAAATA-TAT-AT
1 ATATATATAATATATAGTTTTTGAAAATATTATAAT
* * *
1968937 A-ATATAT-A-GT-T--TTTTT-AAACATTTTGAAAAT
1 ATATATATAATATATAGTTTTTGAAA-ATATT-ATAAT
* *
1968968 ATATATATAATATATAGTTTTTGAAAATATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAATATTAT-AAT
*
1969005 ATATATATAATATATAGTTTTTGAAAATATATGTAAT
1 ATATATATAATATATAGTTTTTGAAAATAT-TATAAT
1969042 ATATA
1 ATATA
1969047 GTTTTTGAAA
Statistics
Matches: 148, Mismatches: 19, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
27 3 0.02
28 7 0.05
29 1 0.01
30 2 0.01
31 4 0.03
32 7 0.05
33 7 0.05
34 3 0.02
35 2 0.01
36 1 0.01
37 71 0.48
38 11 0.07
39 29 0.20
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.45
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTGAAAATATTATAAT
Found at i:1968964 original size:102 final size:100
Alignment explanation
Indices: 1968817--1969086 Score: 391
Period size: 102 Copynumber: 2.7 Consensus size: 100
1968807 TAAAAAGACG
*
1968817 TTTTGAAAACATATATATAATATATAATTTTTAAAAATATTTTGAAAATATATATAATATATAGT
1 TTTTG-AAA-ATATATATAATATATAGTTTTTAAAAATATTTTGAAAATATATATAATATATAGT
1968882 TTTTGAAAACATTTTAAAAACATATATATAATATATAGT
64 TTTTGAAAACATTTT-AAAA-ATATATATAATATATAGT
** *
1968921 TTTTGAAAATATATATAATATATAGTTTTTTTAAACATTTTGAAAATATATATATAATATATAGT
1 TTTTGAAAATATATATAATATATAGTTTTTAAAAATATTTTG-AAA-ATATATATAATATATAGT
* *
1968986 TTTTGAAAATATTTTGAAAATATATATAATATATAGT
64 TTTTGAAAACATTTTAAAAATATATATAATATATAGT
* * *
1969023 TTTTGAAAATATATGTAATATATAGTTTTTGAAAATATTTTGTAAATATATAT--TATATAGTTT
1 TTTTGAAAATATATATAATATATAGTTTTTAAAAATATTTTGAAAATATATATAATATATAGTTT
1969086 T
66 T
1969087 AAAAAAAATA
Statistics
Matches: 153, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
98 11 0.07
100 8 0.05
101 2 0.01
102 86 0.56
103 9 0.06
104 37 0.24
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (100 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAAATATTTTGAAAATATATATAATATATAGTTT
TTGAAAACATTTTAAAAATATATATAATATATAGT
Found at i:1969043 original size:24 final size:26
Alignment explanation
Indices: 1968903--1969060 Score: 132
Period size: 26 Copynumber: 6.2 Consensus size: 26
1968893 TTTTAAAAAC
1968903 ATATATATAATATATAGTTTTTGAAA
1 ATATATATAATATATAGTTTTTGAAA
**
1968929 ATATATATAATATATAGTTTTTTTAA
1 ATATATATAATATATAGTTTTTGAAA
* * * * *
1968955 ACAT-TTTGAAAATATA-TATAT-AATA
1 ATATATAT-AATATATAGTTTTTGAA-A
* *
1968980 TATAGTTTTTGAA-A-ATA--TTTTGAAA
1 -ATA-TATAT-AATATATAGTTTTTGAAA
1969005 ATATATATAATATATAGTTTTTGAAA
1 ATATATATAATATATAGTTTTTGAAA
*
1969031 ATATATGTAATATATAGTTTTTGAAA
1 ATATATATAATATATAGTTTTTGAAA
1969057 ATAT
1 ATAT
1969061 TTTGTAAATA
Statistics
Matches: 108, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.02
23 4 0.04
24 7 0.06
25 9 0.08
26 78 0.72
27 2 0.02
28 6 0.06
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.47
Consensus pattern (26 bp):
ATATATATAATATATAGTTTTTGAAA
Found at i:1969062 original size:63 final size:63
Alignment explanation
Indices: 1968893--1969086 Score: 223
Period size: 65 Copynumber: 3.0 Consensus size: 63
1968883 TTTGAAAACA
* * * * * * * *
1968893 TTTTAAAAACATATATATAATATATAGTTTTTGAAAATATATAT-AATATATAGTTTTTTTAAAC
1 TTTTGAAAATATATATATAATATATAGTTTTTGAAAATAT-TTTGAAAATATA--TATTATATAG
*
1968957 A
63 T
1968958 TTTTGAAAATATATATATAATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATAGT
1 TTTTGAAAATATATATATAATATATAGTTTTTGAAAATATTTTGAAAATATATAT--TATATAGT
* *
1969023 TTTTG-AAA-ATATATGTAATATATAGTTTTTGAAAATATTTTGTAAATATATATTATATAGT
1 TTTTGAAAATATATATATAATATATAGTTTTTGAAAATATTTTGAAAATATATATTATATAGT
1969084 TTT
1 TTT
1969087 AAAAAAAATA
Statistics
Matches: 115, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
61 11 0.10
63 45 0.39
64 5 0.04
65 54 0.47
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (63 bp):
TTTTGAAAATATATATATAATATATAGTTTTTGAAAATATTTTGAAAATATATATTATATAGT
Found at i:1969110 original size:7 final size:7
Alignment explanation
Indices: 1969094--1969137 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
1969084 TTTAAAAAAA
1969094 ATAT-TT
1 ATATATT
1969100 ATATATT
1 ATATATT
1969107 ATATATT
1 ATATATT
1969114 ATAGTATT
1 ATA-TATT
*
1969122 ATATACT
1 ATATATT
*
1969129 ATATTTT
1 ATATATT
1969136 AT
1 AT
1969138 TCAATTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
6 4 0.12
7 22 0.67
8 7 0.21
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (7 bp):
ATATATT
Found at i:1969121 original size:15 final size:14
Alignment explanation
Indices: 1969094--1969137 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
1969084 TTTAAAAAAA
1969094 ATAT-TTATATATT
1 ATATATTATATATT
1969107 ATATATTATAGTATT
1 ATATATTATA-TATT
* *
1969122 ATATACTATATTTT
1 ATATATTATATATT
1969136 AT
1 AT
1969138 TCAATTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 4 0.15
14 10 0.37
15 13 0.48
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (14 bp):
ATATATTATATATT
Found at i:1969864 original size:4 final size:4
Alignment explanation
Indices: 1969850--1969947 Score: 69
Period size: 4 Copynumber: 24.2 Consensus size: 4
1969840 TAGAGGGAAA
* * * * * *
1969850 AAAT GAAT AAAT AAAA AAAT GAAG AATAA AAAT AAGT -AA- AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
1969897 AAAAT AAAT AAAAT AAA- AGGAA- AAAT AAAT AAAT AAAT AAAT AAAT
1 -AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT
1969943 AAAT A
1 AAAT A
1969948 TTAATATATA
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
3 6 0.08
4 55 0.73
5 14 0.19
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:1969891 original size:10 final size:10
Alignment explanation
Indices: 1969874--1969941 Score: 68
Period size: 10 Copynumber: 6.6 Consensus size: 10
1969864 AAAAATGAAG
1969874 AATAAAAATA
1 AATAAAAATA
*
1969884 AGTAAAAATA
1 AATAAAAATA
1969894 AAT-AAAATA
1 AATAAAAATA
1969903 AAT-AAAATAA
1 AATAAAAAT-A
*
1969913 AAGGAAAAATA
1 AA-TAAAAATA
1969924 AATAAATAAATA
1 AAT-AA-AAATA
1969936 AATAAA
1 AATAAA
1969942 TAAATATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
9 14 0.29
10 15 0.31
11 7 0.14
12 13 0.27
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (10 bp):
AATAAAAATA
Found at i:1969906 original size:29 final size:29
Alignment explanation
Indices: 1969874--1969941 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
1969864 AAAAATGAAG
* *
1969874 AATAAAA-ATAAGTAAAAATAAATAAAATA
1 AATAAAATAAAAGGAAAAATAAAT-AAATA
1969903 AATAAAATAAAAGGAAAAATAAATAAATA
1 AATAAAATAAAAGGAAAAATAAATAAATA
1969932 AAT-AAATAAA
1 AATAAAATAAA
1969942 TAAATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 7 0.19
29 15 0.42
30 14 0.39
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (29 bp):
AATAAAATAAAAGGAAAAATAAATAAATA
Found at i:1969958 original size:2 final size:2
Alignment explanation
Indices: 1969951--1969978 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1969941 ATAAATATTA
1969951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1969979 GAGTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1970289 original size:19 final size:19
Alignment explanation
Indices: 1970248--1970295 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1970238 AAATATTTAA
*
1970248 AAAAAAGTATATATATATAT
1 AAAAAA-TAAATATATATAT
*
1970268 AAATAATAAATATAGTAT-T
1 AAAAAATAAATATA-TATAT
1970287 AAAAAATAA
1 AAAAAATAA
1970296 CCAAATGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAAATAAATATATATAT
Found at i:1970858 original size:37 final size:37
Alignment explanation
Indices: 1970817--1970920 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
1970807 GTGCTTGTGG
* * * *
1970817 ATCCTATCTTTAGGAGTTTAAATCATAGTATAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
* * *
1970854 ATCCTATTTTTAGTAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
1970891 ATCCTATTTTTAAGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
1970921 GGACGAAAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:1971962 original size:106 final size:105
Alignment explanation
Indices: 1971651--1973223 Score: 2235
Period size: 106 Copynumber: 14.9 Consensus size: 105
1971641 GCATTGTTTC
* * * * ** * *
1971651 GAGTCTAATATCCTCCG-TCGTGAAGTTTAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* * *
1971715 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
1971756 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACA
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* * * * **
1971815 ATCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTATTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-T
* * * * *
1971857 GGGTCCAAGATCCTTCGCTGAGAAGTTGATATTGTCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
1971922 CTAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-T
* * * *
1971963 GAGTCAAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
1972028 CCAGCGGTCCCTTTGTCGTAAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
1972068 GGAGTCCAATTTCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTATTTGTTGACA
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
**
1972133 ACCAGCGGTCCCTTAATCGTGAAGTTGAACTTGCGTTGTCT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
1972174 GGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
1972239 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-T
* * * * *
1972281 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTAAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1972346 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
1972386 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAA
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
1972451 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
1972492 GGAGTTCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTAT-TTTATTGAC
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT-TGTTTATTGAC
*
1972556 AACCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTT
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-T
* * *
1972599 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1972664 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
1972704 GGAGTTCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1972769 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
1972810 GGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* *
1972875 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-T
* *
1972917 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
1972982 CCAGCAGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
1973022 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
1973087 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
1973128 GAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTATTGACA
1 G-AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1973193 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
1973224 CTACTCTCGA
Statistics
Matches: 1327, Mismatches: 122, Indels: 36
0.89 0.08 0.02
Matches are distributed among these distances:
100 80 0.06
101 4 0.00
102 4 0.00
104 3 0.00
105 9 0.01
106 1222 0.92
107 5 0.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:1972284 original size:318 final size:318
Alignment explanation
Indices: 1971651--1973223 Score: 2489
Period size: 318 Copynumber: 5.0 Consensus size: 318
1971641 GCATTGTTTC
* * * * ** *
1971651 GAGTCTAATATCCTCCG-TCGTGAAGTTTAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTACGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * * *
1971715 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
* * * *
1971780 AGTTGAAATTGACTCTG-AA-TGA-AA--T-TTTGTTGACAATCAGCCGCCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* ** * * * *
1971839 TTGAGCTTGTATTGTCTTGG-GTCCAAGATCCTTCGCTGAGAAGTTGATATTGTCTCTGAAATTG
195 TTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
* *
1971903 GGAAGTTGTTTATTGACAACTAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTT
259 GGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
1971963 GAGTCAAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
1972028 CCAGCGGTCCCTTTGTCGTAAAGTTGAACTTGCGTTGTCTGGAGTCCAATTTCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * **
1972093 GTTGAAATTGGCTCTAAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTAATCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
1972158 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
1972223 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTT
261 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * * * *
1972281 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTAAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
1972346 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
*
1972411 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * * * *
1972476 TGAACTTGCGTTATCTGGAGTTCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
1972541 AAGTAT-TTTATTGACAACCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTT
261 AAGT-TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
*
1972599 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
1972664 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTTCAATATCCTTCGTTGTAAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
1972729 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
1972794 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
1972859 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTT
261 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
**
1972917 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
1972982 CCAGCAGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
*
1973047 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
1973112 TGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
1973177 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
261 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
1973224 CTACTCTCGA
Statistics
Matches: 1165, Mismatches: 86, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
312 126 0.11
313 3 0.00
314 3 0.00
315 2 0.00
317 5 0.00
318 1025 0.88
319 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (318 bp):
GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
Found at i:1973550 original size:18 final size:19
Alignment explanation
Indices: 1973512--1973553 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
1973502 TAGGATGTTG
* *
1973512 AATACCCAAATAATGCCCC
1 AATATCCAAATAATACCCC
1973531 AATATCCAAA-AATACCCC
1 AATATCCAAATAATACCCC
1973549 AATAT
1 AATAT
1973554 TTGATGTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (19 bp):
AATATCCAAATAATACCCC
Found at i:1973995 original size:22 final size:22
Alignment explanation
Indices: 1973969--1974023 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1973959 TTATGTTTGG
1973969 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1973991 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
1974013 TCAACGGTTTG
1 TCAAAGGTTTG
1974024 ATGGGGTAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:1974650 original size:16 final size:16
Alignment explanation
Indices: 1974631--1974685 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
1974621 TTGTCCCTTT
1974631 TTCTTTTGATTTTTGC
1 TTCTTTTGATTTTTGC
*
1974647 TTCTTTT-CTTTTTG-
1 TTCTTTTGATTTTTGC
*
1974661 TTCTTGATTTGTTTTTTGC
1 TTC-T--TTTGATTTTTGC
1974680 TTCTTT
1 TTCTTT
1974686 GCTTTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 3 0.09
15 7 0.22
16 9 0.28
17 3 0.09
18 7 0.22
19 3 0.09
ACGTcount: A:0.04, C:0.13, G:0.11, T:0.73
Consensus pattern (16 bp):
TTCTTTTGATTTTTGC
Found at i:1974682 original size:33 final size:34
Alignment explanation
Indices: 1974635--1974703 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 34
1974625 CCCTTTTTCT
*
1974635 TTTGATTTTTGCTTCTTTTC-TTTTTGTTCTTGA
1 TTTGATTTTTGCTTCTTTGCTTTTTTGTTCTTGA
*
1974668 TTTGTTTTTTGCTTCTTTGCTTTTTTGTTCTTGA
1 TTTGATTTTTGCTTCTTTGCTTTTTTGTTCTTGA
1974702 TT
1 TT
1974704 GGATCTTCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.04, C:0.12, G:0.13, T:0.71
Consensus pattern (34 bp):
TTTGATTTTTGCTTCTTTGCTTTTTTGTTCTTGA
Found at i:1974698 original size:15 final size:15
Alignment explanation
Indices: 1974635--1974699 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 15
1974625 CCCTTTTTCT
*
1974635 TTTGATTTTTGCTTC
1 TTTGTTTTTTGCTTC
*
1974650 TTT-TCTTTTTGTTCTTGA
1 TTTGT-TTTTTG--CTT-C
1974668 TTTGTTTTTTGCTTC
1 TTTGTTTTTTGCTTC
1974683 TTTGCTTTTTTG-TTC
1 TTTG-TTTTTTGCTTC
1974698 TT
1 TT
1974700 GATTGGATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
15 18 0.44
16 10 0.24
17 3 0.07
18 9 0.22
19 1 0.02
ACGTcount: A:0.03, C:0.12, G:0.12, T:0.72
Consensus pattern (15 bp):
TTTGTTTTTTGCTTC
Found at i:1977655 original size:16 final size:16
Alignment explanation
Indices: 1977631--1977698 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
1977621 AAAAATGAAT
1977631 AAATGAAAAA-AAATAA
1 AAAT-AAAAATAAATAA
*
1977647 AGAATAAAAATAAGTAA
1 A-AATAAAAATAAATAA
*
1977664 AAATAAAAGGAAAAATAA
1 AAATAAAA--ATAAATAA
*
1977682 ATAA-ATAAATAAATAA
1 A-AATAAAAATAAATAA
1977698 A
1 A
1977699 TAAATATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
16 21 0.50
17 9 0.21
18 10 0.24
19 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.16
Consensus pattern (16 bp):
AAATAAAAATAAATAA
Found at i:1977685 original size:4 final size:4
Alignment explanation
Indices: 1977676--1977704 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
1977666 ATAAAAGGAA
1977676 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1977705 TTAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1978052 original size:19 final size:19
Alignment explanation
Indices: 1978021--1978058 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1978011 ATATATATAT
*
1978021 ATATATATATAAATAATAA
1 ATATATATATAAAAAATAA
1978040 ATATAGTAT-TAAAAAATAA
1 ATATA-TATATAAAAAATAA
1978059 CCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATATATATAAAAAATAA
Found at i:1978629 original size:37 final size:37
Alignment explanation
Indices: 1978588--1978692 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
1978578 GTTCTTGTGG
* * *
1978588 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
1978625 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
1978662 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1978693 GACGAAAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:1984934 original size:3 final size:3
Alignment explanation
Indices: 1984928--1984959 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1984918 ATATTTTATG
1984928 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1984960 GGTTGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1989387 original size:7 final size:7
Alignment explanation
Indices: 1989377--1989434 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
1989367 TAGATTATAG
1989377 AAACCCT
1 AAACCCT
*
1989384 AAACCTT
1 AAACCCT
*
1989391 AAACCAT
1 AAACCCT
**
1989398 AAATACT
1 AAACCCT
1989405 AAACCCT
1 AAACCCT
1989412 AAACCCT
1 AAACCCT
*
1989419 AAATCAC-
1 AAA-CCCT
1989426 AAACCCT
1 AAACCCT
1989433 AA
1 AA
1989435 TATAAATGGA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
6 2 0.05
7 36 0.90
8 2 0.05
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:1989408 original size:21 final size:22
Alignment explanation
Indices: 1989382--1989434 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
1989372 TATAGAAACC
*
1989382 CTAAACCTTAAACCATAAAT-A
1 CTAAACCCTAAACCATAAATCA
*
1989403 CTAAACCCTAAACCCTAAATCA
1 CTAAACCCTAAACCATAAATCA
1989425 C-AAACCCTAA
1 CTAAACCCTAA
1989435 TATAAATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (22 bp):
CTAAACCCTAAACCATAAATCA
Found at i:1989877 original size:49 final size:48
Alignment explanation
Indices: 1989821--1989914 Score: 143
Period size: 48 Copynumber: 1.9 Consensus size: 48
1989811 ATATATATAT
* ** *
1989821 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAATATTATGC
1 ATAAACTATATAAAGT-AATAAAGTATATAGTTTATAGAAACATTATGC
1989870 ATAAACTATATAAAGTAATAAAGTATATAGTTTATAGAAACATTA
1 ATAAACTATATAAAGTAATAAAGTATATAGTTTATAGAAACATTA
1989915 AACCCTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 25 0.61
49 16 0.39
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (48 bp):
ATAAACTATATAAAGTAATAAAGTATATAGTTTATAGAAACATTATGC
Found at i:1990386 original size:20 final size:20
Alignment explanation
Indices: 1990338--1990382 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1990328 TATATAATGT
* *
1990338 GTATGTATAAACCATGTATA
1 GTATATATAAACCATATATA
*
1990358 GTATATATAAACTATATATA
1 GTATATATAAACCATATATA
1990378 -TATAT
1 GTATAT
1990383 TATATAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (20 bp):
GTATATATAAACCATATATA
Found at i:1990473 original size:7 final size:7
Alignment explanation
Indices: 1990463--1990527 Score: 60
Period size: 7 Copynumber: 9.3 Consensus size: 7
1990453 TAGTTTATAA
1990463 AAACCCT
1 AAACCCT
1990470 AAACCCT
1 AAACCCT
**
1990477 AAACTTT
1 AAACCCT
* *
1990484 GAACCAT
1 AAACCCT
**
1990491 AAACATT
1 AAACCCT
1990498 AAACCCT
1 AAACCCT
1990505 AAACCCT
1 AAACCCT
1990512 AAACCAC-
1 AAACC-CT
1990519 AAACCCT
1 AAACCCT
1990526 AA
1 AA
1990528 TATAAATGGA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
6 1 0.02
7 44 0.96
8 1 0.02
ACGTcount: A:0.48, C:0.34, G:0.02, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:1990516 original size:28 final size:28
Alignment explanation
Indices: 1990469--1990522 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
1990459 ATAAAAACCC
** * *
1990469 TAAACCCTAAACTTTGAACCATAAACAT
1 TAAACCCTAAACCCTAAACCACAAACAT
1990497 TAAACCCTAAACCCTAAACCACAAAC
1 TAAACCCTAAACCCTAAACCACAAAC
1990523 CCTAATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (28 bp):
TAAACCCTAAACCCTAAACCACAAACAT
Found at i:1991023 original size:16 final size:16
Alignment explanation
Indices: 1990979--1991033 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
1990969 TCATTTACAA
*
1990979 GTCAGGTTGAAAACAG
1 GTCAGGTAGAAAACAG
* *
1990995 GTTA-GTTGAAAACAG
1 GTCAGGTAGAAAACAG
*
1991010 GTCAGGTAGAAAACAA
1 GTCAGGTAGAAAACAG
1991026 GTCAGGTA
1 GTCAGGTA
1991034 ATACTAGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 14 0.41
16 20 0.59
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.20
Consensus pattern (16 bp):
GTCAGGTAGAAAACAG
Found at i:1991483 original size:2 final size:2
Alignment explanation
Indices: 1991476--1991505 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1991466 GTTAATAATA
1991476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1991506 TCGTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2004377 original size:24 final size:24
Alignment explanation
Indices: 2004341--2004390 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
2004331 CAATTGAAAC
* * *
2004341 TGCCGTGTCGAATTTGCACCGAAG
1 TGCCATGTAGAATATGCACCGAAG
2004365 TGCCATGTAGAATATGCACCGAAG
1 TGCCATGTAGAATATGCACCGAAG
2004389 TG
1 TG
2004391 TCACATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (24 bp):
TGCCATGTAGAATATGCACCGAAG
Found at i:2004466 original size:23 final size:23
Alignment explanation
Indices: 2004416--2004467 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
2004406 TCGAATGACT
*
2004416 GTAGAAGTGTCCCGAATGACCAC
1 GTAGAAGTGTCCCGAAGGACCAC
* * *
2004439 ATAGAATTGTCCCGAAGGACCGC
1 GTAGAAGTGTCCCGAAGGACCAC
2004462 GTAGAA
1 GTAGAA
2004468 CCCTCGACTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (23 bp):
GTAGAAGTGTCCCGAAGGACCAC
Found at i:2004675 original size:15 final size:15
Alignment explanation
Indices: 2004631--2004676 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
2004621 ACTTAGCATT
2004631 TATTCACATAGAACA
1 TATTCACATAGAACA
**
2004646 TATTCGTATAGAACA
1 TATTCACATAGAACA
*
2004661 TATTCACATAAAACA
1 TATTCACATAGAACA
2004676 T
1 T
2004677 TTACTCATAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (15 bp):
TATTCACATAGAACA
Found at i:2004744 original size:57 final size:57
Alignment explanation
Indices: 2004661--2004792 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 57
2004651 GTATAGAACA
* * * *
2004661 TATTCACATAAAACATTTACTCATAGTATTTCCCATATCATTATTCAATTTATCATT
1 TATTCACATAAAACATATACTCATAGTATTTCACATAACATTATTCAAATTATCATT
* * * * *
2004718 TATTCATATAGAACATATACTTATAGTGTTTCATATAACATTATTCAAATTATCATT
1 TATTCACATAAAACATATACTCATAGTATTTCACATAACATTATTCAAATTATCATT
* *
2004775 TTTTCCCATATAAA-ATAT
1 TATTCACATA-AAACATAT
2004793 TCACATAAGT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 59 0.97
58 2 0.03
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (57 bp):
TATTCACATAAAACATATACTCATAGTATTTCACATAACATTATTCAAATTATCATT
Found at i:2008987 original size:15 final size:15
Alignment explanation
Indices: 2008967--2008995 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2008957 AATTTCTTTT
2008967 TCGTTATCTAAACCC
1 TCGTTATCTAAACCC
2008982 TCGTTATCTAAACC
1 TCGTTATCTAAACC
2008996 AAATGTCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (15 bp):
TCGTTATCTAAACCC
Found at i:2009579 original size:12 final size:13
Alignment explanation
Indices: 2009562--2009594 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2009552 AATGGGAAAA
*
2009562 TTTGAAAACTAT-
1 TTTGAAAACAATG
2009574 TTTGAAAACAATG
1 TTTGAAAACAATG
2009587 TTTGAAAA
1 TTTGAAAA
2009595 ATCATAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:2009660 original size:19 final size:20
Alignment explanation
Indices: 2009619--2009660 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
2009609 AGCTTTCATG
*
2009619 AAAACAACATAATTAAACCA
1 AAAACAACATAATTAAAACA
* *
2009639 AAAACAACA-ATTTAAAATA
1 AAAACAACATAATTAAAACA
2009658 AAA
1 AAA
2009661 TCATTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAACAACATAATTAAAACA
Found at i:2010108 original size:21 final size:23
Alignment explanation
Indices: 2010050--2010108 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
2010040 GTACACCGAG
2010050 GAGTGT-ATCGATACACATTCAAT
1 GAGTGTAAT-GATACACATTCAAT
* * *
2010073 GAATGTATTGGTACACATTC-AT
1 GAGTGTAATGATACACATTCAAT
2010095 -AGTGTAATGATACA
1 GAGTGTAATGATACA
2010109 TAGAGAGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 11 0.38
22 2 0.07
23 15 0.52
24 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (23 bp):
GAGTGTAATGATACACATTCAAT
Found at i:2016578 original size:32 final size:32
Alignment explanation
Indices: 2016537--2016611 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
2016527 GGGTTGCATA
* * **
2016537 CAGACAATGCA-AAGTAGAGTTAGTTTTTCATT
1 CAGATAATGCACAAG-AGAGTCAGTTTCACATT
*
2016569 CAGATAATGCACAAGAGTGTCAGTTTCACATT
1 CAGATAATGCACAAGAGAGTCAGTTTCACATT
*
2016601 TAGATAATGCA
1 CAGATAATGCA
2016612 TAACAGTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
32 33 0.92
33 3 0.08
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (32 bp):
CAGATAATGCACAAGAGAGTCAGTTTCACATT
Found at i:2019112 original size:12 final size:12
Alignment explanation
Indices: 2019097--2019124 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2019087 AAAATTAAAT
2019097 AAAATATTTTTA
1 AAAATATTTTTA
2019109 AAAATATTTTTA
1 AAAATATTTTTA
2019121 AAAA
1 AAAA
2019125 AATATAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AAAATATTTTTA
Found at i:2019127 original size:14 final size:14
Alignment explanation
Indices: 2019091--2019129 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
2019081 TCCAAAAAAA
2019091 TTAAATAAAATATTT
1 TTAAA-AAAATATTT
2019106 TT--AAAAATATTT
1 TTAAAAAAATATTT
2019118 TTAAAAAAATAT
1 TTAAAAAAATAT
2019130 AAACGTAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.50
13 1 0.05
14 8 0.36
15 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAAAAAATATTT
Found at i:2020227 original size:17 final size:15
Alignment explanation
Indices: 2020202--2020245 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
2020192 TGAAAAAATT
2020202 ATAATAT-ATATAT-
1 ATAATATAATATATA
2020215 ATATATATAATATATA
1 ATA-ATATAATATATA
2020231 ATAATATAATATATA
1 ATAATATAATATATA
2020246 CAAACTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.11
14 4 0.14
15 18 0.64
16 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATATAATATATA
Found at i:2020254 original size:26 final size:26
Alignment explanation
Indices: 2020196--2020256 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
2020186 AAAATTTGAA
2020196 AAAAT-TATAATATATATATATATAT
1 AAAATATATAATATATATATATATAT
*
2020221 ATAATATATAATA-ATATA-ATATAT
1 AAAATATATAATATATATATATATAT
2020245 ACAAACTATATA
1 A-AAA-TATATA
2020257 GTTTCTACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 7 0.23
25 11 0.35
26 13 0.42
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAATATATAATATATATATATATAT
Found at i:2020256 original size:2 final size:2
Alignment explanation
Indices: 2020201--2020245 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
2020191 TTGAAAAAAT
2020201 TA TA -A TA TA TA TA TA TA TA TA TA -A TA TA TA -A TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2020239 -A TA TA TA
1 TA TA TA TA
2020246 CAAACTATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
1 5 0.13
2 33 0.87
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:2020331 original size:33 final size:33
Alignment explanation
Indices: 2020201--2020368 Score: 139
Period size: 33 Copynumber: 5.1 Consensus size: 33
2020191 TTGAAAAAAT
* * *
2020201 TATAATATATATAT--ATA-TATATAATATATA
1 TATAATATATATATACAAACTATATAGTTTATA
*
2020231 -ATAATATAATATATACAAACTATATAGTTTCTA
1 TATAATAT-ATATATACAAACTATATAGTTTATA
* * * *
2020264 CATAGTAGTATATAAGTATAAACTATATGGTTTATA
1 TATAATA-TATAT-A-TACAAACTATATAGTTTATA
* * *
2020300 TATAGTTTATAT-TAACAAACTATATAATTTATA
1 TATAATATATATAT-ACAAACTATATAGTTTATA
* *
2020333 CATAATATATATATATAAACTATATAGTTTATA
1 TATAATATATATATACAAACTATATAGTTTATA
2020366 TAT
1 TAT
2020369 TCAGGTTGAT
Statistics
Matches: 109, Mismatches: 19, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
29 7 0.06
30 6 0.06
32 3 0.03
33 54 0.50
34 10 0.09
35 7 0.06
36 22 0.20
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (33 bp):
TATAATATATATATACAAACTATATAGTTTATA
Found at i:2021112 original size:10 final size:10
Alignment explanation
Indices: 2021099--2021145 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
2021089 AATTGAAAAA
2021099 ATTATAATAT
1 ATTATAATAT
2021109 ATTA-ATATAT
1 ATTATA-ATAT
2021119 ATATATAATAT
1 AT-TATAATAT
*
2021130 ATAATAATAT
1 ATTATAATAT
*
2021140 AATATA
1 ATTATA
2021146 TACAAACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 1 0.03
10 21 0.68
11 8 0.26
12 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATTATAATAT
Found at i:2021114 original size:8 final size:7
Alignment explanation
Indices: 2021101--2021147 Score: 69
Period size: 7 Copynumber: 6.6 Consensus size: 7
2021091 TTGAAAAAAT
2021101 TATAATA
1 TATAATA
2021108 TATTAATA
1 TA-TAATA
2021116 TAT-ATA
1 TATAATA
2021122 TATAATA
1 TATAATA
2021129 TATAATAA
1 TATAAT-A
2021137 TATAATA
1 TATAATA
2021144 TATA
1 TATA
2021148 CAAACTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.16
7 17 0.46
8 14 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TATAATA
Found at i:2021131 original size:15 final size:14
Alignment explanation
Indices: 2021101--2021147 Score: 69
Period size: 15 Copynumber: 3.3 Consensus size: 14
2021091 TTGAAAAAAT
2021101 TATAATATATTAATA
1 TATAATATA-TAATA
2021116 TAT-ATATATAATA
1 TATAATATATAATA
2021129 TATAATAATATAATA
1 TATAAT-ATATAATA
2021144 TATA
1 TATA
2021148 CAAACTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.27
14 7 0.23
15 15 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATAATATATAATA
Found at i:2021209 original size:11 final size:11
Alignment explanation
Indices: 2021153--2021303 Score: 87
Period size: 11 Copynumber: 13.5 Consensus size: 11
2021143 ATATACAAAC
2021153 TATATAGTTTA
1 TATATAGTTTA
* *
2021164 TACATAGTAGTA
1 TATATAGT-TTA
*
2021176 TATA-AGTATAAA
1 TATATAGT-T-TA
*
2021188 CTATATGGTTTA
1 -TATATAGTTTA
2021200 TATATAGTTTA
1 TATATAGTTTA
****
2021211 TAT-TAACAAA
1 TATATAGTTTA
*
2021221 CTATATAATTTA
1 -TATATAGTTTA
*
2021233 TACATAG--TA
1 TATATAGTTTA
**
2021242 TATATA-TAAA
1 TATATAGTTTA
2021252 CTATATAGTTTA
1 -TATATAGTTTA
2021264 TATATAGTTCTA
1 TATATAGTT-TA
*
2021276 TATATAGTTCA
1 TATATAGTTTA
2021287 TATATAGTTTA
1 TATATAGTTTA
2021298 TATATA
1 TATATA
2021304 AACTATATAG
Statistics
Matches: 106, Mismatches: 23, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
9 7 0.07
10 4 0.04
11 64 0.60
12 24 0.23
13 5 0.05
14 2 0.02
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:2021246 original size:900 final size:900
Alignment explanation
Indices: 2019468--2021268 Score: 3480
Period size: 900 Copynumber: 2.0 Consensus size: 900
2019458 TCGAGTCATT
2019468 TTCAGGTTGATTTGACATCAAATTCAGTTTGGGTTTAGGTCGGGTTAATTTCAGTTCATATCAAT
1 TTCAGGTTGATTTGACATCAAATTCAGTTTGGGTTTAGGTCGGGTTAATTTCAGTTCATATCAAT
*
2019533 GTCAGTTTAGGCCAAAACAGTTTAGGTCTGGAACAGTTAAACACTAGGTTAATTCATGTTCGGAT
66 GTCAGTTTAGGCCAAAACAGTTTAGGTCTGGAAAAGTTAAACACTAGGTTAATTCATGTTCGGAT
2019598 GGACTTCAGTCAGATCTCATTCAGATCGGGTCACATCATTGGCAGAAAAATTCAAGTCGGATCTT
131 GGACTTCAGTCAGATCTCATTCAGATCGGGTCACATCATTGGCAGAAAAATTCAAGTCGGATCTT
*
2019663 TATCGGATATAGATTGACTTCAGGTCGGGTCAATTTTTATTTTTGGATTAATTATTTTTCGCCTT
196 TATCGGATACAGATTGACTTCAGGTCGGGTCAATTTTTATTTTTGGATTAATTATTTTTCGCCTT
2019728 TCATTAACGTTGAATTGCAATTTGTAATTGTATATGATTTAGAGTAAATTTCTAAAAATATAAAT
261 TCATTAACGTTGAATTGCAATTTGTAATTGTATATGATTTAGAGTAAATTTCTAAAAATATAAAT
2019793 AATTATGGATCAATTTTGATAAAAATATAATTTTAAGGATTAAATTGAACCAATATGAAATTACA
326 AATTATGGATCAATTTTGATAAAAATATAATTTTAAGGATTAAATTGAACCAATATGAAATTACA
*
2019858 AGTAAAACTTTAAATAAATTAAACAACACGCATTGATGAGGGATAAAATTGAAATAATTTTAAAA
391 AGTAAAAATTTAAATAAATTAAACAACACGCATTGATGAGGGATAAAATTGAAATAATTTTAAAA
2019923 TGTGAAGTTGAAATTAATATAAAAAAGTACAAAATTATACCCATTTAAAAAGTTATGGGTCAATT
456 TGTGAAGTTGAAATTAATATAAAAAAGTACAAAATTATACCCATTTAAAAAGTTATGGGTCAATT
2019988 ACAAAAATATAGATAAGTAATAAGTATGGGCCAATTTCATATGCAAATATAAATTTAATTACTAA
521 ACAAAAATATAGATAAGTAATAAGTATGGGCCAATTTCATATGCAAATATAAATTTAATTACTAA
2020053 ATTGAATAAATATGAAATTACATATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAAATC
586 ATTGAATAAATATGAAATTACATATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAAATC
2020118 GAAATAATTGTAAAATGTGAAAAAATATGTAAAATGGACTAAATTGCATTCATTTCAAAAGTTGA
651 GAAATAATTGTAAAATGTGAAAAAATATGTAAAATGGACTAAATTGCATTCATTTCAAAAGTTGA
*
2020183 GAAAAAATTTGAAAAAATTATAATATATATATATATATATAATATATAATAATATAATATATACA
716 GAAAAAAATTGAAAAAATTATAATATATATATATATATATAATATATAATAATATAATATATACA
*
2020248 AACTATATAGTTTCTACATAGTAGTATATAAGTATAAACTATATGGTTTATATATAGTTTATATT
781 AACTATATAGTTTATACATAGTAGTATATAAGTATAAACTATATGGTTTATATATAGTTTATATT
2020313 AACAAACTATATAATTTATACATAATATATATATATAAACTATATAGTTTATATA
846 AACAAACTATATAATTTATACATAATATATATATATAAACTATATAGTTTATATA
*
2020368 TTCAGGTTGATTTGACATCAAATTCAGTTTGGGTTTGGGTCGGGTTAATTTCAGTTCATATCAAT
1 TTCAGGTTGATTTGACATCAAATTCAGTTTGGGTTTAGGTCGGGTTAATTTCAGTTCATATCAAT
2020433 GTCAGTTTAGGCCAAAACAGTTTAGGTCTGGAAAAGTTAAACACTAGGTTAATTCATGTTCGGAT
66 GTCAGTTTAGGCCAAAACAGTTTAGGTCTGGAAAAGTTAAACACTAGGTTAATTCATGTTCGGAT
*
2020498 GGACTTCAGTCAGATCTCATTCAGATCGGGTCACATCATTGGCAGAAAAATTCAGGTCGGATCTT
131 GGACTTCAGTCAGATCTCATTCAGATCGGGTCACATCATTGGCAGAAAAATTCAAGTCGGATCTT
2020563 TATCGGATACAGATTGACTTCAGGTCGGGTCAATTTTTATTTTTGGATTAATTATTTTTCGCCTT
196 TATCGGATACAGATTGACTTCAGGTCGGGTCAATTTTTATTTTTGGATTAATTATTTTTCGCCTT
*
2020628 TCGTTAACGTTGAATTGCAATTTGTAATTGTATATGATTTAGAGTAAATTTCTAAAAATATAAAT
261 TCATTAACGTTGAATTGCAATTTGTAATTGTATATGATTTAGAGTAAATTTCTAAAAATATAAAT
2020693 AATTATGGATCAATTTTGATAAAAATATAATTTTAAGGATTAAATTGAACCAATATGAAATTACA
326 AATTATGGATCAATTTTGATAAAAATATAATTTTAAGGATTAAATTGAACCAATATGAAATTACA
2020758 AGTAAAAATTTAAATAAATTAAACAACACGCATTGATGAGGGATAAAATTGAAATAATTTTAAAA
391 AGTAAAAATTTAAATAAATTAAACAACACGCATTGATGAGGGATAAAATTGAAATAATTTTAAAA
2020823 TGTGAAGTTGAAATTAATATAAAAAAGTACAAAATTATACCCATTTAAAAAGTTATGGGTCAATT
456 TGTGAAGTTGAAATTAATATAAAAAAGTACAAAATTATACCCATTTAAAAAGTTATGGGTCAATT
2020888 ACAAAAATATAGATAAGTAATAAGTATGGGCCAATTTCATATGCAAATATAAATTTAATTACTAA
521 ACAAAAATATAGATAAGTAATAAGTATGGGCCAATTTCATATGCAAATATAAATTTAATTACTAA
*
2020953 ATTGAATAAATATGAAATTATATATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAAATC
586 ATTGAATAAATATGAAATTACATATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAAATC
2021018 GAAATAATTGTAAAATGTGAAAAAATATGTAAAATGGACTAAATTGCATTCATTTCAAAAGTTGA
651 GAAATAATTGTAAAATGTGAAAAAATATGTAAAATGGACTAAATTGCATTCATTTCAAAAGTTGA
2021083 GAAAAAAATTGAAAAAATTATAATATATTAATATATATATATAATATATAATAATATAATATATA
716 GAAAAAAATTGAAAAAATTATAATATA-T-ATATATATATATAATATATAATAATATAATATATA
2021148 CAAACTATATAGTTTATACATAGTAGTATATAAGTATAAACTATATGGTTTATATATAGTTTATA
779 CAAACTATATAGTTTATACATAGTAGTATATAAGTATAAACTATATGGTTTATATATAGTTTATA
*
2021213 TTAACAAACTATATAATTTATACAT-A-GTATATATATAAACTATATAGTTTATATA
844 TTAACAAACTATATAATTTATACATAATATATATATATAAACTATATAGTTTATATA
2021268 T
1 T
2021269 AGTTCTATAT
Statistics
Matches: 889, Mismatches: 10, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
900 763 0.86
901 2 0.00
902 124 0.14
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.35
Consensus pattern (900 bp):
TTCAGGTTGATTTGACATCAAATTCAGTTTGGGTTTAGGTCGGGTTAATTTCAGTTCATATCAAT
GTCAGTTTAGGCCAAAACAGTTTAGGTCTGGAAAAGTTAAACACTAGGTTAATTCATGTTCGGAT
GGACTTCAGTCAGATCTCATTCAGATCGGGTCACATCATTGGCAGAAAAATTCAAGTCGGATCTT
TATCGGATACAGATTGACTTCAGGTCGGGTCAATTTTTATTTTTGGATTAATTATTTTTCGCCTT
TCATTAACGTTGAATTGCAATTTGTAATTGTATATGATTTAGAGTAAATTTCTAAAAATATAAAT
AATTATGGATCAATTTTGATAAAAATATAATTTTAAGGATTAAATTGAACCAATATGAAATTACA
AGTAAAAATTTAAATAAATTAAACAACACGCATTGATGAGGGATAAAATTGAAATAATTTTAAAA
TGTGAAGTTGAAATTAATATAAAAAAGTACAAAATTATACCCATTTAAAAAGTTATGGGTCAATT
ACAAAAATATAGATAAGTAATAAGTATGGGCCAATTTCATATGCAAATATAAATTTAATTACTAA
ATTGAATAAATATGAAATTACATATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAAATC
GAAATAATTGTAAAATGTGAAAAAATATGTAAAATGGACTAAATTGCATTCATTTCAAAAGTTGA
GAAAAAAATTGAAAAAATTATAATATATATATATATATATAATATATAATAATATAATATATACA
AACTATATAGTTTATACATAGTAGTATATAAGTATAAACTATATGGTTTATATATAGTTTATATT
AACAAACTATATAATTTATACATAATATATATATATAAACTATATAGTTTATATA
Found at i:2021259 original size:20 final size:19
Alignment explanation
Indices: 2021240--2021668 Score: 108
Period size: 20 Copynumber: 21.6 Consensus size: 19
2021230 TTATACATAG
2021240 TATATATATAAACTATATA
1 TATATATATAAACTATATA
* **
2021259 GTTTATATATAGTTCTATATA
1 -TATATATATA-AACTATATA
***
2021280 TAGTTCATATATAGTTTATATA
1 TA--T-ATATATAAACTATATA
* *** *
2021302 TAAACTATATAGTTTATAAA
1 TATA-TATATAAACTATATA
2021322 TAGTAGTATATAAACTATATA
1 TA-TA-TATATAAACTATATA
* *
2021343 TAAATCATATATACTATATA
1 TATAT-ATATAAACTATATA
* * *
2021363 TAAACTAAATAAATTATATA
1 TATA-TATATAAACTATATA
* * *
2021383 GTTTACATATGAACTATATA
1 -TATATATATAAACTATATA
* *
2021403 TATAAACTAATCAACTATATA
1 TATATA-T-ATAAACTATATA
* *
2021424 TAAACTACATATGAACTATATA
1 T--A-TATATATAAACTATATA
* * * *
2021446 TAAAT-TGTATAGT-T-TA
1 TATATATATAAACTATATA
*
2021462 TAT-T-TATATACTATATA
1 TATATATATAAACTATATA
*
2021479 TA-AT-TATAAATTATATA
1 TATATATATAAACTATATA
* * *
2021496 GACTATGTATAAATTATATA
1 TA-TATATATAAACTATATA
* *
2021516 GTTTATTAATATAAATTATATA
1 -TATA-T-ATATAAACTATATA
**
2021538 TACTATATAGTTTAC-ATATGAA
1 TA-TATATA-TAAACTATAT--A
* * *
2021560 CTATTTATAAAAATTATATAGA
1 -TATATATATAAACTATAT--A
*
2021582 TAAACTATATAAACTATACT-
1 TATA-TATATAAACTATA-TA
*
2021602 T-TATATATAAATTATATA
1 TATATATATAAACTATATA
*
2021620 CTATATATATATA-TATATA
1 -TATATATATAAACTATATA
*
2021639 TATATATATATA-TATATA
1 TATATATATAAACTATATA
2021657 TATATAATATAA
1 TATAT-ATATAA
2021669 GTATACATTA
Statistics
Matches: 310, Mismatches: 64, Indels: 71
0.70 0.14 0.16
Matches are distributed among these distances:
15 7 0.02
16 5 0.02
17 19 0.06
18 39 0.13
19 22 0.07
20 100 0.32
21 44 0.14
22 59 0.19
23 12 0.04
24 3 0.01
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (19 bp):
TATATATATAAACTATATA
Found at i:2021300 original size:54 final size:54
Alignment explanation
Indices: 2021222--2021325 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
2021212 ATTAACAAAC
* *
2021222 TATATAATTTATACATAGTATATATATAAACTATATAGTTTATATATAGTTCTA
1 TATATAATTCATACATAGTATATATATAAACTATATAGTTTATAAATAGTTCTA
* * *
2021276 TATATAGTTCATATATAGTTTATATATAAACTATATAGTTTATAAATAGT
1 TATATAATTCATACATAGTATATATATAAACTATATAGTTTATAAATAGT
2021326 AGTATATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (54 bp):
TATATAATTCATACATAGTATATATATAAACTATATAGTTTATAAATAGTTCTA
Found at i:2021342 original size:11 final size:11
Alignment explanation
Indices: 2021328--2021449 Score: 75
Period size: 11 Copynumber: 11.7 Consensus size: 11
2021318 TAAATAGTAG
2021328 TATATAAACTA
1 TATATAAACTA
2021339 TATATAAA-TCA
1 TATATAAACT-A
2021350 TATAT--ACTA
1 TATATAAACTA
2021359 TATATAAACTA
1 TATATAAACTA
2021370 -A-ATAAA-T-
1 TATATAAACTA
***
2021377 TATATAGTTTA
1 TATATAAACTA
* *
2021388 CATATGAACTA
1 TATATAAACTA
2021399 TATATATAA--A
1 TATATA-AACTA
*
2021409 CTA-ATCAACTA
1 -TATATAAACTA
2021420 TATATAAACTA
1 TATATAAACTA
* *
2021431 CATATGAACTA
1 TATATAAACTA
2021442 TATATAAA
1 TATATAAA
2021450 TTGTATAGTT
Statistics
Matches: 83, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
8 2 0.02
9 17 0.20
10 9 0.11
11 53 0.64
12 2 0.02
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (11 bp):
TATATAAACTA
Found at i:2021344 original size:54 final size:53
Alignment explanation
Indices: 2021220--2021344 Score: 155
Period size: 54 Copynumber: 2.4 Consensus size: 53
2021210 ATATTAACAA
* * *
2021220 ACTATAT-AATTTATACATAGTATATATATAAACTATATAGTTTATATATAGT
1 ACTATATAAACTTATATATAGTATATATATAAACTATATAGTTTATAAATAGT
* * * *
2021272 TCTATATATAGTTCATATATAGTTTATATATAAACTATATAGTTTATAAATAGT
1 ACTATATAAACTT-ATATATAGTATATATATAAACTATATAGTTTATAAATAGT
*
2021326 AGTATATAAAC-TATATATA
1 ACTATATAAACTTATATATA
2021345 AATCATATAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
52 13 0.21
53 4 0.07
54 44 0.72
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (53 bp):
ACTATATAAACTTATATATAGTATATATATAAACTATATAGTTTATAAATAGT
Found at i:2021354 original size:54 final size:54
Alignment explanation
Indices: 2021240--2021362 Score: 139
Period size: 54 Copynumber: 2.4 Consensus size: 54
2021230 TTATACATAG
* * * * *
2021240 TATATATATAAACTATATAGTTTATATATAGTTCTATATATAGTTCATATATAG
1 TATATATATAAACTATATAGTTTATAAATAGTACTATATAAACTTCATATATAA
* *
2021294 TTTATATATAAACTATATAGTTTATAAATAGTAGTATATAAAC-T-ATATATAA
1 TATATATATAAACTATATAGTTTATAAATAGTACTATATAAACTTCATATATAA
2021346 -ATCATATAT--ACTATATA
1 TAT-ATATATAAACTATATA
2021363 TAAACTAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
50 8 0.13
51 1 0.02
52 13 0.22
53 1 0.02
54 37 0.62
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (54 bp):
TATATATATAAACTATATAGTTTATAAATAGTACTATATAAACTTCATATATAA
Found at i:2021608 original size:2 final size:2
Alignment explanation
Indices: 2021603--2021667 Score: 98
Period size: 2 Copynumber: 33.0 Consensus size: 2
2021593 AACTATACTT
*
2021603 TA TA TA TA AA T- TA TA TA CTA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
2021645 TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
2021668 AGTATACATT
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 2 0.03
2 54 0.93
3 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.