Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_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: 4020056
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 21
Found at i:3896232 original size:18 final size:18
Alignment explanation
Indices: 3896209--3896247 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
3896199 TGTTTAATAA
3896209 TAATAATAATAATAAATT
1 TAATAATAATAATAAATT
3896227 TAATAATAATAATAAATT
1 TAATAATAATAATAAATT
3896245 TAA
1 TAA
3896248 ATGAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATAATAATAATAAATT
Found at i:3896432 original size:45 final size:45
Alignment explanation
Indices: 3896368--3896470 Score: 179
Period size: 45 Copynumber: 2.3 Consensus size: 45
3896358 GATGGAAATG
* *
3896368 TTTGAAAACATCATGCACTGAAGGACTTACATATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC
*
3896413 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC
3896458 TTTGAAAACATCA
1 TTTGAAAACATCA
3896471 AAAAGCTCCC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC
Found at i:3896538 original size:76 final size:76
Alignment explanation
Indices: 3896404--3896698 Score: 540
Period size: 76 Copynumber: 3.9 Consensus size: 76
3896394 TTACATATGA
*
3896404 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
3896467 ATCAAAAAGCT
66 ATCAAAAAGCT
3896478 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
3896543 ATCAAAAAGCT
66 ATCAAAAAGCT
*
3896554 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
3896619 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
3896630 CCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
3896695 ATCA
66 ATCA
3896699 TGCACTGAAG
Statistics
Matches: 216, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
74 8 0.04
76 208 0.96
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:3896695 original size:121 final size:121
Alignment explanation
Indices: 3896554--3896819 Score: 453
Period size: 121 Copynumber: 2.2 Consensus size: 121
3896544 TCAAAAAGCT
* *
3896554 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
3896619 ATCAAAAAGCTCCCGAAGGCTTTTTAGAAACATCATGCACTGAAGG-GCTTACAGATGA
64 ATCAAAAAGCTCCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGAG-TTACAGATGA
3896677 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
*
3896742 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAGTTACAGATGA
66 CAAAAAGCTCCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGAGTTACAGATGA
* *
3896798 CTCGAAGGCTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
3896820 AAAAGCTCCC
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
121 128 0.93
122 1 0.01
123 8 0.06
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (121 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGAGTTACAGATGA
Found at i:3896698 original size:45 final size:45
Alignment explanation
Indices: 3896630--3896743 Score: 192
Period size: 45 Copynumber: 2.5 Consensus size: 45
3896620 TCAAAAAGCT
*
3896630 CCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG-TTTTGA-AAACATCATGCACTGAAGGGCTTACAGATGA
3896677 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
3896722 CCCGAAGGCTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
3896744 AAAAGCTCCC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
45 52 0.80
46 5 0.08
47 8 0.12
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:3896708 original size:197 final size:197
Alignment explanation
Indices: 3896478--3896895 Score: 766
Period size: 197 Copynumber: 2.1 Consensus size: 197
3896468 TCAAAAAGCT
*
3896478 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
3896543 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG-GCTTACAGATGACCCGAA
64 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAG-TTACAGATGACCCGAA
*
3896607 GGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGGCTTACA
128 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGGCTTACA
3896672 GATGA
193 GATGA
3896677 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
*
3896742 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAGTTACAGATGACTCGAAGGC
66 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAGTTACAGATGACCCGAAGGC
*
3896807 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGAT
131 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGGCTTACAGAT
3896872 GA
196 GA
3896874 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
3896896 AAAAGCTCCC
Statistics
Matches: 214, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
197 205 0.96
198 1 0.00
199 8 0.04
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (197 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAGTTACAGATGACCCGAAGGC
TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGGCTTACAGAT
GA
Found at i:3896765 original size:76 final size:76
Alignment explanation
Indices: 3896677--3896968 Score: 493
Period size: 76 Copynumber: 3.9 Consensus size: 76
3896667 TTACAGATGA
3896677 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
3896740 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
3896751 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAG-TTACAGATGACTCGAAGGCTTTGAAAA
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGG-GCTTACAGATGACCCGAAGGCTTTGAAAA
3896815 CATCAAAAAGCT
65 CATCAAAAAGCT
* *
3896827 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
3896892 ATCAAAAAGCT
66 ATCAAAAAGCT
*
3896903 CCCGAAGGCTTTTT-AGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CCCGAAGGCTTTTTGA-AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
3896967 CA
65 CA
3896969 CCATGCACTG
Statistics
Matches: 208, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
74 8 0.04
75 1 0.00
76 198 0.95
77 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:3896860 original size:273 final size:273
Alignment explanation
Indices: 3896373--3896993 Score: 1190
Period size: 273 Copynumber: 2.3 Consensus size: 273
3896363 AAATGTTTGA
* *
3896373 AAACATCATGCACTGAAGGACTTACATATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGG
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGG
3896438 CTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
66 CTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
3896503 GCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTT
131 GCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTT
3896568 GGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCC
196 GGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCC
3896633 GAAGGCTTTTTAG
261 GAAGGCTTTTTAG
3896646 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGG
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGG
3896711 CTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
66 CTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
*
3896776 GCACTGAAGGAG-TTACAGATGACTCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
131 GCACTGAAGG-GCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
3896840 TGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCC
195 TGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCC
3896905 CGAAGGCTTTTTAG
260 CGAAGGCTTTTTAG
*
3896919 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACACCATGCACTGAAGGG
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGG
3896984 CTTACAGATG
66 CTTACAGATG
3896994 TGGGAAATAG
Statistics
Matches: 343, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
273 342 1.00
274 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (273 bp):
AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGG
CTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
GCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTT
GGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCC
GAAGGCTTTTTAG
Found at i:3896974 original size:45 final size:47
Alignment explanation
Indices: 3896903--3896993 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 47
3896893 TCAAAAAGCT
* *
3896903 CCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGCTTTTGAGAAACACCATGCACTGAAGGGCTTACAGATGA
3896950 CCCGAAGG-TTTTGA-AAACACCATGCACTGAAGGGCTTACAGATG
1 CCCGAAGGCTTTTGAGAAACACCATGCACTGAAGGGCTTACAGATG
3896994 TGGGAAATAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 29 0.69
46 5 0.12
47 8 0.19
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (47 bp):
CCCGAAGGCTTTTGAGAAACACCATGCACTGAAGGGCTTACAGATGA
Found at i:3900406 original size:114 final size:114
Alignment explanation
Indices: 3900214--3900426 Score: 356
Period size: 114 Copynumber: 1.9 Consensus size: 114
3900204 TCATCTTCCT
* *
3900214 AATCCAATTATTGGTTTTAAGGTTCTTACCAAACCAGATCAGATAACTCAAAGAATACTTCCAGA
1 AATCCAATGATTGGTTTTAAGGTTCTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
*
3900279 AGATGCTATTGGGTCTTCTTATTTCTACTACGAGCAAATTTATCTTTCA
66 AGATGCTATTGGGTCTCCTTATTTCTACTACGAGCAAATTTATCTTTCA
* *
3900328 AATCCAATGATTGGTTTTGAGGTT-TATACCAAATCAGATCAGATAACTCAAAGAACACTTCCAG
1 AATCCAATGATTGGTTTTAAGGTTCT-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
*
3900392 AAGATGCTATTGGGTCTCCTTATTTTTACTACGAG
65 AAGATGCTATTGGGTCTCCTTATTTCTACTACGAG
3900427 AACGTGGCAC
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
113 1 0.01
114 91 0.99
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (114 bp):
AATCCAATGATTGGTTTTAAGGTTCTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
AGATGCTATTGGGTCTCCTTATTTCTACTACGAGCAAATTTATCTTTCA
Found at i:3907796 original size:15 final size:15
Alignment explanation
Indices: 3907773--3907807 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3907763 ATTTCAAAGT
3907773 TATAATTATATAAAA
1 TATAATTATATAAAA
*
3907788 TATATTTATATAAAA
1 TATAATTATATAAAA
3907803 TATAA
1 TATAA
3907808 ATAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAATTATATAAAA
Found at i:3907821 original size:28 final size:27
Alignment explanation
Indices: 3907782--3907834 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
3907772 TTATAATTAT
3907782 ATAAAATATATTTATATA-AAATATAA
1 ATAAAATATATTTATATAGAAATATAA
*
3907808 ATAAAATATTTATTTATTTAGAAATAT
1 ATAAAATA--TATTTATATAGAAATAT
3907835 CAGAAAAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
28 9 0.39
29 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (27 bp):
ATAAAATATATTTATATAGAAATATAA
Found at i:3908014 original size:113 final size:113
Alignment explanation
Indices: 3907810--3908016 Score: 240
Period size: 113 Copynumber: 1.8 Consensus size: 113
3907800 AAATATAAAT
* * * *
3907810 AAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCTTAAGACAGCTCTTTTCT
1 AAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCTTAAGACAGCTCCTTTCT
* * * * *
3907875 TTGATATATATATATATATATAATTAAAATAATTAATATATGATTTAA
66 TTAATATAAAAATAAATAAATAATTAAAATAATTAATATATGATTTAA
* * ** *
3907923 AAAATATTTATTTATTTAAAAATATCAGAAGATGGACATCCAGTTGTTTTAAGACTGC-CCTTTC
1 AAAATATTTATTTATTTAAAAATATCAGAA-AAGGACATCCAGGTGCCTTAAGACAGCTCCTTTC
3907987 -TTAATATTGAAAAATAAATAAAT-ATTAAAA
65 TTTAATA-T-AAAAATAAATAAATAATTAAAA
3908017 CATGATTAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
112 5 0.06
113 42 0.55
114 30 0.39
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.39
Consensus pattern (113 bp):
AAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCTTAAGACAGCTCCTTTCT
TTAATATAAAAATAAATAAATAATTAAAATAATTAATATATGATTTAA
Found at i:3909510 original size:3 final size:3
Alignment explanation
Indices: 3909504--3909563 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
3909494 AATAATTATT
* * *
3909504 TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA -ATT
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA-A
3909549 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
3909564 ATTTAAATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.06
3 41 0.87
4 3 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:3909530 original size:24 final size:22
Alignment explanation
Indices: 3909493--3909563 Score: 108
Period size: 21 Copynumber: 3.1 Consensus size: 22
3909483 TTTGGGCTTG
3909493 TAATAATTATTTAATAATATACTAA
1 TAATAA-TATTTAATAATA-A-TAA
3909518 TAATAATATTTAATAATAATAA
1 TAATAATATTTAATAATAATAA
3909540 TAATAA-ATTTAATAATAATAA
1 TAATAATATTTAATAATAATAA
3909561 TAA
1 TAA
3909564 ATTTAAATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.39
22 9 0.20
23 1 0.02
24 12 0.26
25 6 0.13
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATAATATTTAATAATAATAA
Found at i:3909554 original size:18 final size:18
Alignment explanation
Indices: 3909531--3909569 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
3909521 TAATATTTAA
3909531 TAATAATAATAATAAATT
1 TAATAATAATAATAAATT
3909549 TAATAATAATAATAAATT
1 TAATAATAATAATAAATT
3909567 TAA
1 TAA
3909570 ATGAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATAATAATAATAAATT
Found at i:3922980 original size:3 final size:3
Alignment explanation
Indices: 3922972--3923002 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3922962 GAGATTATCA
3922972 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3923003 TATAAAACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3923563 original size:32 final size:32
Alignment explanation
Indices: 3923518--3923585 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
3923508 TGACGTCACC
*
3923518 GCCGCACAGAAGACTCCAGAAGCCGCAGGAGA
1 GCCGCACAAAAGACTCCAGAAGCCGCAGGAGA
3923550 GCCGCACAAAAGACTCCAGAAGCCGCAGGAGA
1 GCCGCACAAAAGACTCCAGAAGCCGCAGGAGA
3923582 GCCG
1 GCCG
3923586 TACACCTCGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.31, T:0.03
Consensus pattern (32 bp):
GCCGCACAAAAGACTCCAGAAGCCGCAGGAGA
Found at i:3924502 original size:21 final size:20
Alignment explanation
Indices: 3924476--3924520 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
3924466 AATTAAGGCC
3924476 TTTAAT-TTATATATTTTACAT
1 TTTAATCTTAT-TATTTTA-AT
3924497 TTTAATCTTATTATTTTAAT
1 TTTAATCTTATTATTTTAAT
3924517 TTTA
1 TTTA
3924521 TTTGTTTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAATCTTATTATTTTAAT
Found at i:3924774 original size:2 final size:2
Alignment explanation
Indices: 3924767--3924800 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3924757 AAAACAAAAT
3924767 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3924801 GTTGTTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3924947 original size:2 final size:2
Alignment explanation
Indices: 3924940--3924967 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3924930 AAAATCCTAA
3924940 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
3924968 TAGTTTTTAT
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:3925288 original size:28 final size:28
Alignment explanation
Indices: 3925216--3925288 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
3925206 GACCGATTTA
3925216 TCTTTTAAATAGTG-TTTTCTTAAAAAC
1 TCTTTTAAATAGTGATTTTCTTAAAAAC
*
3925243 ACTTTTAAATAGT-ATTTTCTTAAAAAC
1 TCTTTTAAATAGTGATTTTCTTAAAAAC
3925270 TCTTTTAAA-AGATGATTTT
1 TCTTTTAAATAG-TGATTTT
3925289 TAGGTATTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 2 0.05
27 34 0.83
28 5 0.12
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (28 bp):
TCTTTTAAATAGTGATTTTCTTAAAAAC
Found at i:3928564 original size:134 final size:129
Alignment explanation
Indices: 3928324--3928619 Score: 339
Period size: 134 Copynumber: 2.2 Consensus size: 129
3928314 ATAGCCAGAT
* *
3928324 GTCCTTATCACGAAGGAACAATGTCATCTACCGATCAGAACTCCTCATCACGAAGAATCAACATC
1 GTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGAATC-ACA-C
* * ** *
3928389 ATCCTTAGATAACCATGTCCTCATCACAAAAAACTGTGTTATCTCAAATATCTTTAAAGATGACT
64 ATCCTCAGATAACCACGTCCTCATCACAAAAAACCATGTTATCTC-AA-ATCTTCAAAGATGACT
3928454 AGA
127 AGA
* * * *
3928457 CGTCCTCATCACGAAGGAACAATGTCATCCACTGA-CTAGAACTCCTCATCACGTAGGAGTC-GA
1 -GTCCTCATCACGAAGGAACAATGTCATCCACCGATC-AGAACTCCTCATCACG-AAGAATCACA
* *
3928520 -ATCCTCAGATAACCAGACGTCCTCATCACGAAAGAACCATGTTATCTCAAATCTTCAAAGATGG
63 CATCCTCAGATAACC--ACGTCCTCATCAC-AAAAAACCATGTTATCTCAAATCTTCAAAGATGA
*
3928584 TTAGA
125 CTAGA
*
3928589 -TCCTCATCACGAAGGAACAATGTCATACACC
1 GTCCTCATCACGAAGGAACAATGTCATCCACC
3928620 AGTTGGATCT
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
130 29 0.21
131 13 0.09
132 16 0.11
133 16 0.11
134 62 0.44
135 5 0.04
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (129 bp):
GTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGAATCACACAT
CCTCAGATAACCACGTCCTCATCACAAAAAACCATGTTATCTCAAATCTTCAAAGATGACTAGA
Found at i:3929870 original size:21 final size:20
Alignment explanation
Indices: 3929844--3929888 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
3929834 AATTAAGGCC
3929844 TTTAAT-TTATATATTTTACAT
1 TTTAATCTTAT-TATTTTA-AT
3929865 TTTAATCTTATTATTTTAAT
1 TTTAATCTTATTATTTTAAT
3929885 TTTA
1 TTTA
3929889 TTTGTTTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAATCTTATTATTTTAAT
Found at i:3930274 original size:2 final size:2
Alignment explanation
Indices: 3930267--3930296 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3930257 TTTAAAAATC
3930267 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
3930297 TAGTTTTTAT
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:3930306 original size:133 final size:131
Alignment explanation
Indices: 3930008--3930298 Score: 356
Period size: 133 Copynumber: 2.2 Consensus size: 131
3929998 CATTTTAGTC
* * * *
3930008 ATATAAATATATATATTTGATTAAATAATATTTATTTATTTTTAAATATTAAAAAAGATCTGTCT
1 ATATATATATATATATAT-ATT-ATTAATATTTATTCATTTTTAAATATTAAAAAAGATCTGTCT
* *
3930073 TAAATTAACTAGAGGTCTTATTCCGATATTTTAAAATAAATAAATACCTTACTTAAAAAAACAAA
64 TAAAGTAACTAGAGGTCTTATTCCGATATTTTAAAATAAATAAATACCCTACTTAAAAAAACAAA
3930138 ATT
129 ATT
* *
3930141 ATATATATATATATATATATTATTAATATTTATTCATTTTTTAATATTGAAGAAAGGAAT-TGTC
1 ATATATATATATATATATATTATTAATATTTATTCATTTTTAAATATT-AA-AAAAG-ATCTGTC
* * * * *
3930205 TTAAAGTAACTAGATGTTCTT-TTCTGATATTTTTAAATAAATAAATACCCTA-TTTAAAAATC-
63 TTAAAGTAACTAGA-GGTCTTATTCCGATATTTTAAAATAAATAAATACCCTACTTAAAAAAACA
*
3930267 ATATAT
127 AAAT-T
3930273 ATATATATATATATATATATATATTA
1 ATATATATATATATATATAT-TATTA
3930299 GTTTTTATAA
Statistics
Matches: 138, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
131 27 0.20
132 34 0.25
133 70 0.51
134 7 0.05
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (131 bp):
ATATATATATATATATATATTATTAATATTTATTCATTTTTAAATATTAAAAAAGATCTGTCTTA
AAGTAACTAGAGGTCTTATTCCGATATTTTAAAATAAATAAATACCCTACTTAAAAAAACAAAAT
T
Found at i:3930866 original size:2 final size:2
Alignment explanation
Indices: 3930859--3930888 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3930849 CCCGTACGTT
3930859 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3930889 ATGTCTTAAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3936440 original size:21 final size:21
Alignment explanation
Indices: 3936416--3936476 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
3936406 AAACATCTAC
3936416 CAAACTTTGAAAAACATTTTT
1 CAAACTTTGAAAAACATTTTT
**
3936437 CAAA----G--AAACATTTAC
1 CAAACTTTGAAAAACATTTTT
3936452 CAAACTTTGAAAAACATTTTT
1 CAAACTTTGAAAAACATTTTT
3936473 CAAA
1 CAAA
3936477 GTTGGTTGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 12 0.40
17 1 0.03
19 1 0.03
21 16 0.53
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.31
Consensus pattern (21 bp):
CAAACTTTGAAAAACATTTTT
Found at i:3936453 original size:36 final size:36
Alignment explanation
Indices: 3936398--3936477 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
3936388 ACCCATCCTA
*
3936398 TTTTC-AACAAACATCTACCAAACTTTGAAAAACAT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAACAT
*
3936433 TTTTCAAAGAAACATTTACCAAACTTTGAAAAACAT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAACAT
3936469 TTTTCAAAG
1 TTTTCAAAG
3936478 TTGGTTGCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 5 0.12
36 37 0.88
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (36 bp):
TTTTCAAAGAAACATCTACCAAACTTTGAAAAACAT
Found at i:3939772 original size:15 final size:15
Alignment explanation
Indices: 3939752--3939783 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3939742 AAAATCTTTC
3939752 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
3939767 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
3939782 TT
1 TT
3939784 GGATCTGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:3942022 original size:26 final size:26
Alignment explanation
Indices: 3941983--3942035 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3941973 TGACATTGAA
*
3941983 CACTCACACTCCTGACATTCCTAGTG
1 CACTCACACCCCTGACATTCCTAGTG
*
3942009 CACTCACACCCCTGACATTCCTGGTG
1 CACTCACACCCCTGACATTCCTAGTG
3942035 C
1 C
3942036 TCGAACCTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.42, G:0.13, T:0.25
Consensus pattern (26 bp):
CACTCACACCCCTGACATTCCTAGTG
Found at i:3947663 original size:2 final size:2
Alignment explanation
Indices: 3947656--3947698 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3947646 TGTCGTAAAT
3947656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3947698 T
1 T
3947699 TTGCATACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3950764 original size:65 final size:65
Alignment explanation
Indices: 3950629--3950758 Score: 181
Period size: 65 Copynumber: 2.0 Consensus size: 65
3950619 AGGTAGAGCT
* * * **
3950629 ATTGTTCATAATATTTTATAGTAATTGATGTCATGATGAAGACGTTTTATTATTTTCTCTTTTTC
1 ATTGTTCATAATACTTTATAGTAATTGATGGCATGATGAAGACGTTTTAGTATTGACTCTTTTTC
*
3950694 ATTGTTCATAATACTTTATAGTAATTGATGGCATGATGAAGAC-TTATTAGTAGTTGACTGTTTT
1 ATTGTTCATAATACTTTATAGTAATTGATGGCATGATGAAGACGTT-TTAGTA-TTGACTCTTTT
3950758 T
64 T
3950759 TTTGTTGTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 2 0.04
65 46 0.81
66 9 0.16
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.48
Consensus pattern (65 bp):
ATTGTTCATAATACTTTATAGTAATTGATGGCATGATGAAGACGTTTTAGTATTGACTCTTTTTC
Found at i:3953985 original size:14 final size:14
Alignment explanation
Indices: 3953968--3954008 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
3953958 TTCTTTTTCC
3953968 TTCTTTGACGTTTA
1 TTCTTTGACGTTTA
*
3953982 TTCTTTGACGTTTTC
1 TTCTTTGACG-TTTA
*
3953997 TTCTTAGACGTT
1 TTCTTTGACGTT
3954009 GTCTTCTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.12, C:0.17, G:0.15, T:0.56
Consensus pattern (14 bp):
TTCTTTGACGTTTA
Found at i:3954006 original size:15 final size:15
Alignment explanation
Indices: 3953962--3954017 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
3953952 GATGCTTTCT
*
3953962 TTTTCCTTCTTTGACG
1 TTTT-CTTCTTAGACG
* *
3953978 -TTTATTCTTTGACG
1 TTTTCTTCTTAGACG
3953992 TTTTCTTCTTAGACG
1 TTTTCTTCTTAGACG
*
3954007 TTGTCTTCTTA
1 TTTTCTTCTTA
3954018 CCCCATGAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 10 0.29
15 25 0.71
ACGTcount: A:0.11, C:0.20, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTTCTTCTTAGACG
Found at i:3955753 original size:18 final size:18
Alignment explanation
Indices: 3955730--3955772 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
3955720 TTAGCATTCT
3955730 TGGTGTTGTGA-TGGTTTC
1 TGGTGTTGTGATTGG-TTC
3955748 TGGTGTTGTGATTGGTTC
1 TGGTGTTGTGATTGGTTC
3955766 TGGTGTT
1 TGGTGTT
3955773 TTAATCATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.05, C:0.05, G:0.40, T:0.51
Consensus pattern (18 bp):
TGGTGTTGTGATTGGTTC
Found at i:3956123 original size:53 final size:52
Alignment explanation
Indices: 3956060--3956178 Score: 152
Period size: 53 Copynumber: 2.3 Consensus size: 52
3956050 TATAAAAACT
* *
3956060 CACACATTTCATATTAACAACA-CACACACCCTTTATATTATAA-AATTAACTCA
1 CACACATTTCATATTAA-AACAGCACACACCCTTTATATTATAATAAGT--CACA
* * *
3956113 CACACATTTCATCTTAAAAGAGCACATACCCTTTATATTATAATAAGTCACA
1 CACACATTTCATATTAAAACAGCACACACCCTTTATATTATAATAAGTCACA
3956165 CACACATTTCATAT
1 CACACATTTCATAT
3956179 ATACATTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
52 19 0.33
53 36 0.62
54 3 0.05
ACGTcount: A:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (52 bp):
CACACATTTCATATTAAAACAGCACACACCCTTTATATTATAATAAGTCACA
Found at i:3956485 original size:51 final size:51
Alignment explanation
Indices: 3956177--3956477 Score: 433
Period size: 51 Copynumber: 5.8 Consensus size: 51
3956167 CACATTTCAT
* * * * * *
3956177 ATATACATTAAACACACACACGTATTGCAAAATAAAAAGCACACACACAT-A
1 ATATATATTAAATACACACACTTACTGCATAATAAAAA-AACACACACATGA
* * *
3956228 CATATATATTAAACACACACACGTACTGCATAATAAAAAAAGCATACACACATAA
1 -ATATATATTAAATACACACACTTACTGCATAATAAAAAAA-C--ACACACATGA
*
3956283 ATATATATTAAATACACACACACTTACTGCATAATAAAAACACACACACATGA
1 ATATATATTAAAT--ACACACACTTACTGCATAATAAAAAAACACACACATGA
*
3956336 ATATATATTAAATACACACACTTACTGCATAATAAAAAAGCACACACATGA
1 ATATATATTAAATACACACACTTACTGCATAATAAAAAAACACACACATGA
3956387 ATATATATTAAATACACACACTTACTGCATAATAAAAAAACACACACATGA
1 ATATATATTAAATACACACACTTACTGCATAATAAAAAAACACACACATGA
3956438 ATATATATTAAATACACACACTTACTGCATAATAAAAAAA
1 ATATATATTAAATACACACACTTACTGCATAATAAAAAAA
3956478 AATACACACA
Statistics
Matches: 232, Mismatches: 11, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
51 127 0.55
52 36 0.16
53 22 0.09
54 20 0.09
55 2 0.01
56 25 0.11
ACGTcount: A:0.52, C:0.21, G:0.05, T:0.22
Consensus pattern (51 bp):
ATATATATTAAATACACACACTTACTGCATAATAAAAAAACACACACATGA
Found at i:3965428 original size:21 final size:22
Alignment explanation
Indices: 3965402--3965444 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
3965392 TCAGAATTAA
*
3965402 TTTTATTTGATCA-AATATTTT
1 TTTTATTTAATCAGAATATTTT
*
3965423 TTTTATTTAATGAGAATATTTT
1 TTTTATTTAATCAGAATATTTT
3965445 CTGAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
TTTTATTTAATCAGAATATTTT
Found at i:3968923 original size:24 final size:24
Alignment explanation
Indices: 3968896--3968959 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
3968886 ATTTCCGACT
3968896 TGAATTCTGTTCTGATAAATGACC
1 TGAATTCTGTTCTGATAAATGACC
* ** **
3968920 TGAATTCTGATCTGATATCTGTTC
1 TGAATTCTGTTCTGATAAATGACC
*
3968944 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
3968960 TTCTGATATC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.45
Consensus pattern (24 bp):
TGAATTCTGTTCTGATAAATGACC
Found at i:3970109 original size:30 final size:30
Alignment explanation
Indices: 3970068--3970148 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
3970058 AAATAAGAAA
* **
3970068 GAGTGAAAGCTTAGAAAAGCTAGAGATTATT
1 GAGT-AAAGCTTAGCAAAGCTAGAGAGAATT
3970099 GAGTAAAGCTTAGCAAAGCTAGAGAGAATT
1 GAGTAAAGCTTAGCAAAGCTAGAGAGAATT
3970129 GAGTAAAGCTTAGCAAAGCT
1 GAGTAAAGCTTAGCAAAGCT
3970149 TAGAATAGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 43 0.91
31 4 0.09
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.22
Consensus pattern (30 bp):
GAGTAAAGCTTAGCAAAGCTAGAGAGAATT
Found at i:3972963 original size:25 final size:25
Alignment explanation
Indices: 3972924--3972972 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
3972914 GAGTGATCTC
* **
3972924 ATAACAAATGAAGAATCGATTGGAG
1 ATAACAAACGAAGAAAAGATTGGAG
*
3972949 ATAACAAACGGAGAAAAGATTGGA
1 ATAACAAACGAAGAAAAGATTGGA
3972973 ACGAAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.51, C:0.08, G:0.24, T:0.16
Consensus pattern (25 bp):
ATAACAAACGAAGAAAAGATTGGAG
Found at i:3987025 original size:19 final size:19
Alignment explanation
Indices: 3987001--3987040 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
3986991 TCCTTAATCA
*
3987001 GCGGAAGGAGGAAAAGAGT
1 GCGGAAGGAGAAAAAGAGT
3987020 GCGGAAGGAGAAAAAGAGT
1 GCGGAAGGAGAAAAAGAGT
3987039 GC
1 GC
3987041 CTGAAACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.45, T:0.05
Consensus pattern (19 bp):
GCGGAAGGAGAAAAAGAGT
Found at i:3988731 original size:34 final size:34
Alignment explanation
Indices: 3988681--3988745 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
3988671 TAAACCATAG
3988681 AAACCATAAAACGGACATGAATCAACTGTAACAT
1 AAACCATAAAACGGACATGAATCAACTGTAACAT
* *
3988715 AAACCATAGAATGGACATGAATCAACTGTAA
1 AAACCATAAAACGGACATGAATCAACTGTAA
3988746 AATAGACCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.18
Consensus pattern (34 bp):
AAACCATAAAACGGACATGAATCAACTGTAACAT
Found at i:3992151 original size:21 final size:21
Alignment explanation
Indices: 3992125--3992222 Score: 87
Period size: 21 Copynumber: 4.7 Consensus size: 21
3992115 ATCAGTTTCC
3992125 AAAATCGCAACGCGATTATTG
1 AAAATCGCAACGCGATTATTG
* *
3992146 AAAATCGCAATGCGA-TAGT-
1 AAAATCGCAACGCGATTATTG
** *
3992165 ACAAATTCGCATTGCGATT-TTCC
1 A-AAA-TCGCAACGCGATTATT-G
*
3992188 AAAATCGCAACGCGAATA-TG
1 AAAATCGCAACGCGATTATTG
3992208 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
3992223 ACACATAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 21 0.33
21 36 0.57
22 4 0.06
23 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (21 bp):
AAAATCGCAACGCGATTATTG
Found at i:3992213 original size:20 final size:20
Alignment explanation
Indices: 3992125--3992241 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
3992115 ATCAGTTTCC
*
3992125 AAAATCGCAACGCGATTATTG
1 AAAATCGCAACGCGAATA-TG
*
3992146 AAAATCGCAATGCG-ATA-G
1 AAAATCGCAACGCGAATATG
** * * *
3992164 TACAAATTCGCATTGCGATTTTCC
1 -A-AAA-TCGCAACGCGAATAT-G
3992188 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGAATATG
* *
3992208 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATG
3992227 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
3992242 TATCCGTAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
18 1 0.01
19 2 0.03
20 35 0.46
21 33 0.43
22 4 0.05
23 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATG
Found at i:3992251 original size:20 final size:20
Alignment explanation
Indices: 3992189--3992381 Score: 210
Period size: 20 Copynumber: 9.7 Consensus size: 20
3992179 CGATTTTCCA
* ** *
3992189 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
3992209 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
3992229 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
3992249 AAATCGTAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
3992269 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
3992289 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
3992309 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
3992329 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
3992349 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
3992369 AAATCGCAACGCG
1 AAATCGCAACGCG
3992382 ATATTTAAAG
Statistics
Matches: 143, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
19 1 0.01
20 140 0.98
21 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:3992801 original size:33 final size:33
Alignment explanation
Indices: 3992762--3992832 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
3992752 TTCACTTAGA
* *
3992762 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
3992795 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
3992828 TTTCA
1 TTTCA
3992833 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:3992969 original size:41 final size:38
Alignment explanation
Indices: 3992905--3993021 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
3992895 TTCAATTTGC
* *
3992905 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
3992943 AGAATGACTGTCGCAACGAGAGAAATGACAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
3992984 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
3993017 AGAAT
1 AGAAT
3993022 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.45, C:0.18, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:3992985 original size:21 final size:21
Alignment explanation
Indices: 3992912--3992987 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
3992902 TGCAGAAGAG
* *
3992912 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGACAA
**
3992933 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGACAA
3992953 TCGCAACGAGAGAAATGACAA
1 TCGCAACGAGAGAAATGACAA
3992974 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
3992988 TCGCAACGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGACAA
Found at i:3992991 original size:14 final size:14
Alignment explanation
Indices: 3992972--3993028 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3992962 GAGAAATGAC
3992972 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
3992986 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
3993005 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3993019 AATCGCAACG
1 AATCGCAACG
3993029 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:3993009 original size:33 final size:33
Alignment explanation
Indices: 3992964--3993044 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
3992954 CGCAACGAGA
*
3992964 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3992997 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
3993030 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
3993045 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:3993062 original size:19 final size:19
Alignment explanation
Indices: 3993040--3993137 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
3993030 GAAACCAAAA
*
3993040 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3993059 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
3993073 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
3993092 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
3993106 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
3993125 TCGCGTTGCGATT
1 TCGCGTTGCGATT
3993138 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 20 0.33
16 4 0.07
17 5 0.08
19 32 0.52
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3993081 original size:14 final size:14
Alignment explanation
Indices: 3993062--3993151 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
3993052 TTTCATTTCG
3993062 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
3993076 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
3993095 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
3993109 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
3993126 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
3993142 CGTTGCGATT
1 CGTTGCGATT
3993152 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 2 0.03
16 7 0.11
17 7 0.11
18 2 0.03
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3993091 original size:33 final size:33
Alignment explanation
Indices: 3993045--3993159 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
3993035 CAAAATCGCA
*
3993045 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
3993078 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
3993111 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
3993144 TTGCGATTTTCATTTC
1 TTGCGATTGTCATTTC
3993160 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (33 bp):
TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
Found at i:3995266 original size:185 final size:182
Alignment explanation
Indices: 3994850--3995314 Score: 839
Period size: 185 Copynumber: 2.6 Consensus size: 182
3994840 TAGATTGCTT
*
3994850 AGTAAA-TTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AA-A-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
3994911 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
3994976 GTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTGTCTTTTGGTTGAA
130 GTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTGTCTTTTGGTTGAA
3995029 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
3995094 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC--
3995159 TGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
129 TGTATTCTATAACACTGTGAAATAGTATTTGTCTTTG-TTTGTCTTTTGGTTGAA
*
3995214 AGTAAATTTGTTCTGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
3995279 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
3995315 ATCCATTCAA
Statistics
Matches: 276, Mismatches: 3, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
179 17 0.06
180 39 0.14
181 1 0.00
182 66 0.24
184 36 0.13
185 117 0.42
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (182 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTGTCTTTTGGTTGAA
Found at i:3995333 original size:93 final size:92
Alignment explanation
Indices: 3994850--3995314 Score: 836
Period size: 92 Copynumber: 5.1 Consensus size: 92
3994840 TAGATTGCTT
*
3994850 AGTAAA-TTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AA-A-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
3994911 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3994939 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC--TGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
3995002 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3995029 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
3995094 TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTGTCTTTGTTTTGTCTTTTGGTTGAA
3995121 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCT-TAACACTGTGAAATAGTA
3995186 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
3995214 AGTAAATTTGTTCTGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
3995279 TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTGTCTTTGTTTTGTCTTTTGGTTGAA
3995306 AGTAAATTT
1 AGTAAATTT
3995315 ATCCATTCAA
Statistics
Matches: 366, Mismatches: 2, Indels: 13
0.96 0.01 0.03
Matches are distributed among these distances:
88 19 0.05
89 8 0.02
90 82 0.22
91 41 0.11
92 125 0.34
93 91 0.25
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (92 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
TTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:3995398 original size:19 final size:19
Alignment explanation
Indices: 3995358--3995486 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
3995348 TAGTTTACTT
* *
3995358 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
3995378 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
3995397 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
3995416 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
3995430 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
3995449 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
3995463 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
3995482 TCGCA
1 TCGCA
3995487 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:3995437 original size:33 final size:32
Alignment explanation
Indices: 3995394--3995486 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
3995384 CGCGAAACCA
**
3995394 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
3995426 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
3995459 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
3995487 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:3995484 original size:52 final size:52
Alignment explanation
Indices: 3995358--3995486 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
3995348 TAGTTTACTT
**
3995358 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
3995410 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
3995463 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
3995487 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:3995504 original size:19 final size:19
Alignment explanation
Indices: 3995482--3995616 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
3995472 GAAACCAAAA
*
3995482 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3995501 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
3995517 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
3995534 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
3995550 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
3995567 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
3995586 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
3995606 TCGTGTTGCGA
1 TCGCGTTGCGA
3995617 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3995523 original size:14 final size:14
Alignment explanation
Indices: 3995504--3995560 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3995494 TTTCATTTCG
3995504 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
3995518 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
3995535 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
3995551 CGTTGCGATT
1 CGTTGCGATT
3995561 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:3995529 original size:33 final size:33
Alignment explanation
Indices: 3995487--3995579 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
3995477 CAAAATCGCA
*
3995487 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
3995520 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
3995553 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
3995580 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:3997544 original size:14 final size:14
Alignment explanation
Indices: 3997525--3997560 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3997515 ATTGTTTAAT
3997525 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
3997539 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
3997553 TGATTTGT
1 TGATTTGT
3997561 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:3997705 original size:19 final size:19
Alignment explanation
Indices: 3997665--3997762 Score: 129
Period size: 19 Copynumber: 5.5 Consensus size: 19
3997655 AAAATTGACT
3997665 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
3997683 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3997702 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
3997716 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3997735 ATCGCAATGCGGAAATG-AA
1 ATCGCAATGC-GAAATGAAA
3997754 ATCGCAATG
1 ATCGCAATG
3997763 GGAGAATCGC
Statistics
Matches: 71, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 17 0.24
19 33 0.46
20 6 0.08
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3997757 original size:52 final size:51
Alignment explanation
Indices: 3997665--3997779 Score: 187
Period size: 52 Copynumber: 2.2 Consensus size: 51
3997655 AAAATTGACT
3997665 ATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
3997716 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATG-AAATCGCAATGGGAGA
1 ATCGCAATGCGAAATG-AAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
3997768 ATCGCAATGCGA
1 ATCGCAATGCGA
3997780 TTTTAATTCG
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
51 16 0.27
52 38 0.63
53 6 0.10
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (51 bp):
ATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:3997851 original size:52 final size:51
Alignment explanation
Indices: 3997769--3997884 Score: 196
Period size: 52 Copynumber: 2.3 Consensus size: 51
3997759 AATGGGAGAA
*
3997769 TCGCAATGCGATTTTAATTCGCATTGCGATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTCGCATTGCGATTATCTCGTTGCGATTTTCATT
* *
3997820 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTT-AATTCGCATTGCGATTATCTCGTTGCGATTTTCATT
3997872 TCGCATTGCGATT
1 TCGCATTGCGATT
3997885 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
51 14 0.23
52 47 0.77
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (51 bp):
TCGCATTGCGATTTTAATTCGCATTGCGATTATCTCGTTGCGATTTTCATT
Found at i:3997862 original size:33 final size:33
Alignment explanation
Indices: 3997825--3997916 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
3997815 TCATTTCGCA
3997825 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
3997858 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
3997891 TTGCGATTTTCATTTCCGCATTGCGA
1 TTGCGATTTTCATTT-CGCATTGCGA
3997917 AATGTAATGG
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 48 0.83
34 10 0.17
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:3997863 original size:14 final size:14
Alignment explanation
Indices: 3997844--3997898 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3997834 TCATTTCGCA
3997844 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
3997858 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
3997875 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
3997891 TTGCGATT
1 TTGCGATT
3997899 TTCATTTCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:3997999 original size:19 final size:19
Alignment explanation
Indices: 3997975--3998072 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
3997965 AAAATTGACT
3997975 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3997994 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3998013 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
3998027 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3998046 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
3998066 ATCGCAA
1 ATCGCAA
3998073 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3998104 original size:53 final size:53
Alignment explanation
Indices: 3997975--3998091 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
3997965 AAAATTGACT
3997975 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
3998027 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
3998080 ATCGCAATGCGA
1 ATCGCAATGCGA
3998092 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:4000611 original size:24 final size:24
Alignment explanation
Indices: 4000577--4000623 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4000567 CTGAAACATC
4000577 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
4000601 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
4000624 GACCAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:4001324 original size:20 final size:20
Alignment explanation
Indices: 4001296--4001545 Score: 252
Period size: 20 Copynumber: 12.5 Consensus size: 20
4001286 AAATTTCAGT
* * *
4001296 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
4001316 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
4001336 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
4001356 ATTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
4001376 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
4001396 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
4001416 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
4001436 ATTGCGATTTACCCATAT-GC
1 GTTGCGATTTACGGAT-TCGC
*
4001456 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
4001476 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
4001496 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
4001516 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
4001536 GTTGCGATTT
1 GTTGCGATTT
4001546 TGGAAAATCG
Statistics
Matches: 196, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
20 195 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:4001562 original size:21 final size:21
Alignment explanation
Indices: 4001532--4001614 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
4001522 ATTTTCATAT
*
4001532 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
4001553 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
4001574 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
4001595 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
4001615 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:4001605 original size:42 final size:43
Alignment explanation
Indices: 4001512--4001610 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
4001502 ATTTATGTGT
* *
4001512 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
4001553 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
4001595 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
4001611 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:4004714 original size:27 final size:29
Alignment explanation
Indices: 4004663--4004718 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 29
4004653 CAATAGACTG
4004663 AAATAAATACAACATACAAATTAGAAACC
1 AAATAAATACAACATACAAATTAGAAACC
*
4004692 AAATAAATAC-A-TTACAAATTAGAAACC
1 AAATAAATACAACATACAAATTAGAAACC
4004719 GATTAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 15 0.58
28 1 0.04
29 10 0.38
ACGTcount: A:0.61, C:0.16, G:0.04, T:0.20
Consensus pattern (29 bp):
AAATAAATACAACATACAAATTAGAAACC
Found at i:4006253 original size:32 final size:32
Alignment explanation
Indices: 4006188--4006277 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 32
4006178 CCGGAACTCA
* **
4006188 GAAGGGGAAGATCGGCCGTA-GAAGTCATTAGG
1 GAAGGGGAAGATCGGCCG-ACGAAGTGACGAGG
*
4006220 GAAGGGGAAGATCGGCCGACGAAGTGGCGAGG
1 GAAGGGGAAGATCGGCCGACGAAGTGACGAGG
* * *
4006252 GAA-AGGAAGATCGACCGGCGAAGTGA
1 GAAGGGGAAGATCGGCCGACGAAGTGA
4006278 AGTCACCAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
31 20 0.41
32 29 0.59
ACGTcount: A:0.32, C:0.14, G:0.43, T:0.10
Consensus pattern (32 bp):
GAAGGGGAAGATCGGCCGACGAAGTGACGAGG
Found at i:4006464 original size:39 final size:39
Alignment explanation
Indices: 4006391--4006467 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
4006381 TAAACTCCTT
* * *
4006391 TATATATATTTTTAATTTAAATTAAATTTATTAATATTA
1 TATATATATTTATAATATAAAATAAATTTATTAATATTA
4006430 TATATATATTTATAA-ATAAAATAATTATTT-TTAATATT
1 TATATATATTTATAATATAAAATAA--ATTTATTAATATT
4006468 TATCGGGCCG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 7 0.21
39 22 0.67
40 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (39 bp):
TATATATATTTATAATATAAAATAAATTTATTAATATTA
Found at i:4006562 original size:12 final size:12
Alignment explanation
Indices: 4006545--4006575 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4006535 ATTTGAATTT
*
4006545 TCCCCATCCTCG
1 TCCCCATCCCCG
4006557 TCCCCATCCCCG
1 TCCCCATCCCCG
4006569 TCCCCAT
1 TCCCCAT
4006576 TTATCATCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.61, G:0.06, T:0.23
Consensus pattern (12 bp):
TCCCCATCCCCG
Found at i:4014759 original size:27 final size:27
Alignment explanation
Indices: 4014729--4014801 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
4014719 AGATTGTAAT
*
4014729 TTGCAATCTCTAACAAAACATGGATGG
1 TTGCAATCCCTAACAAAACATGGATGG
*
4014756 TTGCAATCCCTAACAATACATGGATGG
1 TTGCAATCCCTAACAAAACATGGATGG
*
4014783 TTGCAATCCCTGACAAAAC
1 TTGCAATCCCTAACAAAAC
4014802 GTGATAGTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (27 bp):
TTGCAATCCCTAACAAAACATGGATGG
Found at i:4015182 original size:78 final size:74
Alignment explanation
Indices: 4015035--4015181 Score: 181
Period size: 78 Copynumber: 1.9 Consensus size: 74
4015025 TATACCGGAA
* * *
4015035 ATTAAGTAGCGAAATTAACATTTTTGGTAAAAATATGTTTTAGGTAACGCTTTACTAGAAATGTT
1 ATTAAGTAGCGAAATTAACATTTTAGGTAAAAATATGTTTTAGGTAACGCTTTACCAGAAATGTA
4015100 AAAAACTTC
66 AAAAACTTC
* * *
4015109 ATTAGGTAGCGAAATTAACATTTAAAGTAGG-AAAAATAATGTTTTAGGTAGCGTTTTACCAGAA
1 ATTAAGTAGCGAAATTAACATTT----TAGGTAAAAAT-ATGTTTTAGGTAACGCTTTACCAGAA
4015173 AT-TAAAAAA
61 ATGTAAAAAA
4015182 ATATTAACAT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
74 22 0.35
77 12 0.19
78 28 0.45
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.33
Consensus pattern (74 bp):
ATTAAGTAGCGAAATTAACATTTTAGGTAAAAATATGTTTTAGGTAACGCTTTACCAGAAATGTA
AAAAACTTC
Found at i:4015825 original size:29 final size:31
Alignment explanation
Indices: 4015750--4015829 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
4015740 CCTACTCTTT
*
4015750 AATACATAAATGTAAATTTTATATTATCAAAA
1 AATACATAAA-ATAAATTTTATATTATCAAAA
* *
4015782 AATACGTAATATAAATTTTATATTATC-AAA
1 AATACATAAAATAAATTTTATATTATCAAAA
4015812 AAT-CATAAAATAAATTTT
1 AATACATAAAATAAATTTT
4015830 GCATATGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.30
30 6 0.14
31 16 0.37
32 8 0.19
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (31 bp):
AATACATAAAATAAATTTTATATTATCAAAA
Done.